Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 37 of 103
Found at i:13927651 original size:20 final size:20
Alignment explanation
Indices: 13927600--13927655 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
13927590 CTTTCTTTTT
* *
13927600 CTTTCTTCTTTCTTTCTTTC
1 CTTTCTCCTTTTTTTCTTTC
*
13927620 TTTTCTCCTTTTTTTCTTTC
1 CTTTCTCCTTTTTTTCTTTC
*
13927640 CTTTCTCTTTTTTTTC
1 CTTTCTCCTTTTTTTC
13927656 AACTGATCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (20 bp):
CTTTCTCCTTTTTTTCTTTC
Found at i:13928246 original size:33 final size:33
Alignment explanation
Indices: 13928181--13928246 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
13928171 TTTGACATTG
** *
13928181 AATAAAATATTAATATTTTAATATTATTTTATT
1 AATAAAATATTAATATTTTAATAAAATATTATT
*
13928214 AATAAAATATT-ATTTTATTAATAAAATATTATT
1 AATAAAATATTAATATT-TTAATAAAATATTATT
13928247 TTATTCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
AATAAAATATTAATATTTTAATAAAATATTATT
Found at i:13928250 original size:24 final size:19
Alignment explanation
Indices: 13928200--13928251 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
13928190 TTAATATTTT
13928200 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
13928219 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
13928238 AATATTATTTTATT
1 AATATTATTTTATT
13928252 CTAAAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATATTATTTTATTAATAA
Found at i:13930433 original size:2 final size:2
Alignment explanation
Indices: 13930426--13930459 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13930416 TATTCTGNAT
13930426 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13930460 CATGATTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13948539 original size:67 final size:67
Alignment explanation
Indices: 13948418--13948566 Score: 192
Period size: 67 Copynumber: 2.2 Consensus size: 67
13948408 TAACTGTGCA
*
13948418 TGTGCGTGATGTGGGGGATGCACATGTCGGTGATGACAGGTGCGAGAGTTTGGATAATCATATTA
1 TGTGCGTGATGTGGGGGATGCACATGTCGGTGATGACAGGTGCGAGAGTGTGGATAATCATATTA
13948483 CC
66 CC
* * * * * * *
13948485 TGTGCGCGATGTGGGGGATGCACATG-CTTGTGATGACGGGTGTGGGAGTGTGGATGATGATATT
1 TGTGCGTGATGTGGGGGATGCACATGTC-GGTGATGACAGGTGCGAGAGTGTGGATAATCATATT
**
13948549 GTC
65 ACC
13948552 TGTGCGTGATGTGGG
1 TGTGCGTGATGTGGG
13948567 ATGCATACGG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
66 1 0.01
67 69 0.99
ACGTcount: A:0.18, C:0.11, G:0.41, T:0.30
Consensus pattern (67 bp):
TGTGCGTGATGTGGGGGATGCACATGTCGGTGATGACAGGTGCGAGAGTGTGGATAATCATATTA
CC
Found at i:13954425 original size:58 final size:57
Alignment explanation
Indices: 13954336--13954455 Score: 213
Period size: 58 Copynumber: 2.1 Consensus size: 57
13954326 AGGGTCTCAT
*
13954336 CTTTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCATACTA
1 CTTTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCAAACTA
*
13954393 CTTTGCATTGCATAGCATTTATTAAATTGCATAAAATAAATCTATCACATGCAAACTA
1 CTTTGCA-TGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCAAACTA
13954451 CTTTG
1 CTTTG
13954456 GATGATTATG
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 7 0.12
58 53 0.88
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (57 bp):
CTTTGCATGCATAGCATTTATTAAATCGCATAAAATAAATCTATCACATGCAAACTA
Found at i:13957787 original size:21 final size:21
Alignment explanation
Indices: 13957763--13957804 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13957753 TTCATTAGTT
*
13957763 GAATTTTGCTGCAGCGAGAAA
1 GAATCTTGCTGCAGCGAGAAA
13957784 GAATCTTGCTGCAGCGAGAAA
1 GAATCTTGCTGCAGCGAGAAA
13957805 TCTTCTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (21 bp):
GAATCTTGCTGCAGCGAGAAA
Found at i:13957828 original size:60 final size:60
Alignment explanation
Indices: 13957721--13957839 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 60
13957711 CTGCAACCAA
* * * *
13957721 AAAGAATCTCGCTGTAGCGAAAAACTCTTTGTTTCATTAGTTGAATTTTGCTGCAGCGAG
1 AAAGAATCTCGCTGCAGCGAAAAACTCTTTGTTTCATGAGTTCAATTTCGCTGCAGCGAG
* * *
13957781 AAAGAATCTTGCTGCAGCGAGAAA-TCTTCTGTTTC-TGGGTTACAATTTCGCTGCAGCGA
1 AAAGAATCTCGCTGCAGCGAAAAACTCTT-TGTTTCATGAGTT-CAATTTCGCTGCAGCGA
13957840 AAAACCTTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 8 0.16
60 42 0.84
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (60 bp):
AAAGAATCTCGCTGCAGCGAAAAACTCTTTGTTTCATGAGTTCAATTTCGCTGCAGCGAG
Found at i:13960918 original size:2 final size:2
Alignment explanation
Indices: 13960879--13960905 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13960869 AATTCAAACC
13960879 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13960906 ACACAAGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13965091 original size:18 final size:19
Alignment explanation
Indices: 13965070--13965107 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
13965060 TAAAATATTG
13965070 ACTTTTAAAAAAAT-GCCA
1 ACTTTTAAAAAAATAGCCA
**
13965088 ACTTTTTTAAAAATAGCCA
1 ACTTTTAAAAAAATAGCCA
13965107 A
1 A
13965108 ATCCTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (19 bp):
ACTTTTAAAAAAATAGCCA
Found at i:13967386 original size:26 final size:26
Alignment explanation
Indices: 13967357--13967415 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
13967347 ATTTTCTAGT
* *
13967357 TTTCCTTTGT-TTTTCTCTTTTCTTCC
1 TTTCCTTTCTATTTTCTCTCTTCTT-C
* *
13967383 TTTCCTCTCTATTTTCTCTCTTGTTC
1 TTTCCTTTCTATTTTCTCTCTTCTTC
13967409 TTTCCTT
1 TTTCCTT
13967416 ATGGCCGGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTCCTTTCTATTTTCTCTCTTCTTC
Found at i:13970363 original size:60 final size:59
Alignment explanation
Indices: 13970256--13970397 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 59
13970246 AGAAGAAATG
* * * * * *
13970256 AGAAAGGAAAGAAAAAAAGAGAAGGGAGTTCGGCTAGATCAAGGAGAGAAAAGAGAAGGA
1 AGAAAGGAAAGAAAAAAAGAAAAGGAAGTTCGGCGAGACCAAAGAGAGAAAAGA-AAGAA
13970316 AGAAAGGAAAGAAAAAAAGAAAAGGAAGCTT-GGCCGA-ACCAAAGAGAGAAAAGAAAGAA
1 AGAAAGGAAAGAAAAAAAGAAAAGGAAG-TTCGG-CGAGACCAAAGAGAGAAAAGAAAGAA
*
13970375 AGAAATGG-AGGAAAAGAAAGAAA
1 AGAAA-GGAAAGAAAA-AAAGAAA
13970398 GAAAGCTGCA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
59 15 0.21
60 52 0.73
61 4 0.06
ACGTcount: A:0.58, C:0.06, G:0.31, T:0.05
Consensus pattern (59 bp):
AGAAAGGAAAGAAAAAAAGAAAAGGAAGTTCGGCGAGACCAAAGAGAGAAAAGAAAGAA
Found at i:13971574 original size:43 final size:43
Alignment explanation
Indices: 13971526--13971648 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 43
13971516 ATTATGTGAA
**
13971526 GATGATGACCCGGCTATGTGCAAGTAAGGAGTGCACATGAGCC
1 GATGATGACCCAACTATGTGCAAGTAAGGAGTGCACATGAGCC
* * * *
13971569 GATGATGACCCAACTATGTGCGAGTAGGGAGTGCATATGAGCT
1 GATGATGACCCAACTATGTGCAAGTAAGGAGTGCACATGAGCC
** * *
13971612 GATGATG--TTAA-AATGTGCAAGTAGGGAGTGCACATGA
1 GATGATGACCCAACTATGTGCAAGTAAGGAGTGCACATGA
13971649 CCATGAATGA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 23 0.33
41 2 0.03
43 44 0.64
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (43 bp):
GATGATGACCCAACTATGTGCAAGTAAGGAGTGCACATGAGCC
Found at i:13976248 original size:38 final size:38
Alignment explanation
Indices: 13976206--13976304 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 38
13976196 ATATTGCCCG
* * * *
13976206 TGTGCACGATGTGGGGGGATGTACACAATGGCATTAGC-
1 TGTGCACGATGTGGGGGGATGCACACAATGAC-TCAACA
* *
13976244 TGTGCATGATGTGGGGGGATGCACACGATGACTCAACTA
1 TGTGCACGATGTGGGGGGATGCACACAATGACTCAAC-A
13976283 TGTGCACGATGTGGGGGGATGC
1 TGTGCACGATGTGGGGGGATGC
13976305 TGTTAGGAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.06
38 28 0.54
39 21 0.40
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.23
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGCACACAATGACTCAACA
Found at i:13977480 original size:29 final size:28
Alignment explanation
Indices: 13977435--13977576 Score: 167
Period size: 29 Copynumber: 4.9 Consensus size: 28
13977425 GGCAGCTTTG
13977435 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
13977463 ACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATGTTT-GTCTTAATTTAGACAAGAAA
* *
13977492 ATATGTTTGCCTTAATTTAAGACAAGAAAA
1 ACATGTTTGTCTTAATTT-AGACAAG-AAA
* * ** *
13977522 ATATTTTTTGTCTTAATTTAGTTAATAAA
1 ACA-TGTTTGTCTTAATTTAGACAAGAAA
* *
13977551 ACATATTTGTCTCAATTTAGACAAGA
1 ACATGTTTGTCTTAATTTAGACAAGA
13977577 TAAAATATTT
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 35 0.36
29 39 0.40
30 10 0.10
31 13 0.13
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAGACAAGAAA
Found at i:13977568 original size:59 final size:58
Alignment explanation
Indices: 13977435--13977598 Score: 213
Period size: 59 Copynumber: 2.8 Consensus size: 58
13977425 GGCAGCTTTG
* * *
13977435 ACATGTTTGTCTTAATTTAGACAAG-AAAACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
* * ** *
13977492 ATATGTTTGCCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATTTAGTTAATAAA
1 ACATGTTTGTCTTAATTT-AGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
* *
13977551 ACATATTTGTCTCAATTTAGACAAGATAAAATATTTTTTGTCTTAATT
1 ACATGTTTGTCTTAATTTAGACAAGA-AAAATATTTTTTGTCTTAATT
13977599 ACTGACAAGA
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
57 16 0.17
58 15 0.16
59 61 0.66
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (58 bp):
ACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAGAAA
Found at i:13977584 original size:28 final size:28
Alignment explanation
Indices: 13977435--13977586 Score: 155
Period size: 28 Copynumber: 5.3 Consensus size: 28
13977425 GGCAGCTTTG
*
13977435 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATATTTGTCTTAATTTAGACAAGAAA
*
13977463 ACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATATTT-GTCTTAATTTAGACAAGAAA
* * *
13977492 ATATGTTTGCCTTAATTTAAGACAAGAAA
1 ACATATTTGTCTTAATTT-AGACAAGAAA
** *
13977521 A-ATATTTTTTGTCTTAATTTAGTTAATAAA
1 ACATA---TTTGTCTTAATTTAGACAAGAAA
*
13977551 ACATATTTGTCTCAATTTAGACAAGATAA
1 ACATATTTGTCTTAATTTAGACAAGA-AA
13977580 A-ATATTT
1 ACATATTT
13977587 TTTGTCTTAA
Statistics
Matches: 106, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
28 42 0.40
29 41 0.39
30 8 0.08
31 15 0.14
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (28 bp):
ACATATTTGTCTTAATTTAGACAAGAAA
Found at i:13977771 original size:17 final size:17
Alignment explanation
Indices: 13977749--13977781 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13977739 ATAATAATAA
13977749 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
13977766 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
13977782 TTTATCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:13989509 original size:7 final size:7
Alignment explanation
Indices: 13989489--13989519 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
13989479 TCTGAACCAG
13989489 TAAACCC
1 TAAACCC
13989496 T-AACCC
1 TAAACCC
13989502 TAAACCC
1 TAAACCC
13989509 TAAACCC
1 TAAACCC
13989516 TAAA
1 TAAA
13989520 TCTGCCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:13996460 original size:43 final size:43
Alignment explanation
Indices: 13996411--13996516 Score: 140
Period size: 43 Copynumber: 2.5 Consensus size: 43
13996401 CAGCTCATGT
** ** *
13996411 GCACTCCCTACTCGCACATGGCTGGGTCATCATCGGGTTATGC
1 GCACTCCCTACTCGCACATAACCAGGTCATCATCGGCTTATGC
* *
13996454 GTACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTTATGC
1 GCACTCCCTACTCGCACATAACCAGGTCATCATCGGCTTATGC
*
13996497 GCACTCCCTACTCTCACATA
1 GCACTCCCTACTCGCACATA
13996517 GCCGAGTCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.20, C:0.37, G:0.18, T:0.25
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAACCAGGTCATCATCGGCTTATGC
Found at i:14006900 original size:23 final size:23
Alignment explanation
Indices: 14006870--14006929 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
14006860 TATACGTATA
* * *
14006870 CCCATCATTATCATGCACATCAT
1 CCCATCATCATCATACACACCAT
14006893 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
14006916 CACATCATCATCAT
1 CCCATCATCATCAT
14006930 CACCAGCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.38, G:0.02, T:0.27
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:14006975 original size:43 final size:43
Alignment explanation
Indices: 14006926--14007048 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
14006916 CACATCATCA
* * * **
14006926 TCATCACCAGCTCATGTGCACTCCCTAGTCGCACATGGCTGGG
1 TCATCACCGGCTTATGTGCACTCCCTACTCGCACATAACTGGG
* **
14006969 TCATCACCGGGTTATACGCACTCCCTACTCGCACATAACTGGG
1 TCATCACCGGCTTATGTGCACTCCCTACTCGCACATAACTGGG
*
14007012 TCATC-CTCGGCTTATGTGCATTCCCTACTCGCACATA
1 TCATCAC-CGGCTTATGTGCACTCCCTACTCGCACATA
14007049 GCCGAGTCAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 1 0.01
43 66 0.99
ACGTcount: A:0.20, C:0.35, G:0.19, T:0.26
Consensus pattern (43 bp):
TCATCACCGGCTTATGTGCACTCCCTACTCGCACATAACTGGG
Found at i:14009920 original size:32 final size:32
Alignment explanation
Indices: 14009884--14010032 Score: 165
Period size: 35 Copynumber: 4.5 Consensus size: 32
14009874 TTTACCGGGA
14009884 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* *
14009916 TCAACCACAACCTTTCACAA-TGGTTTTTCACAGGC
1 TCAACCAAAACC---CA-AAGTGGTTTTTCAAAGGC
14009951 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
* * ** *
14009983 TCAACCATAACCTACAACAATGGTTTTTCACGGGA
1 TCAACCAAAACC--CAA-AGTGGTTTTTCAAAGGC
14010018 TCAACCAAAACCCAA
1 TCAACCAAAACCCAA
14010033 CAACTAACTT
Statistics
Matches: 99, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
31 2 0.02
32 38 0.38
33 3 0.03
34 3 0.03
35 51 0.52
36 2 0.02
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTGGTTTTTCAAAGGC
Found at i:14009936 original size:67 final size:67
Alignment explanation
Indices: 14009857--14010032 Score: 284
Period size: 67 Copynumber: 2.6 Consensus size: 67
14009847 GCTTAGCCAA
14009857 AACCTTTCACAATGGTTTTT-ACCGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
1 AACCTTTCACAATGGTTTTTCA-CGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAAC
14009921 CAC
65 CAC
* *
14009924 AACCTTTCACAATGGTTTTTCACAGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
1 AACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
*
14009989 AT
66 AC
*
14009991 AACC-TACAACAATGGTTTTTCACGGGATCAACCAAAACCCAA
1 AACCTTTC-ACAATGGTTTTTCACGGGATCAACCAAAACCCAA
14010033 CAACTAACTT
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
66 2 0.02
67 98 0.97
68 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (67 bp):
AACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACC
AC
Found at i:14009942 original size:35 final size:33
Alignment explanation
Indices: 14009853--14010029 Score: 157
Period size: 35 Copynumber: 5.2 Consensus size: 33
14009843 TCAAGCTTAG
** *
14009853 CCAAAACCTTTCACAATGGTTTTT-ACCGGGATCAA
1 CCAAAACC--TCACAATGGTTTTTCA-AAGGCTCAA
14009888 CCAAAACC-CA-AAGTGGTTTTTCAAAGGCTCAA
1 CCAAAACCTCACAA-TGGTTTTTCAAAGGCTCAA
* *
14009920 CCACAACCTTTCACAATGGTTTTTCACAGGCTCAA
1 CCAAAACC--TCACAATGGTTTTTCAAAGGCTCAA
14009955 CCAAAACC-CA-AAGTGGTTTTTCAAAGGCTCAA
1 CCAAAACCTCACAA-TGGTTTTTCAAAGGCTCAA
* ** *
14009987 CCATAACCTACAACAATGGTTTTTCACGGGATCAA
1 CCAAAACCT-C-ACAATGGTTTTTCAAAGGCTCAA
14010022 CCAAAACC
1 CCAAAACC
14010030 CAACAACTAA
Statistics
Matches: 119, Mismatches: 12, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
31 4 0.03
32 50 0.42
33 1 0.01
34 1 0.01
35 59 0.50
36 4 0.03
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (33 bp):
CCAAAACCTCACAATGGTTTTTCAAAGGCTCAA
Found at i:14013288 original size:2 final size:2
Alignment explanation
Indices: 14013283--14013311 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14013273 TATATATATA
14013283 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
14013312 ATACGAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:14013405 original size:42 final size:42
Alignment explanation
Indices: 14013345--14013509 Score: 222
Period size: 42 Copynumber: 3.9 Consensus size: 42
14013335 TATTGACCCA
** * *
14013345 GCTATGTGCGAGTAGGAGTGTGCATAAGTCGATGCTGACACG
1 GCTATGTGCGAGGGGGAGTGCGCATAAGCCGATGCTGACACG
* * *
14013387 GCTATGTGCGAGGGGGAGTGCGCATAAGTCGATGCTGACTCA
1 GCTATGTGCGAGGGGGAGTGCGCATAAGCCGATGCTGACACG
* *
14013429 GCTATGTGCGAGGGGGAGTGAGCATAAGCCGATGCTGACCCG
1 GCTATGTGCGAGGGGGAGTGCGCATAAGCCGATGCTGACACG
* * *
14013471 ACTATGTGCGAGTGGGAGTGCGCATAAGCCAATGCTGAC
1 GCTATGTGCGAGGGGGAGTGCGCATAAGCCGATGCTGAC
14013510 CTAACCATGT
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 110 1.00
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (42 bp):
GCTATGTGCGAGGGGGAGTGCGCATAAGCCGATGCTGACACG
Found at i:14013488 original size:84 final size:84
Alignment explanation
Indices: 14013338--14013510 Score: 256
Period size: 84 Copynumber: 2.1 Consensus size: 84
14013328 GTAATGATAT
* * * *
14013338 TGACCCAGCTATGTGCGAGTAGGAGTGTGCATAAGTCGATGCTGACACGGCTATGTGCGAGGGGG
1 TGACCCAGCTATGTGCGAGGAGGAGTGAGCATAAGCCGATGCTGACACGACTATGTGCGAGGGGG
* *
14013403 AGTGCGCATAAGTCGATGC
66 AGTGCGCATAAGCCAATGC
* * * *
14013422 TGACTCAGCTATGTGCGAGGGGGAGTGAGCATAAGCCGATGCTGACCCGACTATGTGCGAGTGGG
1 TGACCCAGCTATGTGCGAGGAGGAGTGAGCATAAGCCGATGCTGACACGACTATGTGCGAGGGGG
14013487 AGTGCGCATAAGCCAATGC
66 AGTGCGCATAAGCCAATGC
14013506 TGACC
1 TGACC
14013511 TAACCATGTG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.23, C:0.21, G:0.36, T:0.20
Consensus pattern (84 bp):
TGACCCAGCTATGTGCGAGGAGGAGTGAGCATAAGCCGATGCTGACACGACTATGTGCGAGGGGG
AGTGCGCATAAGCCAATGC
Found at i:14013510 original size:42 final size:41
Alignment explanation
Indices: 14013338--14013533 Score: 212
Period size: 42 Copynumber: 4.7 Consensus size: 41
14013328 GTAATGATAT
* * *
14013338 TGACCCAGCTATGTGCGAGTAGGAGTGTGCATAAGTCGATGC
1 TGACCCA-CTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
** * *
14013380 TGACACGGCTATGTGCGAGGGGGAGTGCGCATAAGTCGATGC
1 TGAC-CCACTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
* * *
14013422 TGACTCAGCTATGTGCGAGGGGGAGTGAGCATAAGCCGATGC
1 TGACCCA-CTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
*
14013464 TGACCCGACTATGTGCGAGTGGGAGTGCGCATAAGCCAATGC
1 TGACCC-ACTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
* * * *
14013506 TGACCTAACCATGTGCTAATGGGAGTGC
1 TGACC-CACTATGTGCGAGTGGGAGTGC
14013534 ATATAAGCTG
Statistics
Matches: 132, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
42 130 0.98
43 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.21
Consensus pattern (41 bp):
TGACCCACTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
Found at i:14014824 original size:211 final size:211
Alignment explanation
Indices: 14014453--14014892 Score: 571
Period size: 211 Copynumber: 2.1 Consensus size: 211
14014443 AAATTGGGCT
* *
14014453 GTGACAATGTTGGTATCAGAGCAAAAGATTGTAACCCGATCCCTGGGAACTTTCGCTTGTGAATA
1 GTGACAATGTTGGTATCAAAGCAAAAGATTGTAACCCGATCCCTGGGAACTTTCGCGTGTGAATA
** * * * *
14014518 GTGGTGAAGCATGACATTTCACCAAGGGGCTTGTAGAGAGGGTAGTCCCCTACGAGTGTTCTAAT
66 GTGACGAAGCATGACATCTCACCAACGGGCTTGTAGAGAAGGTAGTCCCCTACGAGTGCTCTAAT
* * * * * *
14014583 AGGTACATTTTGTTGCCACCGTTGAAGGAGGAAATG-GCTGCTTGTAGAGAGGGTCATCCCTTGC
131 AGGTACACTTTGTTGCCACCGTTGAAGGAGGAAA-GCACTGCTTATAGAGAAGGTCATCCCCTAC
*
14014647 GAGTGGAGTCACCCCTA
195 GAGTGGAGCCACCCCTA
* * * * *
14014664 GTGACAGTGTTGGTATTAAAGCAAAGGGTTGTAACTCGATCCCTGGGAACTCTT-GCGTGTGAAT
1 GTGACAATGTTGGTATCAAAGCAAAAGATTGTAACCCGATCCCTGGGAACT-TTCGCGTGTGAAT
* * * *
14014728 AGTGACGAAGCATGAC-TCTCTGCCCACGGGCTTGTAGAGAAGGTAGTCCCTTACGAGTGCTCTG
65 AGTGACGAAGCATGACATCTC-ACCAACGGGCTTGTAGAGAAGGTAGTCCCCTACGAGTGCTCTA
* * *
14014792 ATAGGTACCCTTTGTTGCTACCGTTGAAGGAGGAAAGCACTGCTTATAGAGAAGGTCGTCCCCTA
129 ATAGGTACACTTTGTTGCCACCGTTGAAGGAGGAAAGCACTGCTTATAGAGAAGGTCATCCCCTA
* *
14014857 TGAGTGGAGCCGCCCCTA
194 CGAGTGGAGCCACCCCTA
14014875 GTGACAATGTTGGTATCA
1 GTGACAATGTTGGTATCA
14014893 GAGCCTTAGG
Statistics
Matches: 195, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
210 4 0.02
211 189 0.97
212 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (211 bp):
GTGACAATGTTGGTATCAAAGCAAAAGATTGTAACCCGATCCCTGGGAACTTTCGCGTGTGAATA
GTGACGAAGCATGACATCTCACCAACGGGCTTGTAGAGAAGGTAGTCCCCTACGAGTGCTCTAAT
AGGTACACTTTGTTGCCACCGTTGAAGGAGGAAAGCACTGCTTATAGAGAAGGTCATCCCCTACG
AGTGGAGCCACCCCTA
Found at i:14017361 original size:2 final size:2
Alignment explanation
Indices: 14017354--14017386 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14017344 TGCAACAAGG
14017354 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14017387 GTTAGTAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14022477 original size:33 final size:33
Alignment explanation
Indices: 14022440--14022502 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
14022430 TATGATTATT
14022440 AAGTATGTTTAATAGAACTTAATTATTAAGGTG
1 AAGTATGTTTAATAGAACTTAATTATTAAGGTG
14022473 AAGTATGTTTAATAGAACTTAATTATTAAG
1 AAGTATGTTTAATAGAACTTAATTATTAAG
14022503 ACTTCTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.40
Consensus pattern (33 bp):
AAGTATGTTTAATAGAACTTAATTATTAAGGTG
Found at i:14025357 original size:21 final size:20
Alignment explanation
Indices: 14025333--14025380 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
14025323 ATCTTACCTT
* *
14025333 TTTTTCACTTGTTTCTTTGAA
1 TTTTTCACTT-TTCCGTTGAA
*
14025354 TTTTCACACTTTTCCGTTGAA
1 TTTT-TCACTTTTCCGTTGAA
14025375 TTTTTC
1 TTTTTC
14025381 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.15, C:0.19, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTTTCACTTTTCCGTTGAA
Found at i:14026738 original size:35 final size:35
Alignment explanation
Indices: 14026711--14026930 Score: 187
Period size: 35 Copynumber: 6.3 Consensus size: 35
14026701 TTAATTGTTT
* *
14026711 AATTTAATCGATTAGGCTCAATCACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATCACTTAATTAAAC
* * * *
14026746 AATTTAATTAATTAAGCTCAA-CAATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATC-ACTTAATTAAAC
* ****
14026781 AATTTTAATCAATTAGGCCCAATGACTTAATTGTTT
1 AA-TTTAATCAATTAGGCCCAATCACTTAATTAAAC
* * * *
14026817 AGTTTAATTAATTAGGCCCAATGACTTAATTAAAT
1 AATTTAATCAATTAGGCCCAATCACTTAATTAAAC
* * * *
14026852 AATTTAATTAATTAGGCCTAATGATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATCACTTAATTAAAC
* **
14026887 AATTTAATTAATTAGGTAC-A--ACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATCACTTAATTAAAC
14026919 AATTTTAATCAA
1 AA-TTTAATCAA
14026931 GTGTTTGAGA
Statistics
Matches: 154, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
32 13 0.08
33 8 0.05
34 2 0.01
35 107 0.69
36 24 0.16
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATCACTTAATTAAAC
Found at i:14026809 original size:71 final size:71
Alignment explanation
Indices: 14026713--14026930 Score: 246
Period size: 71 Copynumber: 3.1 Consensus size: 71
14026703 AATTGTTTAA
* * * *
14026713 TTTAATCGATTAGGCTCAATCACTTAATTAAACAATTTAATTAATTAAGCTCAACAATTTAATTA
1 TTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAAGCTCAACAACTTAATTA
14026778 AACAAT
66 AACAAT
**** * * * **
14026784 TTTAATCAATTAGGCCCAATGACTTAATTGTTTAGTTTAATTAATTAGGCCCAATGACTTAATTA
1 TTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAAGCTCAACAACTTAATTA
*
14026849 AATAA-
66 AACAAT
* * * *
14026854 TTTAATTAATTAGGCCTAATGATTTAATTAAACAATTTAATTAATT-AGGT--ACAACTTAATTA
1 TTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAAGCTCAACAACTTAATTA
14026916 AACAAT
66 AACAAT
14026922 TTTAATCAA
1 TTTAATCAA
14026931 GTGTTTGAGA
Statistics
Matches: 117, Mismatches: 29, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
67 14 0.12
68 8 0.07
69 1 0.01
70 38 0.32
71 56 0.48
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.39
Consensus pattern (71 bp):
TTTAATCAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAAGCTCAACAACTTAATTA
AACAAT
Found at i:14026815 original size:106 final size:105
Alignment explanation
Indices: 14026699--14026902 Score: 293
Period size: 106 Copynumber: 1.9 Consensus size: 105
14026689 AGCCTAATTA
* *
14026699 ACTTAATTGTTTAATTTAATCGATTAGGCTCAATCACTTAATTAAACAATTTAATTAATTAAG-C
1 ACTTAATTGTTTAATTTAATCAATTAGGCCCAATCACTTAATTAAACAATTTAATTAATTAAGCC
14026763 TCAACAATTTAATTAAACAATTTTAATCAATTAGGCCCAATG
66 T-AACAATTTAATTAAACAA-TTTAATCAATTAGGCCCAATG
* * * * *
14026805 ACTTAATTGTTTAGTTTAATTAATTAGGCCCAATGACTTAATTAAATAATTTAATTAATTAGGCC
1 ACTTAATTGTTTAATTTAATCAATTAGGCCCAATCACTTAATTAAACAATTTAATTAATTAAGCC
** *
14026870 TAATGATTTAATTAAACAATTTAATTAATTAGG
66 TAACAATTTAATTAAACAATTTAATCAATTAGG
14026903 TACAACTTAA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
105 13 0.15
106 72 0.83
107 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (105 bp):
ACTTAATTGTTTAATTTAATCAATTAGGCCCAATCACTTAATTAAACAATTTAATTAATTAAGCC
TAACAATTTAATTAAACAATTTAATCAATTAGGCCCAATG
Found at i:14033472 original size:35 final size:35
Alignment explanation
Indices: 14033433--14033557 Score: 144
Period size: 35 Copynumber: 3.6 Consensus size: 35
14033423 AAAGTGCATG
* *
14033433 TGATGATATTGAAGTGTGCAAGTAGGGAGTGCACA
1 TGATGATATTGAAGTGTGCGAGTAAGGAGTGCACA
* ** *
14033468 TGATGATATTCAAGTGTGCGAGTAAGGAGTTTAGA
1 TGATGATATTGAAGTGTGCGAGTAAGGAGTGCACA
** * *
14033503 CAATGATATTGAAATGTGCGAGTACGGAGTGCACA
1 TGATGATATTGAAGTGTGCGAGTAAGGAGTGCACA
14033538 TGATGATATT-ATAGTGTGCG
1 TGATGATATTGA-AGTGTGCG
14033558 CGATGTGGGG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
34 1 0.01
35 71 0.99
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (35 bp):
TGATGATATTGAAGTGTGCGAGTAAGGAGTGCACA
Found at i:14036213 original size:19 final size:19
Alignment explanation
Indices: 14036189--14036225 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
14036179 TGAGGGAGAG
14036189 CAAAAGAAA-AACAAAAGAA
1 CAAAAGAAAGAA-AAAAGAA
14036208 CAAAAGAAAGAAAAAAGA
1 CAAAAGAAAGAAAAAAGA
14036226 GAGAAACAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (19 bp):
CAAAAGAAAGAAAAAAGAA
Found at i:14036314 original size:33 final size:35
Alignment explanation
Indices: 14036244--14036314 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 35
14036234 GTCGAGAGAG
*
14036244 AGAAAAAGAAAGAAGAGAAAAGTTGAACGGTGAAGA
1 AGAAAAAAAAAGAAGAGAAAAG-TGAACGGTGAAGA
*
14036280 AGAAAAAAAAAGAA-AGAAAAG-GAAGGGTGAAGA
1 AGAAAAAAAAAGAAGAGAAAAGTGAACGGTGAAGA
14036313 AG
1 AG
14036315 CTAAGTTGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 13 0.39
35 7 0.21
36 13 0.39
ACGTcount: A:0.62, C:0.01, G:0.31, T:0.06
Consensus pattern (35 bp):
AGAAAAAAAAAGAAGAGAAAAGTGAACGGTGAAGA
Found at i:14036464 original size:33 final size:34
Alignment explanation
Indices: 14036375--14036452 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
14036365 GTGATTGCTT
* * *
14036375 ATTTTTGGAGGAAGAATAGAGCAGCGTAGCTACTG
1 ATTTTT-GAGGAATAATAGAGCAGCTTGGCTACTG
14036410 ATTTTTGAGGAATAATAGAGCAGCTTGGCTACTG
1 ATTTTTGAGGAATAATAGAGCAGCTTGGCTACTG
14036444 A-TTTTGAGG
1 ATTTTTGAGG
14036453 TGGATATGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 8 0.20
34 26 0.65
35 6 0.15
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.31
Consensus pattern (34 bp):
ATTTTTGAGGAATAATAGAGCAGCTTGGCTACTG
Found at i:14043344 original size:19 final size:18
Alignment explanation
Indices: 14043322--14043364 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
14043312 TTAATATTTT
14043322 AATATTATTTTATTCATAA
1 AATATTATTTTATTC-TAA
*
14043341 AATAATATTTTATTCTAA
1 AATATTATTTTATTCTAA
14043359 AATATT
1 AATATT
14043365 CTTATCATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
AATATTATTTTATTCTAA
Found at i:14048643 original size:40 final size:38
Alignment explanation
Indices: 14048593--14048695 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
14048583 ACCCGGCTCA
* * *
14048593 TGTGCATCCCCCGACATCATGCACATAGCCG-GCACCATCG
1 TGTGCATCCCCCCACATCGTGCACA-AGCAGTG--CCATCG
*
14048633 TGTGCATCCCCCCACATCGTGCACAATCAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACAAGCAGTGCCATCG
*
14048671 TGTACATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
14048696 CGGGCACTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
38 30 0.53
39 3 0.05
40 24 0.42
ACGTcount: A:0.22, C:0.41, G:0.17, T:0.19
Consensus pattern (38 bp):
TGTGCATCCCCCCACATCGTGCACAAGCAGTGCCATCG
Found at i:14048688 original size:19 final size:19
Alignment explanation
Indices: 14048628--14048691 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
14048618 TAGCCGGCAC
*
14048628 CATCGTGTGCATCCCCCCA
1 CATCGTGTACATCCCCCCA
* ****
14048647 CATCGTGCACAATCAGTGC-
1 CATCGTGTAC-ATCCCCCCA
14048666 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
14048685 CATCGTG
1 CATCGTG
14048692 CACACGGGCA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 4 0.12
19 24 0.75
20 4 0.12
ACGTcount: A:0.20, C:0.41, G:0.17, T:0.22
Consensus pattern (19 bp):
CATCGTGTACATCCCCCCA
Found at i:14052376 original size:35 final size:35
Alignment explanation
Indices: 14052229--14052376 Score: 133
Period size: 35 Copynumber: 4.3 Consensus size: 35
14052219 AGAGTGCGTG
*
14052229 TGATGATATTGAAATGTGCGAGTAAGGAGTGCACA
1 TGATGATATTGAAATGTACGAGTAAGGAGTGCACA
* * *
14052264 -CATTGATATTGAAGTGTACGAGTAGGGAGTGCACA
1 TGA-TGATATTGAAATGTACGAGTAAGGAGTGCACA
* * * *
14052299 TGATGATATTCG-AGTGTGCGAGTAAAGAGTGTACA
1 TGATGATATT-GAAATGTACGAGTAAGGAGTGCACA
* * * *
14052334 GGA--ATATTGAAATGTATGAGTAGGGAGCGCACA
1 TGATGATATTGAAATGTACGAGTAAGGAGTGCACA
*
14052367 TGACGATATT
1 TGATGATATT
14052377 ATAGTGTGCG
Statistics
Matches: 89, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
32 1 0.01
33 23 0.26
34 1 0.01
35 62 0.70
36 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.26
Consensus pattern (35 bp):
TGATGATATTGAAATGTACGAGTAAGGAGTGCACA
Found at i:14052638 original size:22 final size:22
Alignment explanation
Indices: 14052585--14052638 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
14052575 AAATGCTTCC
* * *
14052585 GAATTAATTTTCATTGCAGCAA
1 GAATTATTTTTCATTCCAACAA
*
14052607 -AAATAGTTTTTCATTCCAACAA
1 GAATTA-TTTTTCATTCCAACAA
14052629 GAATTATTTT
1 GAATTATTTT
14052639 GACTTAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 4 0.16
22 17 0.68
23 4 0.16
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (22 bp):
GAATTATTTTTCATTCCAACAA
Found at i:14055241 original size:13 final size:13
Alignment explanation
Indices: 14055223--14055247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14055213 GCTTAAAAGT
14055223 CCCATTTTCTCCA
1 CCCATTTTCTCCA
14055236 CCCATTTTCTCC
1 CCCATTTTCTCC
14055248 CAAATCTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.48, G:0.00, T:0.40
Consensus pattern (13 bp):
CCCATTTTCTCCA
Found at i:14059167 original size:37 final size:37
Alignment explanation
Indices: 14059120--14059282 Score: 199
Period size: 37 Copynumber: 4.4 Consensus size: 37
14059110 TAATGTTGTT
14059120 TGATGATGTTGAAGTGTGCAAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCAAGTAGGGAGTGCACACA
* *
14059157 TGATGGTGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCAAGTAGGGAGTGCACACA
* **
14059194 TGATGATGTTGAATTGTGCAAGTAAAGAGTGCACACA
1 TGATGATGTTGAAGTGTGCAAGTAGGGAGTGCACACA
* *
14059231 TGATGATGGTAGAATGTGTG--AGTATGGAGTG--CACA
1 TGATGAT-GTTGAA-GTGTGCAAGTAGGGAGTGCACACA
*
14059266 TGATGATGAATGAAGTG
1 TGATGATG-TTGAAGTG
14059283 GGGTGGTGTA
Statistics
Matches: 110, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
34 4 0.04
35 14 0.13
37 83 0.75
38 5 0.05
39 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCAAGTAGGGAGTGCACACA
Found at i:14073467 original size:22 final size:21
Alignment explanation
Indices: 14073442--14073483 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14073432 TACCTTTTGT
*
14073442 CACTTGTTTCCTAGAATTTTCA
1 CACTT-TTCCCTAGAATTTTCA
*
14073464 CACTTTTCCCTTGAATTTTC
1 CACTTTTCCCTAGAATTTTC
14073484 CACCTAGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.19, C:0.26, G:0.07, T:0.48
Consensus pattern (21 bp):
CACTTTTCCCTAGAATTTTCA
Found at i:14073524 original size:11 final size:11
Alignment explanation
Indices: 14073494--14073551 Score: 82
Period size: 11 Copynumber: 5.4 Consensus size: 11
14073484 CACCTAGGGT
*
14073494 TTTGTTCTTTC
1 TTTGTTCTTCC
14073505 TTT-TTCTTCC
1 TTTGTTCTTCC
14073515 TTTGTTCTTCC
1 TTTGTTCTTCC
**
14073526 TTTGTTCTTGG
1 TTTGTTCTTCC
14073537 TTTGTTCTTCC
1 TTTGTTCTTCC
14073548 TTTG
1 TTTG
14073552 GCCGGCCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
10 9 0.22
11 32 0.78
ACGTcount: A:0.00, C:0.21, G:0.12, T:0.67
Consensus pattern (11 bp):
TTTGTTCTTCC
Found at i:14077834 original size:22 final size:21
Alignment explanation
Indices: 14077795--14077835 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14077785 CCTAGGTGGA
*
14077795 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGAAAAAGTGTG
*
14077816 AAAATTCACGGAAACAAGTG
1 AAAATTCAAGGAAA-AAGTG
14077836 CAAAAATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.49, C:0.10, G:0.24, T:0.17
Consensus pattern (21 bp):
AAAATTCAAGGAAAAAGTGTG
Found at i:14077841 original size:22 final size:21
Alignment explanation
Indices: 14077794--14077842 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
14077784 CCCTAGGTGG
* *
14077794 AAAAATTCAAGGGAAAAGTGT
1 AAAAATTCAAGGAAAAAGTGC
* *
14077815 GAAAATTCACGGAAACAAGTGC
1 AAAAATTCAAGGAAA-AAGTGC
14077837 AAAAAT
1 AAAAAT
14077843 GTAAGATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.53, C:0.10, G:0.20, T:0.16
Consensus pattern (21 bp):
AAAAATTCAAGGAAAAAGTGC
Found at i:14087992 original size:21 final size:20
Alignment explanation
Indices: 14087967--14088006 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
14087957 AATTTTTTAA
14087967 AAAATAACATAAGATTAAACT
1 AAAATAACATAA-ATTAAACT
*
14087988 AAAATAACTTAAATTAAAC
1 AAAATAACATAAATTAAAC
14088007 AACTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAATAACATAAATTAAACT
Found at i:14092185 original size:21 final size:22
Alignment explanation
Indices: 14092160--14092200 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14092150 CCTACGTGGA
*
14092160 AAAATTCAAGGTAA-AAGTGCG
1 AAAATTCAAGGAAACAAGTGCG
14092181 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
14092201 AAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGCG
Found at i:14092206 original size:22 final size:21
Alignment explanation
Indices: 14092159--14092206 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14092149 CCCTACGTGG
* *
14092159 AAAAATTCAAGGTAAAAGTGC
1 AAAAATTCAAGGAAAAAGTGA
*
14092180 GAAAATTCAAGGAAACAAGTGA
1 AAAAATTCAAGGAAA-AAGTGA
14092202 AAAAA
1 AAAAA
14092207 GGTAAGATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.58, C:0.08, G:0.19, T:0.15
Consensus pattern (21 bp):
AAAAATTCAAGGAAAAAGTGA
Found at i:14103972 original size:60 final size:60
Alignment explanation
Indices: 14103848--14103985 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 60
14103838 AGTTTTTCGC
* * * * * * **
14103848 TGAATCTCGCTGCAACGAAATTGTGATCCAAAAACATAATGTTTCTCACTGCAGCGAGCT
1 TGAATCTCGCTGCAGCGAAATTGTAACCCAAAAACAGAAAGTTTCTCACTGCAGCAAGAA
* *
14103908 TGAATCTCGCTGCAGCGAAATTGTAACCCAAAAATAGAAAGTTTCTCGCTGCAGCAAGAA
1 TGAATCTCGCTGCAGCGAAATTGTAACCCAAAAACAGAAAGTTTCTCACTGCAGCAAGAA
* *
14103968 TGAATTTCGCTGTAGCGA
1 TGAATCTCGCTGCAGCGA
14103986 GAAGCTGTAG
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (60 bp):
TGAATCTCGCTGCAGCGAAATTGTAACCCAAAAACAGAAAGTTTCTCACTGCAGCAAGAA
Found at i:14104019 original size:22 final size:22
Alignment explanation
Indices: 14103989--14104038 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
14103979 GTAGCGAGAA
*
14103989 GCTGTAGTGAAAATGCATCCTC
1 GCTGCAGTGAAAATGCATCCTC
14104011 GCTGCAGTGAAAATGCATCCTC
1 GCTGCAGTGAAAATGCATCCTC
*
14104033 ACTGCA
1 GCTGCA
14104039 ACGAGTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (22 bp):
GCTGCAGTGAAAATGCATCCTC
Found at i:14104439 original size:43 final size:43
Alignment explanation
Indices: 14104392--14104481 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
14104382 ACAGGGTTGG
* * *
14104392 GTCATCATCGGGTTATGCGTACTCCCTACTCGCACATAACTGA
1 GTCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCGA
* * *
14104435 GTCATCCTCGGCTTATGCGCACTCCCTAGTCGCACATAGCCGA
1 GTCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCGA
14104478 GTCA
1 GTCA
14104482 ATATAATTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.26
Consensus pattern (43 bp):
GTCATCATCGGCTTATGCGCACTCCCTACTCGCACATAACCGA
Found at i:14107213 original size:43 final size:42
Alignment explanation
Indices: 14107124--14107403 Score: 282
Period size: 43 Copynumber: 6.6 Consensus size: 42
14107114 TGGACCCAGC
* * *
14107124 TATGTGCGAGTA-GGAGTGCACATAAGCCGTTACTGACCC-AGC
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCGTGA-TGACCCGA-T
* * *
14107166 TATGTGCGAGTAGGGAGTGCGCATAAGCCAATGATGATCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAAGCC-GTGATGACCCGAT
* * *
14107209 TATGTGCGAGTA-GGAGTGCACATAAGCCGTTACTGACCCGAC
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCGTGA-TGACCCGAT
*
14107251 TATGTGCAAGTAGGGAGTGCGCATAAGCCGATGATGACCCGAT
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCG-TGATGACCCGAT
* * *
14107294 TATGTGCGAGTAAGGAGTGTGCATAACCCGGTGATGACCCGAT
1 TATGTGCGAGTAGGGAGTGCGCATAAGCC-GTGATGACCCGAT
* * *
14107337 TATGTGCAAGTAGGGAGTGCGCATAA-CTCGGTGATGA-CCTAGC
1 TATGTGCGAGTAGGGAGTGCGCATAAGC-C-GTGATGACCCGA-T
* *
14107380 CATGTGCAAGTAGGGAGTGCGCAT
1 TATGTGCGAGTAGGGAGTGCGCAT
14107404 GAGCTGAGAA
Statistics
Matches: 203, Mismatches: 26, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
41 2 0.01
42 48 0.24
43 148 0.73
44 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (42 bp):
TATGTGCGAGTAGGGAGTGCGCATAAGCCGTGATGACCCGAT
Found at i:14107267 original size:85 final size:85
Alignment explanation
Indices: 14107124--14107362 Score: 356
Period size: 85 Copynumber: 2.8 Consensus size: 85
14107114 TGGACCCAGC
*
14107124 TATGTGCGAGTAGGAGTGCACATAAGCCGTTACTGACCC-AGCTATGTGCGAGTAGGGAGTGCGC
1 TATGTGCGAGTAGGAGTGCACATAAGCCGTTACTGACCCGA-CTATGTGCAAGTAGGGAGTGCGC
* *
14107188 ATAAGCCAATGATGATCCGGT
65 ATAAGCCAATGATGACCCGAT
14107209 TATGTGCGAGTAGGAGTGCACATAAGCCGTTACTGACCCGACTATGTGCAAGTAGGGAGTGCGCA
1 TATGTGCGAGTAGGAGTGCACATAAGCCGTTACTGACCCGACTATGTGCAAGTAGGGAGTGCGCA
*
14107274 TAAGCCGATGATGACCCGAT
66 TAAGCCAATGATGACCCGAT
** * * *
14107294 TATGTGCGAGTAAGGAGTGTGCATAACCCGGTGA-TGACCCGATTATGTGCAAGTAGGGAGTGCG
1 TATGTGCGAGT-AGGAGTGCACATAAGCC-GTTACTGACCCGACTATGTGCAAGTAGGGAGTGCG
14107358 CATAA
64 CATAA
14107363 CTCGGTGATG
Statistics
Matches: 142, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
85 90 0.63
86 49 0.35
87 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (85 bp):
TATGTGCGAGTAGGAGTGCACATAAGCCGTTACTGACCCGACTATGTGCAAGTAGGGAGTGCGCA
TAAGCCAATGATGACCCGAT
Found at i:14107385 original size:86 final size:85
Alignment explanation
Indices: 14107119--14107403 Score: 319
Period size: 85 Copynumber: 3.3 Consensus size: 85
14107109 TGATGTGGAC
* * * * *
14107119 CCAGCTATGTGCGAGT-AGGAGTGCACATAAGCCGTTACTGACCC-AGCTATGTGCGAGTAGGGA
1 CCAGTTATGTGCGAGTAAGGAGTGCGCATAACCCGTGACTGACCCGA-CTATGTGCAAGTAGGGA
*
14107182 GTGCGCATAAGCCAATGATGA
65 GTGCGCATAAGCCGATGATGA
* * * *
14107203 TCCGGTTATGTGCGAGT-AGGAGTGCACATAAGCCGTTACTGACCCGACTATGTGCAAGTAGGGA
1 -CCAGTTATGTGCGAGTAAGGAGTGCGCATAACCCGTGACTGACCCGACTATGTGCAAGTAGGGA
14107267 GTGCGCATAAGCCGATGATGA
65 GTGCGCATAAGCCGATGATGA
* * *
14107288 CCCGATTATGTGCGAGTAAGGAGTGTGCATAACCCGGTGA-TGACCCGATTATGTGCAAGTAGGG
1 CCAG-TTATGTGCGAGTAAGGAGTGCGCATAACCC-GTGACTGACCCGACTATGTGCAAGTAGGG
*
14107352 AGTGCGCATAA-CTCGGTGATGA
64 AGTGCGCATAAGC-CGATGATGA
** * *
14107374 CCTAGCCATGTGCAAGTAGGGAGTGCGCAT
1 CC-AGTTATGTGCGAGTAAGGAGTGCGCAT
14107404 GAGCTGAGAA
Statistics
Matches: 177, Mismatches: 17, Indels: 11
0.86 0.08 0.05
Matches are distributed among these distances:
84 3 0.02
85 91 0.51
86 79 0.45
87 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (85 bp):
CCAGTTATGTGCGAGTAAGGAGTGCGCATAACCCGTGACTGACCCGACTATGTGCAAGTAGGGAG
TGCGCATAAGCCGATGATGA
Found at i:14107456 original size:26 final size:26
Alignment explanation
Indices: 14107413--14107499 Score: 138
Period size: 26 Copynumber: 3.3 Consensus size: 26
14107403 TGAGCTGAGA
14107413 ATGATGATGATGGGATGGTGTGTATG
1 ATGATGATGATGGGATGGTGTGTATG
* *
14107439 ATAATGATGATGGAATGGTGTGTATG
1 ATGATGATGATGGGATGGTGTGTATG
**
14107465 ATGATGATGATGGGATGGTGTCCATG
1 ATGATGATGATGGGATGGTGTGTATG
14107491 ATGATGATG
1 ATGATGATG
14107500 GGTATATGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.26, C:0.02, G:0.38, T:0.33
Consensus pattern (26 bp):
ATGATGATGATGGGATGGTGTGTATG
Found at i:14107509 original size:52 final size:50
Alignment explanation
Indices: 14107413--14107513 Score: 132
Period size: 52 Copynumber: 2.0 Consensus size: 50
14107403 TGAGCTGAGA
**
14107413 ATGATGATGATGGGATGGTGTGTATGATAATGATGATGGAATGGTGTGTATG
1 ATGATGATGATGGGATGGTGTCCATGATAATGATGA-GGAATGGT-TGTATG
*
14107465 ATGATGATGATGGGATGGTGTCCATGATGATGATG-GGTATATGGTTGTA
1 ATGATGATGATGGGATGGTGTCCATGATAATGATGAGG-A-ATGGTTGTA
14107514 AATGCATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
50 2 0.05
51 5 0.11
52 37 0.84
ACGTcount: A:0.26, C:0.02, G:0.38, T:0.35
Consensus pattern (50 bp):
ATGATGATGATGGGATGGTGTCCATGATAATGATGAGGAATGGTTGTATG
Found at i:14112117 original size:72 final size:73
Alignment explanation
Indices: 14111971--14112153 Score: 221
Period size: 72 Copynumber: 2.5 Consensus size: 73
14111961 GGTCGTGACA
* * * * *
14111971 TAATCGACTAAGAAGTATGGTTAGCTAGCTAAAAGCTCACGGTCAAAATTTTGATTGCGATATAG
1 TAATCGACTAAGAAGTATGGTTAGCTAGCTAAAAGCTCACGGCCAAAAATTTGACTGCGAGACAG
*
14112036 AAAATACT
66 AAAAGACT
* * *
14112044 TAATCAACTAAGAAGTATGGTTA-CTAGCTAAAAGCTCATGGCCAAAAATTTGACTGTGAGACA-
1 TAATCGACTAAGAAGTATGGTTAGCTAGCTAAAAGCTCACGGCCAAAAATTTGACTGCGAGACAG
14112107 AAGAAGACT
66 AA-AAGACT
* * *
14112116 TAAT-GACTAAGAAGAATGGTTAGCCAACTAAAA-CTCAC
1 TAATCGACTAAGAAGTATGGTTAGCTAGCTAAAAGCTCAC
14112154 TGTCTGAAGA
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
71 22 0.23
72 50 0.53
73 22 0.23
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (73 bp):
TAATCGACTAAGAAGTATGGTTAGCTAGCTAAAAGCTCACGGCCAAAAATTTGACTGCGAGACAG
AAAAGACT
Found at i:14115614 original size:21 final size:20
Alignment explanation
Indices: 14115576--14115634 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
14115566 AATAAAAACT
** *
14115576 AATAAATAATAACCTAAAGGA
1 AATAAATAA-AAATTAAAAGA
*
14115597 AATAAATATAAAATTAAAATA
1 AATAAATA-AAAATTAAAAGA
*
14115618 AATTAATAAAAATTAAA
1 AATAAATAAAAATTAAA
14115635 TAATTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 9 0.28
21 22 0.69
22 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (20 bp):
AATAAATAAAAATTAAAAGA
Found at i:14115644 original size:21 final size:21
Alignment explanation
Indices: 14115596--14115634 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14115586 AACCTAAAGG
*
14115596 AAATAAATATAAAATTAAAAT
1 AAATTAATATAAAATTAAAAT
14115617 AAATTAATA-AAAATTAAA
1 AAATTAATATAAAATTAAA
14115635 TAATTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATTAATATAAAATTAAAAT
Found at i:14115645 original size:18 final size:20
Alignment explanation
Indices: 14115596--14115646 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
14115586 AACCTAAAGG
*
14115596 AAATAAATATAAAATTAAAAT
1 AAATTAATA-AAAATTAAAAT
14115617 AAATTAATAAAAATT-AAAT
1 AAATTAATAAAAATTAAAAT
*
14115636 -AATTATTAAAA
1 AAATTAATAAAA
14115647 CAACTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 10 0.36
19 4 0.14
20 6 0.21
21 8 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATTAATAAAAATTAAAAT
Found at i:14119040 original size:28 final size:27
Alignment explanation
Indices: 14119004--14119056 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
14118994 ATATCCTGGT
*
14119004 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
14119031 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
14119057 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:14119124 original size:20 final size:20
Alignment explanation
Indices: 14119101--14119146 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
14119091 CTTCTAAACC
14119101 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
14119121 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
14119141 TCAAAT
1 TCAAAT
14119147 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:14127095 original size:27 final size:27
Alignment explanation
Indices: 14127044--14127095 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
14127034 ATATCCTAGT
*
14127044 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTGACCCTGA
*
14127071 GGTGGTAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
14127096 TTTACTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTGA
Found at i:14127166 original size:20 final size:20
Alignment explanation
Indices: 14127141--14127186 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
14127131 CTTCTAAACC
14127141 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
14127161 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
14127181 TCAAAT
1 TCAAAT
14127187 GGGGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:14135225 original size:11 final size:11
Alignment explanation
Indices: 14135211--14135240 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14135201 AATAATATTT
14135211 TATTAATAAAA
1 TATTAATAAAA
*
14135222 TATTATTAAAA
1 TATTAATAAAA
14135233 TATTAATA
1 TATTAATA
14135241 TTTAGCCGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAATAAAA
Found at i:14146788 original size:54 final size:54
Alignment explanation
Indices: 14146654--14146813 Score: 214
Period size: 54 Copynumber: 3.0 Consensus size: 54
14146644 TTTGTATACT
* * ** * **
14146654 ACCCCATCTTACCCAGCTCACGTGCATCCCTTCACATCGTGCATATAGCCAAAC
1 ACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGAC
* * *
14146708 A-CCCATCTCAACCAGCTCATGTGCATCCCCCCACATCATGCACATACCCGGAC
1 ACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGAC
*
14146761 ACCCCATCTCACCCAACTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
1 ACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGA
14146814 GTCATTGTGT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 43 0.47
54 48 0.53
ACGTcount: A:0.26, C:0.44, G:0.12, T:0.19
Consensus pattern (54 bp):
ACCCCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGGAC
Found at i:14146837 original size:39 final size:40
Alignment explanation
Indices: 14146781--14146882 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 40
14146771 ACCCAACTCA
* *
14146781 TGTGCATCCCCCCACATCGTGCACATAGCCGGA-GTCATTG
1 TGTGCATCCCCCCACATCGTGCACATAG-CGAATGCCATTG
**
14146821 TGTGCA-CCCCCCACATCGTG--CATAGTTAATGCCATTG
1 TGTGCATCCCCCCACATCGTGCACATAGCGAATGCCATTG
14146858 TGTGCATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
14146883 CGGGTAGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
36 1 0.02
37 17 0.31
38 14 0.26
39 14 0.26
40 8 0.15
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.24
Consensus pattern (40 bp):
TGTGCATCCCCCCACATCGTGCACATAGCGAATGCCATTG
Found at i:14157185 original size:54 final size:54
Alignment explanation
Indices: 14157103--14157262 Score: 214
Period size: 54 Copynumber: 3.0 Consensus size: 54
14157093 ATTTGTATAC
* * * *
14157103 CACCCCATCTC-ACCTAGTTCATGTGCATCCCCCCACATTGTGCACATAGCTGGA
1 CACCCCATCTCAACC-AGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGAA
14157157 CACCCCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGAA
1 CACCCCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGAA
* * * ** *
14157211 CACTCTATCTCACCCAGCTCATGTTTATCCCTCCACATCGTGCACATAGCCG
1 CACCCCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCG
14157263 GAGTCATTGT
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 92 0.97
55 3 0.03
ACGTcount: A:0.23, C:0.41, G:0.13, T:0.23
Consensus pattern (54 bp):
CACCCCATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCCGAA
Found at i:14165215 original size:81 final size:81
Alignment explanation
Indices: 14165114--14165275 Score: 227
Period size: 81 Copynumber: 2.0 Consensus size: 81
14165104 AGGGAATGTG
* * *
14165114 GATGATGAGATTGCCTATGTGCACGATGTGGGGGGAGCACATGATGGCATTAGTTGTGCACGATG
1 GATGATGAGATTGCCTATGTGCACGATGTGAGGGGAGCACATGATGACATTAGTTATGCACGATG
* *
14165179 TGGGGGTGCACACGAT
66 TGAGGATGCACACGAT
* * **
14165195 GATGATGATATATGCC-ATGTGCATGATGTGAGGGGAGCACATGATGACATTAGTTATGCGTGAT
1 GATGATGAGAT-TGCCTATGTGCACGATGTGAGGGGAGCACATGATGACATTAGTTATGCACGAT
14165259 GTGAGGATGCACACGAT
65 GTGAGGATGCACACGAT
14165276 TACTCTGGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 67 0.94
82 4 0.06
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.26
Consensus pattern (81 bp):
GATGATGAGATTGCCTATGTGCACGATGTGAGGGGAGCACATGATGACATTAGTTATGCACGATG
TGAGGATGCACACGAT
Found at i:14166834 original size:46 final size:44
Alignment explanation
Indices: 14166697--14166927 Score: 204
Period size: 43 Copynumber: 5.2 Consensus size: 44
14166687 TTGTATGATA
* *
14166697 ATGATGACCTAATTATGTGCGATGT-GGGAGTGTA-CATGAGC-TG
1 ATGATGACCTAACTATGTGCGA-GTAGGGAGTG-AGCATAAGCATG
* * *
14166740 ATGATGACCTGACTATGTGCGAGTAAGGAGTGCGCATAAGCA-G
1 ATGATGACCTAACTATGTGCGAGTAGGGAGTGAGCATAAGCATG
*
14166783 ATGATGACCTAACTATGTGTGAGTAGGGAGTGAGCATAAGTCAGTG
1 ATGATGACCTAACTATGTGCGAGTAGGGAGTGAGCATAAG-CA-TG
*** * *
14166829 ATGATGACCCGGCTATGTGCGAGTAGGGAGTGCA-TATAAGC-CG
1 ATGATGACCTAACTATGTGCGAGTAGGGAGTG-AGCATAAGCATG
* ** * * *
14166872 ATGATGACTTGCCTATGTGCTAGTAGGGAGTGTGTATAAGCCGATG
1 ATGATGACCTAACTATGTGCGAGTAGGGAGTGAGCATAAG-C-ATG
14166918 ATGATGACCT
1 ATGATGACCT
14166928 GGCTGTGACG
Statistics
Matches: 155, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
42 2 0.01
43 104 0.67
44 3 0.02
45 1 0.01
46 44 0.28
47 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.26
Consensus pattern (44 bp):
ATGATGACCTAACTATGTGCGAGTAGGGAGTGAGCATAAGCATG
Found at i:14166861 original size:89 final size:87
Alignment explanation
Indices: 14166697--14166931 Score: 253
Period size: 89 Copynumber: 2.7 Consensus size: 87
14166687 TTGTATGATA
* * * *
14166697 ATGATGACCTAATTATGTGCGATGT-GGGAGTGTA-CATGAGC-TGATGATGACCTGACTATGTG
1 ATGATGACCTAACTATGTGTGA-GTAGGGAGTG-AGCATAAGCGTGATGATGACCTGGCTATGTG
*
14166759 CGAGTAAGGAGTGCGCATAAGCAG
64 CGAGTAAGGAGTGCACATAAGCAG
*
14166783 ATGATGACCTAACTATGTGTGAGTAGGGAGTGAGCATAAGTCAGTGATGATGACCCGGCTATGTG
1 ATGATGACCTAACTATGTGTGAGTAGGGAGTGAGCATAAG-C-GTGATGATGACCTGGCTATGTG
* * *
14166848 CGAGTAGGGAGTGCATATAAGCCG
64 CGAGTAAGGAGTGCACATAAGCAG
* ** * *
14166872 ATGATGACTTGCCTATGTGCT-AGTAGGGAGTGTGTATAAGCCGATGATGATGACCTGGCT
1 ATGATGACCTAACTATGTG-TGAGTAGGGAGTGAGCATAAG-CG-TGATGATGACCTGGCT
14166932 GTGACGATGA
Statistics
Matches: 126, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
85 3 0.02
86 32 0.25
87 1 0.01
88 1 0.01
89 88 0.70
90 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.26
Consensus pattern (87 bp):
ATGATGACCTAACTATGTGTGAGTAGGGAGTGAGCATAAGCGTGATGATGACCTGGCTATGTGCG
AGTAAGGAGTGCACATAAGCAG
Found at i:14170057 original size:15 final size:16
Alignment explanation
Indices: 14170037--14170066 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14170027 CTAGAATATT
14170037 ATTTTAATGA-GTAAA
1 ATTTTAATGATGTAAA
14170052 ATTTTAATGATGTAA
1 ATTTTAATGATGTAA
14170067 GTACTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (16 bp):
ATTTTAATGATGTAAA
Found at i:14172127 original size:25 final size:25
Alignment explanation
Indices: 14172098--14172157 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
14172088 TATGATATAT
* *
14172098 ATATACATGGCAAGGCCATAGGATG
1 ATATACATGGCAAGGCCACAAGATG
* * *
14172123 ATATACGTGGCTAGGCCACAAGTTG
1 ATATACATGGCAAGGCCACAAGATG
14172148 ATATACATGG
1 ATATACATGG
14172158 TTGCCACTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (25 bp):
ATATACATGGCAAGGCCACAAGATG
Found at i:14178079 original size:60 final size:60
Alignment explanation
Indices: 14177982--14178163 Score: 231
Period size: 60 Copynumber: 3.0 Consensus size: 60
14177972 ATATTTGATT
* * *
14177982 TAAAAGGGGGACTTGAAGTCCCGATTCATATTGGGTGGCGTGGGCAGTTCCCACGAGGAGG
1 TAAAA-GGGGACTTGAAGCCCCGATTCATATTAGGTGGCGTGGGCAGTTCCCACGAGTAGG
* * * * *
14178043 TAAAAGGGGACCTAAAGCCCCGATTCATATTAGGTGGCGTAGGTAGTTCTCACGAGTAGG
1 TAAAAGGGGACTTGAAGCCCCGATTCATATTAGGTGGCGTGGGCAGTTCCCACGAGTAGG
* * * *
14178103 TAAAGGGGGACTTGAAGCCCTGATTTATATCTA-GTGGCATGGGCAGTTCCCACGAGTAGG
1 TAAAAGGGGACTTGAAGCCCCGATTCATAT-TAGGTGGCGTGGGCAGTTCCCACGAGTAGG
14178163 T
1 T
14178164 GATGATGTCT
Statistics
Matches: 103, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
60 96 0.93
61 7 0.07
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (60 bp):
TAAAAGGGGACTTGAAGCCCCGATTCATATTAGGTGGCGTGGGCAGTTCCCACGAGTAGG
Found at i:14182155 original size:43 final size:43
Alignment explanation
Indices: 14182092--14182209 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
14182082 GCAATTATAT
* * * *
14182092 TGACTCGGCTATGTGAGAGTAGGGAATGTGCAAAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAAGGAATGTGCAAAACCCG-GTGA
* * * *
14182135 TGACCCGGTTATGTGCGAGTAAGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAAGGAATGTGCAAAACCCGGTGA
** *
14182178 TGACCTAGCCATGTGCGAGTAAGGAATGTGCA
1 TGACCCGGCTATGTGCGAGTAAGGAATGTGCA
14182210 TGAGCTGGTA
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.27, C:0.18, G:0.35, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAAGGAATGTGCAAAACCCGGTGA
Found at i:14182746 original size:60 final size:60
Alignment explanation
Indices: 14182593--14182746 Score: 220
Period size: 60 Copynumber: 2.6 Consensus size: 60
14182583 TTGCAGCAAA
* * *
14182593 ATTCATTCTCGCTGCAGTGAGAAACTTTCTGTTTCTGGGATACAATTTCGCTGCAGCCAG
1 ATTCAATCTCGCTGCAGTGAGAAACTTACTGTTTCTGGGATACAATTTCGCTACAGCCAG
* * *
14182653 ATTGAATCTCGCTGCAGTGAGAAACATTA-TGTTTCTGGGTTACAATTTCGCTACAGCGAG
1 ATTCAATCTCGCTGCAGTGAGAAAC-TTACTGTTTCTGGGATACAATTTCGCTACAGCCAG
* *
14182713 ATTCAATCTCGCTGCAGTGAAAAACTCACTGTTT
1 ATTCAATCTCGCTGCAGTGAGAAACTTACTGTTT
14182747 TGTCTCCTAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
59 2 0.02
60 79 0.95
61 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (60 bp):
ATTCAATCTCGCTGCAGTGAGAAACTTACTGTTTCTGGGATACAATTTCGCTACAGCCAG
Found at i:14184479 original size:37 final size:37
Alignment explanation
Indices: 14184437--14184602 Score: 246
Period size: 37 Copynumber: 4.5 Consensus size: 37
14184427 TCAATGAAAT
14184437 ATCATCATGTGTGCACTTCCTACTCGCACACT-TCAAC
1 ATCATCATGTGTGCACTTCCTACTCGCACACTCT-AAC
* * *
14184474 ATCATCATGTGTGCAGTCCCTACTTGCACACTCTAAC
1 ATCATCATGTGTGCACTTCCTACTCGCACACTCTAAC
* *
14184511 ATCATCATGTGTGCACTCCCTACTCACACACT-TCAAC
1 ATCATCATGTGTGCACTTCCTACTCGCACACTCT-AAC
*
14184548 ATCATCATGTGTGCACTTCCTACTTGCACACTCTAAC
1 ATCATCATGTGTGCACTTCCTACTCGCACACTCTAAC
14184585 ATCATCATGTGTGCACTT
1 ATCATCATGTGTGCACTT
14184603 GCAATGACCT
Statistics
Matches: 117, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
36 1 0.01
37 114 0.97
38 2 0.02
ACGTcount: A:0.25, C:0.33, G:0.11, T:0.31
Consensus pattern (37 bp):
ATCATCATGTGTGCACTTCCTACTCGCACACTCTAAC
Found at i:14184521 original size:74 final size:74
Alignment explanation
Indices: 14184437--14184602 Score: 296
Period size: 74 Copynumber: 2.2 Consensus size: 74
14184427 TCAATGAAAT
* *
14184437 ATCATCATGTGTGCACTTCCTACTCGCACACTTCAACATCATCATGTGTGCAGTCCCTACTTGCA
1 ATCATCATGTGTGCACTTCCTACTCACACACTTCAACATCATCATGTGTGCACTCCCTACTTGCA
14184502 CACTCTAAC
66 CACTCTAAC
* *
14184511 ATCATCATGTGTGCACTCCCTACTCACACACTTCAACATCATCATGTGTGCACTTCCTACTTGCA
1 ATCATCATGTGTGCACTTCCTACTCACACACTTCAACATCATCATGTGTGCACTCCCTACTTGCA
14184576 CACTCTAAC
66 CACTCTAAC
14184585 ATCATCATGTGTGCACTT
1 ATCATCATGTGTGCACTT
14184603 GCAATGACCT
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 87 1.00
ACGTcount: A:0.25, C:0.33, G:0.11, T:0.31
Consensus pattern (74 bp):
ATCATCATGTGTGCACTTCCTACTCACACACTTCAACATCATCATGTGTGCACTCCCTACTTGCA
CACTCTAAC
Found at i:14186781 original size:25 final size:25
Alignment explanation
Indices: 14186760--14186813 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
14186750 TTCTATTTAT
14186760 TATTGGGCCATGCCCACTTATTTTC
1 TATTGGGCCATGCCCACTTATTTTC
* * * *
14186785 TATTGGGTCATGCCTATTTATTTTA
1 TATTGGGCCATGCCCACTTATTTTC
14186810 TATT
1 TATT
14186814 TCTTTTTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (25 bp):
TATTGGGCCATGCCCACTTATTTTC
Found at i:14186823 original size:6 final size:6
Alignment explanation
Indices: 14186812--14186844 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
14186802 TTATTTTATA
14186812 TTTCTT TTTCTT TTTCTT TTTC-- TTTCTT TTTCT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
14186845 CTCTTCCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.16
6 21 0.84
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:14186827 original size:12 final size:11
Alignment explanation
Indices: 14186812--14186844 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
14186802 TTATTTTATA
14186812 TTTCTTTTTCTT
1 TTTCTTTTTC-T
14186824 TTTCTTTTTC-
1 TTTCTTTTTCT
14186834 TTTCTTTTTCT
1 TTTCTTTTTCT
14186845 CTCTTCCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
12 10 0.50
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:14187087 original size:34 final size:34
Alignment explanation
Indices: 14187049--14187114 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
14187039 GCTGTCTTTC
* *
14187049 TGCACTAACTACCAGCAAACAGCTCCAATTTTTT
1 TGCACAAACTACCAGCAAACAGCTCAAATTTTTT
* ** *
14187083 TGCACAAATTGGCAGCAAACAGTTCAAATTTT
1 TGCACAAACTACCAGCAAACAGCTCAAATTTT
14187115 CAGTAGCTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (34 bp):
TGCACAAACTACCAGCAAACAGCTCAAATTTTTT
Found at i:14196604 original size:23 final size:23
Alignment explanation
Indices: 14196565--14196611 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14196555 GTTAAAAGGG
*
14196565 TTCTTGTTACATCAAAAGCCATT
1 TTCTTGTTACATCAAAAGCAATT
*
14196588 TTCTTGTTGA-ATGAAAAGCAATT
1 TTCTTGTT-ACATCAAAAGCAATT
14196611 T
1 T
14196612 GGGAGCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (23 bp):
TTCTTGTTACATCAAAAGCAATT
Found at i:14196679 original size:2 final size:2
Alignment explanation
Indices: 14196672--14196700 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14196662 ACTTTCTATA
14196672 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
14196701 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14196807 original size:37 final size:37
Alignment explanation
Indices: 14196760--14196840 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
14196750 AATGAAATAT
14196760 CATCATCATGTGTGCACTCCCTACTCACACAC-TCTAA
1 CATCATCATGTGTGCACTCCCTACTCACACACTTC-AA
*
14196797 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCACACACTTCAA
14196834 CATCATC
1 CATCATC
14196841 GCACAACATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
37 40 0.95
38 2 0.05
ACGTcount: A:0.26, C:0.38, G:0.09, T:0.27
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCACACACTTCAA
Found at i:14200651 original size:42 final size:42
Alignment explanation
Indices: 14200585--14200709 Score: 214
Period size: 42 Copynumber: 3.0 Consensus size: 42
14200575 TGTTGATATC
* *
14200585 GACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
*
14200627 GACCCGGCTATGTGCAAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
*
14200669 GACCCGGCTATGTGCGAGTGGGAGTGTACATAAGCCGTTGC
1 GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGC
14200710 ATATGAGATG
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.22
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCT
Found at i:14207915 original size:27 final size:28
Alignment explanation
Indices: 14207879--14207936 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
14207869 TTCCGGGAGT
*
14207879 AAGGGCAAAATAGTCATTTT-ACCACCC
1 AAGGGCAAAATAGTAATTTTAACCACCC
* *
14207906 AAGGGTAAAATTGTAATTTTACACCACCC
1 AAGGGCAAAATAGTAATTTTA-ACCACCC
14207935 AA
1 AA
14207937 CATTGGTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 17 0.65
29 9 0.35
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (28 bp):
AAGGGCAAAATAGTAATTTTAACCACCC
Found at i:14208725 original size:30 final size:30
Alignment explanation
Indices: 14208691--14208751 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
14208681 GAGTGATAGA
*
14208691 TCGAATTAGGCCAATACCTTTTTATTTAGG
1 TCGAATTAGGCCAATACCGTTTTATTTAGG
14208721 TCGAATTAGGCCAATACCGTTTTATTTAGG
1 TCGAATTAGGCCAATACCGTTTTATTTAGG
14208751 T
1 T
14208752 ACACAATTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (30 bp):
TCGAATTAGGCCAATACCGTTTTATTTAGG
Found at i:14211678 original size:43 final size:43
Alignment explanation
Indices: 14211617--14211782 Score: 201
Period size: 43 Copynumber: 3.9 Consensus size: 43
14211607 TTGACTCAGC
14211617 TATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCGGT
* * *
14211660 TATGTGCGAATAGGGAGTGCGTATAACCCGGTGATGACCCGGT
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCGGT
* * * *
14211703 TATGTGTGAGTAGGAAGTGCGCATAAGCCGGTGATG-CCCTAGC
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCC-GGT
* * * *
14211746 CATGTGCGAGTAGGGAGTGCACATGAGCTGGTGATGA
1 TATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
14211783 TGATGATGAG
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 4 0.04
43 100 0.96
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.22
Consensus pattern (43 bp):
TATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCGGT
Found at i:14211785 original size:3 final size:3
Alignment explanation
Indices: 14211777--14211835 Score: 52
Period size: 3 Copynumber: 20.7 Consensus size: 3
14211767 CATGAGCTGG
* * * * *
14211777 TGA TGA TGA TGA TGA -GC TGG TGA TGA TGA TGA TG- GGT TGG TGA -GA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
14211822 TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TG
14211836 GGTATATACA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.25, C:0.02, G:0.41, T:0.32
Consensus pattern (3 bp):
TGA
Found at i:14211793 original size:20 final size:20
Alignment explanation
Indices: 14211768--14211830 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
14211758 GGGAGTGCAC
14211768 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
14211788 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
14211808 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
14211827 ATGA
1 ATGA
14211831 TGATGGGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:14219908 original size:43 final size:43
Alignment explanation
Indices: 14219734--14219895 Score: 209
Period size: 43 Copynumber: 3.8 Consensus size: 43
14219724 GTAATTATGT
* * * * *
14219734 TGACTCGACTATGTGGGAGTAGGGAGTGCACATAAGCCGAG-GA
1 TGACCCGATTATGTGTGAGTAGGGAGTGCGCATAACCCG-GTGA
14219777 TGACCCGATTATGTGTGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGATTATGTGTGAGTAGGGAGTGCGCATAACCCGGTGA
* *
14219820 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGATTATGTGTGAGTAGGGAGTGCGCATAACCCGGTGA
* ** *
14219863 TGACCCAACCATGTTTGAGTAGGGAGTGCGCAT
1 TGACCCGATTATGTGTGAGTAGGGAGTGCGCAT
14219896 GAGCTGGTGA
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 104 0.99
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (43 bp):
TGACCCGATTATGTGTGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:14219919 original size:20 final size:20
Alignment explanation
Indices: 14219894--14219956 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
14219884 GGGAGTGCGC
14219894 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
14219914 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
14219934 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
14219953 ATGA
1 ATGA
14219957 TAGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:14221978 original size:13 final size:13
Alignment explanation
Indices: 14221960--14221994 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
14221950 TGATGTCAGA
14221960 TATCGAAAACAGT
1 TATCGAAAACAGT
*
14221973 TATCGAAAACGGT
1 TATCGAAAACAGT
14221986 TATCGAAAA
1 TATCGAAAA
14221995 GTATAATTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (13 bp):
TATCGAAAACAGT
Found at i:14224924 original size:13 final size:13
Alignment explanation
Indices: 14224876--14224926 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
14224866 TCTCCCACCA
*
14224876 AATTTTTCAAC-G
1 AATTTTCCAACGG
*
14224888 AAATTTCCAACGG
1 AATTTTCCAACGG
*
14224901 -A-TTTGCAACGG
1 AATTTTCCAACGG
14224912 AATTTTCCAACGG
1 AATTTTCCAACGG
14224925 AA
1 AA
14224927 AATTTTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 9 0.28
12 11 0.34
13 12 0.38
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (13 bp):
AATTTTCCAACGG
Found at i:14226334 original size:13 final size:13
Alignment explanation
Indices: 14226316--14226340 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14226306 TTTCAGAAAA
14226316 TTTATAAAATCAT
1 TTTATAAAATCAT
14226329 TTTATAAAATCA
1 TTTATAAAATCA
14226341 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:14229610 original size:32 final size:33
Alignment explanation
Indices: 14229573--14229639 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 33
14229563 ATACAACCTT
14229573 ATGTATATGAGTTAAT-ATATATGTTTACATAC
1 ATGTATATGAGTTAATAATATATGTTTACATAC
*
14229605 ATGTATATGAGTTAATACATTTATGTTTACATAC
1 ATGTATATGAGTTAATA-ATATATGTTTACATAC
14229639 A
1 A
14229640 ACTTTATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 16 0.50
34 16 0.50
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.43
Consensus pattern (33 bp):
ATGTATATGAGTTAATAATATATGTTTACATAC
Found at i:14229613 original size:18 final size:17
Alignment explanation
Indices: 14229590--14229639 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
14229580 TGAGTTAATA
14229590 TATATGTTTACATACAT
1 TATATGTTTACATACAT
*
14229607 GTATATGAGTTA-ATACAT
1 -TATATG-TTTACATACAT
14229625 T-TATGTTTACATACA
1 TATATGTTTACATACA
14229640 ACTTTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 3 0.11
16 9 0.32
17 1 0.04
18 12 0.43
19 3 0.11
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (17 bp):
TATATGTTTACATACAT
Found at i:14244117 original size:20 final size:20
Alignment explanation
Indices: 14244079--14244131 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
14244069 GGTTGCTATC
* *
14244079 TATCAATAAATGTATCCATT
1 TATCAATAAATCTAGCCATT
* *
14244099 TATCAATAGATCTAGCCATC
1 TATCAATAAATCTAGCCATT
14244119 TAT-AGATAAATCT
1 TATCA-ATAAATCT
14244132 GGCTATCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (20 bp):
TATCAATAAATCTAGCCATT
Found at i:14250625 original size:20 final size:21
Alignment explanation
Indices: 14250583--14250633 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
14250573 AATTATAATA
*
14250583 TAAATTATAAAAATTCATATT
1 TAAATTATAAAAATTAATATT
14250604 TAAATT-TAAAAATTAA-ATT
1 TAAATTATAAAAATTAATATT
*
14250623 TTAATTATAAA
1 TAAATTATAAA
14250634 TTATAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 8 0.30
20 13 0.48
21 6 0.22
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTATAAAAATTAATATT
Found at i:14252410 original size:17 final size:17
Alignment explanation
Indices: 14252384--14252427 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
14252374 CCAATCAGTG
* *
14252384 AAGATCGACTGCCTGCC
1 AAGATTGACTGCATGCC
14252401 AAGATTGACTGCATGCC
1 AAGATTGACTGCATGCC
*
14252418 AAGTTTGACT
1 AAGATTGACT
14252428 TAAACAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (17 bp):
AAGATTGACTGCATGCC
Found at i:14257218 original size:43 final size:43
Alignment explanation
Indices: 14257157--14257267 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
14257147 NNNNNNNNNN
14257157 TTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCGA-
1 TTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGA-CCGAG
* * *
14257200 TTATGTGCGAGTAGGGAGTGTGCATAACTCGGTGATGACCTAG
1 TTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCGAG
***
14257243 CCGTGTGCGAGTAGGGAGTGCGCAT
1 TTATGTGCGAGTAGGGAGTGCGCAT
14257268 GAGCTGGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 3 0.05
43 57 0.95
ACGTcount: A:0.22, C:0.18, G:0.37, T:0.23
Consensus pattern (43 bp):
TTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCGAG
Found at i:14257277 original size:43 final size:42
Alignment explanation
Indices: 14257159--14257280 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 42
14257149 NNNNNNNNTT
* * **
14257159 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCGATT
1 ATGTGCGAGTAGGGAGTGCGCATAA-CTGGTGATGACCAGACC
*
14257202 ATGTGCGAGTAGGGAGTGTGCATAACTCGGTGATGACCTAG-CC
1 ATGTGCGAGTAGGGAGTGCGCATAACT-GGTGATGACC-AGACC
* *
14257245 GTGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCAT-AACTGGTGATGA
14257281 TGATGATGAG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.01
43 63 0.93
44 4 0.06
ACGTcount: A:0.22, C:0.17, G:0.39, T:0.22
Consensus pattern (42 bp):
ATGTGCGAGTAGGGAGTGCGCATAACTGGTGATGACCAGACC
Found at i:14257291 original size:20 final size:20
Alignment explanation
Indices: 14257266--14257328 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
14257256 GGGAGTGCGC
14257266 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
*
14257286 ATGAGCTAGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
14257306 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
14257325 ATGA
1 ATGA
14257329 TGGGTATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
19 10 0.26
20 28 0.74
ACGTcount: A:0.27, C:0.03, G:0.40, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:14264559 original size:6 final size:6
Alignment explanation
Indices: 14264548--14264573 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14264538 CTTCAATCAA
14264548 ACAAAG ACAAAG ACAAAG ACAAAG AC
1 ACAAAG ACAAAG ACAAAG ACAAAG AC
14264574 TTCCATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.19, G:0.15, T:0.00
Consensus pattern (6 bp):
ACAAAG
Found at i:14280011 original size:22 final size:22
Alignment explanation
Indices: 14279986--14280038 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
14279976 ATAGTAACCA
14279986 CATAGACATAAGCAAAAAAACG
1 CATAGACATAAGCAAAAAAACG
* * *
14280008 CATAGTCATAAGCAAAACAAGG
1 CATAGACATAAGCAAAAAAACG
14280030 CATA-ACATA
1 CATAGACATA
14280039 GTCAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.55, C:0.19, G:0.13, T:0.13
Consensus pattern (22 bp):
CATAGACATAAGCAAAAAAACG
Found at i:14291949 original size:28 final size:28
Alignment explanation
Indices: 14291908--14291965 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
14291898 GACAAGTGTT
**
14291908 CTGGTGGTGGAAAATTACTGTTTTGCCC
1 CTGGTGGTGGAAAATTACCATTTTGCCC
14291936 CTGG-GGTGGTAAAATTACCATTTTGCCC
1 CTGGTGGTGG-AAAATTACCATTTTGCCC
14291964 CT
1 CT
14291966 ATACTCCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (28 bp):
CTGGTGGTGGAAAATTACCATTTTGCCC
Found at i:14297188 original size:29 final size:28
Alignment explanation
Indices: 14297141--14297282 Score: 151
Period size: 28 Copynumber: 4.9 Consensus size: 28
14297131 GGCAGCTTTG
14297141 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
* **
14297169 ACATGTTTGGACTTAATTTAGTTAAGAAA
1 ACATGTTT-GTCTTAATTTAGACAAGAAA
* * *
14297198 ATATGTTTGCCTTAATTTAAGACAAGCAA
1 ACATGTTTGTCTTAATTT-AGACAAGAAA
*
14297227 A-ATGTTTTTTGTCTTAATTTAGTCAAGAAA
1 ACATG---TTTGTCTTAATTTAGACAAGAAA
* *
14297257 ACATATTTGTCTCAATTTAGACAAGA
1 ACATGTTTGTCTTAATTTAGACAAGA
14297283 TAAAATATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
28 39 0.41
29 32 0.34
30 9 0.10
31 14 0.15
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAGACAAGAAA
Found at i:14297274 original size:59 final size:59
Alignment explanation
Indices: 14297141--14297306 Score: 194
Period size: 59 Copynumber: 2.8 Consensus size: 59
14297131 GGCAGCTTTG
* * *
14297141 ACATGTTTGTCTTAATTTAGACAAGAAAACATG--TTTGGACTTAATTTAGTTAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTTTGTCTTAATTTAGTCAAGAAA
* * *
14297198 ATATGTTTGCCTTAATTTAAGACAAGCAAA-ATGTTTTTTGTCTTAATTTAGTCAAGAAA
1 ACATGTTTGTCTTAATTT-AGACAAGAAAACATGTTTTTTGTCTTAATTTAGTCAAGAAA
* * * *
14297257 ACATATTTGTCTCAATTTAGACAAGATAAAATATTTTTTTTGTCTTAATT
1 ACATGTTTGTCTTAATTTAGACAAG--AAAACATGTTTTTTGTCTTAATT
14297307 ACAAACAAGA
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
57 19 0.21
58 17 0.19
59 35 0.38
60 3 0.03
61 17 0.19
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.42
Consensus pattern (59 bp):
ACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTTTGTCTTAATTTAGTCAAGAAA
Found at i:14297480 original size:17 final size:17
Alignment explanation
Indices: 14297458--14297490 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14297448 ATAATAATAA
14297458 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
14297475 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
14297491 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:14298603 original size:16 final size:14
Alignment explanation
Indices: 14298574--14298600 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14298564 TAAAAAAATA
14298574 TTTTTTTATTAAAG
1 TTTTTTTATTAAAG
14298588 TTTTTTTATTAAA
1 TTTTTTTATTAAA
14298601 AAGAAGGGAG
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:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
TTTTTTTATTAAAG
Found at i:14301910 original size:18 final size:17
Alignment explanation
Indices: 14301863--14301913 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 17
14301853 AACTGACTGC
14301863 TTCCTCTCTTTCTTTCTT
1 TTCCT-TCTTTCTTTCTT
14301881 TTCCTTCTTTTCTTTCTCCT
1 TTCCTTC-TTTCTTTCT--T
14301901 TT-CTTCTTTCTTT
1 TTCCTTCTTTCTTT
14301914 TCTTCTCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.07
18 21 0.70
19 4 0.13
20 3 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TTCCTTCTTTCTTTCTT
Found at i:14302026 original size:21 final size:21
Alignment explanation
Indices: 14302000--14302039 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
14301990 GGTTGTGACT
14302000 TTTCTTTTTT-TTCTCTTTTTA
1 TTTCTTTTTTATT-TCTTTTTA
14302021 TTTCTTTTTTATTTCTTTT
1 TTTCTTTTTTATTTCTTTT
14302040 CTCTCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTCTTTTTTATTTCTTTTTA
Found at i:14302037 original size:11 final size:11
Alignment explanation
Indices: 14302000--14302039 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
14301990 GGTTGTGACT
14302000 TTTC-TTTTT-
1 TTTCTTTTTTA
14302009 TTTCTCTTTTTA
1 TTTCT-TTTTTA
14302021 TTTCTTTTTTA
1 TTTCTTTTTTA
14302032 TTTCTTTT
1 TTTCTTTT
14302040 CTCTCTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.14
11 19 0.68
12 5 0.18
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTCTTTTTTA
Done.