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 39 of 103
Found at i:14681709 original size:43 final size:43
Alignment explanation
Indices: 14681639--14681757 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
14681629 GTAATTATAT
* **
14681639 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGTCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
* *
14681682 TGACCCGGTTATGTGTGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
14681725 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
14681758 GAGCTGGTGA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.21
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:14682207 original size:59 final size:60
Alignment explanation
Indices: 14682101--14682243 Score: 202
Period size: 59 Copynumber: 2.4 Consensus size: 60
14682091 CACTGTAGCT
* * *
14682101 TCTTGCTGCAGCGAGAAACTTTCTGTTTCTAGGTTGCAATTTCGCTGCAGTGAGATTGAA
1 TCTTGCTGCAGCGAGAAAATTTCTGTTTCTAGGTTACAATTTCGCTGCAGCGAGATTGAA
* *
14682161 T-TTCGCTGCAGCGAGAAAATTT-TGTTTCTGGGTTACAATTTTGCTGCAGCGAGATTGAA
1 TCTT-GCTGCAGCGAGAAAATTTCTGTTTCTAGGTTACAATTTCGCTGCAGCGAGATTGAA
14682220 TCTTGCTGCAGCGA-AAAACTTTCT
1 TCTTGCTGCAGCGAGAAAA-TTTCT
14682244 TTTTGGTCTC
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
58 4 0.05
59 49 0.66
60 21 0.28
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (60 bp):
TCTTGCTGCAGCGAGAAAATTTCTGTTTCTAGGTTACAATTTCGCTGCAGCGAGATTGAA
Found at i:14691126 original size:497 final size:497
Alignment explanation
Indices: 14690192--14691184 Score: 1783
Period size: 497 Copynumber: 2.0 Consensus size: 497
14690182 AGAGTCCCGA
*
14690192 AAAATTTACAAAAGTCGGTATTGTACCTAGAGGTACAACAAAGTTGATTTAAGCCTCGAACTAGA
1 AAAATTTACAAAAGTAGGTATTGTACCTAGAGGTACAACAAAGTTGATTTAAGCCTCGAACTAGA
*
14690257 TCAAATAGGAATTTTAAGGTGAGATTAAGAGCTTCACAGTCCATGGATGACTTAAAATGGTAATT
66 TCAAATAGGAATTTTAAGGTGAGATTAAGAGCTTCACAGTCCATGGATGACTCAAAATGGTAATT
* *
14690322 CGGAGTTTGAGGATCAATTAGGAGTCAAATTGAAATTTTCACTACCCAAGGGTAAAATGGTCATT
131 CGGAGTTTGAGGATCAATTAGGAGTCAAACTGAAATTTTCACTACCCAAGGGCAAAATGGTCATT
* * *
14690387 TGCCACTTATGGACAAAATGGGAATTTTTAGAAAAGATTTTTTTTGCCCCATTTGACTTATTAGA
196 TGCCACCTATGGACAAAATGGAAATTTTTAGAAAAGATTTTTGTTGCCCCATTTGACTTATTAGA
* *
14690452 GTATTATTTGAGTATAGGAGTATGATTTGAGGTTGAAAAGTGAAAAAAATTGTGATCTCGGTATT
261 GTATTATTTGAGTATAGGAATATGATTTGAGGTTGAAAAGTGAAAAAAATTGTGATCTCGATATT
14690517 TTTCGGAGCATAAGGGTAAAATGGTAATTTTACCATTCCAAGGGCAAAATTATAATTTTACACAC
326 TTTCGGAGCATAAGGGTAAAATGGTAATTTTACCATTCCAAGGGCAAAATTATAATTTTACACAC
*
14690582 CCGACACTTGTCTAGCACATGGATTTTACCTAATTTTATCATGGATAATTGAAGGGATTTATATG
391 CCGACACTTGTCCAGCACATGGATTTTACCTAATTTTATCATGGATAATTGAAGGGATTTATATG
14690647 GTGGAGAGAGAAAGCTTAATAGTTAAGAAATAAAAATGGGCC
456 GTGGAGAGAGAAAGCTTAATAGTTAAGAAATAAAAATGGGCC
*
14690689 AAAATTTACAAAAGTAGGTATTGTACCTAGAGGTACAACAAAGTTGATTTAAGCCTCGGACTAGA
1 AAAATTTACAAAAGTAGGTATTGTACCTAGAGGTACAACAAAGTTGATTTAAGCCTCGAACTAGA
*
14690754 TCAAATAGGACTTTTAAGGTGAGATTAAGAGCTTCACAGTCCATGGATGACTCAAAATGGTAATT
66 TCAAATAGGAATTTTAAGGTGAGATTAAGAGCTTCACAGTCCATGGATGACTCAAAATGGTAATT
* *
14690819 CGGAGTTTGAGGATCAATTTGGAGTCAAACTGGAATTTTCACTACCCAAGGGCAAAATGGTCATT
131 CGGAGTTTGAGGATCAATTAGGAGTCAAACTGAAATTTTCACTACCCAAGGGCAAAATGGTCATT
*
14690884 TGCCACCTA-GGAACAAAATGGAAATTTTTAGAAAAGATTTTTGTTGCCCCATTTGACTTATTGG
196 TGCCACCTATGG-ACAAAATGGAAATTTTTAGAAAAGATTTTTGTTGCCCCATTTGACTTATTAG
*
14690948 AGTATTGTTTGAGTATAGGAATATGATTTGAGGTTGAAAAGTGAAAAAAATTGTGATCTCGATAT
260 AGTATTATTTGAGTATAGGAATATGATTTGAGGTTGAAAAGTGAAAAAAATTGTGATCTCGATAT
* *
14691013 TTTTCGGAGCATAAGGGTAAAATGGTAATTTTGCCATTCCAAGGGCAAAATTGTAATTTTACACA
325 TTTTCGGAGCATAAGGGTAAAATGGTAATTTTACCATTCCAAGGGCAAAATTATAATTTTACACA
14691078 CCCGACACTTGTCCAGCACATGGATTTTA-CTCAATTTTATCATGGATAATTGAAGGGATTTATA
390 CCCGACACTTGTCCAGCACATGGATTTTACCT-AATTTTATCATGGATAATTGAAGGGATTTATA
*
14691142 TGGTGGAGAGAGAAAGCTTAATAGTTATGAAATAAAAATGGGC
454 TGGTGGAGAGAGAAAGCTTAATAGTTAAGAAATAAAAATGGGC
14691185 TAATGAAATG
Statistics
Matches: 475, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
496 4 0.01
497 471 0.99
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (497 bp):
AAAATTTACAAAAGTAGGTATTGTACCTAGAGGTACAACAAAGTTGATTTAAGCCTCGAACTAGA
TCAAATAGGAATTTTAAGGTGAGATTAAGAGCTTCACAGTCCATGGATGACTCAAAATGGTAATT
CGGAGTTTGAGGATCAATTAGGAGTCAAACTGAAATTTTCACTACCCAAGGGCAAAATGGTCATT
TGCCACCTATGGACAAAATGGAAATTTTTAGAAAAGATTTTTGTTGCCCCATTTGACTTATTAGA
GTATTATTTGAGTATAGGAATATGATTTGAGGTTGAAAAGTGAAAAAAATTGTGATCTCGATATT
TTTCGGAGCATAAGGGTAAAATGGTAATTTTACCATTCCAAGGGCAAAATTATAATTTTACACAC
CCGACACTTGTCCAGCACATGGATTTTACCTAATTTTATCATGGATAATTGAAGGGATTTATATG
GTGGAGAGAGAAAGCTTAATAGTTAAGAAATAAAAATGGGCC
Found at i:14698202 original size:19 final size:20
Alignment explanation
Indices: 14698178--14698217 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
14698168 CCATTTGACT
14698178 TATTGGAGTATGATTT-AAG
1 TATTGGAGTATGATTTGAAG
14698197 TATTGGAGTATGATTTGAAG
1 TATTGGAGTATGATTTGAAG
14698217 T
1 T
14698218 TTAGAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (20 bp):
TATTGGAGTATGATTTGAAG
Found at i:14700752 original size:21 final size:20
Alignment explanation
Indices: 14700687--14700761 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
14700677 GATCAGTTGG
*
14700687 AAGAAAGGATAAAGAAAAGA
1 AAGAAAGGAGAAAGAAAAGA
* * * *
14700707 AAAAAACGAAAAAGGAAAGA
1 AAGAAAGGAGAAAGAAAAGA
14700727 AAGAAAGGAGAAAGAAAAAGA
1 AAGAAAGGAGAAAG-AAAAGA
*
14700748 GAGAAAGGAAGAAA
1 AAGAAAGG-AGAAA
14700762 AAGCTTGGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.61
21 12 0.27
22 5 0.11
ACGTcount: A:0.71, C:0.01, G:0.27, T:0.01
Consensus pattern (20 bp):
AAGAAAGGAGAAAGAAAAGA
Found at i:14703359 original size:21 final size:23
Alignment explanation
Indices: 14703330--14703372 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
14703320 CGAAAGCTAC
14703330 AATGTCATTCTCA-TGCAGCGAA
1 AATGTCATTCTCACTGCAGCGAA
14703352 AATG-CATTCTCACTGCAGCGA
1 AATGTCATTCTCACTGCAGCGA
14703373 GTTTTCAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (23 bp):
AATGTCATTCTCACTGCAGCGAA
Found at i:14703694 original size:23 final size:23
Alignment explanation
Indices: 14703640--14703695 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
14703630 TATACATATA
14703640 CTCATCATCATCATGCACACCAT
1 CTCATCATCATCATGCACACCAT
* * *
14703663 CCCACCATCATCATGCACACCGT
1 CTCATCATCATCATGCACACCAT
14703686 CTCATCATCA
1 CTCATCATCA
14703696 CCAACTCATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.29, C:0.43, G:0.05, T:0.23
Consensus pattern (23 bp):
CTCATCATCATCATGCACACCAT
Found at i:14703791 original size:43 final size:43
Alignment explanation
Indices: 14703690--14703821 Score: 111
Period size: 43 Copynumber: 3.1 Consensus size: 43
14703680 CACCGTCTCA
* * * * ****
14703690 TCATCACCAACTCATGCGCACTCCCTAGTCGCACATGGTTGGG
1 TCATCACCGACTTATGCACACTCCCTACTCGCACATAACCGGG
** * *
14703733 TCATCACCGGGTTATGTACACTCCCTACTTGCACATAACCGGG
1 TCATCACCGACTTATGCACACTCCCTACTCGCACATAACCGGG
* * * * *
14703776 TCATCATCGACTTATGCGCACTCCTTACTCGCACATAGCCGAG
1 TCATCACCGACTTATGCACACTCCCTACTCGCACATAACCGGG
14703819 TCA
1 TCA
14703822 ATATAATTAC
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (43 bp):
TCATCACCGACTTATGCACACTCCCTACTCGCACATAACCGGG
Found at i:14707502 original size:5 final size:5
Alignment explanation
Indices: 14707492--14707542 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
14707482 AGGAAGAAGC
* * * **
14707492 AAGAA AAGAA AGGAA AGGAA AAGAA AA-CA AAGAA AAGAA AATCA AAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
14707541 AA
1 AA
14707543 TTGATTTTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
4 3 0.08
5 34 0.92
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.02
Consensus pattern (5 bp):
AAGAA
Found at i:14707514 original size:15 final size:14
Alignment explanation
Indices: 14707492--14707542 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
14707482 AGGAAGAAGC
**
14707492 AAGAAAAGAAAGGA
1 AAGAAAAGAAAACA
14707506 AAGGAAAAGAAAACA
1 AA-GAAAAGAAAACA
14707521 AAGAAAAGAAAATCA
1 AAGAAAAGAAAA-CA
14707536 AAGAAAA
1 AAGAAAA
14707543 TTGATTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 12 0.36
15 21 0.64
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.02
Consensus pattern (14 bp):
AAGAAAAGAAAACA
Found at i:14721012 original size:5 final size:5
Alignment explanation
Indices: 14721002--14721056 Score: 83
Period size: 5 Copynumber: 10.8 Consensus size: 5
14720992 ATATATATAT
* *
14721002 TTTTC TTTTC TTTTC TTTTC TCTTC TCTTC TTTTC TTTTC TTTTC TTTCTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT-TC
14721053 TTTT
1 TTTT
14721057 TCTCTTCCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 42 0.89
6 5 0.11
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:14721598 original size:16 final size:18
Alignment explanation
Indices: 14721573--14721617 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
14721563 CTCGGCTGCT
14721573 TCTTTCTTCTTTT-TTTC
1 TCTTTCTTCTTTTGTTTC
*
14721590 -CTTTGTTCTTTTGTTTC
1 TCTTTCTTCTTTTGTTTC
14721607 TCTTTCATTCT
1 TCTTTC-TTCT
14721618 CCATCACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 11 0.48
17 4 0.17
18 4 0.17
19 4 0.17
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.71
Consensus pattern (18 bp):
TCTTTCTTCTTTTGTTTC
Found at i:14721854 original size:17 final size:17
Alignment explanation
Indices: 14721828--14721861 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14721818 TTGGTCTATC
*
14721828 TTTATCTATATATATAT
1 TTTATATATATATATAT
14721845 TTTATATATATATATAT
1 TTTATATATATATATAT
14721862 ATACTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTATATATATATATAT
Found at i:14722839 original size:71 final size:71
Alignment explanation
Indices: 14722619--14722872 Score: 295
Period size: 71 Copynumber: 3.6 Consensus size: 71
14722609 CAAGCACTTT
* *
14722619 ATTAAATTTATTTAATTAAG---TTGTGCCTAATTAATTAAATTATTTAATTAAATCATT-AGTC
1 ATTAAATTTATTTAATTAAGTCATTGGGCCTAATTAATTAAATTATTTAATTAAATTATTGAG-C
14722680 TTAATTA
65 TTAATTA
* * *** * * *
14722687 ATTAAA-TTATTTAATTAAGTCATCGGGTCTAATTAATTAAATTAAACAATTAAGTTATTGGGCC
1 ATTAAATTTATTTAATTAAGTCATTGGGCCTAATTAATTAAATTATTTAATTAAATTATTGAGCT
*
14722751 TAATTG
66 TAATTA
* * *
14722757 ATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTAATTAAAATTGTTTAATTAAATTTTTGAGC
1 ATTAAATTTATTTAATTAAGTCATTGGGCCTAATTAATT-AAATTATTTAATTAAATTATTGAGC
14722822 TTAATTA
65 TTAATTA
* * *
14722829 ATTAAA-TTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTA
1 ATTAAATTTATTTAATTAAGTCATTGGGCCTAATTAATTAAATTA
14722873 AACAATTAAG
Statistics
Matches: 154, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
67 13 0.08
68 6 0.04
70 46 0.30
71 60 0.39
72 29 0.19
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (71 bp):
ATTAAATTTATTTAATTAAGTCATTGGGCCTAATTAATTAAATTATTTAATTAAATTATTGAGCT
TAATTA
Found at i:14722844 original size:142 final size:139
Alignment explanation
Indices: 14722619--14722892 Score: 399
Period size: 142 Copynumber: 1.9 Consensus size: 139
14722609 CAAGCACTTT
*
14722619 ATTAAATTTATTTAATTAAGTTGTGCCTAATTAATTAAATTATTTAATTAAATCATTAGTCTTAA
1 ATTAAATTTATTTAATTAAGTTGGGCCTAATTAATTAAATTATTTAATTAAATCATTAGTCTTAA
*
14722684 TTAATTAAATTATTTAATTAAGTCATCGGGTCTAATTAATTAAATTAAACAATTAAGTT-ATTGG
66 TTAATTAAATTATTTAATTAAGTCATCGGGCCTAATTAATTAAATTAAACAATTAAGTTAATTGG
14722748 GCCTAATTG
131 GCCTAATTG
* * **
14722757 ATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTAATTAAAATTGTTTAATTAAATTTTTGAG-
1 ATTAAATTTATTTAATTAAG---TTGGGCCTAATTAATT-AAATTATTTAATTAAATCATT-AGT
* * * *
14722821 CTTAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTAATTGATTAAATTAAACAATTAAGTTA
61 CTTAATTAATTAAATTATTTAATTAAGTCATCGGGCCTAATTAATTAAATTAAACAATTAAGTTA
14722886 ATTGGGC
126 ATTGGGC
14722893 TTCTTAAGGA
Statistics
Matches: 120, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
138 19 0.16
141 15 0.12
142 77 0.64
143 9 0.08
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (139 bp):
ATTAAATTTATTTAATTAAGTTGGGCCTAATTAATTAAATTATTTAATTAAATCATTAGTCTTAA
TTAATTAAATTATTTAATTAAGTCATCGGGCCTAATTAATTAAATTAAACAATTAAGTTAATTGG
GCCTAATTG
Found at i:14722880 original size:35 final size:35
Alignment explanation
Indices: 14722619--14722892 Score: 266
Period size: 35 Copynumber: 7.8 Consensus size: 35
14722609 CAAGCACTTT
*
14722619 ATTAAATTTATTTAATTAAG---TTGTGCCTAATTA
1 ATTAAA-TTATTTAATTAAGTTATTGGGCCTAATTA
* * * * *
14722652 ATTAAATTATTTAATTAAATCATTAGTCTTAATTA
1 ATTAAATTATTTAATTAAGTTATTGGGCCTAATTA
* * *
14722687 ATTAAATTATTTAATTAAGTCATCGGGTCTAATTA
1 ATTAAATTATTTAATTAAGTTATTGGGCCTAATTA
*** *
14722722 ATTAAATTAAACAATTAAGTTATTGGGCCTAATTG
1 ATTAAATTATTTAATTAAGTTATTGGGCCTAATTA
* *
14722757 ATTAAATTTGTTTAATTAAGTCATTGGGCCTAATTA
1 ATTAAA-TTATTTAATTAAGTTATTGGGCCTAATTA
* * * * *
14722793 ATTAAAATTGTTTAATTAAATTTTTGAGCTTAATTA
1 ATT-AAATTATTTAATTAAGTTATTGGGCCTAATTA
* *
14722829 ATTAAATTGTTTAATTAAGTTATTGGGCCTAATTG
1 ATTAAATTATTTAATTAAGTTATTGGGCCTAATTA
***
14722864 ATTAAATTAAACAATTAAGTTAATTGGGC
1 ATTAAATTATTTAATTAAGTT-ATTGGGC
14722893 TTCTTAAGGA
Statistics
Matches: 197, Mismatches: 38, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
32 12 0.06
33 6 0.03
35 116 0.59
36 60 0.30
37 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (35 bp):
ATTAAATTATTTAATTAAGTTATTGGGCCTAATTA
Found at i:14724700 original size:29 final size:28
Alignment explanation
Indices: 14724653--14724793 Score: 167
Period size: 29 Copynumber: 5.0 Consensus size: 28
14724643 TGGCAGCTTT
14724653 AACATGTTTGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
14724681 AACATGTTTGGTCTTAATTTAGACAAGAA
1 AACATGTTT-GTCTTAATTTAGACAAGAA
* *
14724710 AATATGTTTGCCTTAATTTAAGACAAGAA
1 AACATGTTTGTCTTAATTT-AGACAAGAA
* * * *
14724739 AA-ATATTTTGTCCTAACTTAGTCAAGAA
1 AACAT-GTTTGTCTTAATTTAGACAAGAA
* * *
14724767 AACATATTTATCTCAATTTAGACAAGA
1 AACATGTTTGTCTTAATTTAGACAAGA
14724794 TAAAATATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 46 0.48
29 50 0.52
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:14724765 original size:57 final size:56
Alignment explanation
Indices: 14724653--14724804 Score: 187
Period size: 57 Copynumber: 2.7 Consensus size: 56
14724643 TGGCAGCTTT
* * * *
14724653 AACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAAAA-ATATTTTGTCCTAACTTAGACAAGAA
* * *
14724710 AATATGTTTGCCTTAATTTAAGACAAGAAAAATATTTTGTCCTAACTTAGTCAAGAA
1 AACATGTTTGTCTTAATTT-AGACAAGAAAAATATTTTGTCCTAACTTAGACAAGAA
* * *
14724767 AACATATTTATCTCAATTTAGACAAGATAAAATATTTT
1 AACATGTTTGTCTTAATTTAGACAAGA-AAAATATTTT
14724805 TTTGTCTTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
56 8 0.10
57 62 0.77
58 11 0.14
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (56 bp):
AACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTGTCCTAACTTAGACAAGAA
Found at i:14724990 original size:17 final size:17
Alignment explanation
Indices: 14724968--14725000 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14724958 ATAATAATAA
14724968 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
14724985 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
14725001 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:14732057 original size:15 final size:15
Alignment explanation
Indices: 14732037--14732087 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
14732027 TTCTTAAAAC
*
14732037 AACTTTAAAATTGAA
1 AACTTTAAAATTCAA
14732052 AACTTTAAAATTCAA
1 AACTTTAAAATTCAA
*
14732067 AGCTTTAAAA-TCAA
1 AACTTTAAAATTCAA
14732081 AATCTTT
1 AA-CTTT
14732088 GATCTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 5 0.16
15 27 0.84
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (15 bp):
AACTTTAAAATTCAA
Found at i:14734912 original size:28 final size:29
Alignment explanation
Indices: 14734854--14734917 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
14734844 GCAAATTTTT
** *
14734854 AAAAATTACACTTTTACCCCCGTAAAGTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
* *
14734883 AAAAATTACATTTTTA-CCCTAAAAACTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
14734911 AAAAATT
1 AAAAATT
14734918 GCCCATAGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCCAAAAACTG
Found at i:14738413 original size:28 final size:28
Alignment explanation
Indices: 14738374--14738511 Score: 204
Period size: 28 Copynumber: 4.9 Consensus size: 28
14738364 TTAAAACAAC
* *
14738374 TCTTGTCAAAATTGAGACAAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
* *
14738402 TGTTGTCTAAATTAAGGCAAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
*
14738430 TCTTGTCTAAATTAAGGCAAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
* *
14738458 TCTTGTCTAAATTAAAACGAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATGTTT
*
14738486 TCTTGTCTAAATTAAGAAAAACATGT
1 TCTTGTCTAAATTAAGACAAACATGT
14738512 AAAAGCTTCC
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 99 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.38
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:14743696 original size:74 final size:73
Alignment explanation
Indices: 14743585--14743855 Score: 309
Period size: 74 Copynumber: 3.7 Consensus size: 73
14743575 CAGACAGTGT
* * *
14743585 GCTCTTAGTTGACTAAC-ATACTTCTTAGTCGACTAAGTCTTCTCTATCTTGTAATTCAATTCTT
1 GCTCTTAGTTGACTAACTATGCTTCTTAGTCGACTAAGTCTTCTCTGTCTTGTAATTGAATT-TT
*
14743649 TGGCAGTGA
65 TGGCAATGA
*
14743658 GCTCTTAGTTGACTAACTATGCTTCTTAGTCGATTAAGTCTTCTCTGTCTTG-AATTTGGAATTT
1 GCTCTTAGTTGACTAACTATGCTTCTTAGTCGACTAAGTCTTCTCTGTCTTGTAA-TT-GAATTT
*
14743722 CTGGCAATGA
64 TTGGCAATGA
* * * *
14743732 GCTCTTAGTTGACTAATCGTA--CTTCTTAATCAATTAAGT-TCTCTCTGTCTTGTAACTGAGAT
1 GCTCTTAGTTGACTAA-C-TATGCTTCTTAGTCGACTAAGTCT-TCTCTGTCTTGTAATTGA-AT
*
14743794 TTTTGGCAATGT
62 TTTTGGCAATGA
* * * *
14743806 GCTCTTAGTTGACTAACCATGCTTCTTGGTTGACTAAGTCTTCTTTGTCT
1 GCTCTTAGTTGACTAACTATGCTTCTTAGTCGACTAAGTCTTCTCTGTCT
14743856 CATAATCTGC
Statistics
Matches: 169, Mismatches: 18, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
72 1 0.01
73 23 0.14
74 135 0.80
75 8 0.05
76 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.42
Consensus pattern (73 bp):
GCTCTTAGTTGACTAACTATGCTTCTTAGTCGACTAAGTCTTCTCTGTCTTGTAATTGAATTTTT
GGCAATGA
Found at i:14743844 original size:148 final size:147
Alignment explanation
Indices: 14743585--14743855 Score: 375
Period size: 148 Copynumber: 1.8 Consensus size: 147
14743575 CAGACAGTGT
* * *
14743585 GCTCTTAGTTGACTAACATACTTCTTAGTCGACTAAGTCTTCTCTATCTTGTAATTCAATTCTTT
1 GCTCTTAGTTGACTAACATACTTCTTAATCAACTAAGTCTTCTCTATCTTGTAACTCAATTCTTT
* * *
14743650 GGCAGTGAGCTCTTAGTTGACTAACTATGCTTCTTAGTCGATTAAGTCTTCTCTGTCTTGAATTT
66 GGCAATGAGCTCTTAGTTGACTAACCATGCTTCTTAGTCGACTAAGTCTTCTCTGTCTTGAATTT
14743715 GGAATTTCTGGCAATGA
131 GGAATTTCTGGCAATGA
* * * *
14743732 GCTCTTAGTTGACTAATCGTACTTCTTAATCAATTAAGT-TCTCTCTGTCTTGTAACTGAGATT-
1 GCTCTTAGTTGACTAA-CATACTTCTTAATCAACTAAGTCT-TCTCTATCTTGTAACTCA-ATTC
* * * *
14743795 TTTGGCAATGTGCTCTTAGTTGACTAACCATGCTTCTTGGTTGACTAAGTCTTCTTTGTCT
63 TTTGGCAATGAGCTCTTAGTTGACTAACCATGCTTCTTAGTCGACTAAGTCTTCTCTGTCT
14743856 CATAATCTGC
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
147 17 0.16
148 87 0.81
149 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.42
Consensus pattern (147 bp):
GCTCTTAGTTGACTAACATACTTCTTAATCAACTAAGTCTTCTCTATCTTGTAACTCAATTCTTT
GGCAATGAGCTCTTAGTTGACTAACCATGCTTCTTAGTCGACTAAGTCTTCTCTGTCTTGAATTT
GGAATTTCTGGCAATGA
Found at i:14744946 original size:14 final size:13
Alignment explanation
Indices: 14744928--14744952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14744918 AGTTGGATTA
14744928 AAAAAATTTTAAG
1 AAAAAATTTTAAG
14744941 AAAAAATTTTAA
1 AAAAAATTTTAA
14744953 TTTTTTTATT
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AAAAAATTTTAAG
Found at i:14747257 original size:35 final size:36
Alignment explanation
Indices: 14747179--14747292 Score: 130
Period size: 35 Copynumber: 3.2 Consensus size: 36
14747169 TCCCAACATC
*
14747179 TCATGTGCACTTCCATACCGCACATA-GCTAGA-ATCA
1 TCATGTGCACTTCCACACCGCACA-AGGC-AGATATCA
14747215 TCATGTGCACTTCCACACCGCACAAGGCA-ATATCA
1 TCATGTGCACTTCCACACCGCACAAGGCAGATATCA
* * *
14747250 TCATGTGCACTCCCAC-CTCGCACATGGCATATATCA
1 TCATGTGCACTTCCACAC-CGCACAAGGCAGATATCA
14747286 TCA-GTGC
1 TCATGTGC
14747293 GTGCACTCAC
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
34 2 0.03
35 35 0.49
36 34 0.48
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (36 bp):
TCATGTGCACTTCCACACCGCACAAGGCAGATATCA
Found at i:14747349 original size:52 final size:52
Alignment explanation
Indices: 14747266--14747367 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
14747256 GCACTCCCAC
*
14747266 CTCGCACATGGCATATATCATCAGTGCGTGCACTCACACAACACACCACTTT
1 CTCGCACATGGCATATATCATCAGTGCGTGCACTAACACAACACACCACTTT
* * *
14747318 CTCGCACATGGCATATATCATCTGTGTGTGCACTAACACAGCACACCACT
1 CTCGCACATGGCATATATCATCAGTGCGTGCACTAACACAACACACCACT
14747368 ATCACCGTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (52 bp):
CTCGCACATGGCATATATCATCAGTGCGTGCACTAACACAACACACCACTTT
Found at i:14748203 original size:15 final size:15
Alignment explanation
Indices: 14748183--14748214 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14748173 AGGAAGGAGC
14748183 AAGAAAAGAAAAGGA
1 AAGAAAAGAAAAGGA
*
14748198 AAGAAAAGAAAATGA
1 AAGAAAAGAAAAGGA
14748213 AA
1 AA
14748215 ATCTTGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (15 bp):
AAGAAAAGAAAAGGA
Found at i:14760104 original size:28 final size:29
Alignment explanation
Indices: 14760030--14760249 Score: 266
Period size: 29 Copynumber: 7.6 Consensus size: 29
14760020 GGCAACTTTG
14760030 ACATGTTTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
14760059 ACATGTTTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
*
14760088 ACAT-TTTTGTCTTAATTTAGATAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* * *
14760116 ACATATTTTTTCTTAATTTACACAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
*
14760145 ACATG-TTTGTCTTAATTTAAGGCAAGAAAA
1 ACATGTTTTGTCTTAATTT-AGACAAG-AAA
* * * * *
14760175 ATATGCTTTGTCATGATCTAGACAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* * * * *
14760204 ATATG-TTTGCCTCAATTTAGACACGATA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
14760232 ACATGTTTTGTCTTAATT
1 ACATGTTTTGTCTTAATT
14760250 AAAGATAAGA
Statistics
Matches: 163, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
28 59 0.36
29 81 0.50
30 13 0.08
31 10 0.06
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.39
Consensus pattern (29 bp):
ACATGTTTTGTCTTAATTTAGACAAGAAA
Found at i:14760130 original size:57 final size:57
Alignment explanation
Indices: 14760030--14760249 Score: 262
Period size: 57 Copynumber: 3.8 Consensus size: 57
14760020 GGCAACTTTG
*
14760030 ACATGTTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCTTAATTTAGACAAGAAA
1 ACATG-TTTGTCTTAATTTAGACAAGAAAACATATTTTGTCTTAATTTAGACAAGAAA
* * * *
14760088 ACATTTTTGTCTTAATTTAGATAAGAAAACATATTTTTTCTTAATTTACACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAAACATATTTTGTCTTAATTTAGACAAGAAA
* * * *
14760145 ACATGTTTGTCTTAATTTAAGGCAAGAAAA-ATATGCTTTGTCATGATCTAGACAAGAAA
1 ACATGTTTGTCTTAATTT-AGACAAGAAAACATAT--TTTGTCTTAATTTAGACAAGAAA
* * * * * *
14760204 ATATGTTTGCCTCAATTTAGACACGATAACATGTTTTGTCTTAATT
1 ACATGTTTGTCTTAATTTAGACAAGAAAACATATTTTGTCTTAATT
14760250 AAAGATAAGA
Statistics
Matches: 135, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
57 78 0.58
58 21 0.16
59 36 0.27
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.39
Consensus pattern (57 bp):
ACATGTTTGTCTTAATTTAGACAAGAAAACATATTTTGTCTTAATTTAGACAAGAAA
Found at i:14767183 original size:46 final size:46
Alignment explanation
Indices: 14767130--14767279 Score: 202
Period size: 46 Copynumber: 3.3 Consensus size: 46
14767120 CCACACTCAG
14767130 CTCATGTGCACTCCCTACACGCACAATGCAATATCATCATCATCAA
1 CTCATGTGCACTCCCTACACGCACAATGCAATATCATCATCATCAA
* ** *
14767176 CTCATGTGCACTCCC-CCACCGCAC-ATAGC--TA-GGTCATCATCAG
1 CTCATGTGCACTCCCTACA-CGCACAAT-GCAATATCATCATCATCAA
*
14767219 CTCATGTGCACTCCCTACACACACAATGCAATATCATCATCATCAA
1 CTCATGTGCACTCCCTACACGCACAATGCAATATCATCATCATCAA
14767265 CTCATGTGCACTCCC
1 CTCATGTGCACTCCC
14767280 CCACCGCACA
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
43 30 0.34
44 6 0.07
45 6 0.07
46 46 0.52
ACGTcount: A:0.29, C:0.37, G:0.11, T:0.23
Consensus pattern (46 bp):
CTCATGTGCACTCCCTACACGCACAATGCAATATCATCATCATCAA
Found at i:14767227 original size:43 final size:43
Alignment explanation
Indices: 14767166--14767380 Score: 272
Period size: 43 Copynumber: 4.9 Consensus size: 43
14767156 TGCAATATCA
14767166 TCATCATCAACTCATGTGCACTCCCCCACCGCACATAGCTAGG
1 TCATCATCAACTCATGTGCACTCCCCCACCGCACATAGCTAGG
* * * **
14767209 TCATCATCAGCTCATGTGCACT-CCCTACACACACA-ATGCAATATCA
1 TCATCATCAACTCATGTGCACTCCCCCAC-CGCACATA-GC--TA-GG
14767255 TCATCATCAACTCATGTGCACTCCCCCACCGCACATAGCTAGG
1 TCATCATCAACTCATGTGCACTCCCCCACCGCACATAGCTAGG
* * *
14767298 TCATCATCAGCTCATGTGCACTCTCCCACCGCACATAACTAGG
1 TCATCATCAACTCATGTGCACTCCCCCACCGCACATAGCTAGG
* * *
14767341 TCATCATCATCTCATGTGCACTCCCACAACGCACATAGCT
1 TCATCATCAACTCATGTGCACTCCCCCACCGCACATAGCT
14767381 GGGTACTCAT
Statistics
Matches: 147, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
42 6 0.04
43 103 0.70
44 2 0.01
45 2 0.01
46 28 0.19
47 6 0.04
ACGTcount: A:0.27, C:0.38, G:0.12, T:0.23
Consensus pattern (43 bp):
TCATCATCAACTCATGTGCACTCCCCCACCGCACATAGCTAGG
Found at i:14767277 original size:89 final size:89
Alignment explanation
Indices: 14767126--14767380 Score: 394
Period size: 89 Copynumber: 2.9 Consensus size: 89
14767116 CTTGCCACAC
14767126 TCAGCTCATGTGCACTCCCTACACGCACAATGCAATATCATCATCATCAACTCATGTGCACTCCC
1 TCAGCTCATGTGCACTCCCTACACGCACAATGCAATATCATCATCATCAACTCATGTGCACTCCC
14767191 CCACCGCACATAGCTAGGTCATCA
66 CCACCGCACATAGCTAGGTCATCA
*
14767215 TCAGCTCATGTGCACTCCCTACACACACAATGCAATATCATCATCATCAACTCATGTGCACTCCC
1 TCAGCTCATGTGCACTCCCTACACGCACAATGCAATATCATCATCATCAACTCATGTGCACTCCC
14767280 CCACCGCACATAGCTAGGTCATCA
66 CCACCGCACATAGCTAGGTCATCA
* ** *
14767304 TCAGCTCATGTGCACTCTCCCAC-CGCAC-AT--AACTA-GGTCATCATCATCTCATGTGCACTC
1 TCAGCTCATGTGCACTC-CCTACACGCACAATGCAA-TATCATCATCATCAACTCATGTGCACTC
* *
14767364 CCACAACGCACATAGCT
64 CCCCACCGCACATAGCT
14767381 GGGTACTCAT
Statistics
Matches: 156, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
86 39 0.25
87 2 0.01
88 2 0.01
89 109 0.70
90 4 0.03
ACGTcount: A:0.28, C:0.37, G:0.12, T:0.23
Consensus pattern (89 bp):
TCAGCTCATGTGCACTCCCTACACGCACAATGCAATATCATCATCATCAACTCATGTGCACTCCC
CCACCGCACATAGCTAGGTCATCA
Found at i:14768196 original size:21 final size:21
Alignment explanation
Indices: 14768167--14768209 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14768157 AAGAAGAAGA
* * *
14768167 AGAAGAAGCTGCTGGTAAATG
1 AGAAAAAGCTACTGGAAAATG
14768188 AGAAAAAGCTACTGGAAAATG
1 AGAAAAAGCTACTGGAAAATG
14768209 A
1 A
14768210 TATTTATAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (21 bp):
AGAAAAAGCTACTGGAAAATG
Found at i:14771168 original size:28 final size:27
Alignment explanation
Indices: 14771129--14771181 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
14771119 ATGTCCTGAT
*
14771129 GGTGGAAAATTACAATTTTGCCCTTGG
1 GGTGGAAAATTACAATTTTACCCTTGG
*
14771156 GGTGGCAAAATTACCATTTTACCCTT
1 GGTGG-AAAATTACAATTTTACCCTT
14771182 TCTCTAAATT
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:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCTTGG
Found at i:14771699 original size:36 final size:38
Alignment explanation
Indices: 14771626--14771708 Score: 116
Period size: 36 Copynumber: 2.2 Consensus size: 38
14771616 GATGGTGGTG
*
14771626 TGCGATGTGGGAGTGCACATGCTGACGATATATGCCATA
1 TGCGGTGTGGGAGTGCACA-GCTGACGATATATGCCATA
* *
14771665 TGCGGTGTGGGAGTGCAC-G-TGATGATATATGCCATG
1 TGCGGTGTGGGAGTGCACAGCTGACGATATATGCCATA
14771701 TGCGGTGT
1 TGCGGTGT
14771709 AAGAATGCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
36 23 0.56
37 1 0.02
39 17 0.41
ACGTcount: A:0.20, C:0.16, G:0.36, T:0.28
Consensus pattern (38 bp):
TGCGGTGTGGGAGTGCACAGCTGACGATATATGCCATA
Found at i:14777503 original size:13 final size:13
Alignment explanation
Indices: 14777485--14777509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14777475 TTCCAGAAAA
14777485 TTTATAAAATCAT
1 TTTATAAAATCAT
14777498 TTTATAAAATCA
1 TTTATAAAATCA
14777510 CAATTTCTCT
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:14778750 original size:20 final size:20
Alignment explanation
Indices: 14778733--14778770 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14778723 CCTCAAATAT
14778733 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
14778753 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
14778771 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:14780282 original size:13 final size:13
Alignment explanation
Indices: 14780264--14780288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14780254 TTCCAGAAAA
14780264 TTTATAAAATCAT
1 TTTATAAAATCAT
14780277 TTTATAAAATCA
1 TTTATAAAATCA
14780289 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:14786766 original size:19 final size:19
Alignment explanation
Indices: 14786742--14786779 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14786732 CCATTTGACT
*
14786742 TATTGGAGTATGATTTGAG
1 TATTGGAGCATGATTTGAG
14786761 TATTGGAGCATGATTTGAG
1 TATTGGAGCATGATTTGAG
14786780 GTTTAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.32, T:0.39
Consensus pattern (19 bp):
TATTGGAGCATGATTTGAG
Found at i:14789643 original size:15 final size:15
Alignment explanation
Indices: 14789594--14789644 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
14789584 TTTAAAGATC
* *
14789594 AAAGATTTTGGTTTT
1 AAAGTTTTTAGTTTT
* * *
14789609 AAAGCTTTGAATTTT
1 AAAGTTTTTAGTTTT
14789624 AAAGTTTTTAGTTTT
1 AAAGTTTTTAGTTTT
14789639 AAAGTT
1 AAAGTT
14789645 GTTTTAAGAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (15 bp):
AAAGTTTTTAGTTTT
Found at i:14798260 original size:27 final size:26
Alignment explanation
Indices: 14798218--14798268 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
14798208 TATAGATATG
14798218 TAATGGTAAGAGTATAGATGTGCTAT
1 TAATGGTAAGAGTATAGATGTGCTAT
*
14798244 TAATGGTACAGAGTATAGGTGTGCT
1 TAATGGTA-AGAGTATAGATGTGCT
14798269 TGAAGGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.33
Consensus pattern (26 bp):
TAATGGTAAGAGTATAGATGTGCTAT
Found at i:14802867 original size:27 final size:27
Alignment explanation
Indices: 14802815--14802869 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
14802805 AGAAAATAAG
**
14802815 AGAGAAAATAGAAAGGAAAGGAAGAAA
1 AGAGAAAATAGAAAGGAAAACAAGAAA
*
14802842 AGAGAAAA-ACGAAAGGAAAACTAGAAA
1 AGAGAAAATA-GAAAGGAAAACAAGAAA
14802869 A
1 A
14802870 TTCAAAAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.67, C:0.04, G:0.25, T:0.04
Consensus pattern (27 bp):
AGAGAAAATAGAAAGGAAAACAAGAAA
Found at i:14807901 original size:25 final size:26
Alignment explanation
Indices: 14807861--14807935 Score: 107
Period size: 25 Copynumber: 2.8 Consensus size: 26
14807851 NNNNNNNNNN
*
14807861 GGCCATGCCCACTTATTTTCTA-TTG
1 GGCCATGCCCATTTATTTTCTATTTG
*
14807886 GGTCATGCCCATTTATTTTCTATTTG
1 GGCCATGCCCATTTATTTTCTATTTG
14807912 GGCCATGCCCATTTTTATTTTCTA
1 GGCCATGCCCA--TTTATTTTCTA
14807936 CTTCTTTTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 20 0.45
26 13 0.30
28 11 0.25
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.45
Consensus pattern (26 bp):
GGCCATGCCCATTTATTTTCTATTTG
Found at i:14807969 original size:21 final size:20
Alignment explanation
Indices: 14807923--14807971 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
14807913 GCCATGCCCA
*
14807923 TTTTTATTTTCTACTTCTTT
1 TTTTTCTTTTCTACTTCTTT
**
14807943 TCTTTTCTTTTCTTTTTCTTT
1 T-TTTTCTTTTCTACTTCTTT
14807964 CTTTTTCT
1 -TTTTTCT
14807972 CTCTTCCACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTCTTTTCTACTTCTTT
Found at i:14808017 original size:22 final size:22
Alignment explanation
Indices: 14807992--14808034 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14807982 GTCACTCCCT
*
14807992 TCACCACCATGTCTTCCTCTCC
1 TCACCACCATGGCTTCCTCTCC
*
14808014 TCACCACCGTGGCTTCCTCTC
1 TCACCACCATGGCTTCCTCTC
14808035 TTCCTTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.49, G:0.09, T:0.30
Consensus pattern (22 bp):
TCACCACCATGGCTTCCTCTCC
Found at i:14808326 original size:25 final size:25
Alignment explanation
Indices: 14808279--14808326 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
14808269 AAAAATCTGC
* *
14808279 TTTCTTACCTCAAAATTTTCAGCTT
1 TTTCTTACCTCAAAAATTGCAGCTT
14808304 TTTCTT-CCTCTAAAAATTGCAGC
1 TTTCTTACCTC-AAAAATTGCAGC
14808327 AAAAAGCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (25 bp):
TTTCTTACCTCAAAAATTGCAGCTT
Found at i:14814337 original size:178 final size:177
Alignment explanation
Indices: 14814014--14814374 Score: 598
Period size: 178 Copynumber: 2.0 Consensus size: 177
14814004 AGCAGTTCAT
* ** *
14814014 AAAAAAAATATCTTAGCAAGTAGATACATTGGTAGACAGTGAGTTCAAAAGCACAGACACTAAAA
1 AAAAAGAATATCTTAGCAAGTAGATACATTGGTAGACAAAGAGTTCAAAAGCACAAACACTAAAA
*
14814079 AATAAAAAGATTAAAACCACTTCCTTTTAATTTTAGTTCTGTCTCAAAGAATAAAAGGGAAGAGA
66 AATAAAAAGATTAAAACCACTTCCTTTTAATTTTAGTTCTGTCTCAAAGAAAAAAAGGGAAGAGA
14814144 AGGGAAAAACCATAAAAACAT-ATATCACTACCACATAGCAACAACAG
131 AGGGAAAAACCATAAAAACATAAT-TCACTACCACATAGCAACAACAG
* * *
14814191 AAAAAGAATATCTTAGCATGGTAGATACATTGGTAGATAAAGAGTTCAAAATCACAAACACTAAA
1 AAAAAGAATATCTTAGCA-AGTAGATACATTGGTAGACAAAGAGTTCAAAAGCACAAACACTAAA
* *
14814256 AAATGAAAAGATTAAAACCGCTTCCTTTTAATTTTAGTTCTGTCTCAAAGAAAAAAAGGGAAGAG
65 AAATAAAAAGATTAAAACCACTTCCTTTTAATTTTAGTTCTGTCTCAAAGAAAAAAAGGGAAGAG
*
14814321 AAGGGAAAACCCATAAAAACATAATTCACTACCACATAGCAACAACAG
130 AAGGGAAAAACCATAAAAACATAATTCACTACCACATAGCAACAACAG
14814369 AAAAAG
1 AAAAAG
14814375 TAAGGGCAAT
Statistics
Matches: 171, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
177 17 0.10
178 152 0.89
179 2 0.01
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.21
Consensus pattern (177 bp):
AAAAAGAATATCTTAGCAAGTAGATACATTGGTAGACAAAGAGTTCAAAAGCACAAACACTAAAA
AATAAAAAGATTAAAACCACTTCCTTTTAATTTTAGTTCTGTCTCAAAGAAAAAAAGGGAAGAGA
AGGGAAAAACCATAAAAACATAATTCACTACCACATAGCAACAACAG
Found at i:14819953 original size:63 final size:62
Alignment explanation
Indices: 14819854--14819972 Score: 186
Period size: 63 Copynumber: 1.9 Consensus size: 62
14819844 ATCCTTTCTA
* *
14819854 TTTCTCTTGGAATAGTAAATTCTATTTCTAGCAATTTATTATTAAGAAAATGAGAAATTTTTG
1 TTTCTCTTGAAATAGTAAATTCTATTTCTAGCAATTTATTACTAA-AAAATGAGAAATTTTTG
*
14819917 TTTCTCTTGAAATAAG-AAATTCTATTTTTAGCAATTTATTACTAAAAAATGAGAAA
1 TTTCTCTTGAAAT-AGTAAATTCTATTTCTAGCAATTTATTACTAAAAAATGAGAAA
14819973 GTAATGTTTC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
62 11 0.21
63 39 0.75
64 2 0.04
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (62 bp):
TTTCTCTTGAAATAGTAAATTCTATTTCTAGCAATTTATTACTAAAAAATGAGAAATTTTTG
Found at i:14821531 original size:23 final size:24
Alignment explanation
Indices: 14821498--14821546 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
14821488 TAAGGAGGCC
*
14821498 TAAGGCAT-AAATGAATGATGAAAA
1 TAAGGCATAAAATG-ATGAAGAAAA
14821522 TAAGG-ATAAAATGATGAAGAAAA
1 TAAGGCATAAAATGATGAAGAAAA
14821545 TA
1 TA
14821547 GAAATAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.57, C:0.02, G:0.20, T:0.20
Consensus pattern (24 bp):
TAAGGCATAAAATGATGAAGAAAA
Found at i:14821793 original size:20 final size:20
Alignment explanation
Indices: 14821772--14821809 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14821762 TAAATATCAT
14821772 TTTC-CCAGCAGCTTCTTCA
1 TTTCTCCAGCAGCTTCTTCA
14821791 TTTCTCCAGCAGCTTCTTC
1 TTTCTCCAGCAGCTTCTTC
14821810 TTCTTCTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.13, C:0.37, G:0.11, T:0.39
Consensus pattern (20 bp):
TTTCTCCAGCAGCTTCTTCA
Found at i:14823600 original size:32 final size:32
Alignment explanation
Indices: 14823564--14823668 Score: 95
Period size: 32 Copynumber: 3.2 Consensus size: 32
14823554 TGCGCTTTTA
14823564 AAAAACCACTTTGGGTTTTGGTTAAGCTTGTG
1 AAAAACCACTTTGGGTTTTGGTTAAGCTTGTG
* * * *
14823596 AAAAATCA-TTGTGAAAGGTTGTGGTTGAGCTTTTG
1 AAAAACCACTT-TG---GGTTTTGGTTAAGCTTGTG
* * * *
14823631 AAAAACCACTTTGGATTTTAGTTTAGCTCGTG
1 AAAAACCACTTTGGGTTTTGGTTAAGCTTGTG
14823663 AAAAAC
1 AAAAAC
14823669 TAGTGTAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
31 2 0.04
32 28 0.49
35 25 0.44
36 2 0.04
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.35
Consensus pattern (32 bp):
AAAAACCACTTTGGGTTTTGGTTAAGCTTGTG
Found at i:14823615 original size:67 final size:67
Alignment explanation
Indices: 14823544--14823701 Score: 192
Period size: 67 Copynumber: 2.3 Consensus size: 67
14823534 CCATTGTTGT
* * * * *
14823544 AGGTTATGGTTGCGCTTTTAAAAAACCACTTTGGGTTTTGGTTAAGCTTGTGAAAAA-TCATTGT
1 AGGTTATGGTTGAGCTTTTAAAAAACCACTTTGGATTTTAGTTAAGCTCGTGAAAAACT-AGTGT
*
14823608 GAA
65 AAA
* * *
14823611 AGGTTGTGGTTGAGCTTTTGAAAAACCACTTTGGATTTTAGTTTAGCTCGTGAAAAACTAGTGTA
1 AGGTTATGGTTGAGCTTTTAAAAAACCACTTTGGATTTTAGTTAAGCTCGTGAAAAACTAGTGTA
14823676 AA
66 AA
* *
14823678 AGGTTTTGGTTGAACTTTGTAAAA
1 AGGTTATGGTTGAGCTTT-TAAAA
14823702 GTCATTGTAA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
67 72 0.94
68 5 0.06
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.37
Consensus pattern (67 bp):
AGGTTATGGTTGAGCTTTTAAAAAACCACTTTGGATTTTAGTTAAGCTCGTGAAAAACTAGTGTA
AA
Found at i:14836297 original size:117 final size:117
Alignment explanation
Indices: 14836089--14836321 Score: 421
Period size: 117 Copynumber: 2.0 Consensus size: 117
14836079 GATTATAAAG
14836089 TGGGCACTGCAGTGACGGGGGTTCCGTGGGCCAGCCTAATTAGAGGGGCACGGTTCCCAATTATT
1 TGGGCACTGCAGTGACGGGGGTTCCGTGGGCCAGCCTAATTAGAGGGGCACGGTTCCCAATTATT
*
14836154 GAGCTTACCTCGATTGGAGAGGCGCGTAGAATAACTCCCGAGGTAGGATTTA
66 GAGCTTACCTCGATTGGAGAGACGCGTAGAATAACTCCCGAGGTAGGATTTA
* * *
14836206 TGGGCATTGCAGTGACGGGGGTTCTGTGGGCTAGCCTAATTAGAGGGGCACGGTTCCCAATTATT
1 TGGGCACTGCAGTGACGGGGGTTCCGTGGGCCAGCCTAATTAGAGGGGCACGGTTCCCAATTATT
*
14836271 GAGCTTACCTCGATTGGAGAGACGCGTAGGATAACTCCCGAGGTAGGATTT
66 GAGCTTACCTCGATTGGAGAGACGCGTAGAATAACTCCCGAGGTAGGATTT
14836322 GAGTACACTT
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 111 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.24
Consensus pattern (117 bp):
TGGGCACTGCAGTGACGGGGGTTCCGTGGGCCAGCCTAATTAGAGGGGCACGGTTCCCAATTATT
GAGCTTACCTCGATTGGAGAGACGCGTAGAATAACTCCCGAGGTAGGATTTA
Found at i:14837481 original size:35 final size:35
Alignment explanation
Indices: 14837442--14837551 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
14837432 TGATCCCGGT
*
14837442 AAAAACTATTATTATAGGTTGTGGTTGAGCCTTTG
1 AAAAACCATTATTATAGGTTGTGGTTGAGCCTTTG
* * * **
14837477 AAAAACCA--CTT-TGGGTTTTGGTTGAGCCCGTG
1 AAAAACCATTATTATAGGTTGTGGTTGAGCCTTTG
* * * *
14837509 AAAAACCATTGTGAAAGGTTGTGGTTGAGCATTTG
1 AAAAACCATTATTATAGGTTGTGGTTGAGCCTTTG
14837544 AAAAACCA
1 AAAAACCA
14837552 CTTTAGGTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
32 25 0.43
33 2 0.03
34 1 0.02
35 30 0.52
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.32
Consensus pattern (35 bp):
AAAAACCATTATTATAGGTTGTGGTTGAGCCTTTG
Found at i:14837499 original size:67 final size:67
Alignment explanation
Indices: 14837420--14837581 Score: 227
Period size: 67 Copynumber: 2.4 Consensus size: 67
14837410 AAGTTTGTTG
* * * * *
14837420 TTGGGTTTTGGTTGATCCCG-GTAAAAACTATTATTATAGGTTGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGAGCCCGTG-AAAAACCATTATGAAAGGTTGTGGTTGAGCATTTGAAAAACC
14837484 ACT
65 ACT
*
14837487 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCATTTGAAAAACCA
1 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTATGAAAGGTTGTGGTTGAGCATTTGAAAAACCA
14837552 CT
66 CT
* * *
14837554 TTAGGTTTTAGTTTAGCCCGTGAAAAAC
1 TTGGGTTTTGGTTGAGCCCGTGAAAAAC
14837582 TAGTGTAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
67 84 0.99
68 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.35
Consensus pattern (67 bp):
TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTATGAAAGGTTGTGGTTGAGCATTTGAAAAACCA
CT
Found at i:14837504 original size:32 final size:32
Alignment explanation
Indices: 14837458--14837581 Score: 115
Period size: 32 Copynumber: 3.8 Consensus size: 32
14837448 TATTATTATA
**
14837458 GGTTGTGGTTGAGCCTTTGAAAAACCACTTTG
1 GGTTGTGGTTGAGCCCGTGAAAAACCACTTTG
*
14837490 GGTTTTGGTTGAGCCCGTGAAAAACCA-TTGTG
1 GGTTGTGGTTGAGCCCGTGAAAAACCACTT-TG
*** *
14837522 AAAGGTTGTGGTTGAGCATTTGAAAAACCACTTTA
1 ---GGTTGTGGTTGAGCCCGTGAAAAACCACTTTG
* * *
14837557 GGTTTTAGTTTAGCCCGTGAAAAAC
1 GGTTGTGGTTGAGCCCGTGAAAAAC
14837582 TAGTGTAAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
31 2 0.03
32 45 0.62
35 24 0.33
36 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (32 bp):
GGTTGTGGTTGAGCCCGTGAAAAACCACTTTG
Found at i:14837593 original size:67 final size:67
Alignment explanation
Indices: 14837457--14837595 Score: 215
Period size: 67 Copynumber: 2.1 Consensus size: 67
14837447 CTATTATTAT
* * * * *
14837457 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTG
1 AGGTTGTGGTTGAGCATTTGAAAAACCACTTTAGGTTTTAGTTGAGCCCGTGAAAAACCAGTGTA
14837522 AA
66 AA
* *
14837524 AGGTTGTGGTTGAGCATTTGAAAAACCACTTTAGGTTTTAGTTTAGCCCGTGAAAAACTAGTGTA
1 AGGTTGTGGTTGAGCATTTGAAAAACCACTTTAGGTTTTAGTTGAGCCCGTGAAAAACCAGTGTA
14837589 AA
66 AA
14837591 AGGTT
1 AGGTT
14837596 TTGCCTGAGC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (67 bp):
AGGTTGTGGTTGAGCATTTGAAAAACCACTTTAGGTTTTAGTTGAGCCCGTGAAAAACCAGTGTA
AA
Found at i:14838475 original size:43 final size:42
Alignment explanation
Indices: 14838350--14838476 Score: 177
Period size: 43 Copynumber: 3.0 Consensus size: 42
14838340 TGTGATAATA
* *
14838350 ATGACCCAGCTATGTGCGGTGTGGGAGT-CTACATGAGCTAATG
1 ATGACCCAGCTATGTGC-GAGTGGGAGTGC-ACATGAGCTGATG
14838393 ATGACCCAGCTATGTGCGATGTGGGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGA-GTGGGAGTGCACATGAGCTGATG
14838436 ATGA-CCAGACTATGTGCGAGTAGGGAGTGCACATGAGCTGA
1 ATGACCCAG-CTATGTGCGAGT-GGGAGTGCACATGAGCTGA
14838477 GTGTGGAGGG
Statistics
Matches: 78, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
42 7 0.09
43 70 0.90
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (42 bp):
ATGACCCAGCTATGTGCGAGTGGGAGTGCACATGAGCTGATG
Found at i:14838639 original size:24 final size:24
Alignment explanation
Indices: 14838595--14838640 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
14838585 AATTGCTCCC
* *
14838595 AAATTGCTTTTTATTTCAACAAGA
1 AAATGGCTTTTTATGTCAACAAGA
14838619 AAATGGCTTTTTGATGT-AACAA
1 AAATGGCTTTTT-ATGTCAACAA
14838641 TACCCCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (24 bp):
AAATGGCTTTTTATGTCAACAAGA
Found at i:14852859 original size:2 final size:2
Alignment explanation
Indices: 14852847--14852876 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14852837 GGAATTAATA
*
14852847 TG TG AG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
14852877 AATATGTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:14866785 original size:5 final size:5
Alignment explanation
Indices: 14866777--14866811 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
14866767 CTATTCAATC
*
14866777 TAACT TAACT TAACT TAACT TATCT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT
14866812 AGACTTGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (5 bp):
TAACT
Found at i:14868295 original size:13 final size:13
Alignment explanation
Indices: 14868277--14868301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14868267 TTCCAGAAAA
14868277 TTATAAAATCATT
1 TTATAAAATCATT
14868290 TTATAAAATCAT
1 TTATAAAATCAT
14868302 AATTTCTACT
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):
TTATAAAATCATT
Found at i:14869481 original size:27 final size:28
Alignment explanation
Indices: 14869424--14869481 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
14869414 GGAAAAATGT
*
14869424 CCTGGTGGTGGAAAATTACAATTTTGCC
1 CCTGGTGGTGGAAAATTACAATTTTGAC
*
14869452 CCTGG-GGTGGCAAAATTACCATTTT-AC
1 CCTGGTGGTGG-AAAATTACAATTTTGAC
14869479 CCT
1 CCT
14869482 TTTACTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (28 bp):
CCTGGTGGTGGAAAATTACAATTTTGAC
Found at i:14869552 original size:20 final size:20
Alignment explanation
Indices: 14869535--14869572 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14869525 CCTCAAATCT
14869535 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
14869555 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
14869573 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:14873731 original size:5 final size:5
Alignment explanation
Indices: 14873724--14873763 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
14873714 CTATTCAATC
* *
14873724 TAACC TAACT TAACT TAACT TAACT TATCT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT
14873764 GGACTTGGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (5 bp):
TAACT
Found at i:14873827 original size:15 final size:15
Alignment explanation
Indices: 14873807--14873849 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
14873797 CTTAAAACAA
*
14873807 CTTTAAAACCAAAGG
1 CTTTAAAATCAAAGG
* *
14873822 CTTTAAAATCTAATG
1 CTTTAAAATCAAAGG
14873837 CTTTAAAATCAAA
1 CTTTAAAATCAAA
14873850 ATATCTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.30
Consensus pattern (15 bp):
CTTTAAAATCAAAGG
Found at i:14875261 original size:13 final size:13
Alignment explanation
Indices: 14875243--14875268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14875233 TTTCAGAAAA
14875243 TTTATAAAATCAT
1 TTTATAAAATCAT
14875256 TTTATAAAATCAT
1 TTTATAAAATCAT
14875269 AATTTCTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:14876445 original size:27 final size:27
Alignment explanation
Indices: 14876394--14876445 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
14876384 ATGTCCTGGT
*
14876394 GGTGGAAAATTACAATTTTGCCCCTAG
1 GGTGGAAAATTACAATTTTGACCCTAG
*
14876421 GGTGGCAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
14876446 TTTACTCCAA
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:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTAG
Found at i:14876516 original size:20 final size:20
Alignment explanation
Indices: 14876499--14876536 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14876489 CCTCAAATCT
14876499 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
14876519 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
14876537 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:14882592 original size:30 final size:30
Alignment explanation
Indices: 14882551--14882710 Score: 168
Period size: 28 Copynumber: 5.4 Consensus size: 30
14882541 TCTTGTCTTT
14882551 AATTAAGACAAAAATATTTTTTCTTATCTA
1 AATTAAGACAAAAATATTTTTTCTTATCTA
* * *
14882581 AATTGAGAC--AAATATGTTTTCTTGTCTA
1 AATTAAGACAAAAATATTTTTTCTTATCTA
* * *
14882609 GATTAAGAGAAAAAAATATTTTTCTTATCTTA
1 AATTAAGACAAAAATAT-TTTTTCTTATC-TA
*
14882641 AATTAAGACAAACATATTTTTT-TTATCTA
1 AATTAAGACAAAAATATTTTTTCTTATCTA
* * * *
14882670 AATTAAGA-ATAAACATGTTTTCTTCTCTA
1 AATTAAGACAAAAATATTTTTTCTTATCTA
14882699 AATTAAGA-AAAA
1 AATTAAGACAAAA
14882711 CATGTTAAAG
Statistics
Matches: 106, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
28 32 0.30
29 27 0.25
30 18 0.17
31 14 0.13
32 15 0.14
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.41
Consensus pattern (30 bp):
AATTAAGACAAAAATATTTTTTCTTATCTA
Found at i:14882672 original size:29 final size:29
Alignment explanation
Indices: 14882551--14882713 Score: 152
Period size: 30 Copynumber: 5.5 Consensus size: 29
14882541 TCTTGTCTTT
*
14882551 AATTAAGACAAAAATATTTTTTCTTATCTA
1 AATTAAGACAAACATA-TTTTTCTTATCTA
* *
14882581 AATTGAGAC-AA-ATATGTTTTCTTGTCTA
1 AATTAAGACAAACATAT-TTTTCTTATCTA
* * *
14882609 GATTAAGAGAAAAAAATATTTTTCTTATCTTA
1 AATT-A-AGACAAACATATTTTTCTTATC-TA
*
14882641 AATTAAGACAAACATATTTTTTTTATCTA
1 AATTAAGACAAACATATTTTTCTTATCTA
* * *
14882670 AATTAAGAATAAACAT-GTTTTCTTCTCTA
1 AATTAAG-ACAAACATATTTTTCTTATCTA
*
14882699 AATTAAGAAAAACAT
1 AATTAAGACAAACAT
14882714 GTTAAAGCTG
Statistics
Matches: 111, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.01
28 24 0.22
29 28 0.25
30 37 0.33
31 12 0.11
32 9 0.08
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (29 bp):
AATTAAGACAAACATATTTTTCTTATCTA
Found at i:14882704 original size:90 final size:89
Alignment explanation
Indices: 14882541--14882710 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 89
14882531 TTAAGACAAC
* * * * *
14882541 TCTTGTCTTTAATTAAGACAAAAATATTTTTTCTTATCTAAATTGAGACAAATATGTTTTCTTGT
1 TCTTATCTTAAATTAAGACAAAAATATTTTTTCTTATCTAAATTAAGACAAACATGTTTTCTTCT
*
14882606 CTAGATTAAGAGAAAAAAATATTTT
66 CTAAATTAAGA-AAAAAAATATTTT
* *
14882631 TCTTATCTTAAATTAAGACAAACATATTTTTT-TTATCTAAATTAAGAATAAACATGTTTTCTTC
1 TCTTATCTTAAATTAAGACAAAAATATTTTTTCTTATCTAAATTAAG-ACAAACATGTTTTCTTC
14882695 TCTAAATTAAGAAAAA
65 TCTAAATTAAGAAAAA
14882711 CATGTTAAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
89 17 0.24
90 54 0.76
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (89 bp):
TCTTATCTTAAATTAAGACAAAAATATTTTTTCTTATCTAAATTAAGACAAACATGTTTTCTTCT
CTAAATTAAGAAAAAAAATATTTT
Found at i:14884614 original size:63 final size:63
Alignment explanation
Indices: 14884493--14884650 Score: 228
Period size: 63 Copynumber: 2.5 Consensus size: 63
14884483 GCATCATTAT
* * * *
14884493 CAGCATGTGCACTGCCCACTCCGCCCATGCACGATAGTAATTATCGCAACATCGTCATTCAAC
1 CAGCATGTGCACTGCCCACTCCGCACATGCACGATAGTAACTATCGAAACATCATCATTCAAC
* * *
14884556 CAGCATGTGCACTGCCCACTCCGCACATGCAC-AGTTGTAACTATTGAAACCTCATCATTCAAC
1 CAGCATGTGCACTGCCCACTCCGCACATGCACGA-TAGTAACTATCGAAACATCATCATTCAAC
*
14884619 CGGCATGTGCACTGCCCACTCCGCACATGCAC
1 CAGCATGTGCACTGCCCACTCCGCACATGCAC
14884651 TGTTACATCC
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
62 1 0.01
63 85 0.99
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (63 bp):
CAGCATGTGCACTGCCCACTCCGCACATGCACGATAGTAACTATCGAAACATCATCATTCAAC
Found at i:14889894 original size:19 final size:19
Alignment explanation
Indices: 14889870--14889907 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14889860 CCATTTAACT
*
14889870 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
14889889 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
14889908 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:14895731 original size:38 final size:38
Alignment explanation
Indices: 14895680--14895793 Score: 165
Period size: 38 Copynumber: 3.0 Consensus size: 38
14895670 CACACTCAGC
* ***
14895680 TCATGTGCACTCCCTACACACACAAGGCAATATCATCA
1 TCATGTGCACTCCCTACTCACACATTCCAATATCATCA
* *
14895718 TCATGTGCACTCCCTACTCGCACATTTCAATATCATCA
1 TCATGTGCACTCCCTACTCACACATTCCAATATCATCA
*
14895756 TCATGTGCACTCCTTACTCACACATTCCAATATCATCA
1 TCATGTGCACTCCCTACTCACACATTCCAATATCATCA
14895794 CACGCACTCC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 68 1.00
ACGTcount: A:0.30, C:0.34, G:0.08, T:0.28
Consensus pattern (38 bp):
TCATGTGCACTCCCTACTCACACATTCCAATATCATCA
Found at i:14895801 original size:35 final size:37
Alignment explanation
Indices: 14895707--14895804 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 37
14895697 ACACACAAGG
* * * *
14895707 CAATATCATCATCATGTGCACTCCCTACTCGCACATTT
1 CAATATCATCATCA-GCGCACTCCTTACTCACACATTC
*
14895745 CAATATCATCATCATGTGCACTCCTTACTCACACATTC
1 CAATATCATCATCA-GCGCACTCCTTACTCACACATTC
14895783 CAATATCATCA-CA-CGCACTCCT
1 CAATATCATCATCAGCGCACTCCT
14895805 ACCCACATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
35 8 0.14
37 2 0.04
38 46 0.82
ACGTcount: A:0.29, C:0.36, G:0.06, T:0.30
Consensus pattern (37 bp):
CAATATCATCATCAGCGCACTCCTTACTCACACATTC
Found at i:14895812 original size:32 final size:36
Alignment explanation
Indices: 14895707--14895816 Score: 116
Period size: 38 Copynumber: 3.0 Consensus size: 36
14895697 ACACACAAGG
* * *
14895707 CAATATCATCATCATGTGCACTCCCTACTCGCACATTT
1 CAATATCATCATCA-GCGCACT-CCTACTCACACATTC
*
14895745 CAATATCATCATCATGTGCACTCCTTACTCACACATTC
1 CAATATCATCATCA-GCGCACTCC-TACTCACACATTC
*
14895783 CAATATCATCA-CA-CGCACTCCTACCCACATCATT
1 CAATATCATCATCAGCGCACTCCTACTCACA-CATT
14895817 ACCGACATGT
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
34 7 0.11
35 11 0.17
37 4 0.06
38 44 0.67
ACGTcount: A:0.29, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
CAATATCATCATCAGCGCACTCCTACTCACACATTC
Found at i:14911748 original size:2 final size:2
Alignment explanation
Indices: 14911741--14911774 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14911731 GCACTTTTTA
*
14911741 AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14911775 GAAATTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14912455 original size:68 final size:68
Alignment explanation
Indices: 14912300--14912537 Score: 234
Period size: 68 Copynumber: 3.5 Consensus size: 68
14912290 CATGTTTGGT
* * *
14912300 ATGATGAATGCCATAAAATTATGTATATGATGTAAATTCCATATAA-CATATGAAATGATTAAGT
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATA-AACCATATGAGATGATGAAGT
14912364 ATGC
65 ATGC
** *
14912368 ATGATGTACA-G-TTTAAGATTGA-GTATATGATGTAAATTCCATAAACCATATGAGGTGATGAA
1 ATGATG-A-ATGCCATAAGATT-ATGTATATGATGTAAATTCCATAAACCATATGAGATGATGAA
14912430 GTATGC
63 GTATGC
* * * ** * * * *
14912436 ATGATGAATGCCATGAGATTATGAACATGATGTATTTTCCATATACTACATGAGATGATTG-AGA
1 ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATAAACCATATGAGATGA-TGAAGT
*
14912500 AAGC
65 ATGC
* *
14912504 ATGATGAATGCCATGAGATTATGTATATGGTGTA
1 ATGATGAATGCCATAAGATTATGTATATGATGTA
14912538 TTTTTCATAT
Statistics
Matches: 140, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
66 1 0.01
67 5 0.04
68 128 0.91
69 5 0.04
70 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (68 bp):
ATGATGAATGCCATAAGATTATGTATATGATGTAAATTCCATAAACCATATGAGATGATGAAGTA
TGC
Found at i:14913024 original size:21 final size:21
Alignment explanation
Indices: 14912995--14913036 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14912985 TGTGCTCAAA
*
14912995 GTATGGATACATATG-AAACAT
1 GTATCGATACAT-TGTAAACAT
14913016 GTATCGATACATTGTAAACAT
1 GTATCGATACATTGTAAACAT
14913037 AAATGCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (21 bp):
GTATCGATACATTGTAAACAT
Found at i:14914843 original size:23 final size:23
Alignment explanation
Indices: 14914797--14914844 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14914787 TTTCTAAATA
* *
14914797 ATTTCCACCCAAATCCATCCTAT
1 ATTTCCACACAAATCCATCATAT
14914820 ATTTCCACACATAATCCA-CATAT
1 ATTTCCACACA-AATCCATCATAT
14914843 AT
1 AT
14914845 GGTAGTAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.31
Consensus pattern (23 bp):
ATTTCCACACAAATCCATCATAT
Found at i:14920020 original size:37 final size:37
Alignment explanation
Indices: 14919957--14920062 Score: 92
Period size: 37 Copynumber: 2.9 Consensus size: 37
14919947 TTTTTTAATA
** *
14919957 AAAAATATTTTT-TTCTCTTATCAATTTTTTTTGAAGG
1 AAAAATATTTTTCTTCGATTA-AAATTTTTTTTGAAGG
** * *
14919994 AAAAGAT-TTTTTCTTAC-ATTAAAATTTTGGTTGTATG
1 AAAA-ATATTTTTCTT-CGATTAAAATTTTTTTTGAAGG
*
14920031 AAAAATATTTTTCTTCGATTAAAATATTTTTT
1 AAAAATATTTTTCTTCGATTAAAATTTTTTTT
14920063 ATGGTTAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
36 3 0.05
37 44 0.80
38 7 0.13
39 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (37 bp):
AAAAATATTTTTCTTCGATTAAAATTTTTTTTGAAGG
Found at i:14926829 original size:17 final size:17
Alignment explanation
Indices: 14926799--14926831 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14926789 TTCTTGATAA
14926799 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
14926816 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
14926832 TTATTGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:14927035 original size:28 final size:28
Alignment explanation
Indices: 14926973--14927146 Score: 179
Period size: 29 Copynumber: 6.0 Consensus size: 28
14926963 TTAAGCCAAC
* * *
14926973 TCTTGTCTTTAATTAAGACAAAAATATTTT
1 TCTTGTC-TAAATTAAGACAAACAT-GTTT
* *
14927003 ATCTTGTCTAAATTGAGACAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAACATGTTT
*
14927032 TCTTGTCTAGATTAAGACAAAAACTAT-TTT
1 TCTTGTCTAAATTAAGAC--AAAC-ATGTTT
* *
14927062 TCTTATCTTAAATTAAGACAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATGTTT
*
14927091 TCTCGTCTAAATTAAGACTAAACATGTTT
1 TCTTGTCTAAATTAAGAC-AAACATGTTT
*
14927120 TCTTATCTAAATTAAGACAAACATGTT
1 TCTTGTCTAAATTAAGACAAACATGTT
14927147 AAAATTGCCA
Statistics
Matches: 123, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
28 38 0.31
29 40 0.33
30 26 0.21
31 19 0.15
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATGTTT
Found at i:14927074 original size:59 final size:58
Alignment explanation
Indices: 14926983--14927146 Score: 217
Period size: 59 Copynumber: 2.8 Consensus size: 58
14926973 TCTTGTCTTT
* * * *
14926983 AATTAAGACAAAAA-TATTTTATCTTGTCTAAATTGAGACAAATATGTTTTCTTGTCTA
1 AATTAAGACAAAAACTATTTT-TCTTATCTAAATTAAGACAAACATGTTTTCTCGTCTA
* *
14927041 GATTAAGACAAAAACTATTTTTCTTATCTTAAATTAAGACAAACATATTTTCTCGTCTA
1 AATTAAGACAAAAACTATTTTTCTTATC-TAAATTAAGACAAACATGTTTTCTCGTCTA
*
14927100 AATTAAGAC-TAAAC-ATGTTTTCTTATCTAAATTAAGACAAACATGTT
1 AATTAAGACAAAAACTAT-TTTTCTTATCTAAATTAAGACAAACATGTT
14927147 AAAATTGCCA
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
57 21 0.22
58 33 0.35
59 40 0.43
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.39
Consensus pattern (58 bp):
AATTAAGACAAAAACTATTTTTCTTATCTAAATTAAGACAAACATGTTTTCTCGTCTA
Found at i:14927113 original size:29 final size:28
Alignment explanation
Indices: 14926973--14927143 Score: 180
Period size: 28 Copynumber: 5.9 Consensus size: 28
14926963 TTAAGCCAAC
* *
14926973 TCTTGTCTTTAATTAAGACAAAAATATTTT
1 TCTTGTC-TAAATTAAGACAAACATA-TTT
* * *
14927003 ATCTTGTCTAAATTGAGACAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAACATATTT
* *
14927032 TCTTGTCTAGATTAAGACAAAAACTATTTT
1 TCTTGTCTAAATTAAGACAAACA-TA-TTT
*
14927062 TCTTATCTTAAATTAAGACAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
* *
14927091 TCTCGTCTAAATTAAGACTAAACATGTTT
1 TCTTGTCTAAATTAAGAC-AAACATATTT
*
14927120 TCTTATCTAAATTAAGACAAACAT
1 TCTTGTCTAAATTAAGACAAACAT
14927144 GTTAAAATTG
Statistics
Matches: 120, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
28 37 0.31
29 37 0.31
30 25 0.21
31 21 0.17
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:14931353 original size:57 final size:57
Alignment explanation
Indices: 14931261--14931642 Score: 295
Period size: 57 Copynumber: 6.8 Consensus size: 57
14931251 GGCAGCTTTT
* * * * *
14931261 ACATGTTTGTCTTAATTTAGACAATAAAGCTTGTTTTCTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACTACAAAACATGTTTTGTCTTAATTTAGACAAGAAA
* * *
14931318 ACATGTTTGTCTTTATTTAGACTACAAAGCATGTTTT-TC-----CTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACTACAAAACATGTTTTGTCTTAATTTAGACAAGAAA
* * *
14931369 ACATGTTTTGTCTTAATTTAGA-TGAGAAAATATG-TTTGTCTTAATTTAGACATGAAA
1 ACATG-TTTGTCTTAATTTAGACT-ACAAAACATGTTTTGTCTTAATTTAGACAAGAAA
* * *
14931426 ACATATTTTGTCTTAATTTAGA-TAAGAAAACAAG-TTTGTCTTAATTTAGACAAGAAA
1 ACAT-GTTTGTCTTAATTTAGACT-ACAAAACATGTTTTGTCTTAATTTAGACAAGAAA
* **** * * * *
14931483 ACATGTTTG-CGTCAATTTCTTTTTTC-AAA-ATGTTTTATCCTAATTTAGATAAGAAA
1 ACATGTTTGTC-TTAATTT-AGACTACAAAACATGTTTTGTCTTAATTTAGACAAGAAA
* ** * * *
14931539 ATAACTTTGTCTTAATTTAGACTAGTAAAATATGTTTTGTCTTAATCTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACTA-CAAAACATGTTTTGTCTTAATTTAGACAAGAAA
* * ** * *
14931597 ACATGCTTGTCTCAATTTAGAGAATATAACATGTTTTGTCTTAATT
1 ACATGTTTGTCTTAATTTAGACTACAAAACATGTTTTGTCTTAATT
14931643 AAAAACAAGA
Statistics
Matches: 257, Mismatches: 51, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
51 20 0.08
52 24 0.09
55 4 0.02
56 47 0.18
57 121 0.47
58 41 0.16
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (57 bp):
ACATGTTTGTCTTAATTTAGACTACAAAACATGTTTTGTCTTAATTTAGACAAGAAA
Found at i:14931597 original size:29 final size:29
Alignment explanation
Indices: 14931261--14931642 Score: 290
Period size: 28 Copynumber: 13.6 Consensus size: 29
14931251 GGCAGCTTTT
*
14931261 ACATG-TTTGTCTTAATTTAGACAATAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* * *
14931289 GCTTGTTTTCTCTTAATTTAGACAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* * *
14931318 ACATG-TTTGTCTTTATTTAGACTACAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* *
14931346 GCATGTTTT-TC-----CTAGACAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
**
14931369 ACATGTTTTGTCTTAATTTAGATGAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* *
14931398 ATATG-TTTGTCTTAATTTAGACATGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* *
14931426 ACATATTTTGTCTTAATTTAGATAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
*
14931455 ACAAG-TTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* ********
14931483 ACATG-TTTG-CGTCAATTTCTTTTTTCAA
1 ACATGTTTTGTC-TTAATTTAGACAAGAAA
* * *
14931511 A-ATGTTTTATCCTAATTTAGATAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* ** *
14931539 ATA-ACTTTGTCTTAATTTAGACTAGTAAA
1 ACATGTTTTGTCTTAATTTAGACAAG-AAA
* *
14931568 ATATGTTTTGTCTTAATCTAGACAAGAAA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
* * * * *
14931597 ACATG-CTTGTCTCAATTTAGAGAATATA
1 ACATGTTTTGTCTTAATTTAGACAAGAAA
14931625 ACATGTTTTGTCTTAATT
1 ACATGTTTTGTCTTAATT
14931643 AAAAACAAGA
Statistics
Matches: 270, Mismatches: 68, Indels: 31
0.73 0.18 0.08
Matches are distributed among these distances:
23 17 0.06
24 2 0.01
27 4 0.01
28 140 0.52
29 89 0.33
30 18 0.07
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (29 bp):
ACATGTTTTGTCTTAATTTAGACAAGAAA
Found at i:14931630 original size:142 final size:141
Alignment explanation
Indices: 14931371--14931632 Score: 364
Period size: 142 Copynumber: 1.9 Consensus size: 141
14931361 ACAAGAAAAC
* * * **
14931371 ATGTTTTGTCTTAATTTAGATGAGAAAATATGTTTGTCTTAATTTAGACATGAAAACATATTTTG
1 ATGTTTTATCCTAATTTAGATAAGAAAATAACTTTGTCTTAATTTAGACATGAAAACATATTTTG
* * * *
14931436 TCTTAATTTAGATAAGAAAACAAGTTTGTCTTAATTTAGACAAGAAAACATGTTTGCGTCAATTT
66 TCTTAATCTAGACAAGAAAACAAGCTTGTCTCAATTTAGACAAGAAAACATGTTTGCGTCAATTT
14931501 CTTTTTTCAAA
131 CTTTTTTCAAA
* *
14931512 ATGTTTTATCCTAATTTAGATAAGAAAATAACTTTGTCTTAATTTAGAC-TAGTAAAATATGTTT
1 ATGTTTTATCCTAATTTAGATAAGAAAATAACTTTGTCTTAATTTAGACAT-G-AAAACATATTT
* * * *
14931576 TGTCTTAATCTAGACAAGAAAACATGCTTGTCTCAATTTAGAGAATATAACATGTTT
64 TGTCTTAATCTAGACAAGAAAACAAGCTTGTCTCAATTTAGACAAGAAAACATGTTT
14931633 TGTCTTAATT
Statistics
Matches: 104, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
140 1 0.01
141 45 0.43
142 58 0.56
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (141 bp):
ATGTTTTATCCTAATTTAGATAAGAAAATAACTTTGTCTTAATTTAGACATGAAAACATATTTTG
TCTTAATCTAGACAAGAAAACAAGCTTGTCTCAATTTAGACAAGAAAACATGTTTGCGTCAATTT
CTTTTTTCAAA
Found at i:14934199 original size:20 final size:20
Alignment explanation
Indices: 14934174--14934218 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
14934164 ATCTTACCTT
*
14934174 TTTTC-ACTTGTTTCCTTGAA
1 TTTTCAACTT-TTCCCTTGAA
14934194 TTTTCATACTTTTCCCTTGAA
1 TTTTCA-ACTTTTCCCTTGAA
14934215 TTTT
1 TTTT
14934219 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 13 0.59
22 4 0.18
ACGTcount: A:0.16, C:0.20, G:0.07, T:0.58
Consensus pattern (20 bp):
TTTTCAACTTTTCCCTTGAA
Found at i:14938860 original size:21 final size:22
Alignment explanation
Indices: 14938818--14938861 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
14938808 TACCAATGTC
*
14938818 CTTTTTTTGACCAACATGGTAA
1 CTTTTGTTGACCAACATGGTAA
*
14938840 CTTTTGTTGAGCAACAT-GTAA
1 CTTTTGTTGACCAACATGGTAA
14938861 C
1 C
14938862 AATTGTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (22 bp):
CTTTTGTTGACCAACATGGTAA
Found at i:14938867 original size:21 final size:22
Alignment explanation
Indices: 14938824--14938868 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
14938814 TGTCCTTTTT
**
14938824 TTGACCAACATGGTAACTTTTG
1 TTGACCAACATGGTAACAATTG
*
14938846 TTGAGCAACAT-GTAACAATTG
1 TTGACCAACATGGTAACAATTG
14938867 TT
1 TT
14938869 CATCAAGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (22 bp):
TTGACCAACATGGTAACAATTG
Found at i:14948693 original size:171 final size:169
Alignment explanation
Indices: 14948394--14949183 Score: 898
Period size: 171 Copynumber: 4.6 Consensus size: 169
14948384 NNNNNNNNNN
* * * * * *
14948394 CTTGAGGCAAATAATCAATTATCATCTGTTTTAACAAAAAAAATGTAAAAAAAATCAACTTAAAA
1 CTTGAGGTAAATAATCAATTATAATCTATTTTAAC---CAAAAGGTAAAAAAATTCAACTTAAAA
* * * * ** * *
14948459 TTATTTATGAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTAT
63 TCAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-ATCAAAGGCATGAGTGACTAT
* * **
14948524 AAATGAACTATTTTGGTCAATGGATGGCTTTTTTTTCACGTTT
127 AAATGAACTTTTTTTGTCAATGGATGGCTTTTGCTTCACGTTT
* * *
14948567 CTTGAGGTAAATATTCAATTATGATCTCTTTTAACCAAAAGGTAAAAAGAATTCAACTTAAAATC
1 CTTGAGGTAAATAATCAATTATAATCTATTTTAACCAAAAGGTAAAAA-AATTCAACTTAAAATC
* * * *
14948632 AATTATGAGATAATCAAACCATTTAAAGCGAGTAATAAGACTATCAAGGGCATGAGTGACTATAA
65 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGC-ATCAAAGGCATGAGTGACTATAA
* * * * * *
14948697 ATGGA-TTTTTCATGTTAATGGAAGACTTTTGCTTTACGTTT
129 ATGAACTTTTT-TTGTCAATGGATGGCTTTTGCTTCACGTTT
* * * * * *
14948738 CTTGAAGTAAACATTCAATTATAATCTATTTTAACTAAAATGATAAAGAAATTCAACTTAAAATC
1 CTTGAGGTAAATAATCAATTATAATCTATTTTAACCAAAA-GGTAAAAAAATTCAACTTAAAATC
* * *
14948803 AATTATGAGATTATAAAATCATTAAAAGCGAGTAATAAGGCATTCAAAGCCATGAGTGACTATAA
65 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCA-TCAAAGGCATGAGTGACTATAA
* * * *
14948868 ATGGATTTTTTTTGTCAATTGATGGCTTTCGCTTCACGTTT
129 ATGAACTTTTTTTGTCAATGGATGGCTTTTGCTTCACGTTT
* * * * *
14948909 CTCGAGGTAAATAGTCATTTGTAATCTATTTTAACCAAAAAAGGTAAAAAAGTTCAACTTAAAAT
1 CTTGAGGTAAATAATCAATTATAATCTATTTTAACC--AAAAGGTAAAAAAATTCAACTTAAAAT
* * * * *
14948974 CAATTATGAAATTATAAAACCATTTAAAGTGAGTAATAAGGCATTAGAAGGCAAGAGTAACTATA
64 CAATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCATCA-AAGGCATGAGTGACTATA
** *
14949039 AATGAACTTTTTTTCCCAATGGATGTCTTTTGCTTCACGTTT
128 AATGAACTTTTTTTGTCAATGGATGGCTTTTGCTTCACGTTT
**
14949081 CTCAAGGTAAATAATCAATTATAATCTATTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATC
1 CTTGAGGTAAATAATCAATTATAATCTATTTTAACC-AAAAGGTAAAAAAATTCAACTTAAAATC
* * *
14949146 AATTATGAGATTATGAAACAATTTAAAGCAAGTAATAA
65 AATTATGAGATTATAAAACCATTTAAAGCGAGTAATAA
14949184 AGCTTTGGAT
Statistics
Matches: 524, Mismatches: 85, Indels: 18
0.84 0.14 0.03
Matches are distributed among these distances:
170 16 0.03
171 321 0.61
172 152 0.29
173 35 0.07
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (169 bp):
CTTGAGGTAAATAATCAATTATAATCTATTTTAACCAAAAGGTAAAAAAATTCAACTTAAAATCA
ATTATGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCATCAAAGGCATGAGTGACTATAAAT
GAACTTTTTTTGTCAATGGATGGCTTTTGCTTCACGTTT
Found at i:14949140 original size:343 final size:342
Alignment explanation
Indices: 14948402--14949183 Score: 962
Period size: 343 Copynumber: 2.3 Consensus size: 342
14948392 NNCTTGAGGC
* * * * * *
14948402 AAATAATCAATTATCATCTGTTTTAACAAAAAAAATGTAAAAAAAATCAACTTAAAATTATTTAT
1 AAATAATCAATTATAATCTATTTTAAC--AAAAAAGGTAAAAAAATTCAACTTAAAATCAATTAT
* ** ** *
14948467 GAGATTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGGGTGACTATAAATGAAC
64 GAGATTATAAAATCATTTAAAGCGAGTAATAAGGCATTCAAAGCCATGAGTGACTATAAATGAAC
*** * * * *
14948532 TATTTTGGTCAATGGATGGCTTTTTTTTCACGTTTCTTGAGGTAAATATTCAATTATGATCTCTT
129 TATTTTGGTCAATGGATGGCTTTCGCTTCACGTTTCTCGAGGTAAATAGTCAATTATAATCTATT
* *
14948597 TTAACCAAAAGGTAAAAAGAATTCAACTTAAAATCAATTATGAGATAATCAAACCATTTAAAGCG
194 TTAACCAAAAGGTAAAAAGAATTCAACTTAAAATCAATTATGAAATAATAAAACCATTTAAAGCG
* * * * ***
14948662 AGTAATAAGACTATCAAGGGCATGAGTGACTATAAATGGATTTTTCATGTTAATGGAAGACTTTT
259 AGTAATAAGACTATCAAAGGCAAGAGTAACTATAAATGAATTTTTCATCCCAATGGAAGACTTTT
* *
14948727 GCTTTACGTTTCTTGAAGT
324 GCTTCACGTTTCTTCAAGT
* * * * * *
14948746 AAACATTCAATTATAATCTATTTTAACTAAAATGATAAAGAAATTCAACTTAAAATCAATTATGA
1 AAATAATCAATTATAATCTATTTTAACAAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGA
* * * *
14948811 GATTATAAAATCATTAAAAGCGAGTAATAAGGCATTCAAAGCCATGAGTGACTATAAATGGATTT
66 GATTATAAAATCATTTAAAGCGAGTAATAAGGCATTCAAAGCCATGAGTGACTATAAATGAACTA
* * * *
14948876 TTTTTGTCAATTGATGGCTTTCGCTTCACGTTTCTCGAGGTAAATAGTCATTTGTAATCTATTTT
131 TTTTGGTCAATGGATGGCTTTCGCTTCACGTTTCTCGAGGTAAATAGTCAATTATAATCTATTTT
* * *
14948941 AACCAAAAAAGGTAAAAA-AGTTCAACTTAAAATCAATTATGAAATTATAAAACCATTTAAAGTG
196 AACC--AAAAGGTAAAAAGAATTCAACTTAAAATCAATTATGAAATAATAAAACCATTTAAAGCG
* * * * *
14949005 AGTAATAAGGC-ATTAGAAGGCAAGAGTAACTATAAATGAACTTTTT-TTCCCAATGGATGTCTT
259 AGTAATAAGACTATCA-AAGGCAAGAGTAACTATAAATGAA-TTTTTCATCCCAATGGAAGACTT
14949068 TTGCTTCACGTTTC-TCAAGGT
322 TTGCTTCACGTTTCTTCAA-GT
*
14949089 AAATAATCAATTATAATCTATTTTAACCAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGA
1 AAATAATCAATTATAATCTATTTTAACAAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGA
* *
14949154 GATTATGAAA-CAATTTAAAGCAAGTAATAA
66 GATTATAAAATC-ATTTAAAGCGAGTAATAA
14949184 AGCTTTGGAT
Statistics
Matches: 371, Mismatches: 61, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
342 150 0.40
343 181 0.49
344 40 0.11
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (342 bp):
AAATAATCAATTATAATCTATTTTAACAAAAAAGGTAAAAAAATTCAACTTAAAATCAATTATGA
GATTATAAAATCATTTAAAGCGAGTAATAAGGCATTCAAAGCCATGAGTGACTATAAATGAACTA
TTTTGGTCAATGGATGGCTTTCGCTTCACGTTTCTCGAGGTAAATAGTCAATTATAATCTATTTT
AACCAAAAGGTAAAAAGAATTCAACTTAAAATCAATTATGAAATAATAAAACCATTTAAAGCGAG
TAATAAGACTATCAAAGGCAAGAGTAACTATAAATGAATTTTTCATCCCAATGGAAGACTTTTGC
TTCACGTTTCTTCAAGT
Found at i:14957720 original size:22 final size:22
Alignment explanation
Indices: 14957677--14957720 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14957667 TTTAAAACCA
* *
14957677 CTTTAAAACTAAAAACTTTGAT
1 CTTTAAAACCAAAAACTCTGAT
*
14957699 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
14957721 ACCAATCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:14961199 original size:171 final size:170
Alignment explanation
Indices: 14960892--14963936 Score: 2171
Period size: 171 Copynumber: 17.8 Consensus size: 170
14960882 AAATTACATG
* * * * * * *
14960892 TGAGTGACTGTATATGGACCTTTCTTGTCAATGGATGGGTTTTGCTTCACTTTTCTC-ATTACAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGA-TGCAA
* * * * * * * * *
14960956 GCATCCAATTATGATATGGTTTAACCAAAAATGAAAAACAATTCAATCTAATATCATTTTTAAAG
65 ACAACAAATTATGATATGTTTTAACCAAAAATGAGAAA-AATTCAATTTAAAACCATTTATAAAG
* * **
14961021 TTATAAAACCACTTAAAGCGAGTAACAAGGCTTTTGAATTCA
129 TTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * * * * * * * *
14961063 TTAGTGACTATAAATGGACGTTTGTTGTCAATGAAGGGCTTTCACTTCATGTTTTTGGATGCAAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGATGCAAA
* * * * * * * *
14961128 TATCAAATTATCATTTGTTTTAACCAACAATGAGAAACATTCAATTTTCAAACCATTTAT-AGGA
66 CAACAAATTATGATATGTTTTAACCAAAAATGAGAAAAATTCAA-TTTAAAACCATTTATAAAG-
* * * *
14961192 TTATAAAACCATTTAAAGGGAGTCACTAGGCTTTCGAAGGCA
129 TTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * * * * * *
14961234 TG-CTGACTATAAATGGACTTTTCTTATCAGTGGATGGCCTTCGTTTCACATTT-TCCCATGCAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCT-CGATGCAA
* * * * * * * * * * * *
14961297 GCAACGATTTATGGTATGTTTT-ACGAAAAAATGAAAAAAAAAACTCAACTCAGAATCATATAT-
65 ACAACAAATTATGATATGTTTTAAC-CAAAAATG---AGAAAAATTCAATTTAAAACCATTTATA
* * * ** * ** * ***
14961360 TAGATTATAAAACCATTTAACGCAAGCAATTAGGCTTTTGAAAAAA
126 AAG-TTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
** * * * * *
14961406 TGAGTGACTATAAATGCTCTTTTCTTGTCAATGGATGGCTTTC-ATTTACATTTCCTTG-TGGAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTT-CTCGATGCAA
* * * * *** * *
14961469 AGGAA-AAATTTTGATTTGTTTCAACCAAAAATGCA-AGAAAATTCAATTTAAAATTGTCTAAAA
65 A-CAACAAATTATGATATGTTTTAACCAAAAATG-AGA-AAAATTCAATTTAAAACCATTTATAA
* * *
14961532 AGTTATAAAACCACTTAATGTAAGTAACTAGGCTTTCGAAGGCA
127 AGTTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * * *
14961576 TGAGTGACTACAAATGGACTTTTCTTG-CAAATGGATGG-TTTTGCTTCACTTTTCTCAATGCAA
1 TGAGTGACTATAAATGGACTTTTCTTGTC-AATGGATGGCTTTCGCTTCACGTTTCTCGATGCAA
* * * * * * * * *
14961639 ACATCAAATTATGTTCT-TTTTAGAACAAAAATAAGAAAAATTTAATTTTCAAGCCATTCAT-AA
65 ACAACAAATTATGATATGTTTTA-ACCAAAAATGAGAAAAATTCAA-TTTAAAACCATTTATAAA
* * * ** *
14961702 GATTATAAAGCCATTTAAAGTGAGTAACTAGATTTTCGAAGGTA
128 G-TTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * * * * * * * *
14961746 TGAGTGACTATAAATGTACTCTTCCTATAAATGGATGGCTTTTGCTTGACATTGCTC-ATGCAAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGATGCAAA
* * * * * *
14961810 CAACAAAGTATGATCTGTTTTAATCAAAAATGAAAGAAAATTCAACTTAAAATCATTTATAAAGT
66 CAACAAATTATGATATGTTTTAACCAAAAATGAGA-AAAATTCAATTTAAAACCATTTATAAAGT
* * * *
14961875 TACAAAACCACTTAAAGCGAGTAATAAGGCTTTCGAAGGTA
130 TATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * * *
14961916 TGAGTGACCACAAATGGACTTTTCTTCT-AATTGGATGGCTTTCGCTTCACATTT-TCTGATGCA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAA-TGGATGGCTTTCGCTTCACGTTTCTC-GATGCA
* * * *
14961979 AACAACAAATTATGATTTGTTTTAACTAAAAATGAAAAACAATTCGATTTAAAACCATTTATAAA
64 AACAACAAATTATGATATGTTTTAACCAAAAATGAGAAA-AATTCAATTTAAAACCATTTATAAA
* * * *
14962044 GTTATAAAACCACTTAAAGTGGGCAACAAGGCTTTCAAAGCCA
128 GTTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * ** *
14962087 TGAGTGACTACAAATGGACTTTTATTGTCAATGGATGGCTTTCAATTCACGTTTC-CTGATTCAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTC-GATGCAA
* * * * * * *
14962151 GCAACTAATTATGATATGTTTTTATCAAAAATGA-AAGCAAATTCAACTTAAAATCATTTATAAT
65 ACAACAAATTATGATATGTTTTAACCAAAAATGAGAA--AAATTCAATTTAAAACCATTTATAAA
* * *
14962215 GTTACAAAATCA-TGTAAAGTGAGTAACAAGGCTTTCAAAGGCA
128 GTTATAAAACCACT-TAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * ** * *
14962258 TGAGTGACTATAAATGGACGTTTCTTCT-AATCGGATGGCTTTTACTTCACGTTTCCCAATGCAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAAT-GGATGGCTTTCGCTTCACGTTTCTCGATGCAA
* * * * *
14962322 ATAACAAATTATGATATGTTTTAACCAAAAGTGAAAAAAATTCAATTTAAAACCACTTATAAATT
65 ACAACAAATTATGATATGTTTTAACCAAAAATGAGAAAAATTCAATTTAAAACCATTTATAAAGT
* *
14962387 TGTAAAACCA-TTAAAAGTGAGTAACAAGGCTTTTGAAGGCA
130 TATAAAACCACTT-AAAGTGAGTAACAAGGCTTTCGAAGGCA
* * * * * * * * **
14962428 TGAGTGATTATATATGGACTTTTCTTATCAAGGGATGGGTTTTGCTTCATGTTTC-CCATTAAAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGATGCAAA
* * ** * *
14962492 GCATCCAATTATGATATGTTTTAATTAAAAATGGAAAAACAATTCAATTTAAAATCATTCT-TAA
66 -CAACAAATTATGATATGTTTTAACCAAAAAT-GAGAAA-AATTCAATTTAAAACCATT-TATAA
14962556 AGTTATAAAACCACTTAAA-TCGAGTAACAAGGCTTTCGAAGGCA
127 AGTTATAAAACCACTTAAAGT-GAGTAACAAGGCTTTCGAAGGCA
* * * * * * * ** * *
14962600 TTAGTGAGTACAAATGGA-TGCTTGTTGTCAATGGATAGCTGTCGCTTCGTGTTTCCCAATGCAA
1 TGAGTGACTATAAATGGACT-TTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGATGCAA
* * * * *
14962664 ACATCAAATTATCATCTGTTTTAACCAAAAATGAGAAACATTCAATTTTAAAACCATTTAT-AGG
65 ACAACAAATTATGATATGTTTTAACCAAAAATGAGAAAAATTCAA-TTTAAAACCATTTATAAAG
* * * *
14962728 ATTATAAAA-CATTTAAAGGGAGTCACTAGGCTTTCGAAGGCA
129 -TTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * * * *
14962770 TGA-TGACTACAAATGAACATTTCTTGTCAATGGATGGCTTTCGTTTCACATTT-TCGAATGCAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCG-ATGCAA
* * * * * * *
14962833 ACAACAAATTATGGTCA-GTTTTAGCCAAAAATGAAAAAAAAAACTCAACTCAAAATCATTTAT-
65 ACAACAAATTATGAT-ATGTTTTAACCAAAAATG---AGAAAAATTCAATTTAAAACCATTTATA
** ** * * *
14962896 AAGATTATAAAACCGTTTAAAGCAAGCAACTAGGCTTTCGAAGCCA
126 AAG-TTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * * *
14962942 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCATTCGCTT-ACGTTTCCCAATGGAAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGATGCAAA
** *** * * * * * *
14963006 CAACAAATTATGACCTGTTTTAATTGAAAATGAAAGAAAATTTAATTTAAAATTCGTCTAAAAAG
66 CAACAAATTATGATATGTTTTAACCAAAAATGAGA-AAAATTCAATTTAAAA-CCATTTATAAAG
* ** * * *
14963071 TTATAAATCCACTTAAAACGAGTAACTAGGCCTTCAAAGGCA
129 TTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * ** * ** * * *
14963113 TGAGTTACTACAAACAGACTTTTCTT-ACTAAT-GAAAGCTTTTGCTTCACGTTCCCCGATGCAA
1 TGAGTGACTATAAATGGACTTTTCTTGTC-AATGGATGGCTTTCGCTTCACGTTTCTCGATGCAA
* * * * * *
14963176 ACATCAAATTATGATCT-TTTTAGA-AAAAAATGAGAAAAATTTAATTTTTAAATCATTTAT-AA
65 ACAACAAATTATGATATGTTTTA-ACCAAAAATGAGAAAAATTCAA-TTTAAAACCATTTATAAA
* * * *
14963238 GATTCTAAAACCATTTAAAGTGAGTAACAAGACTTTCAAAGGCA
128 G-TTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * * *
14963282 TAAGTGACTATAAATGTACTTTTCTTGTCAATGGGTGGCTTTCGCTT-ACGTTTC-CTAATGCAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTC-GATGCAA
* * * * * * *
14963345 ACAATAAATTGTGATCTGTTTTAACCAATAATGAAAAAAATTTCAATTTAAAATCATTTCTAAAG
65 ACAACAAATTATGATATGTTTTAACCAAAAATGAGAAAAA-TTCAATTTAAAACCATTTATAAAG
* * * * *
14963410 TGATAAAATCACTTAATGTGAGTAACCATGCTTTCGAAGGCA
129 TTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * * * * *
14963452 TGAGTGACTACAAATGGACATTTT-TTGTCAATGGACGACTTTCGCTTCAAGTTTCCCGATTCAA
1 TGAGTGACTATAAATGGAC-TTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGATGCAA
* * * * * * ** * * * * * *
14963516 ACAACTAGTTTTGTTCTATTTTTTCCAAAAATGAAAGAAAATTCAACTGAAGATCATTTA-CAAG
65 ACAACAAATTATGATATGTTTTAACCAAAAATGAGA-AAAATTCAATTTAAAACCATTTATAAAG
* * *** * * *
14963580 TTTATAAAATCATTTAAAGTGAGTAACAAGAAATACAAAGGCT
129 -TTATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
* * * * * * *
14963623 TGAGTGACTATAAATGGACTTTTCCTCTTATTGGATGGCTTTCGCTTCATGTTTCCCTATGCAAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGATGCAAA
* * * * * *
14963688 CAACAAATTATGATATGTTTTGACCAGAAATGAAAAAAGAATCAATTTTAAACCATTTACAAAGT
66 CAACAAATTATGATATGTTTTAACCAAAAATGAGAAAA-ATTCAATTTAAAACCATTTATAAAGT
* * * *
14963753 TGTAAAACCACTGAAAGTTAGTCACAAGGCTTGT-GAAGGCA
130 TATAAAACCACTTAAAGTGAGTAACAAGGCTT-TCGAAGGCA
* * * * * * * *
14963794 TAAGTGACTACAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTTATGTTTCCCAATTCAAA
1 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGATGCAAA
* * * * ** * * * * *
14963859 CAACTAGTTATGATCTGTTTTCATGAACAATGAAACAAAATTCAACTTAAAATCTTTTATAAAGT
66 CAACAAATTATGATATGTTTTAACCAAAAATGAGA-AAAATTCAATTTAAAACCATTTATAAAGT
*
14963924 TATAAAAGCACTT
130 TATAAAACCACTT
14963937 TATGCGGAGT
Statistics
Matches: 2256, Mismatches: 529, Indels: 178
0.76 0.18 0.06
Matches are distributed among these distances:
168 5 0.00
169 210 0.09
170 710 0.31
171 943 0.42
172 292 0.13
173 95 0.04
174 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (170 bp):
TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCTCGATGCAAA
CAACAAATTATGATATGTTTTAACCAAAAATGAGAAAAATTCAATTTAAAACCATTTATAAAGTT
ATAAAACCACTTAAAGTGAGTAACAAGGCTTTCGAAGGCA
Found at i:14962447 original size:512 final size:509
Alignment explanation
Indices: 14960905--14963936 Score: 2420
Period size: 512 Copynumber: 5.9 Consensus size: 509
14960895 GTGACTGTAT
* * * * * * * * *
14960905 ATGGACCTTTCTTGTCAATGGATGGGTTTTGCTTCACTTTTCTC-ATTACAAGCATCCAATTATG
1 ATGGACTTTTCTTGTCAATGGATGGCTTTCGCTT-ACATTTCCCGA-TGCAAACAACAAATTATG
* * * * * *
14960969 ATATGGTTTAACCAAAAATGAAA-AACAATTCAATCTAATATCATTTTTAAAGTTATAAAACCAC
64 ATTTGTTTTAACTAAAAATGAAAGAA-AATTCAATTTAAAATCATTTATAAAGTTATAAAACCAC
* ** ** * * * * *
14961033 TTAAAGCGAGTAACAAGGCTTTTGAATTCATTAGTGACTATAAATGGACGTTTGTTGTCAATGAA
128 TTAAAGTGAGTAACAAGGCTTTCAAAGGCATGAGTGACTACAAATGGACTTTTCTTGTCAATGGA
** * * *** * * * * * *
14961098 GGGCTTTCACTTCATGTTTTTGGATGCAAATATCAAATTATCATTTGTTTTAACCAACAATGAGA
193 TAGCTTTCGCTTCACGTTTCCCGATGCAAACAACAAATTATGATATGTTTTTACCAAAAATGAGA
* * * * * * * *
14961163 AACATTCAATTTTCAAACCATTTATAGGATTATAAAACCATTTAAAGGGAGTCACTAGGCTTTCG
258 AAAATTCAATTTTAAAACCATTTATAAGATTACAAAACCATGTAAAGTGAGTAACAAGGCTTTCG
* * * * * *
14961228 AAGGCATG-CTGACTATAAATGGACTTTTCTTATCAGTGGATGGCCTTCGTTTCACATTTTCCC-
323 AAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCAC-GTTTCCCA
* * * * * * * * *
14961291 ATGCAAGCAACGATTTATGGTATGTTTT-ACGAAAAAATGAAAAAAAAAACTCAACTCAGAATCA
387 ATGCAAACAACAAATTATGATCTGTTTTAAC--CAAAATG---AAAAAAATTCAACTTAAAATCA
* * * * * * ** * *** *
14961355 TATATTAGATTATAAAACCATTTAACGCAAGCAATTAGGCTTTTGAAAAAATGAGTGACTATAA
447 TTTA-TAAATTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTACAA
** ** * * * *
14961419 ATGCTCTTTTCTTGTCAATGGATGGCTTTCATTTACATTTCCTTG-TGGAAAGGAA-AAATTTTG
1 ATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTACATTTCC-CGATGCAAA-CAACAAATTATG
* * * ** * *
14961482 ATTTGTTTCAACCAAAAATGCAAGAAAATTCAATTTAAAATTGTCTAAAAAGTTATAAAACCACT
64 ATTTGTTTTAACTAAAAATGAAAGAAAATTCAATTTAAAATCATTTATAAAGTTATAAAACCACT
* * * *
14961547 TAATGTAAGTAACTAGGCTTTCGAAGGCATGAGTGACTACAAATGGACTTTTCTTG-CAAATGGA
129 TAAAGTGAGTAACAAGGCTTTCAAAGGCATGAGTGACTACAAATGGACTTTTCTTGTC-AATGGA
* * * * * * * * *
14961611 T-GGTTTTGCTTCACTTTTCTCAATGCAAACATCAAATTATG-T-TCTTTTTAGAACAAAAATAA
193 TAGCTTTCGCTTCACGTTTCCCGATGCAAACAACAAATTATGATATGTTTTT--ACCAAAAATGA
* * * * * * * * **
14961673 GAAAAATTTAATTTTCAAGCCATTCATAAGATTATAAAGCCATTTAAAGTGAGTAACTAGATTTT
256 GAAAAATTCAATTTTAAAACCATTTATAAGATTACAAAACCATGTAAAGTGAGTAACAAGGCTTT
* * * * * * * * * * *
14961738 CGAAGGTATGAGTGACTATAAATGTACTCTTCCTATAAATGGATGGCTTTTGCTTGACATTGCTC
321 CGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCC
* *
14961803 -ATGCAAACAACAAAGTATGATCTGTTTTAATCAAAAATGAAAGAAAATTCAACTTAAAATCATT
386 AATGCAAACAACAAATTATGATCTGTTTTAA-CCAAAATGAAA-AAAATTCAACTTAAAATCATT
* * * *
14961867 TATAAAGTTACAAAACCACTTAAAGCGAGTAATAAGGCTTTCGAAGGTATGAGTGACCACAA
449 TATAAA-TTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTACAA
* * *
14961929 ATGGACTTTTCTTCT-AATTGGATGGCTTTCGCTTCACATTTTCTGATGCAAACAACAAATTATG
1 ATGGACTTTTCTTGTCAA-TGGATGGCTTTCGCTT-ACATTTCCCGATGCAAACAACAAATTATG
* *
14961993 ATTTGTTTTAACTAAAAATGAAA-AACAATTCGATTTAAAACCATTTATAAAGTTATAAAACCAC
64 ATTTGTTTTAACTAAAAATGAAAGAA-AATTCAATTTAAAATCATTTATAAAGTTATAAAACCAC
* * * *
14962057 TTAAAGTGGGCAACAAGGCTTTCAAAGCCATGAGTGACTACAAATGGACTTTTATTGTCAATGGA
128 TTAAAGTGAGTAACAAGGCTTTCAAAGGCATGAGTGACTACAAATGGACTTTTCTTGTCAATGGA
* ** * * * * *
14962122 TGGCTTTCAATTCACGTTTCCTGATTCAAGCAACTAATTATGATATGTTTTTATCAAAAATGA-A
193 TAGCTTTCGCTTCACGTTTCCCGATGCAAACAACAAATTATGATATGTTTTTACCAAAAATGAGA
* * *
14962186 AGCAAATTCAA-CTTAAAATCATTTATAATG-TTACAAAATCATGTAAAGTGAGTAACAAGGCTT
258 A--AAATTCAATTTTAAAACCATTTATAA-GATTACAAAACCATGTAAAGTGAGTAACAAGGCTT
* * * **
14962249 TCAAAGGCATGAGTGACTATAAATGGACGTTTCTTCT-AATCGGATGGCTTTTACTTCACGTTTC
320 TCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAAT-GGATGGCTTTCGCTTCACGTTTC
* * * * *
14962313 CCAATGCAAATAACAAATTATGATATGTTTTAACCAAAAGTGAAAAAAATTCAATTTAAAACCAC
384 CCAATGCAAACAACAAATTATGATCTGTTTTAACCAAAA-TGAAAAAAATTCAACTTAAAATCAT
* * * * * *
14962378 TTATAAATTTGTAAAACCA-TTAAAAGTGAGTAACAAGGCTTTTGAAGGCATGAGTGATTATAT
448 TTATAAA-TTATAAAACCACTT-AAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTACAA
* * * * ** * *
14962441 ATGGACTTTTCTTATCAAGGGATGGGTTTTGCTT-CATGTTTCCC-ATTAAAAGCATCCAATTAT
1 ATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTACA--TTTCCCGATGCAAA-CAACAAATTAT
* *
14962504 GATATGTTTTAATTAAAAATGGAAA-AACAATTCAATTTAAAATCATTCT-TAAAGTTATAAAAC
63 GATTTGTTTTAACTAAAAAT-GAAAGAA-AATTCAATTTAAAATCATT-TATAAAGTTATAAAAC
* * * * *
14962567 CACTTAAA-TCGAGTAACAAGGCTTTCGAAGGCATTAGTGAGTACAAATGGA-TGCTTGTTGTCA
125 CACTTAAAGT-GAGTAACAAGGCTTTCAAAGGCATGAGTGACTACAAATGGACT-TTTCTTGTCA
* ** * * * * *
14962630 ATGGATAGCTGTCGCTTCGTGTTTCCCAATGCAAACATCAAATTATCATCTGTTTTAACCAAAAA
188 ATGGATAGCTTTCGCTTCACGTTTCCCGATGCAAACAACAAATTATGATATGTTTTTACCAAAAA
* * * * * * *
14962695 TGAGAAACATTCAATTTTAAAACCATTTATAGGATTATAAAA-CATTTAAAGGGAGTCACTAGGC
253 TGAGAAAAATTCAATTTTAAAACCATTTATAAGATTACAAAACCATGTAAAGTGAGTAACAAGGC
* * * * *
14962759 TTTCGAAGGCATGA-TGACTACAAATGAACATTTCTTGTCAATGGATGGCTTTCGTTTCACATTT
318 TTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTT
* * * * * * *
14962823 TCGAATGCAAACAACAAATTATGGTCAGTTTTAGCCAAAAATGAAAAAAAAAACTCAACTCAAAA
383 CCCAATGCAAACAACAAATTATGATCTGTTTTAACC-AAAATG---AAAAAAATTCAACTTAAAA
** * * * * *
14962888 TCATTTATAAGATTATAAAACCGTTTAAAGCAAGCAACTAGGCTTTCGAAGCCATGAGTGACTAT
444 TCATTTATAA-ATTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTAC
14962953 AA
508 AA
* * * * *
14962955 ATGGACTTTTCTTGTCAATGGATGGCATTCGCTTACGTTTCCCAATGGAAACAACAAATTATGAC
1 ATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTACATTTCCCGATGCAAACAACAAATTATGAT
* * * * * * * *
14963020 CTGTTTTAATTGAAAATGAAAGAAAATTTAATTTAAAATTCGTCTAAAAAGTTATAAATCCACTT
66 TTGTTTTAACTAAAAATGAAAGAAAATTCAATTTAAAA-TCATTTATAAAGTTATAAAACCACTT
** * * * ** * *
14963085 AAAACGAGTAACTAGGCCTTCAAAGGCATGAGTTACTACAAACAGACTTTTCTT-ACTAAT-GAA
130 AAAGTGAGTAACAAGGCTTTCAAAGGCATGAGTGACTACAAATGGACTTTTCTTGTC-AATGGAT
* * * * **
14963148 AGCTTTTGCTTCACGTTCCCCGATGCAAACATCAAATTATG--ATCTTTTTAGAAAAAAATGAGA
194 AGCTTTCGCTTCACGTTTCCCGATGCAAACAACAAATTATGATATGTTTTTA-CCAAAAATGAGA
* * * * *
14963211 AAAATTTAATTTTTAAATCATTTATAAGATT-CTAAAACCATTTAAAGTGAGTAACAAGACTTTC
258 AAAATTCAATTTTAAAACCATTTATAAGATTAC-AAAACCATGTAAAGTGAGTAACAAGGCTTTC
* * * * *
14963275 AAAGGCATAAGTGACTATAAATGTACTTTTCTTGTCAATGGGTGGCTTTCGCTT-ACGTTTCCTA
322 GAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCCA
* * *
14963339 ATGCAAACAATAAATTGTGATCTGTTTTAACCAATAATGAAAAAAATTTCAATTTAAAATCATTT
387 ATGCAAACAACAAATTATGATCTGTTTTAACCAA-AATGAAAAAAA-TTCAACTTAAAATCATTT
* * * * * * *
14963404 CTAAAGTGATAAAATCACTTAATGTGAGTAACCATGCTTTCGAAGGCATGAGTGACTACAA
450 ATAAA-TTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTACAA
* * * * * *
14963465 ATGGACATTTT-TTGTCAATGGACGACTTTCGCTT-CAAGTTTCCCGATTCAAACAACTAGTTTT
1 ATGGAC-TTTTCTTGTCAATGGATGGCTTTCGCTTAC-A-TTTCCCGATGCAAACAACAAATTAT
* ** * * * * * *
14963528 G-TTCTATTTTTTCCAAAAATGAAAGAAAATTCAACTGAAGATCATTTA-CAAGTTTATAAAATC
63 GATT-TGTTTTAACTAAAAATGAAAGAAAATTCAATTTAAAATCATTTATAAAG-TTATAAAACC
* *** * * * * * * *
14963591 ATTTAAAGTGAGTAACAAGAAATACAAAGGCTTGAGTGACTATAAATGGACTTTTCCTCTTATTG
126 ACTTAAAGTGAGTAACAAGGCTTTCAAAGGCATGAGTGACTACAAATGGACTTTTCTTGTCAATG
* * * * *
14963656 GATGGCTTTCGCTTCATGTTTCCCTATGCAAACAACAAATTATGATATGTTTTGACCAGAAATGA
191 GATAGCTTTCGCTTCACGTTTCCCGATGCAAACAACAAATTATGATATGTTTTTACCAAAAATGA
* * * ** * *
14963721 AAAAAGAATCAATTTT-AAACCATTTACAA-AGTTGTAAAACCACTG-AAAGTTAGTCACAAGGC
256 GAAAA-ATTCAATTTTAAAACCATTTATAAGA-TTACAAAACCA-TGTAAAGTGAGTAACAAGGC
* * * * *
14963783 TTGT-GAAGGCATAAGTGACTACAAATGGACTTTTCTTGTCAATGGATGGCTTTCACTTTATGTT
318 TT-TCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTT
* * * * **
14963847 TCCCAATTCAAACAACTAGTTATGATCTGTTTTCATGAACAATGAAACAAAATTCAACTTAAAAT
382 TCCCAATGCAAACAACAAATTATGATCTGTTTTAACCAA-AATGAAA-AAAATTCAACTTAAAAT
* *
14963912 CTTTTATAAAGTTATAAAAGCACTT
445 CATTTATAAA-TTATAAAACCACTT
14963937 TATGCGGAGT
Statistics
Matches: 2005, Mismatches: 436, Indels: 155
0.77 0.17 0.06
Matches are distributed among these distances:
509 20 0.01
510 253 0.13
511 340 0.17
512 658 0.33
513 585 0.29
514 145 0.07
515 4 0.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (509 bp):
ATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTACATTTCCCGATGCAAACAACAAATTATGAT
TTGTTTTAACTAAAAATGAAAGAAAATTCAATTTAAAATCATTTATAAAGTTATAAAACCACTTA
AAGTGAGTAACAAGGCTTTCAAAGGCATGAGTGACTACAAATGGACTTTTCTTGTCAATGGATAG
CTTTCGCTTCACGTTTCCCGATGCAAACAACAAATTATGATATGTTTTTACCAAAAATGAGAAAA
ATTCAATTTTAAAACCATTTATAAGATTACAAAACCATGTAAAGTGAGTAACAAGGCTTTCGAAG
GCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCCAATGC
AAACAACAAATTATGATCTGTTTTAACCAAAATGAAAAAAATTCAACTTAAAATCATTTATAAAT
TATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGTGACTACAA
Found at i:14966032 original size:170 final size:171
Alignment explanation
Indices: 14964960--14971101 Score: 4940
Period size: 171 Copynumber: 36.0 Consensus size: 171
14964950 ATAAAAAAAA
* * * * * *
14964960 AGTAACAAGGCTTT-TAAGGCATGAGTGACTACAAATGGACTTTTCTTATTAATGGATGGCTTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * * * * *
14965024 GCTTCACGTTTCCCAATTCAAACAACTAGTTATGATATGTTTTTATCAAAAATGAAGGAACACTC
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAAATTC
* * * *
14965089 AACTTAAAATCATTTATAATGTTACAAAACCATTTAAAACG
131 AATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * * *
14965130 AGTAACAAGGCTTTTGAAGGCACGAGTGACTATCAATGGACTTTTCATCTC-ATCGGATGGCTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAAT-GGATGGCTTT
* * *
14965194 CGCTTCACGCTT-CCTGATGTAAACAACAAATTATGATCTT-TTTTAACCAAAAATGAAAAAAAA
65 CGCTTCACGTTTCCCT-ATGCAAACAACAAATTATGAT-TTGTTTTAACCAAAAATG-AAAGAAA
* * * * *
14965257 ATTCAATTTAAAATTATTTATAAAGTCATAAAACCACTTGAAGTG
127 ATTCAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * * *
14965302 AGTAACAAGGCTTTCGAAGGCATGAGTGACTGTATATGGACCTTTCTTGTCAATGGATGGGTTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * * *
14965367 GCTTCAC-TATTCCC-ATTACAAGCATCCAAGTATGATATGGTTTAACCAAAAATGGAAAAAAAA
66 GCTTCACGT-TTCCCTA-TGCAAACAACAAATTATGATTTGTTTTAACCAAAAAT-GAAAGAAAA
* * *
14965430 TTCAATTTAATATCATTTTTAAAGTTATAAAACCACTTAAAGCG
128 TTCAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * ** * * *
14965474 AGTAACAAGGCTTTTGAAGGCATTAGTGACTACAAATGGACGCTTGTTGTCAATGGAGGGCTTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
*** * * *
14965539 GCTTCACGTTTCTAGATGCAAATATCAAATTATCATTTGTTTTAACCAAAAATG--AGAAACATT
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAA-ATT
* * * * *
14965602 TAATTTTCAAACCATTTAT-ACGATTATAAAACCATTTAAAGGG
130 CAA-TTTAAAATCATTTATAAAG-TTATAAAACCATTTAAAGCG
* * *
14965645 AGTCACTAGGCTTTCGAAGGCATG-CTGACTATAAATGGACTTTTCTTGTCAGTGGATGGCTTTC
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * * *** * *
14965709 GTTTCACATTTCCCCATGCAAGCAACAATTTATGGTATGTTTTAGGGAAAAATGAAAAAAAAAAC
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATG--AAAGAAAAT
* * * * *
14965774 TCAACTCAAAATCATATAT-TAGATTATAAAACCATTTAAAGCA
129 TCAATTTAAAATCATTTATAAAG-TTATAAAACCATTTAAAGCG
* ** * *
14965817 AGCAACTAGGCTTTCGAAGAAATGAGTGACTATAAATGAACTTTTCTTGTCAATAGATGGCTTTC
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * * *
14965882 GCTT-ACATTTCCCTATGGAAAGAACAAATTTTGATTTGTTTCAACCCAAAATGCAAGAAAATTT
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAAATTC
** * * **
14965946 AATTTAAAATTGTCTAAAAAGTTATAAAACCATTTAAAGTA
131 AATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * *
14965987 AGTAACTAGGCTTTCAAAGGCATGAGTTACTACAAATGGACTTTTCTTG-CTAATGGATGG-TTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTC-AATGGATGGCTTT
* * ** *
14966050 TGCTTCACGTTT-CCTAATGCAAACATCAAATTATG-TTCCTTTTGAAACAAAAATG--AGAAAA
65 CGCTTCACGTTTCCCT-ATGCAAACAACAAATTATGATTTGTTTT-AACCAAAAATGAAAGAAAA
* * * *
14966111 GTTTAATTTTCAAATCATTCAT-AAGATTATAAAACCATTTAAAGTG
128 -TTCAA-TTTAAAATCATTTATAAAG-TTATAAAACCATTTAAAGCG
* * * *
14966157 AGTAACTAGACTTTCGAAGGCATGAGTGACTATAAATGTACTCTTCTTGTCAATGGATGGCTTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
*** * * * *
14966222 GCTTCGTATTTCTCGATGCAAACAACAAATTATGATCTGTTTTAA-TAATAAATGAAAGAAAATT
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAA-AAATGAAAGAAAATT
* * **
14966286 CAACTTAAAATCATTTATAAAGTTACAAAATAATTTAAAGCG
130 CAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * *
14966328 AGTAA-TAGGGCTTCCGAAGGCATGAGTGACCACAAATGGACTTTTCTTCT-AATTTGATGGC-T
1 AGTAACTA-GGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA-TGGATGGCTT
* * * *
14966390 TCGCTTCACATTT-CCTGATGCAAATAACAAATTATGATATGTTTTAACTAAAAATGAAA-AATA
64 TCGCTTCACGTTTCCCT-ATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAA-A
* * * *
14966453 ATTCAATTCAAAACCATCTATAAAGTTATAAAACCACTTAAAGCTG
127 ATTCAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGC-G
* * * * * *
14966499 -GCAACAAGGCTTTCGAAGCCATGAGTGACTACAAATGGACTTTTCTTGTCAATAGATGGCTTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * * **
14966563 GCTTCACGTTT-CCTAATTCAAGCAACTAGTTATGATCTGTTTTTATCAAAAATGAAAGTCAATT
66 GCTTCACGTTTCCCT-ATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAAATT
* * * * * *
14966627 CAACTTAAAATCATTTAGAATGTTACAAAATCATTTAAAGTG
130 CAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * * *
14966669 AGTAACAAGGCTTTCAAAGGCATGAGCGAATATAAATGGACGTTTCTTCT-AATTGGATGGCTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA-TGGATGGCTTT
* * * * * *
14966733 TGCTTCACGTTTCCCAATACAAATAACAAATTATGATATGTTTTAACCAAAAGTGAAA-AAAATT
65 CGCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAAATT
* * * * * * *
14966797 CAATTTAAAACCACTTATAAATTTGTAAAATCACTTAAAGTG
130 CAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * *
14966839 AGTAA-TAAGGCTTTCGAAGGCATGAGTGACTATATATGGACTTTTCTTGTCAA-GGGTGGGTTT
1 AGTAACT-AGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTT
* * ** * * ** *
14966902 TGCTTCACTTTTCCC-ATTAAAAGC-ACTCAATTATGATATGTTTTAATTAAAAATGGAAAAACA
65 CGCTTCACGTTTCCCTATGCAAA-CAAC-AAATTATGATTTGTTTTAACCAAAAAT-G--AAAGA
* * * *
14966965 AAATT-AATTTAAAATCGTTCT-TAATGTTATAAGACCACTTAAAGCG
125 AAATTCAATTTAAAATCATT-TATAAAGTTATAAAACCATTTAAAGCG
* * * * *
14967011 AGTAACAAGGCTTTCGAAGGCATTAGTGAGTATAATTGGA-TGTTTGC-TGTCAATGGATGGCTG
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACT-TTT-CTTGTCAATGGATGGCTT
** * * * * * *
14967074 TCGCTTCGTGTTTCACAAAGCAAACATCAAATTATCATATGTTTTAACCAAAAATG--AGAAACA
64 TCGCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAA-A
* *
14967137 TTCAATTTTAAAA-CAATTTAT-AGGATTATAAAA-CATTTAAAGGG
128 TTCAA-TTTAAAATC-ATTTATAAAG-TTATAAAACCATTTAAAGCG
* * * * *
14967181 AGTCACTAGGCTTTCGAAGGCATG-CTGACTATAAATGAACATTTCTTGTCAATGGATTGCTTTC
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * ** * * *
14967245 GTTTCACATTTTCCAATGAAAACAACAAATTATGGTCAGTTTTAGCCAAAAATGAAAAAAAAAAC
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATG--AAAGAAAAT
* * * * * *
14967310 TCAACTCAAAATTATTTAT-AAGATTATAAAATCGTTTAAAGCA
129 TCAATTTAAAATCATTTATAAAG-TTATAAAACCATTTAAAGCG
* * * *
14967353 AGCAACTAGGCTTTCGAAGCCATTAGTGACTATAAATGGACTTTTCTTGTCTATGGATGGCTTTC
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * *
14967418 GCTT-ACGTTTCCATATGCAAACAACAAATTATGATCTGTTTTAATCGAAAGTGAAAGAAAATTT
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAAATTC
** * * *
14967482 AATTTAAAATCATCGAAAAAGTTATAAAACCACTTAAAACG
131 AATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * * * * *
14967523 AGTAACTAGACATTCAAAGGCATGAGTTAATACAAATGGACTTTTCTTG-CTAATGAAAGGCTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTC-AATGGATGGCTTT
* * * * * *
14967587 TGCTTCACG-TTCCTCGATGCAAACATCAAATTATGATCT-TTTTAGAACAAAATTGAAA-AAAA
65 CGCTTCACGTTTCC-CTATGCAAACAACAAATTATGATTTGTTTTA-ACCAAAAATGAAAGAAAA
* * *
14967649 TTCAATTTTTAAATCATTTAT-AAGATTCTAAAACCATTTAAAGTG
128 TTCAA-TTTAAAATCATTTATAAAG-TTATAAAACCATTTAAAGCG
* * * **
14967694 AGTAACAAGACTTTCGAAGGCATAAGTGACTATAAATTTACTTTTCTTGTCAATGGATGGCTTTC
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
** * * * * * * * * *
14967759 GCTT-ATATTTCCCAATGAAAATAATAAGTTATGATATG-TATAACCAAAAATGAAAAAAAAAAT
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATG-AAAGAAAATT
* * * *
14967822 CAATTTAAAATCATTTATAAAGTGATAAAACCACTTAATGTG
130 CAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * *
14967864 AGTAA-TAAGGCTTTCGAAGGCATGAGTGACTACAAATGGACATTTCTTGTCAATGGATGACTTT
1 AGTAACT-AGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTT
* * * * * * * * **
14967928 CGCTTCACGTTTCTCGATTCAAACGACTAGTTTTG-TTCTATTTTTGCCAAAAATGAAAGAAAAT
65 CGCTTCACGTTTCCCTATGCAAACAACAAATTATGATT-TGTTTTAACCAAAAATGAAAGAAAAT
* * * * * * *
14967992 TCAACTGAAGATCATTTACAAGGTTATAAAATCATTTAAAGTG
129 TCAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* *** * * * * * * *
14968035 AGTAACAAGAAATACAAAGGCTTGAGTGACTATAAATGGACTTTTCCTCTTATTGGATGGCTTTC
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * *
14968100 GCTTAACGTTT--CTCT--AAACAATAAATTATGATCTATTTTAACCAAAAATGAAA-AAAGAAT
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAA-ATT
* * * * * *
14968160 CAATTTTAAACCATTTACAAAGTTGTAAAACCACTTAAAGTG
130 CAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * * **
14968202 AGTCACAAGGCTTAT-GAAGGCATAAGTGACTACAAATGGACTTTTCTTGTTAATGGATCTCTTT
1 AGTAACTAGGCTT-TCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTT
* * * * * * * * *
14968266 CACTTTACGTTTCCCAATTCAAACAA-ATAGTTATGATATGTTTTTATCAAAAATGAAAGAAAAC
65 CGCTTCACGTTTCCCTATGCAAACAACA-AATTATGATTTGTTTTAACCAAAAATGAAAGAAAAT
* * * ** * ** *
14968330 CCGACTTAAAATCATTTATAAAGTTATAAAAGTACTTAGCGCA
129 TCAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * * *
14968373 AGTAACAAGGCTTTTGAAGGCATGAGTGACTACAGATGGACTTTTCTTGTTAATGGATGGCTTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * *
14968438 GCTTCACGTTTCCCAATTCAAACAACTAGTTTTGATCTGCTTTT-ATCAAAAATGAAAGAAAATT
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTG-TTTTAACCAAAAATGAAAGAAAATT
* * *
14968502 CAACTTAAAATCATTTATAAAGTTACAAAACCATTTAAAACG
130 CAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * * * *
14968544 AGTAACAAGGCTTTTGAAGGCATAAGTGACTATCAATGGACTTTTCATCTC-ATCAGATGGCTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAAT-GGATGGCTTT
* * * * *
14968608 CGCTTCACGTTT-TCGATGCAAACAACAAATTATGATCTCTTTTAACCAAAAATGAAAAAAAAAT
65 CGCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATG-AAAGAAAAT
* * * * * *
14968672 TCAATTTAAAATCATTTATGAAGTCATAAAACTACTTGAAGTG
129 TCAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * * * *
14968715 AGTAACAAGGCTTTCGAAGGCATGAGTGACTGTATATGGACCTTTCTTGTTAATGGATGGGTTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * * *
14968780 GCTTCACTTTTCTC-ATTACAAGCATCCAATTATGATATGGTTTAACCAAAAATGGAAA-AAAAT
66 GCTTCACGTTTCCCTA-TGCAAACAACAAATTATGATTTGTTTTAACCAAAAAT-GAAAGAAAAT
* * *
14968843 TCAATTTAATATCATTTTTAAAGTTATAAAACCACTTAAAGCG
129 TCAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * * * * *
14968886 AGTAACAAGGCTTTTGAAGGCATTAGTGACTACAAATGGACGTTTGTTGTCAATGGAGGGCTTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
*** * * *
14968951 GCTTCACGTTTCTGGATGCAAATATCAAATTATCATTTGTTTTAACCAAAAATG--AGAAACATT
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAA-ATT
* * * *
14969014 CAATTTTCAAACCATTTAT-AGGATTATAAAACCATTTAAAGGG
130 CAA-TTTAAAATCATTTATAAAG-TTATAAAACCATTTAAAGCG
* *
14969057 AGTCACTAGGCTTTCGAAGGCATG-TTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * * * * *
14969121 GTTTCACATTTCCCCATGCAAGCAAGAATTTATGGTCTGTTTTAGA-GAAAAATGAAAAAAAAAA
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTA-ACCAAAAATG---AAAGAAA
* * * * * * *
14969185 ACTCAACTCAAAATCATATAT-TAGATTGTAAAACCATTTAAAGCA
127 ATTCAATTTAAAATCATTTATAAAG-TTATAAAACCATTTAAAGCG
* ** * * *
14969230 AGCAACTAGGCTTTCGAAGAAATGAGTGGCTATAAATGCACTTTTTTTGTCAATGGATGGCTTTC
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * * *
14969295 GCTT-ACATTTCCTTGTGGAAAGAACAAATTTTGATTTGTTTCAACCAAAAATGCAAGAAAATTC
66 GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAAATTC
** * * *
14969359 AATTTAAAATTGTTTAAAAAGTTATAAAACCACTTAAAGTG
131 AATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * *
14969400 AGTAATTAGGCTTTCAAAGGCATGAGTGACTACAAATAGACTTTTCTTG-CTAATGGATGG-TTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTC-AATGGATGGCTTT
* * * * ** *
14969463 TGCTTCACGTTTCCCAATGAAAACACCAAATTATG-TTCATTTTGGAA-CAAAAATGAGA-AAAA
65 CGCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTT--AACCAAAAATGAAAGAAAA
* * *
14969525 TTTAATTTACAAATCATTCAT-AAGATTATAAAACCATTTAAAGTG
128 TTCAATTTA-AAATCATTTATAAAG-TTATAAAACCATTTAAAGCG
* * * * * *
14969570 AGTAACTAGACTTTCGAAGTCATGAGTGACTATAAATGTACTCTTCCTGTCAATGGATGGCTTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * **
14969635 GCTTCGCATTTCTCGATGCAAACAACAAATTACT-ATCTGTTTTAATAAAAAATGAAAGAAAATT
66 GCTTCACGTTTCCCTATGCAAACAACAAATTA-TGATTTGTTTTAACCAAAAATGAAAGAAAATT
* * * *
14969699 CAACTTAAGATCATTTGTAAAGTTACAAAACTCATTTAAAGCG
130 CAATTTAAAATCATTTATAAAGTTATAAAAC-CATTTAAAGCG
* * * * *
14969742 AGTAA-TAGGGCTTTTGAAGGCATGAGTGACCACATATGGACTTTTCTTCT-AATTGGATGGCTT
1 AGTAACTA-GGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA-TGGATGGCTT
* *
14969805 TCGCTTCACATTT-CCTGATGCAAACAACAAATTATGATTTGTTTTAACTAAAAATGAAA-AATA
64 TCGCTTCACGTTTCCCT-ATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAA-A
* * * *
14969868 ATTCAATTTAAAACCATTTATAAAGTTCTAAAACCACTTAAAGTG
127 ATTCAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * *
14969913 AGCAA-TAAGGCTTTCAAAGCCATGAGTGACTACAAATGAACTTTTCTTGTCAATGGATGGCTTT
1 AGTAACT-AGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTT
* * * * * * * **
14969977 CGCTTCACGTTT-CCTAATTCAAGCAACTAGTTATGATATGTTTTTATCAAAAATGAAAGCCAAT
65 CGCTTCACGTTTCCCT-ATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAAAT
* * *
14970041 TCAACTTAAAATCATTTA-AAATGTTACAAAATCATTTAAAGCG
129 TCAATTTAAAATCATTTATAAA-GTTATAAAACCATTTAAAGCG
** * ** * *
14970084 AGTAA-TAAGGCTTTTAAAGGCATTAGCAACTATAAATGGACGTTTCTTCT-AATTGGATGGCTT
1 AGTAACT-AGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAA-TGGATGGCTT
* * * *
14970147 TCGCTTCACGTTTCCCAATGCAAATAACAAATTATGATATGTTTTAACCAAAAGTGAAA-AAAAT
64 TCGCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAAAT
* * * * * * *
14970211 TCAATTTAAAACCACTTATAAATTTGTAAAAGCACTTAAAGTG
129 TCAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * *
14970254 AGTAA-TAAGACTTTCGAAAGCATGAGTGACTATATATGGACTTTTCTTGTCAA-GTGATGGGTT
1 AGTAACT-AGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATG-GATGGCTT
* * * * * * * ** *
14970317 TTGCTTCACTTTTCCC-ATTACAAGCATCCAATTATGATATGTTTTAATTAAAAATGGAAAAAAA
64 TCGCTTCACGTTTCCCTA-TGCAAACAACAAATTATGATTTGTTTTAACCAAAAAT-G-AAAGAA
*
14970381 AATTCAATTTAAAATCATTCT-TAAAGTTATAAAACCACTTAAAGCG
126 AATTCAATTTAAAATCATT-TATAAAGTTATAAAACCATTTAAAGCG
* * * * *
14970427 AGTAACAAGGCTTTCAAAGCCATGAGTGAC-AGTAAATGGACTTTTCTTTTTAATGGATGGCTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTA-TAAATGGACTTTTCTTGTCAATGGATGGCTTT
** * * * * * * * *
14970491 CGCTTCATATTT-CCTGATTCAAGCAACTAGTTATGATTTATTTTTATCAAAAATGAAAGCAAAT
65 CGCTTCACGTTTCCCT-ATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAAAT
* * * *
14970555 TCAACTTAAAATCATTTATAAAGTTATAAAGCCACTTAAAGCA
129 TCAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * ** * * * *
14970598 AGCAACAAGGCTGACCAAGGCATGAGTGACT-TCAAATGGACTTTTTTTTTCAATGGAT-ACTTT
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTAT-AAATGGACTTTTCTTGTCAATGGATGGCTTT
* * * * * * * *
14970661 CACTTCACGTTTCTCAATTCAAAGAACTAGTTATG-TTCTGTTTTTACC-AAAATGAAAGAAAAT
65 CGCTTCACGTTTCCCTATGCAAACAACAAATTATGATT-TGTTTTAACCAAAAATGAAAGAAAAT
* * * * *
14970724 TTAATTGAAAATCATTCATTAAGGTAT-AAACCATTTAAAGCG
129 TCAATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * *
14970766 AGTAACAAGGCTTTCGAAGCCTTGAGTGACTATAAATGGACTTTTCTTCTCATTGGATGGCTTTC
1 AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* ** * * * * * *
14970831 GCTTCACGTTT-CTTGGCGCAAGCAACAAATT-TCGATATGTTTTAGCAAAAAATGATA-ACAAT
66 GCTTCACGTTTCCCT-ATGCAAACAACAAATTAT-GATTTGTTTTAACCAAAAATGAAAGAAAAT
* *
14970893 GTC-ATTTGAAAATCATATAGAAAGTTATAAAACCATTTAAAGCG
129 -TCAATTT-AAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
* * * * *
14970937 AGTAA-TAATGCTTTCGAAGGCATGAGTGACTACAAATAGATTTTTCTTCTCAATGGATGGCTTT
1 AGTAACT-AGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTT
* * * * * * *
14971001 TGCTTCACATTT-CCTAATTCAAACAACTAGTTATGATTTGTTTT-ATCAAAAATGAGAGAAAAT
65 CGCTTCACGTTTCCCT-ATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAAAT
* *
14971064 TCAACTTAAAATCATTTATAAAGTTACAAAACCATTTA
129 TCAATTTAAAATCATTTATAAAGTTATAAAACCATTTA
14971102 GAACGTGTAA
Statistics
Matches: 4754, Mismatches: 1031, Indels: 374
0.77 0.17 0.06
Matches are distributed among these distances:
166 3 0.00
167 122 0.03
168 80 0.02
169 276 0.06
170 1309 0.28
171 1803 0.38
172 742 0.16
173 359 0.08
174 56 0.01
175 4 0.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (171 bp):
AGTAACTAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
GCTTCACGTTTCCCTATGCAAACAACAAATTATGATTTGTTTTAACCAAAAATGAAAGAAAATTC
AATTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
Found at i:14975928 original size:40 final size:38
Alignment explanation
Indices: 14975828--14975930 Score: 116
Period size: 38 Copynumber: 2.7 Consensus size: 38
14975818 AAAGTGCCCG
* *
14975828 TGTGCACGATGTGGGGGGATGCACACGATGGCACTAAT
1 TGTGCACGATGTGGGGGGATGCACACGATGCCACGAAT
* * * **
14975866 TGTGCACTATGTGGGGGAATGCACACGATGACCCCGGCT
1 TGTGCACGATGTGGGGGGATGCACACGATG-CCACGAAT
*
14975905 ATGTGTACGATGTGGGGGGATGCACA
1 -TGTGCACGATGTGGGGGGATGCACA
14975931 TGAGCTAGGT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 28 0.53
39 3 0.06
40 22 0.42
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.21
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGCACACGATGCCACGAAT
Found at i:14977831 original size:19 final size:19
Alignment explanation
Indices: 14977817--14977861 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
14977807 AAGAAAAAGC
*
14977817 GAGAAATAAAAGAAAGAAA
1 GAGAAAGAAAAGAAAGAAA
14977836 GAGAAAGAAAAGAAAGAAA
1 GAGAAAGAAAAGAAAGAAA
14977855 GGAGAAA
1 -GAGAAA
14977862 AGGGAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (19 bp):
GAGAAAGAAAAGAAAGAAA
Found at i:14977833 original size:23 final size:21
Alignment explanation
Indices: 14977807--14977854 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
14977797 ACCCGAGAGC
*
14977807 AAGAAAAAGCGAGAAATAAAAGA
1 AAGAAAAA--GAGAAAGAAAAGA
14977830 AAG--AAAGAGAAAGAAAAGA
1 AAGAAAAAGAGAAAGAAAAGA
14977849 AAGAAA
1 AAGAAA
14977855 GGAGAAAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
19 15 0.68
21 4 0.18
23 3 0.14
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (21 bp):
AAGAAAAAGAGAAAGAAAAGA
Found at i:14977849 original size:9 final size:9
Alignment explanation
Indices: 14977818--14977854 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
14977808 AGAAAAAGCG
*
14977818 AGAAATAAA
1 AGAAAGAAA
14977827 AGAAAGAAA
1 AGAAAGAAA
14977836 GAGAAAGAAA
1 -AGAAAGAAA
14977846 AGAAAGAAA
1 AGAAAGAAA
14977855 GGAGAAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (9 bp):
AGAAAGAAA
Found at i:14981374 original size:16 final size:16
Alignment explanation
Indices: 14981353--14981384 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14981343 CAGTACTTTC
*
14981353 AATTTCATCTGAAACA
1 AATTTCATCTAAAACA
14981369 AATTTCATCTAAAACA
1 AATTTCATCTAAAACA
14981385 TCTAAAGCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (16 bp):
AATTTCATCTAAAACA
Found at i:14981476 original size:20 final size:20
Alignment explanation
Indices: 14981453--14981493 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
14981443 ATCAACTCTC
*
14981453 ATTTCATTTCATATAAATCA
1 ATTTCATTTCATAAAAATCA
14981473 ATTTCATTTCATAAAAATCA
1 ATTTCATTTCATAAAAATCA
14981493 A
1 A
14981494 CAAGGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTCATTTCATAAAAATCA
Found at i:14982483 original size:66 final size:66
Alignment explanation
Indices: 14982374--14982505 Score: 194
Period size: 66 Copynumber: 2.0 Consensus size: 66
14982364 GAATAAGAAT
* * *
14982374 TGTCACGACCCAGAACTCCCATTGGGCCTATGACAACCGCCGCGACGTTCCGATAAGCACTCATT
1 TGTCACGACCCAGAACTCCCATCGGGCCCATGACAACCGCCGCGACGTCCCGATAAGCACTCATT
14982439 A
66 A
* * *
14982440 TGTCATGACCC-GAAACTCCCATCGGGCCCATGACAACCTCCGCGACGTCCCGATAGGCACTCAT
1 TGTCACGACCCAG-AACTCCCATCGGGCCCATGACAACCGCCGCGACGTCCCGATAAGCACTCAT
14982504 TA
65 TA
14982506 CCCTGAATGC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 1 0.02
66 58 0.98
ACGTcount: A:0.25, C:0.36, G:0.20, T:0.19
Consensus pattern (66 bp):
TGTCACGACCCAGAACTCCCATCGGGCCCATGACAACCGCCGCGACGTCCCGATAAGCACTCATT
A
Found at i:14993237 original size:13 final size:13
Alignment explanation
Indices: 14993219--14993243 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14993209 TTTCAGAAAA
14993219 TTTATAAAATCAT
1 TTTATAAAATCAT
14993232 TTTATAAAATCA
1 TTTATAAAATCA
14993244 CAATTTCTCT
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:14999929 original size:20 final size:20
Alignment explanation
Indices: 14999884--14999921 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14999874 TTTTGGCTCC
14999884 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
14999904 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
14999922 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:15001179 original size:15 final size:16
Alignment explanation
Indices: 15001149--15001183 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15001139 ATAAAATATT
15001149 ATGTTTTTCAATTAAA
1 ATGTTTTTCAATTAAA
* *
15001165 ATGTTTTTTAATAAAA
1 ATGTTTTTCAATTAAA
15001181 ATG
1 ATG
15001184 AAATTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (16 bp):
ATGTTTTTCAATTAAA
Found at i:15001664 original size:129 final size:129
Alignment explanation
Indices: 15001434--15001686 Score: 407
Period size: 129 Copynumber: 2.0 Consensus size: 129
15001424 TATTAAAAGG
* *
15001434 TCACTGCAGTGGTGGGGGTTTCCGTGGACTGCCTATGAGAGGGGTACGATAACCCAATTATATAT
1 TCACTGCAGTGGTGGGGGTTTCCGTGGACTGCCTATGAGAGGGGCACGATAACCCAATTATATAC
15001499 TTACCTCCGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCTCACGA
66 TTACCTCCGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCTCACGA
* * * *
15001563 TCACTGCAGTGGTTGGGGTTTTCGTGGACTGCCTATGAGAGGGGCACGGTAACTCAATTATATAC
1 TCACTGCAGTGGTGGGGGTTTCCGTGGACTGCCTATGAGAGGGGCACGATAACCCAATTATATAC
* * * * *
15001628 TTACCTTCTGGGGGAGATGTTGGGTGAAGTATCTCCTGAGGTATGATTTGAGTGCACCT
66 TTACCTCCGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCT
15001687 TAAGTTCGGG
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 113 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (129 bp):
TCACTGCAGTGGTGGGGGTTTCCGTGGACTGCCTATGAGAGGGGCACGATAACCCAATTATATAC
TTACCTCCGGGGGGAGATGTTGGATGAAGTATCTCCTGAGGTAAGATTTGAATGCACCTCACGA
Found at i:15014515 original size:37 final size:37
Alignment explanation
Indices: 15014446--15014571 Score: 161
Period size: 37 Copynumber: 3.4 Consensus size: 37
15014436 TACACCGTCC
*
15014446 CACTTCATTCATCATCA--TGTGCACTCCATACTCGCA
1 CACTTCA-TCATCATCATGTGTGCACTCCCTACTCGCA
15014482 CA-TTCTATCATCATCATGTGTGCACTCCCTACTCGCA
1 CACTTC-ATCATCATCATGTGTGCACTCCCTACTCGCA
* * *
15014519 CACTTCAACATCATTATGTGTGCACTCCCTACTCACA
1 CACTTCATCATCATCATGTGTGCACTCCCTACTCGCA
15014556 CACTTCAAT-ATCATCA
1 CACTTC-ATCATCATCA
15014572 CACAACATTA
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
35 12 0.15
36 3 0.04
37 60 0.76
38 4 0.05
ACGTcount: A:0.26, C:0.35, G:0.08, T:0.31
Consensus pattern (37 bp):
CACTTCATCATCATCATGTGTGCACTCCCTACTCGCA
Found at i:15014588 original size:20 final size:21
Alignment explanation
Indices: 15014565--15014607 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
15014555 ACACTTCAAT
*
15014565 ATCATCACACAACAT-TATTC
1 ATCAACACACAACATATATTC
* *
15014585 ATCAACGCACAGCATATATTC
1 ATCAACACACAACATATATTC
15014606 AT
1 AT
15014608 ATATATACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.28
Consensus pattern (21 bp):
ATCAACACACAACATATATTC
Found at i:15015089 original size:20 final size:20
Alignment explanation
Indices: 15015064--15015104 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15015054 ATAAGCCTTG
*
15015064 TTGATTTTTATGAAATGAAA
1 TTGATTTGTATGAAATGAAA
15015084 TTGATTTGTATGAAATGAAA
1 TTGATTTGTATGAAATGAAA
15015104 T
1 T
15015105 GAGATTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (20 bp):
TTGATTTGTATGAAATGAAA
Found at i:15015120 original size:25 final size:25
Alignment explanation
Indices: 15015073--15015121 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
15015063 GTTGATTTTT
*
15015073 ATGAAATGAAATTGATTTGTATGAA
1 ATGAAATGAAATTGATGTGTATGAA
*
15015098 ATGAAATGAGATTTGATGT-TATGA
1 ATGAAATGA-AATTGATGTGTATGA
15015122 TTCATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (25 bp):
ATGAAATGAAATTGATGTGTATGAA
Found at i:15020641 original size:37 final size:37
Alignment explanation
Indices: 15020593--15020702 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 37
15020583 TCATCGTTAT
15020593 GTGCACTCCCTACTCGCACACTTCAACATCATCACAA
1 GTGCACTCCCTACTCGCACACTTCAACATCATCACAA
* ***
15020630 GTGCACCCCCTACTCGCACACTTCAACATCATCATGT
1 GTGCACTCCCTACTCGCACACTTCAACATCATCACAA
15020667 GTGCACTCCCTACTCGCACACTTCAACATCATCACA
1 GTGCACTCCCTACTCGCACACTTCAACATCATCACA
15020703 CAACATTATT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.41, G:0.09, T:0.23
Consensus pattern (37 bp):
GTGCACTCCCTACTCGCACACTTCAACATCATCACAA
Found at i:15020718 original size:20 final size:21
Alignment explanation
Indices: 15020693--15020734 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
15020683 CACACTTCAA
15020693 CATCATCACACAACAT-TATT
1 CATCATCACACAACATATATT
**
15020713 CATCATTGCACAACATATATT
1 CATCATCACACAACATATATT
15020734 C
1 C
15020735 TTATATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.38, C:0.29, G:0.02, T:0.31
Consensus pattern (21 bp):
CATCATCACACAACATATATT
Found at i:15021401 original size:20 final size:20
Alignment explanation
Indices: 15021376--15021415 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15021366 AAAAGAACAA
15021376 GAAGCTACTGGTA-AAATGAG
1 GAAGCTACTGG-AGAAATGAG
15021396 GAAGCTACTGGAGAAATGAG
1 GAAGCTACTGGAGAAATGAG
15021416 ATATTTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.40, C:0.10, G:0.33, T:0.17
Consensus pattern (20 bp):
GAAGCTACTGGAGAAATGAG
Found at i:15022453 original size:171 final size:171
Alignment explanation
Indices: 15022083--15023433 Score: 1367
Period size: 171 Copynumber: 7.9 Consensus size: 171
15022073 TTACAGAACA
* * * * *
15022083 AGTAACAAGGCTTTCGAAGGCATGAATGACTATAAATGGACTTTTCTTCTCATTGGATTGTTTTC
1 AGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * * * * *
15022148 ACTTCATGTTTTTCAATGCAAACAACAAATTATGATC-CATTTTAACCAAAATTGAAAAAAAATA
66 GCTTCACGTTTCTCTATTCAAACAACTAGTTATGATCTGATTTT-ACCAAAAAT-AAAAGAAA-A
*
15022212 TTCAATTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGC-
128 TTCAACTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCG
* * *
15022255 AGGTGACAAGGCTTTCGAAGCCATGAGTGACTAAAAATGGACTTTTCTTGTCAATGGATGGCTTT
1 A-GTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTT
* * *
15022320 CGCTTTACGTTTCTCTACTCAAACAACTAGTTATGATATGATTTTACCAAAAATAAAAGAAAATT
65 CGCTTCACGTTTCTCTATTCAAACAACTAGTTATGATCTGATTTTACCAAAAATAAAAGAAAATT
*
15022385 CAACTTAAAATCATTTATAAAGTTATAAAACCATTTAAAGCG
130 CAACTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCG
* * * * *
15022427 AGTAACAAGGCTTTTGAAGGCATGAGTGACTATAAATGGACTTTTCTTCTCATTGGATGGTTTTT
1 AGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * *
15022492 GTTTCACGTTTCTCAATGCAAACAGCAAATTATGATCT-ATTTTAACC----ATAGAAA-AAAA-
66 GCTTCACGTTTCTCTATTCAAACAACTAGTTATGATCTGATTTT-ACCAAAAATA-AAAGAAAAT
* * * * * *
15022550 TCAATTTTATACCATTTATAAAGTTGTAAAATCACTTAAAGCG
129 TCAACTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCG
* * *
15022593 AGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTGTGAATGGATGGCTTTC
1 AGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * ** **
15022658 GCTTCGCGTTTTTCAATTCAAACAACTAGTTATTATCTGTTTTTATAAAAAACGAAAGAAAATTC
66 GCTTCACGTTTCTCTATTCAAACAACTAGTTATGATCTGATTTTACCAAAAATAAAAGAAAATTC
* *
15022723 AACTTAAAATCATTTATAAAGTTATAAAGCCACTTAAAGCA
131 AACTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCG
* * *
15022764 AGTAACAAGG-TTTGCGAAGGTAAGAGTGACTACAAATGGACTTTTCTTGTCAATGGATGGCTTT
1 AGTAACAAGGCTTT-CGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTT
* * * *
15022828 CGCTTCACGTTTC-CTATTTCAAACAATTAGTTATGTTCTGTTTTTACCAAAAA-AGAATGAAAA
65 CGCTTCACGTTTCTCTA-TTCAAACAACTAGTTATGATCTGATTTTACCAAAAATA-AAAGAAAA
* * * *
15022891 TTCAACTAAAAATTATTTATAAAGTTATAAAACCATTTAAAGTG
128 TTCAACTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCG
* * * * *
15022935 AGTAACAAGGTTTTTGAAGGCTTGAGTGACTATAAATGGACTTTTCTTCTCATTGGATGGCTTTC
1 AGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * *
15023000 GCTTCATGTTTC-CTGATGCAAACAACAAATTATGATCTG-TTATAACGAAAAA-AGAAA-ACAA
66 GCTTCACGTTTCTCT-ATTCAAACAACTAGTTATGATCTGATT-TTACCAAAAATA-AAAGAAAA
* * * *
15023061 TTCAATTTAAAATGATTTATAAAGTTGTAAAA-CACTAAAAGCG
128 TTCAACTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCG
* ** * * * * *
15023104 ACTAACAAGGCTTTTAAAGGCATGAGTTATTACAAATGGACTTTTCTTGTGAATGGATGACTTTC
1 AGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * *
15023169 GCTTCATGTTTACT-GATTCAAACAACTAGTTACGATCTG-TTTTCACCAAAAATGAAAGAAAAT
66 GCTTCACGTTT-CTCTATTCAAACAACTAGTTATGATCTGATTTT-ACCAAAAATAAAAGAAAAT
* * **
15023232 TCAACTTAAAATCATTT-TAAACTTATAAAACCACTTGAAGTA
129 TCAACTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCG
* ** * * * *
15023274 AGTAACAAGGGTTTTAAAGGCATGAATGACTACAAATGGACTTTTTTTGTCAATGGAGGGCTTTC
1 AGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
* * * * * * * * * * *
15023339 ACTTCATGTTTC-CAAATTCAAATAGCTAGTTATGGTATGTTTTTATCAAGAATGAAAGAAAATT
66 GCTTCACGTTTCTC-TATTCAAACAACTAGTTATGATCTGATTTTACCAAAAATAAAAGAAAA-T
*
15023403 TCAACTTAAAATCATTTATAAAGTTACAAAA
129 TCAACTTAAAATCATTTATAAAGTTATAAAA
15023434 TGTGAAACCT
Statistics
Matches: 980, Mismatches: 170, Indels: 58
0.81 0.14 0.05
Matches are distributed among these distances:
166 124 0.13
167 11 0.01
168 4 0.00
169 120 0.12
170 176 0.18
171 425 0.43
172 24 0.02
173 91 0.09
174 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (171 bp):
AGTAACAAGGCTTTCGAAGGCATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTC
GCTTCACGTTTCTCTATTCAAACAACTAGTTATGATCTGATTTTACCAAAAATAAAAGAAAATTC
AACTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCG
Found at i:15022718 original size:337 final size:339
Alignment explanation
Indices: 15022083--15023433 Score: 1403
Period size: 337 Copynumber: 4.0 Consensus size: 339
15022073 TTACAGAACA
* * * * *
15022083 AGTAACAAGGCTTTCGAAGGCATGAATGACTATAAATGGACTTTTCTTCTCATTGGATTGTTTTC
1 AGTAACAAGGCTTTCGAAGGCATGAGTGACTACAAATGGACTTTTCTTCTCAATGGATGGCTTTC
* * * *
15022148 ACTTCATGTTTTTCAATGCAAACAACAAATTATGATCCATTTTAACCAAAATTGAAAAAAAATAT
66 GCTTCACGTTTCTCAATGCAAACAACAAATTATGATCTATTTTAACCAAAA--G--AAAAAA-AT
* * *
15022213 TCAATTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGC-AGGTGACAAGGCTTTCGAAGCC
126 TCAACTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGA-GTAACAAGGCTTTCGAAGGC
* * * *
15022277 ATGAGTGACTAAAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTTACGTTTCTC-TACTCA
190 ATGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTC-CAAATTCA
* ** *
15022341 AACAACTAGTTATGATATGATTTTACCAAAAATAAAAGAAAATTCAACTTAAAATCATTTATAAA
254 AACAACTAGTTATGATATGTTTTTATAAAAAATGAAAGAAAATTCAACTTAAAATCATTTATAAA
*
15022406 GTTATAAAACCATTTAAAGCG
319 GTTATAAAACCACTTAAAGCG
* * * * *
15022427 AGTAACAAGGCTTTTGAAGGCATGAGTGACTATAAATGGACTTTTCTTCTCATTGGATGGTTTTT
1 AGTAACAAGGCTTTCGAAGGCATGAGTGACTACAAATGGACTTTTCTTCTCAATGGATGGCTTTC
* * * *
15022492 GTTTCACGTTTCTCAATGCAAACAGCAAATTATGATCTATTTTAACC-ATAGAAAAAAA-TCAAT
66 GCTTCACGTTTCTCAATGCAAACAACAAATTATGATCTATTTTAACCAAAAGAAAAAAATTCAAC
* * * * * * *
15022555 TTTATACCATTTATAAAGTTGTAAAATCACTTAAAGCGAGTAATAAGGCTTTCGAAGGCATGGGT
131 TTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGT
* * *
15022620 GACTATAAATGGACTTTTCTTGTGAATGGATGGCTTTCGCTTCGCGTTTTTC-AATTCAAACAAC
196 GACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACG-TTTCCAAATTCAAACAAC
* * *
15022684 TAGTTATTATCTGTTTTTATAAAAAACGAAAGAAAATTCAACTTAAAATCATTTATAAAGTTATA
260 TAGTTATGATATGTTTTTATAAAAAATGAAAGAAAATTCAACTTAAAATCATTTATAAAGTTATA
* *
15022749 AAGCCACTTAAAGCA
325 AAACCACTTAAAGCG
* * *
15022764 AGTAACAAGG-TTTGCGAAGGTAAGAGTGACTACAAATGGACTTTTCTTGTCAATGGATGGCTTT
1 AGTAACAAGGCTTT-CGAAGGCATGAGTGACTACAAATGGACTTTTCTTCTCAATGGATGGCTTT
* * ** * * * * *
15022828 CGCTTCACGTTTC-CTATTTCAAACAATTAGTTATGTTCTGTTTTTACCAAAAAAGAATGAAAAT
65 CGCTTCACGTTTCTC-AATGCAAACAACAAATTATGATCTATTTTAACC--AAAAGAA-AAAAAT
* * * * * * *
15022892 TCAACTAAAAATTATTTATAAAGTTATAAAACCATTTAAAGTGAGTAACAAGGTTTTTGAAGGCT
126 TCAACTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGGCA
* * * ** *
15022957 TGAGTGACTATAAATGGACTTTTCTTCTCATTGGATGGCTTTCGCTTCATGTTTCCTGATGCAAA
191 TGAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCAAATTCAAA
* * * * * * * * *
15023022 CAACAAATTATGATCTGTTATAACGAAAAAA-GAAA-ACAATTCAATTTAAAATGATTTATAAAG
256 CAACTAGTTATGATATGTTTTTA-TAAAAAATGAAAGAAAATTCAACTTAAAATCATTTATAAAG
* *
15023085 TTGTAAAA-CACTAAAAGCG
320 TTATAAAACCACTTAAAGCG
* ** * * * * *
15023104 ACTAACAAGGCTTTTAAAGGCATGAGTTATTACAAATGGACTTTTCTTGTGAATGGATGACTTTC
1 AGTAACAAGGCTTTCGAAGGCATGAGTGACTACAAATGGACTTTTCTTCTCAATGGATGGCTTTC
* * * * * * * *
15023169 GCTTCATGTTTACT-GATTCAAACAACTAGTTACGATCTGTTTTCACCAAAAATGAAAGAAAATT
66 GCTTCACGTTT-CTCAATGCAAACAACAAATTATGATCTATTTTAACC-AAAA-GAAA-AAAATT
* * ** * **
15023233 CAACTTAAAATCATTT-TAAACTTATAAAACCACTTGAAGTAAGTAACAAGGGTTTTAAAGGCAT
127 CAACTTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGGCAT
* * * * * * *
15023297 GAATGACTACAAATGGACTTTTTTTGTCAATGGAGGGCTTTCACTTCATGTTTCCAAATTCAAAT
192 GAGTGACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCAAATTCAAAC
* * * *
15023362 AGCTAGTTATGGTATGTTTTTATCAAGAATGAAAGAAAATTTCAACTTAAAATCATTTATAAAGT
257 AACTAGTTATGATATGTTTTTATAAAAAATGAAAGAAAA-TTCAACTTAAAATCATTTATAAAGT
*
15023427 TACAAAA
321 TATAAAA
15023434 TGTGAAACCT
Statistics
Matches: 843, Mismatches: 145, Indels: 41
0.82 0.14 0.04
Matches are distributed among these distances:
336 4 0.00
337 270 0.32
338 9 0.01
339 125 0.15
340 129 0.15
341 72 0.09
342 124 0.15
343 8 0.01
344 102 0.12
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (339 bp):
AGTAACAAGGCTTTCGAAGGCATGAGTGACTACAAATGGACTTTTCTTCTCAATGGATGGCTTTC
GCTTCACGTTTCTCAATGCAAACAACAAATTATGATCTATTTTAACCAAAAGAAAAAAATTCAAC
TTAAAATCATTTATAAAGTTATAAAACCACTTAAAGCGAGTAACAAGGCTTTCGAAGGCATGAGT
GACTATAAATGGACTTTTCTTGTCAATGGATGGCTTTCGCTTCACGTTTCCAAATTCAAACAACT
AGTTATGATATGTTTTTATAAAAAATGAAAGAAAATTCAACTTAAAATCATTTATAAAGTTATAA
AACCACTTAAAGCG
Found at i:15024877 original size:36 final size:35
Alignment explanation
Indices: 15024781--15024880 Score: 119
Period size: 36 Copynumber: 2.8 Consensus size: 35
15024771 ATGATATTGT
* *
15024781 TTGTGAGCGATGTGGAGGTGCACACGATAGCATTAG
1 TTGTG-GCGATGTGGGGGTGCACATGATAGCATTAG
* * * *
15024817 CTATGGACGATGTAGGGGTGCACATGATAGTATTAG
1 TTGTGG-CGATGTGGGGGTGCACATGATAGCATTAG
15024853 TTGTGTGCGATGTGGGGGTGCACATGAT
1 TTGTG-GCGATGTGGGGGTGCACATGAT
15024881 GACTTCGGCT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
35 1 0.02
36 51 0.96
37 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.37, T:0.28
Consensus pattern (35 bp):
TTGTGGCGATGTGGGGGTGCACATGATAGCATTAG
Done.