Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 45 of 136
Found at i:14926752 original size:4 final size:4
Alignment explanation
Indices: 14926743--14926802 Score: 52
Period size: 4 Copynumber: 14.5 Consensus size: 4
14926733 ATAAAAAAGT
* *
14926743 AATA AATA AATA AATA AAT- AATA AAGGA AAAA AAGTA AA-A TAATA AATAA
1 AATA AATA AATA AATA AATA AATA AA-TA AATA AA-TA AATA -AATA AAT-A
14926793 AATA AATA AA
1 AATA AATA AA
14926803 AATGCACAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
3 4 0.09
4 32 0.68
5 11 0.23
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:14926805 original size:22 final size:21
Alignment explanation
Indices: 14926733--14926803 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 21
14926723 TTTTGAAAGT
*
14926733 ATAAA-AAAGTAATAAAT-AA
1 ATAAATAAAATAATAAATAAA
*
14926752 ATAAAT-AAATAATAAAGGAAA
1 ATAAATAAAATAATAAA-TAAA
14926773 A-AAAGTAAAATAATAAATAAA
1 ATAAA-TAAAATAATAAATAAA
14926794 ATAAATAAAA
1 ATAAATAAAA
14926804 ATGCACAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
19 14 0.33
20 3 0.07
21 13 0.30
22 13 0.30
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (21 bp):
ATAAATAAAATAATAAATAAA
Found at i:14935562 original size:108 final size:108
Alignment explanation
Indices: 14935374--14935790 Score: 653
Period size: 108 Copynumber: 3.9 Consensus size: 108
14935364 CGGATATTTG
* * *
14935374 GCTATTTGGTTC-AACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGAATTTCCAAA
1 GCTATTTGG-TCGAACGAAAAATCGAAACCCAGCACGTTAGCGCACGTTTTCTCGAACTTCCAAA
*
14935438 CGCAAAATATTGCCTTATTTTGAAATTTTAGAAGGATA-TTTTA
65 CGCAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTTA
* * *
14935481 GCTATTTGGTCAAACGAAAAAATCGAAACCCAGCACGTTAGCGCACGCTTTCTCGAACTTTCAAA
1 GCTATTTGGTCGAACG-AAAAATCGAAACCCAGCACGTTAGCGCACGTTTTCTCGAACTTCCAAA
* *
14935546 CGTAAAATATTGCCTTATTTTGAAATTTTAAAATGATATTTTTA
65 CGCAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTTA
*
14935590 GCTATTTGGTCGAACGAAAAACCGAAACCCAGCACGTTA-CGGCACGTTTTCTCGAACTTCCAAA
1 GCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGC-GCACGTTTTCTCGAACTTCCAAA
* *
14935654 TGTAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTTA
65 CGCAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTTA
*
14935698 GCTATTTGGTCGAACGAAAAA-CTGAAACCCAGCACGTTAGGGCACGTTTTCTCGAACTTCCAAA
1 GCTATTTGGTCGAACGAAAAATC-GAAACCCAGCACGTTAGCGCACGTTTTCTCGAACTTCCAAA
14935762 CGCAAAATATTGCCTTATTTTGAAATTTT
65 CGCAAAATATTGCCTTATTTTGAAATTTT
14935791 TATTTGGATA
Statistics
Matches: 287, Mismatches: 17, Indels: 11
0.91 0.05 0.03
Matches are distributed among these distances:
106 2 0.01
107 15 0.05
108 250 0.87
109 20 0.07
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (108 bp):
GCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGCGCACGTTTTCTCGAACTTCCAAAC
GCAAAATATTGCCTTATTTTGAAATTTTAAAAGGATATTTTTA
Found at i:14936194 original size:9 final size:9
Alignment explanation
Indices: 14936180--14936215 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
14936170 AAATAATAAG
14936180 AAAATAAAT
1 AAAATAAAT
14936189 AAAATAAAAT
1 AAAAT-AAAT
14936199 AAAATAAAT
1 AAAATAAAT
14936208 AAAA-AAAT
1 AAAATAAAT
14936216 GTAAGCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 4 0.15
9 13 0.50
10 9 0.35
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:14936195 original size:5 final size:5
Alignment explanation
Indices: 14936168--14936211 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
14936158 AAATCGATAT
*
14936168 TAAAA TAATAA GAAAA T-AAA TAAAA TAAAA TAAAA T-AAA TAAAA
1 TAAAA TAA-AA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
14936212 AAATGTAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 8 0.24
5 22 0.65
6 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:14936204 original size:19 final size:20
Alignment explanation
Indices: 14936168--14936211 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
14936158 AAATCGATAT
14936168 TAAAATAATAAGAAAATAAA
1 TAAAATAATAAGAAAATAAA
*
14936188 TAAAATAA-AATAAAATAAA
1 TAAAATAATAAGAAAATAAA
14936207 TAAAA
1 TAAAA
14936212 AAATGTAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (20 bp):
TAAAATAATAAGAAAATAAA
Found at i:14936270 original size:12 final size:12
Alignment explanation
Indices: 14936253--14936279 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14936243 GTAAATAAAC
14936253 AAATATTAAATA
1 AAATATTAAATA
14936265 AAATATTAAATA
1 AAATATTAAATA
14936277 AAA
1 AAA
14936280 CCTTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATATTAAATA
Found at i:14937291 original size:15 final size:16
Alignment explanation
Indices: 14937271--14937300 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14937261 TTGTTTCGAC
14937271 TTTCTTTTT-TTGTTT
1 TTTCTTTTTGTTGTTT
14937286 TTTCTTTTTGTTGTT
1 TTTCTTTTTGTTGTT
14937301 ATTTGTTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTGTTGTTT
Found at i:14939843 original size:3 final size:3
Alignment explanation
Indices: 14939837--14939937 Score: 66
Period size: 3 Copynumber: 33.7 Consensus size: 3
14939827 ATATAAAAGT
* *
14939837 ATA ATA ATA ATA ATA TTA AT- ATGC ATA A-A CA-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA -ATA ATA ATA ATA ATA
* * * * * *
14939881 ATA ATA AAA ATG ATA AT- ATAA ATG ACA ACA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
14939926 ATA ATAA ATA AT
1 ATA AT-A ATA AT
14939938 CTATTTTTCT
Statistics
Matches: 78, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
2 6 0.08
3 65 0.83
4 7 0.09
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:14942184 original size:27 final size:26
Alignment explanation
Indices: 14942119--14942207 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 26
14942109 TATAAAAAAG
*
14942119 TAATAAATAAATAATAATAATAAAGGAA
1 TAAT-AATAAATAA-AAAAATAAAGGAA
* *
14942147 AAACAAT--ATAAAAAAATAAAGGAA
1 TAATAATAAATAAAAAAATAAAGGAA
*
14942171 TAATAAGTAAATAAATAAAT-AAGTGAA
1 TAATAA-TAAATAAAAAAATAAAG-GAA
14942198 TAATAA-AAAT
1 TAATAATAAAT
14942208 TTTGATTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
24 16 0.31
25 9 0.18
26 3 0.06
27 21 0.41
28 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.08, T:0.22
Consensus pattern (26 bp):
TAATAATAAATAAAAAAATAAAGGAA
Found at i:14942192 original size:19 final size:18
Alignment explanation
Indices: 14942119--14942188 Score: 56
Period size: 17 Copynumber: 4.0 Consensus size: 18
14942109 TATAAAAAAG
14942119 TAATAAATAAAT-AATAA
1 TAATAAATAAATAAATAA
** *
14942136 TAATAAAGGAA-AAACAA
1 TAATAAATAAATAAATAA
* *
14942153 T-ATAAAAAAATAAAGGAA
1 TAATAAATAAATAAA-TAA
*
14942171 TAATAAGTAAATAAATAA
1 TAATAAATAAATAAATAA
14942189 ATAAGTGAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
16 7 0.17
17 17 0.43
18 5 0.12
19 11 0.28
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.21
Consensus pattern (18 bp):
TAATAAATAAATAAATAA
Found at i:14942812 original size:19 final size:19
Alignment explanation
Indices: 14942783--14942822 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
14942773 CCAGAATCCA
14942783 GCCATAGGCGCC-GTGACG
1 GCCATAGGCGCCAGTGACG
14942801 GCCATCAGGCGCCAGTGACG
1 GCCAT-AGGCGCCAGTGACG
14942821 GC
1 GC
14942823 TCCGCCATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.25
19 7 0.35
20 8 0.40
ACGTcount: A:0.17, C:0.35, G:0.38, T:0.10
Consensus pattern (19 bp):
GCCATAGGCGCCAGTGACG
Found at i:14949598 original size:16 final size:16
Alignment explanation
Indices: 14949573--14949610 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
14949563 AAGCATCCAA
* *
14949573 AAAACATTTCCTAAGC
1 AAAACCTTTCCTAAAC
14949589 AAAACCTTTCCTAAAC
1 AAAACCTTTCCTAAAC
14949605 AAAACC
1 AAAACC
14949611 CTAAGAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAACCTTTCCTAAAC
Found at i:14958249 original size:18 final size:17
Alignment explanation
Indices: 14958226--14958260 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14958216 TTTATATTAC
*
14958226 CAATTCATATCATCATTT
1 CAATTCAAAT-ATCATTT
14958244 CAATTCAAATATCATTT
1 CAATTCAAATATCATTT
14958261 ATCAAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (17 bp):
CAATTCAAATATCATTT
Found at i:14960197 original size:47 final size:49
Alignment explanation
Indices: 14960114--14960213 Score: 150
Period size: 47 Copynumber: 2.1 Consensus size: 49
14960104 TAAAAAGATT
*
14960114 AAATATATAAAAGAAATCAACACATTATAATTTTTTAATTCTATTTGTG
1 AAATATATAAAAGAAATCAACACATTATAATTTTTTAACTCTATTTGTG
* * *
14960163 AAATATATAAAAGAAATGAACACA-T-TGATTTTTTAACTCTATTTTTG
1 AAATATATAAAAGAAATCAACACATTATAATTTTTTAACTCTATTTGTG
14960210 AAAT
1 AAAT
14960214 TAAGTTGACT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
47 23 0.49
48 1 0.02
49 23 0.49
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (49 bp):
AAATATATAAAAGAAATCAACACATTATAATTTTTTAACTCTATTTGTG
Found at i:14960995 original size:16 final size:16
Alignment explanation
Indices: 14960974--14961004 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14960964 ATACCCAATA
14960974 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
14960990 ATATAACATTTATAA
1 ATATAAAATTTATAA
14961005 ATAAGGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:14965372 original size:23 final size:22
Alignment explanation
Indices: 14965346--14965408 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
14965336 TTTTAAAAGT
*
14965346 ATGTTTAGAAACTTTATTAGGGC
1 ATGTTTA-AAACTTTATTAAGGC
* *
14965369 ATGTTTTAAGACTTTATTAAGGT
1 ATG-TTTAAAACTTTATTAAGGC
*
14965392 ATGTTTTTAAACTTTAT
1 ATG-TTTAAAACTTTAT
14965409 ATTAAGGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 30 0.88
24 4 0.12
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48
Consensus pattern (22 bp):
ATGTTTAAAACTTTATTAAGGC
Found at i:14965399 original size:24 final size:22
Alignment explanation
Indices: 14965354--14965408 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
14965344 GTATGTTTAG
*
14965354 AAACTTTATTAGGGCATGTTTT
1 AAACTTTATTAAGGCATGTTTT
*
14965376 AAGACTTTATTAAGGTATGTTTTT
1 AA-ACTTTATTAAGGCATG-TTTT
14965400 AAACTTTAT
1 AAACTTTAT
14965409 ATTAAGGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 21 0.72
24 6 0.21
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (22 bp):
AAACTTTATTAAGGCATGTTTT
Found at i:14976261 original size:15 final size:15
Alignment explanation
Indices: 14976241--14976270 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14976231 ATTTGCATAA
*
14976241 ATGAAGGTTTCTTAC
1 ATGAAGGTGTCTTAC
14976256 ATGAAGGTGTCTTAC
1 ATGAAGGTGTCTTAC
14976271 GATTGAACCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (15 bp):
ATGAAGGTGTCTTAC
Found at i:14982528 original size:42 final size:43
Alignment explanation
Indices: 14982444--14982562 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 43
14982434 TTTATACAAC
* * * * * *
14982444 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAC-TGATCGAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAAACACAAG-TCGAT
** **
14982487 GCCGCTGTCCTGGACAT-GTCTTACACGAAAACACAAGTCGAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAAACACAAGTCGAT
*
14982529 GCCAATGTCCCAGACATGGTCTTACATGAAAACA
1 GCCAATGTCCCAGACATGGTCTTACACGAAAACA
14982563 TTTATCAGAA
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 32 0.54
43 27 0.46
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGAAAACACAAGTCGAT
Found at i:14988880 original size:19 final size:21
Alignment explanation
Indices: 14988854--14988899 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 21
14988844 AAATGTCATG
14988854 TATATTTTTTTAATA-TTTAT
1 TATATTTTTTTAATATTTTAT
14988874 T-TA--TTTTTAATATTTTAT
1 TATATTTTTTTAATATTTTAT
14988892 TATATTTT
1 TATATTTT
14988900 ATGGGCACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
17 9 0.41
18 6 0.27
19 4 0.18
20 1 0.05
21 2 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TATATTTTTTTAATATTTTAT
Found at i:14988882 original size:17 final size:19
Alignment explanation
Indices: 14988860--14988899 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
14988850 CATGTATATT
14988860 TTTTTAATA-TTTATT-TA
1 TTTTTAATATTTTATTATA
14988877 TTTTTAATATTTTATTATA
1 TTTTTAATATTTTATTATA
14988896 TTTT
1 TTTT
14988900 ATGGGCACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 6 0.29
19 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTAATATTTTATTATA
Found at i:14990111 original size:26 final size:26
Alignment explanation
Indices: 14990071--14990120 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
14990061 CTATATAAAA
*
14990071 GTGTCATTTTATTCATTATTTTTAAT
1 GTGTCAATTTATTCATTATTTTTAAT
*
14990097 GTGTCAATTTCTTCATTATTTTTA
1 GTGTCAATTTATTCATTATTTTTA
14990121 TCAAAATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.60
Consensus pattern (26 bp):
GTGTCAATTTATTCATTATTTTTAAT
Found at i:14995756 original size:62 final size:59
Alignment explanation
Indices: 14995640--14995760 Score: 136
Period size: 62 Copynumber: 2.0 Consensus size: 59
14995630 TTGTACAAAC
* ****
14995640 TATTTTTATATTATTTTATTTAATAAAATAAAAGTTTTTTTAAATATTTTAATAGTAAAT
1 TATTTTTATATTATTTTATTTAATAAAATAAAAGTTATTTTAAATAAGGCAATAG-AAAT
* *
14995700 TATTTTTATATT-TTGTCCTATTTAATAAAATAGAAGTTATTTTGAATAAGGCAATAGAAAT
1 TATTTTTATATTATT-T--TATTTAATAAAATAAAAGTTATTTTAAATAAGGCAATAGAAAT
14995761 AATGCAACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
59 2 0.04
60 13 0.25
61 4 0.08
62 32 0.63
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (59 bp):
TATTTTTATATTATTTTATTTAATAAAATAAAAGTTATTTTAAATAAGGCAATAGAAAT
Found at i:14998984 original size:124 final size:126
Alignment explanation
Indices: 14998676--14999063 Score: 448
Period size: 125 Copynumber: 3.1 Consensus size: 126
14998666 CAAACAGGAG
* *
14998676 CTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTGTTTCAGTAATTTTGCTGACAGTGCATCCTG
1 CTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTG
* *
14998741 TTTGGAA-TGTTTTTTACACTATTTTTTCAGAACCGTCTTTTCAAAATTACTTTTTTAGAAA
66 TTT-GAAGCGTTTTTTACACTATTTTTTCAGAAACGTCTTTTCAAAATTACTTTTTTAGAAA
* * *
14998802 CTATTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTT-AGTAATTTTGTTGACAGTGCATCCTG
1 CTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTG
* * * * * *
14998866 TTTGAAGCGTTTTTTATAGTATTTTTTTAGAAATGT-TTTCTC-TAATTA-TTTTTCT-GGAA
66 TTTGAAGCGTTTTTTACACTATTTTTTCAGAAACGTCTTT-TCAAAATTACTTTTT-TAGAAA
* * * * * *
14998925 CTACTGTATAAAAAGAGCGTTCATGTGGAAGCTTTTTTCAGTACTTTTGCTGACAGTGCATACTG
1 CTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTG
* * * * * * * *
14998990 CTTGAAGCGTTTTTGACATTAATTTTTCGGAATCGTCTTCTCAAAATTA-TTTTTCAGAAA
66 TTTGAAGCGTTTTTTACACTATTTTTTCAGAAACGTCTTTTCAAAATTACTTTTTTAGAAA
*
14999050 CTACTATAGAAAAA
1 CTACTGTAGAAAAA
14999064 AAAAATCTTC
Statistics
Matches: 218, Mismatches: 37, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
123 40 0.18
124 64 0.29
125 80 0.37
126 34 0.16
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.40
Consensus pattern (126 bp):
CTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTG
TTTGAAGCGTTTTTTACACTATTTTTTCAGAAACGTCTTTTCAAAATTACTTTTTTAGAAA
Found at i:14999198 original size:34 final size:34
Alignment explanation
Indices: 14999154--14999259 Score: 135
Period size: 34 Copynumber: 3.1 Consensus size: 34
14999144 ATTATTTTAA
* * *
14999154 AAAAAACCTAAACCCTAATTCAATTAATTTTCTT
1 AAAAACCCTAAAACCTAATTTAATTAATTTTCTT
* *
14999188 AAAAACCCTAAAACCTAATTTAATTAACTTACTT
1 AAAAACCCTAAAACCTAATTTAATTAATTTTCTT
*
14999222 --AAACCCTTAAAACCTAATTTAATTAATTTTTTT
1 AAAAACCC-TAAAACCTAATTTAATTAATTTTCTT
14999255 AAAAA
1 AAAAA
14999260 AATTTAAACC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
32 6 0.10
33 23 0.38
34 29 0.48
35 3 0.05
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (34 bp):
AAAAACCCTAAAACCTAATTTAATTAATTTTCTT
Found at i:14999257 original size:33 final size:32
Alignment explanation
Indices: 14999160--14999257 Score: 115
Period size: 33 Copynumber: 3.0 Consensus size: 32
14999150 TTAAAAAAAA
* * *
14999160 CCTAAACCCTAATTCAATTAATTTTCTTAAAAAC
1 CCTAAAACCTAATTTAATTAATTTT-TT-TAAAC
* **
14999194 CCTAAAACCTAATTTAATTAACTTACTTAAAC
1 CCTAAAACCTAATTTAATTAATTTTTTTAAAC
14999226 CCTTAAAACCTAATTTAATTAATTTTTTTAAA
1 CC-TAAAACCTAATTTAATTAATTTTTTTAAA
14999258 AAAATTTAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
32 6 0.11
33 27 0.50
34 21 0.39
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (32 bp):
CCTAAAACCTAATTTAATTAATTTTTTTAAAC
Found at i:14999912 original size:19 final size:20
Alignment explanation
Indices: 14999888--14999925 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
14999878 TAATCACACT
14999888 TTTAAAAATTTTA-ATTATA
1 TTTAAAAATTTTATATTATA
14999907 TTTAAAAATTTTATATTAT
1 TTTAAAAATTTTATATTAT
14999926 GTTAATAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAAAAATTTTATATTATA
Found at i:14999930 original size:19 final size:19
Alignment explanation
Indices: 14999889--14999930 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
14999879 AATCACACTT
*
14999889 TTAAAAATTTTAATTATAT
1 TTAAAAATTTTAATTATAG
14999908 TTAAAAATTTTATATTAT-G
1 TTAAAAATTTTA-ATTATAG
14999927 TTAA
1 TTAA
14999931 TAGTGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTAAAAATTTTAATTATAG
Found at i:15000693 original size:35 final size:35
Alignment explanation
Indices: 15000643--15000709 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
15000633 TTCTCTTTTC
15000643 TTGGATTTTAATTTTGATCTGAAGTCACTTGATTT
1 TTGGATTTTAATTTTGATCTGAAGTCACTTGATTT
* *
15000678 TTGGATTTTAGTTTTGATCTGAAGTTACTTGA
1 TTGGATTTTAATTTTGATCTGAAGTCACTTGA
15000710 AAAGTAGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.51
Consensus pattern (35 bp):
TTGGATTTTAATTTTGATCTGAAGTCACTTGATTT
Found at i:15001014 original size:21 final size:24
Alignment explanation
Indices: 15000962--15001015 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 24
15000952 TGGAAGACAC
*
15000962 ATCAATTTTTTAACCGTACAAATTG
1 ATCAATTTTTTAACCG-ACAAAATG
*
15000987 ATAAATTTTTTAA-C-A-AAAATG
1 ATCAATTTTTTAACCGACAAAATG
15001008 ATCAATTT
1 ATCAATTT
15001016 GCTCTTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 12 0.46
22 1 0.04
24 1 0.04
25 12 0.46
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.41
Consensus pattern (24 bp):
ATCAATTTTTTAACCGACAAAATG
Found at i:15019658 original size:29 final size:28
Alignment explanation
Indices: 15019617--15019673 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
15019607 TTTTTAAAAA
*
15019617 ATTAGAACATTATAATTTGTTT-AAAATTT
1 ATTAAAACATTATAA--TGTTTCAAAATTT
*
15019646 ATTAAAACTTTATAATGTTTCAAAATTT
1 ATTAAAACATTATAATGTTTCAAAATTT
15019674 TAAAATCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 7 0.28
29 13 0.52
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (28 bp):
ATTAAAACATTATAATGTTTCAAAATTT
Found at i:15021892 original size:16 final size:16
Alignment explanation
Indices: 15021870--15021914 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
15021860 GTATATTTAT
15021870 CGGGCTTTGTGCCTAA
1 CGGGCTTTGTGCCTAA
* *
15021886 TGGGCTTTGTGCCTAG
1 CGGGCTTTGTGCCTAA
*
15021902 CAGGCTTTGTGCC
1 CGGGCTTTGTGCC
15021915 GGTGTTGTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.09, C:0.24, G:0.33, T:0.33
Consensus pattern (16 bp):
CGGGCTTTGTGCCTAA
Found at i:15028723 original size:28 final size:29
Alignment explanation
Indices: 15028692--15028748 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
15028682 AGAACCACAA
*
15028692 AAATT-TTTCAAAAATTAAATTT-AATAAT
1 AAATTATTT-AAAAAGTAAATTTAAATAAT
*
15028720 AAATTATTTAATAAGTAAATTTAAATAAT
1 AAATTATTTAAAAAGTAAATTTAAATAAT
15028749 TTAATAAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (29 bp):
AAATTATTTAAAAAGTAAATTTAAATAAT
Found at i:15028730 original size:15 final size:16
Alignment explanation
Indices: 15028710--15028740 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15028700 CAAAAATTAA
15028710 ATTTAATAA-TAAATT
1 ATTTAATAAGTAAATT
15028725 ATTTAATAAGTAAATT
1 ATTTAATAAGTAAATT
15028741 TAAATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTAATAAGTAAATT
Found at i:15030008 original size:45 final size:44
Alignment explanation
Indices: 15029940--15030067 Score: 193
Period size: 45 Copynumber: 2.9 Consensus size: 44
15029930 ATATGTCAAT
* *
15029940 ATGAGTAAGACCATAGCTAAAAGATGCTATGGCATCATGATAAA
1 ATGAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATAAA
* *
15029984 GATGAGTAAGACCACAACTGAAAGATGCTATGGCATCAAGATAAA
1 -ATGAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATAAA
* *
15030029 ATAAGTAAGACCATAACTGAAAGATGTTATGGCATCATG
1 ATGAGTAAGACCATAACTGAAAGATGCTATGGCATCATG
15030068 TGAAAGCACA
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 35 0.47
45 40 0.53
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.22
Consensus pattern (44 bp):
ATGAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATAAA
Found at i:15032795 original size:22 final size:21
Alignment explanation
Indices: 15032764--15032806 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15032754 TAAAGGATGT
15032764 GGGATGAAAAATAAATTTTTAA
1 GGGATG-AAAATAAATTTTTAA
*
15032786 GGGATTAAAATAAATTTTTAA
1 GGGATGAAAATAAATTTTTAA
15032807 TAAAATTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (21 bp):
GGGATGAAAATAAATTTTTAA
Found at i:15033269 original size:20 final size:21
Alignment explanation
Indices: 15033230--15033271 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
15033220 TAGTCAATGT
*
15033230 GGGATTAAAATTAAATTTTTAA
1 GGGATTAAAACT-AATTTTTAA
15033252 GGGATTAAAACT-ATTTTTAA
1 GGGATTAAAACTAATTTTTAA
15033272 TAAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.40
Consensus pattern (21 bp):
GGGATTAAAACTAATTTTTAA
Found at i:15033475 original size:93 final size:92
Alignment explanation
Indices: 15033327--15033616 Score: 311
Period size: 93 Copynumber: 3.1 Consensus size: 92
15033317 AGGTACAAAG
* * * * *
15033327 ATTAACTTTTTAATGAAATTAGTAAACAAATTGTCACTTATTTATGAGGTAAATGTCAGATATGA
1 ATTAACTTTTTAATGAAAATA-T-AAGAAATTATCACTTATTTATAAGATAAATGTCAGATATGA
* *
15033392 GAGTGTTTTCTAATTAATGTGGGATTAAA
64 GAATGTTTTCTAATTAATGTGAGATTAAA
* *
15033421 ATTAACTTTTTAATGAAAATATGAAGAAATTATCACTTATTTATAAGATAAATGTGAGATATGTG
1 ATTAACTTTTTAATGAAAATAT-AAGAAATTATCACTTATTTATAAGATAAATGTCAGATATGAG
* *
15033486 AATGTTTTATAGTTAATGTGAGATTAAA
65 AATGTTTTCTAATTAATGTGAGATTAAA
* * *
15033514 ATTAACTTTTTAATGAAAATA-AAGAAATTGA-CACTTTTTTATAGGAT-AA-G-CATGAGCATG
1 ATTAACTTTTTAATGAAAATATAAGAAATT-ATCACTTATTTATAAGATAAATGTCA-GA-TATG
* * * * * *
15033574 AGATTGTTCTCTACTCAATATGTGATTAAA
63 AGAATGTTTTCTAATTAATGTGAGATTAAA
15033604 ATTAACTTTTTAA
1 ATTAACTTTTTAA
15033617 AAGAATTAAA
Statistics
Matches: 169, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
88 1 0.01
89 3 0.02
90 40 0.24
91 22 0.13
92 1 0.01
93 82 0.49
94 20 0.12
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (92 bp):
ATTAACTTTTTAATGAAAATATAAGAAATTATCACTTATTTATAAGATAAATGTCAGATATGAGA
ATGTTTTCTAATTAATGTGAGATTAAA
Found at i:15037494 original size:23 final size:22
Alignment explanation
Indices: 15037423--15037493 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
15037413 ATTTAAAAAT
* *
15037423 AATTATTATTTAAATAATTTTTGA
1 AATT-TTA-TTAAATAATATTTAA
*
15037447 AATATTTATGAAA-AATACTTTAA
1 AAT-TTTATTAAATAATA-TTTAA
15037470 AATTTTATTAAATAATATTTAA
1 AATTTTATTAAATAATATTTAA
15037492 AA
1 AA
15037494 AAATATTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 18 0.45
23 15 0.38
24 6 0.15
25 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (22 bp):
AATTTTATTAAATAATATTTAA
Found at i:15038160 original size:3 final size:3
Alignment explanation
Indices: 15038152--15038177 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15038142 AATTGATATT
15038152 GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GA
15038178 AGATTGGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:15044529 original size:1 final size:1
Alignment explanation
Indices: 15044523--15044547 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
15044513 TTGCTTCTTC
15044523 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
15044548 GGTGATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15044734 original size:33 final size:33
Alignment explanation
Indices: 15044692--15044754 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
15044682 AAGGCTTGCC
15044692 TATCTGAAGTATTTGTAGATGACCTATTCAACT
1 TATCTGAAGTATTTGTAGATGACCTATTCAACT
*
15044725 TATCTGAAGTATTTGTAGATGGCCTATTCA
1 TATCTGAAGTATTTGTAGATGACCTATTCA
15044755 TATGGCAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (33 bp):
TATCTGAAGTATTTGTAGATGACCTATTCAACT
Found at i:15046345 original size:1 final size:1
Alignment explanation
Indices: 15046292--15046327 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
15046282 AGTTTCTTTC
15046292 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15046328 GAAAGAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15047557 original size:16 final size:16
Alignment explanation
Indices: 15047536--15047567 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15047526 CCTGCCATGA
15047536 GTTACAATTTTTCTTT
1 GTTACAATTTTTCTTT
15047552 GTTACAATTTTTCTTT
1 GTTACAATTTTTCTTT
15047568 CTTCTGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (16 bp):
GTTACAATTTTTCTTT
Found at i:15050025 original size:2 final size:2
Alignment explanation
Indices: 15050018--15050048 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15050008 CAAGTGTGCT
15050018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15050049 GGAAAAACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15051362 original size:100 final size:99
Alignment explanation
Indices: 15051216--15051412 Score: 324
Period size: 100 Copynumber: 2.0 Consensus size: 99
15051206 AAAGACTTAT
* *
15051216 GTTAGGTTATATCCCTTTTTTATAATACATAAATTGAGTAAAAAATAGTATGAAAATTATAATAT
1 GTTAGGTTATATCCATTTTTTATAATACATAAATTGAGTAAAAAATAATATGAAAATTATAATAT
15051281 ATATCATTTATAAAAAAAAACGTCTTATAAATTGAA
66 ATATCATTTATAAAAAAAAA--TCTTATAAATTGAA
* *
15051317 GTTAGGTTATAT-CATTTTTTATAATACATAAATTGATTAAAAAATAATATTAAAATTATAATAT
1 GTTAGGTTATATCCATTTTTTATAATACATAAATTGAGTAAAAAATAATATGAAAATTATAATAT
*
15051381 ATATCATTTATAAAAAAATATCTTATAAATTG
66 ATATCATTTATAAAAAAAAATCTTATAAATTG
15051413 TCCAAAACTT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
98 12 0.13
100 67 0.74
101 12 0.13
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (99 bp):
GTTAGGTTATATCCATTTTTTATAATACATAAATTGAGTAAAAAATAATATGAAAATTATAATAT
ATATCATTTATAAAAAAAAATCTTATAAATTGAA
Found at i:15051439 original size:100 final size:98
Alignment explanation
Indices: 15051235--15051440 Score: 254
Period size: 100 Copynumber: 2.1 Consensus size: 98
15051225 TATCCCTTTT
*
15051235 TTATAATACATAAATTGAGTAAAAAATAGTATGAAAATTATAATATATATCATTTATAAAAAAAA
1 TTATAATACATAAATTGAGTAAAAAATAATATGAAAATTATAATATATATCATTTATAAAAAAAA
* * * * *
15051300 ACGTCTTATAAATTGAAGTTAGGTTATATCATTTT
66 AC-TCTTATAAATTGAAG-AACGTTATAACACTTC
* * *
15051335 TTATAATACATAAATTGATTAAAAAATAATATTAAAATTATAATATATATCATTTATAAAAAAAT
1 TTATAATACATAAATTGAGTAAAAAATAATATGAAAATTATAATATATATCATTTATAAAAAAAA
*
15051400 A-TCTTATAAATTGTCCAA-AACTTTCATAACACTTC
66 ACTCTTATAAATTG---AAGAACGTT-ATAACACTTC
15051435 TTATAA
1 TTATAA
15051441 AAATAATATA
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
98 12 0.13
99 3 0.03
100 75 0.82
101 2 0.02
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.38
Consensus pattern (98 bp):
TTATAATACATAAATTGAGTAAAAAATAATATGAAAATTATAATATATATCATTTATAAAAAAAA
ACTCTTATAAATTGAAGAACGTTATAACACTTC
Found at i:15056241 original size:15 final size:15
Alignment explanation
Indices: 15056223--15056258 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15056213 ATTATAAATC
* *
15056223 ATTAAACAAATTAAA
1 ATTAAAAAAATAAAA
15056238 ATTAAAAAAATAAAA
1 ATTAAAAAAATAAAA
15056253 ATTAAA
1 ATTAAA
15056259 GAAAGATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (15 bp):
ATTAAAAAAATAAAA
Found at i:15058952 original size:20 final size:20
Alignment explanation
Indices: 15058929--15058966 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15058919 TCCAGTATAA
* *
15058929 ATATTTTTCTTAAGGTATTG
1 ATATATTTCCTAAGGTATTG
15058949 ATATATTTCCTAAGGTAT
1 ATATATTTCCTAAGGTAT
15058967 CAATATTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
ATATATTTCCTAAGGTATTG
Found at i:15058972 original size:20 final size:20
Alignment explanation
Indices: 15058923--15058972 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
15058913 TATTGATCCA
* *
15058923 GTATAAATATTTTTCTTAAG
1 GTATAAATATATTTCCTAAG
**
15058943 GTATTGATATATTTCCTAAG
1 GTATAAATATATTTCCTAAG
*
15058963 GTATCAATAT
1 GTATAAATAT
15058973 TCCTGCTACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (20 bp):
GTATAAATATATTTCCTAAG
Found at i:15060899 original size:14 final size:15
Alignment explanation
Indices: 15060882--15060922 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
15060872 TTTTAATTTT
15060882 ATTTTAATAATAA-A
1 ATTTTAATAATAATA
*
15060896 ATTTTAA-AACAATA
1 ATTTTAATAATAATA
15060910 ATTTTAAATAATA
1 ATTTT-AATAATA
15060923 TGTTTCACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.18
14 13 0.59
15 2 0.09
16 3 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAATAATAATA
Found at i:15061182 original size:26 final size:26
Alignment explanation
Indices: 15061153--15061205 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
15061143 AATGATGTTG
15061153 TAATGAACCTGAATTTAACTAAATAT
1 TAATGAACCTGAATTTAACTAAATAT
15061179 TAATGAACCTGAATTTAACTAAATAT
1 TAATGAACCTGAATTTAACTAAATAT
15061205 T
1 T
15061206 TTTAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (26 bp):
TAATGAACCTGAATTTAACTAAATAT
Found at i:15064780 original size:30 final size:30
Alignment explanation
Indices: 15064745--15064801 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
15064735 AAAAACTCTC
* *
15064745 AAATTTCTCCCTAAATTTCTTAAAGCTATT
1 AAATTTCTCACTAAATTTCTCAAAGCTATT
*
15064775 AAATTTCTCATTAAATTTCTCAAAGCT
1 AAATTTCTCACTAAATTTCTCAAAGCT
15064802 CTCTTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (30 bp):
AAATTTCTCACTAAATTTCTCAAAGCTATT
Found at i:15064789 original size:12 final size:12
Alignment explanation
Indices: 15064772--15064796 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15064762 TCTTAAAGCT
15064772 ATTAAATTTCTC
1 ATTAAATTTCTC
15064784 ATTAAATTTCTC
1 ATTAAATTTCTC
15064796 A
1 A
15064797 AAGCTCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTAAATTTCTC
Found at i:15066600 original size:16 final size:18
Alignment explanation
Indices: 15066565--15066606 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
15066555 GCCAGGTGCG
15066565 TATCCTAACCCTTATATA
1 TATCCTAACCCTTATATA
15066583 TATCCTAACCCTTATATA
1 TATCCTAACCCTTATATA
*
15066601 TTTCCT
1 TATCCT
15066607 TTTCCCAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:15067032 original size:24 final size:23
Alignment explanation
Indices: 15067005--15067589 Score: 62
Period size: 25 Copynumber: 26.3 Consensus size: 23
15066995 CATTTAATAA
*
15067005 AATAAAAGTTGTTTTTA-ATATTTT
1 AATAAAA-TTATTTTTATAT-TTTT
15067029 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
*** * *
15067054 AATAAAA-TATAAGT-TCTTTTG
1 AATAAAATTATTTTTATATTTTT
* *
15067075 CAT---ATCATTTTTA-ATATTTT
1 AATAAAATTATTTTTATAT-TTTT
15067095 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
*** * *
15067120 AATAAAA-TATAAGT-TCTTTTG
1 AATAAAATTATTTTTATATTTTT
* *
15067141 CAT---ATCATTTTTA-ATATTTT
1 AATAAAATTATTTTTATAT-TTTT
15067161 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
*** * *
15067186 AATAAAA-TATAAGT-TCTTTTG
1 AATAAAATTATTTTTATATTTTT
* *
15067207 CAT---ATCATTTTTA-ATATTTT
1 AATAAAATTATTTTTATAT-TTTT
15067227 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
*** * *
15067252 AATAAAA-TATAAGT-TCTTTTG
1 AATAAAATTATTTTTATATTTTT
* *
15067273 CAT---ATCATTTTTA-ATATTTT
1 AATAAAATTATTTTTATAT-TTTT
15067293 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
*** * *
15067318 AATAAAA-TATAAGT-TCTTTTG
1 AATAAAATTATTTTTATATTTTT
* *
15067339 CAT---ATCATTTTTA-ATATTTT
1 AATAAAATTATTTTTATAT-TTTT
15067359 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
*** * *
15067384 AATAAAA-TATAAGT-TCTTTTG
1 AATAAAATTATTTTTATATTTTT
* *
15067405 CAT---ATCATTTTTA-ATATTTT
1 AATAAAATTATTTTTATAT-TTTT
15067425 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
*** * *
15067450 AATAAAA-TATAAGT-TCTTTTG
1 AATAAAATTATTTTTATATTTTT
* *
15067471 CAT---ATCATTTTTA-ATATTTT
1 AATAAAATTATTTTTATAT-TTTT
15067491 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
*** * *
15067516 AATAAAA-TATAAGT-TCTTTTG
1 AATAAAATTATTTTTATATTTTT
* *
15067537 CAT---ATCATTTTTA-ATATTTT
1 AATAAAATTATTTTTATAT-TTTT
15067557 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
15067582 AATAAAAT
1 AATAAAAT
15067590 ATAAGTTCTT
Statistics
Matches: 373, Mismatches: 113, Indels: 151
0.59 0.18 0.24
Matches are distributed among these distances:
18 8 0.02
19 32 0.09
20 40 0.11
21 56 0.15
22 32 0.09
23 28 0.08
24 4 0.01
25 152 0.41
26 21 0.06
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (23 bp):
AATAAAATTATTTTTATATTTTT
Found at i:15067089 original size:66 final size:66
Alignment explanation
Indices: 15067016--15067608 Score: 1186
Period size: 66 Copynumber: 9.0 Consensus size: 66
15067006 ATAAAAGTTG
15067016 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
1 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
15067081 A
66 A
15067082 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
1 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
15067147 A
66 A
15067148 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
1 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
15067213 A
66 A
15067214 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
1 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
15067279 A
66 A
15067280 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
1 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
15067345 A
66 A
15067346 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
1 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
15067411 A
66 A
15067412 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
1 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
15067477 A
66 A
15067478 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
1 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
15067543 A
66 A
15067544 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
1 TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
15067609 CTTTCCCGAT
Statistics
Matches: 527, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 527 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (66 bp):
TTTTTAATATTTTAATAGTAAATTATTTTTATATTTTTAATAAAATATAAGTTCTTTTGCATATC
A
Found at i:15071276 original size:126 final size:126
Alignment explanation
Indices: 15071104--15071372 Score: 394
Period size: 126 Copynumber: 2.1 Consensus size: 126
15071094 GGCCAAACAT
* * * *
15071104 GAACTATTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAACGTCCACATGGCAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * * * *
15071169 TTGCTTGAAGCATTTTTGACACTATTTTTTTAGAAACGTTTTCTCAAAATTATTTTTTCAG
66 CTGCTTAAAGCATTTTTCACACTATTTGTTCAGAAACGTATTCTCAAAATTATTTTTTCAG
* * * *
15071230 GAACTACTGTAGAAAAAGAATGTCTACATGTCAGCTTTTTTTAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAACGTCCACATGGCAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
15071295 CTGCTTAAAGCCTTTTTCACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAG
66 CTGCTTAAAGCATTTTTCACACTATTTGTTCAGAAACGTATTCTCAAAATTATTTTTTCAG
15071356 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
15071373 AACAAAATCC
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAACGTCCACATGGCAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTAAAGCATTTTTCACACTATTTGTTCAGAAACGTATTCTCAAAATTATTTTTTCAG
Found at i:15071508 original size:34 final size:33
Alignment explanation
Indices: 15071428--15071535 Score: 110
Period size: 34 Copynumber: 3.2 Consensus size: 33
15071418 TAAACACAAT
*
15071428 ATTAA-TTTTTAAAAAAACTAAACCCTAATTTA
1 ATTAATTTTTTAAAAACACTAAACCCTAATTTA
* *
15071460 ATTAATTTTCTTAAAAACACTAAACCTTAATTTC
1 ATTAATTTT-TTAAAAACACTAAACCCTAATTTA
* * * * **
15071494 CTTAGTTTATTTAAAACCCCTAAACAATAATTTA
1 ATTAATTT-TTTAAAAACACTAAACCCTAATTTA
15071528 ATTAATTT
1 ATTAATTT
15071536 AAAAAAAGAG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
32 5 0.08
33 3 0.05
34 52 0.85
35 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.01, T:0.41
Consensus pattern (33 bp):
ATTAATTTTTTAAAAACACTAAACCCTAATTTA
Found at i:15071612 original size:21 final size:21
Alignment explanation
Indices: 15071587--15071657 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
15071577 TAAAACCTAG
15071587 AACCCTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
*** *** **
15071608 AACCCTAAACCCTACAAACCT
1 AACCCTAAATTATTTTAACAA
*
15071629 AAGCCTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
15071650 AACCCTAA
1 AACCCTAA
15071658 CCCTAAAAAC
Statistics
Matches: 32, Mismatches: 18, Indels: 0
0.64 0.36 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.25
Consensus pattern (21 bp):
AACCCTAAATTATTTTAACAA
Found at i:15071615 original size:36 final size:39
Alignment explanation
Indices: 15071575--15071657 Score: 100
Period size: 42 Copynumber: 2.1 Consensus size: 39
15071565 TTTTAAAATT
*
15071575 CCTAAAACCTA-GAA-C-CCTAAATTATTTTAACAAAAC
1 CCTAAAACCTACAAACCACCTAAATTATTTTAACAAAAC
*
15071611 CCTAAACCCTACAAACCTAAGCCTAAATTATTTTAACAAAAC
1 CCTAAAACCTACAAACC--A-CCTAAATTATTTTAACAAAAC
15071653 CCTAA
1 CCTAA
15071658 CCCTAAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
36 10 0.26
37 2 0.05
38 1 0.03
42 26 0.67
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.24
Consensus pattern (39 bp):
CCTAAAACCTACAAACCACCTAAATTATTTTAACAAAAC
Found at i:15071668 original size:15 final size:15
Alignment explanation
Indices: 15071648--15071686 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
15071638 TTATTTTAAC
* *
15071648 AAAACCCTAACCCTA
1 AAAACCCTAAACCAA
15071663 AAAACCCTAAACCAA
1 AAAACCCTAAACCAA
15071678 AAAACCCTA
1 AAAACCCTA
15071687 GGGACTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.54, C:0.36, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:15071672 original size:42 final size:42
Alignment explanation
Indices: 15071590--15071668 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
15071580 AACCTAGAAC
*
15071590 CCTAAATTATTTTAACAAAACCCTAAACCCTACAAACCTAAG
1 CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAACCTAAG
15071632 CCTAAATTATTTTAACAAAACCCT-AACCCTAAAAACC
1 CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAACC
15071669 CTAAACCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 12 0.33
42 24 0.67
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (42 bp):
CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAACCTAAG
Found at i:15072295 original size:87 final size:89
Alignment explanation
Indices: 15072151--15072314 Score: 228
Period size: 88 Copynumber: 1.9 Consensus size: 89
15072141 GTGTAAAAAT
* * *
15072151 CCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCTTGCTTTTTTTTTGTGCACTCAATTGGGTATT
1 CCCTCAAAACTTTTCAAAAAAAGCAATTAAGCCTTGCATTTTTTTTGTGCACTCAATTGGGTACT
*
15072216 TGAAACTTTCAAAATATATAAAAGA
66 TG-AACTATCAAAATATATAAAAGA
* *
15072241 CCCT-AAAACTTTTC-AAAAAAGCAATTAAGTCTCTG-ATTTTTTTT-TGCACTCAATTGGTTAC
1 CCCTCAAAACTTTTCAAAAAAAGCAATTAAGCCT-TGCATTTTTTTTGTGCACTCAATTGGGTAC
15072302 TTGAACTATCAAA
65 TTGAACTATCAAA
15072315 TGCATAAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
86 9 0.13
87 18 0.27
88 25 0.37
89 11 0.16
90 4 0.06
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (89 bp):
CCCTCAAAACTTTTCAAAAAAAGCAATTAAGCCTTGCATTTTTTTTGTGCACTCAATTGGGTACT
TGAACTATCAAAATATATAAAAGA
Found at i:15072712 original size:9 final size:9
Alignment explanation
Indices: 15072676--15072822 Score: 66
Period size: 10 Copynumber: 15.3 Consensus size: 9
15072666 GACATGTGCA
15072676 AAAAATTAT
1 AAAAATTAT
15072685 AAAAA--AT
1 AAAAATTAT
*
15072692 AAAAATCAAT
1 AAAAAT-TAT
15072702 AAAAATTAT
1 AAAAATTAT
*
15072711 AACAATTAT
1 AAAAATTAT
*
15072720 -TAAATTAT
1 AAAAATTAT
*
15072728 AATAAAAATAT
1 -A-AAAATTAT
*
15072739 AAAAATATTT
1 AAAAAT-TAT
*
15072749 AAAATTTATTAA
1 AAAA---ATTAT
15072761 AAATAAGTTAT
1 AAA-AA-TTAT
*
15072772 AAAAATCAT
1 AAAAATTAT
*
15072781 AAAAAAATAT
1 -AAAAATTAT
*
15072791 AAAAAATTGT
1 -AAAAATTAT
*
15072801 AAAATTTTAT
1 AAAA-ATTAT
*
15072811 AAAAATAAT
1 AAAAATTAT
15072820 AAA
1 AAA
15072823 GTGCATAAAA
Statistics
Matches: 104, Mismatches: 20, Indels: 28
0.68 0.13 0.18
Matches are distributed among these distances:
7 7 0.07
8 6 0.06
9 32 0.31
10 40 0.38
11 12 0.12
12 4 0.04
13 3 0.03
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:15072751 original size:244 final size:245
Alignment explanation
Indices: 15072312--15072803 Score: 794
Period size: 244 Copynumber: 2.0 Consensus size: 245
15072302 TTGAACTATC
* * * * *
15072312 AAATGCATAAAAAAAGGCCCTTTGACCATTAATGTTAATAGTTGAACATTAAAGTTAACTGTCTC
1 AAATGCATAAAAAAAGGCACTTTGACCATTAATGCTAACAGTTGAACATTAAAGTTAACTGCCCC
15072377 TAATTTTTTTCAGTTAAAGTCACCCAATATCACAACTATGACGTGACATGTGGCAAAAAATTATA
66 TAATTTTTTTCAGTTAAAGTCACCCAATATCACAACTATGACGTGACATGTGGCAAAAAATTATA
*
15072442 AAAAATAAAAATCAATAAACATTATAACAATTATTAAATTATAATAAAAATATAAAAATATTTAA
131 AAAAATAAAAATCAATAAAAATTATAACAATTATTAAATTATAATAAAAATATAAAAATATTTAA
15072507 AATTTATTAAAAATAAGTTATAAAAATCATAAAAAAATATAAAAAATTGT
196 AATTTATTAAAAATAAGTTATAAAAATCATAAAAAAATATAAAAAATTGT
* * *
15072557 AAATGCAT-CAAAAAGGCATTTTGA-CAGTTAATGCTAACAGTTGACCATTAAAGTTAACTGCCC
1 AAATGCATAAAAAAAGGCACTTTGACCA-TTAATGCTAACAGTTGAACATTAAAGTTAACTGCCC
** * * * *
15072620 CTAATTTTTTTCAGTTAAAGTCACCCTGTGTTAGAA-TCATGGCCGTGACATGT-GCAAAAAATT
65 CTAATTTTTTTCAGTTAAAGTCACCCAATATCACAACT-AT-GACGTGACATGTGGCAAAAAATT
15072683 ATAAAAAATAAAAATCAATAAAAATTATAACAATTATTAAATTATAATAAAAATATAAAAATATT
128 ATAAAAAATAAAAATCAATAAAAATTATAACAATTATTAAATTATAATAAAAATATAAAAATATT
15072748 TAAAATTTATTAAAAATAAGTTATAAAAATCATAAAAAAATATAAAAAATTGT
193 TAAAATTTATTAAAAATAAGTTATAAAAATCATAAAAAAATATAAAAAATTGT
15072801 AAA
1 AAA
15072804 ATTTTATAAA
Statistics
Matches: 229, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
243 3 0.01
244 207 0.90
245 19 0.08
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (245 bp):
AAATGCATAAAAAAAGGCACTTTGACCATTAATGCTAACAGTTGAACATTAAAGTTAACTGCCCC
TAATTTTTTTCAGTTAAAGTCACCCAATATCACAACTATGACGTGACATGTGGCAAAAAATTATA
AAAAATAAAAATCAATAAAAATTATAACAATTATTAAATTATAATAAAAATATAAAAATATTTAA
AATTTATTAAAAATAAGTTATAAAAATCATAAAAAAATATAAAAAATTGT
Found at i:15073083 original size:29 final size:29
Alignment explanation
Indices: 15073049--15073119 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
15073039 TTCTTTATTT
15073049 TTTTATAATTTTCTTACGA-CTTTATAAAA
1 TTTTATAATTTT-TTACGATCTTTATAAAA
* * *
15073078 TTTTATAACTTTTTAGGATTTTTATAAAA
1 TTTTATAATTTTTTACGATCTTTATAAAA
* *
15073107 CTTTACAATTTTT
1 TTTTATAATTTTT
15073120 ATAATTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 5 0.14
29 30 0.86
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.55
Consensus pattern (29 bp):
TTTTATAATTTTTTACGATCTTTATAAAA
Found at i:15073102 original size:19 final size:19
Alignment explanation
Indices: 15073078--15073151 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
15073068 CTTTATAAAA
* *
15073078 TTTTATAACTTTTTAGGAT
1 TTTTATAATTTTTTACGAT
*** *
15073097 TTTTATAAAACTTTACAAT
1 TTTTATAATTTTTTACGAT
*
15073116 TTTTATAATTTTTTTATGAT
1 TTTTATAA-TTTTTTACGAT
*
15073136 TTTTGTAATTTTTTAC
1 TTTTATAATTTTTTAC
15073152 TAATTTTAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:15073132 original size:30 final size:29
Alignment explanation
Indices: 15073096--15073217 Score: 99
Period size: 30 Copynumber: 4.1 Consensus size: 29
15073086 CTTTTTAGGA
15073096 TTTTTATAAAACTTTACA-ATTTTTATAATT
1 TTTTTATAAAA-TTTA-ATATTTTTATAATT
***
15073126 TTTTTATGATTTTTGTAAT-TTTTTACTAA-T
1 TTTTTAT-AAAATT-TAATATTTTTA-TAATT
**
15073156 TTTAAATAAAATTTAAATATTTTTAT-ATT
1 TTTTTATAAAATTT-AATATTTTTATAATT
*
15073185 TTTTTATTAAAATTTAATATTTTTATAAAT
1 TTTTTA-TAAAATTTAATATTTTTATAATT
15073215 TTT
1 TTT
15073218 ATTAATTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
28 2 0.03
29 23 0.32
30 41 0.57
31 6 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTTATAAAATTTAATATTTTTATAATT
Found at i:15073146 original size:9 final size:9
Alignment explanation
Indices: 15073078--15073227 Score: 50
Period size: 10 Copynumber: 15.4 Consensus size: 9
15073068 CTTTATAAAA
15073078 TTTTATAACT
1 TTTTATAA-T
**
15073088 TTTTAGGAT
1 TTTTATAAT
*
15073097 TTTTATAAAA
1 TTTTAT-AAT
* *
15073107 CTTTACAAT
1 TTTTATAAT
15073116 TTTTATAATTT
1 TTTTATAA--T
*
15073127 TTTTATGAT
1 TTTTATAAT
*
15073136 TTTTGTAATT
1 TTTTATAA-T
15073146 TTTTACTAAT
1 TTTTA-TAAT
* *
15073156 TTTAAATAAA
1 TTT-TATAAT
* *
15073166 ATTTAAATAT
1 TTTTATA-AT
*
15073176 TTTTATATTT
1 TTTTATA-AT
*
15073186 TTTTATTAAA
1 TTTTA-TAAT
*
15073196 ATTTA-ATAT
1 TTTTATA-AT
*
15073205 TTTTATAAA
1 TTTTATAAT
15073214 TTTTATTAAT
1 TTTTA-TAAT
15073224 TTTT
1 TTTT
15073228 TTGTTATCAT
Statistics
Matches: 99, Mismatches: 30, Indels: 22
0.66 0.20 0.15
Matches are distributed among these distances:
8 1 0.01
9 34 0.34
10 50 0.51
11 14 0.14
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:15081900 original size:12 final size:12
Alignment explanation
Indices: 15081883--15081909 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15081873 CACACGCCTG
15081883 TGTGCTAGGCCA
1 TGTGCTAGGCCA
15081895 TGTGCTAGGCCA
1 TGTGCTAGGCCA
15081907 TGT
1 TGT
15081910 AACTGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.30
Consensus pattern (12 bp):
TGTGCTAGGCCA
Found at i:15087337 original size:57 final size:57
Alignment explanation
Indices: 15087204--15087325 Score: 163
Period size: 57 Copynumber: 2.1 Consensus size: 57
15087194 GTGGAGTAAT
* * * * * * *
15087204 TGCACATGCTACTGCTGATAGAGCAGCTGCTGTCCATTCTGCTTTTCATAAAGTAGC
1 TGCACAAGCTGCTGCTGATGGAACAGCTGCTGCCCAATCTGCTTTTCATAAAGCAGC
*
15087261 TGCACAAGCTGCTGCTGATGGAACAGCTGCTGCCCAATCTGCTTTTCGTAAAGCAGC
1 TGCACAAGCTGCTGCTGATGGAACAGCTGCTGCCCAATCTGCTTTTCATAAAGCAGC
*
15087318 TTCACAAG
1 TGCACAAG
15087326 TTGCCTCTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (57 bp):
TGCACAAGCTGCTGCTGATGGAACAGCTGCTGCCCAATCTGCTTTTCATAAAGCAGC
Found at i:15087406 original size:24 final size:24
Alignment explanation
Indices: 15087379--15087425 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
15087369 TGGCATTGGT
* *
15087379 GGAGGTAGTTTAAGAGGTGGAGGA
1 GGAGGCAGTTTAAGAGGTAGAGGA
*
15087403 GGAGGCAGTTTAATAGGTAGAGG
1 GGAGGCAGTTTAAGAGGTAGAGG
15087426 TAGAAGCAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (24 bp):
GGAGGCAGTTTAAGAGGTAGAGGA
Found at i:15087434 original size:24 final size:24
Alignment explanation
Indices: 15087385--15087435 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
15087375 TGGTGGAGGT
* *
15087385 AGTTTAAGAGGTGGAGGAGGAGGC
1 AGTTTAAGAGGTAGAGGAGGAAGC
*
15087409 AGTTTAATAGGTAGAGGTA-GAAGC
1 AGTTTAAGAGGTAGAGG-AGGAAGC
15087433 AGT
1 AGT
15087436 GTTGGAGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.41, T:0.22
Consensus pattern (24 bp):
AGTTTAAGAGGTAGAGGAGGAAGC
Found at i:15087504 original size:66 final size:66
Alignment explanation
Indices: 15087422--15087582 Score: 259
Period size: 66 Copynumber: 2.4 Consensus size: 66
15087412 TTAATAGGTA
* * *
15087422 GAGGTAGAAGCAGTGTTGGAGGTAGTGCTACCGGTTTCCTCGGTGGACGTGGTGCTGCCGTTGGT
1 GAGGTGGAAGCAGTGTTGGAGGTAGTGCTACCGGTTACCTCAGTGGACGTGGTGCTGCCGTTGGT
15087487 G
66 G
* *
15087488 GAGGTGGAAGCAGTGTTGGAGGTAGTGCTACCGGTTACCTTAGTGGACGTGGTGCTGCTGTTGGT
1 GAGGTGGAAGCAGTGTTGGAGGTAGTGCTACCGGTTACCTCAGTGGACGTGGTGCTGCCGTTGGT
15087553 G
66 G
* *
15087554 GAGGTGGAGGTAGTGTTGGAGGTAGTGCT
1 GAGGTGGAAGCAGTGTTGGAGGTAGTGCT
15087583 GGAGGTAGTG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 88 1.00
ACGTcount: A:0.15, C:0.13, G:0.44, T:0.28
Consensus pattern (66 bp):
GAGGTGGAAGCAGTGTTGGAGGTAGTGCTACCGGTTACCTCAGTGGACGTGGTGCTGCCGTTGGT
G
Found at i:15087575 original size:12 final size:12
Alignment explanation
Indices: 15087558--15087597 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
15087548 TTGGTGGAGG
15087558 TGGAGGTAGTGT
1 TGGAGGTAGTGT
*
15087570 TGGAGGTAGTGC
1 TGGAGGTAGTGT
15087582 TGGAGGTAGTGT
1 TGGAGGTAGTGT
15087594 TGGA
1 TGGA
15087598 AGTGGTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.17, C:0.03, G:0.50, T:0.30
Consensus pattern (12 bp):
TGGAGGTAGTGT
Found at i:15088150 original size:43 final size:43
Alignment explanation
Indices: 15088031--15088304 Score: 286
Period size: 43 Copynumber: 6.4 Consensus size: 43
15088021 TCACATAAAC
* *
15088031 ACCTTTAGCGGCGCTTTT-CTATAAAACGCCGCTAAAGAACATG
1 ACCTTTAGCGGCGCTTTTACCA-CAAACGCCGCTAAAGAACATG
* * ** * *
15088074 GCCTTTAGCGGC-ATTTTTTCACAAACACCGCTAAATG-TCATG
1 ACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAA-GAACATG
** * * ** *
15088116 TTCTTTAGCGGCTCTTGTATTACAAACGCTGCTAAAGAACATG
1 ACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACATG
* *
15088159 ACCTTTAGCGGCGCTTTTACCAAAAACGCCGCTAAAGAACAAG
1 ACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACATG
*
15088202 ACCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATG
1 ACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACATG
* * *
15088245 ACCTTTAGCGGCTCTTTTATCACAAACGCCGCTAAATG-TCATG
1 ACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAA-GAACATG
**
15088288 TTCTTTAGCGGCGCTTT
1 ACCTTTAGCGGCGCTTT
15088305 ACTAAAAATG
Statistics
Matches: 191, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
42 31 0.16
43 159 0.83
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGAACATG
Found at i:15088294 original size:129 final size:128
Alignment explanation
Indices: 15088031--15088321 Score: 349
Period size: 129 Copynumber: 2.3 Consensus size: 128
15088021 TCACATAAAC
* * **
15088031 ACCTTTAGCGGCGCTTTT-CTATAAAACGCCGCTAAAGAACATGGCCTTTAGCGGCATTTTTTCA
1 ACCTTTAGCGGCGCTTTTACTA-AAAACGCCGCTAAAGAACAAGACCTTTAGCGGCATTTTACCA
* ** * *
15088095 CAAACACCGCTAAATGTCATGTTCTTTAGCGGCTCTTGTATTACAAACGCTGCTAAAGAACATG
65 CAAACACCGCTAAATGACATGACCTTTAGCGGCTCTTGTATCACAAACGCCGCTAAAGAACATG
*
15088159 ACCTTTAGCGGCGCTTTTACCAAAAACGCCGCTAAAGAACAAGACCTTTAGCGACGC-TTTTACC
1 ACCTTTAGCGGCGCTTTTACTAAAAACGCCGCTAAAGAACAAGACCTTTAGCG--GCATTTTACC
* * *
15088223 ACAAACGCCGCTAAA-GAACATGACCTTTAGCGGCTCTTTTATCACAAACGCCGCTAAATG-TCA
64 ACAAACACCGCTAAATG-ACATGACCTTTAGCGGCTCTTGTATCACAAACGCCGCTAAA-GAACA
15088286 TG
127 TG
** * *
15088288 TTCTTTAGCGGCGC-TTTACTAAAAATGCCACTAA
1 ACCTTTAGCGGCGCTTTTACTAAAAACGCCGCTAA
15088322 CTTTGGTAGA
Statistics
Matches: 140, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
128 65 0.46
129 72 0.51
130 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (128 bp):
ACCTTTAGCGGCGCTTTTACTAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCATTTTACCAC
AAACACCGCTAAATGACATGACCTTTAGCGGCTCTTGTATCACAAACGCCGCTAAAGAACATG
Found at i:15088630 original size:21 final size:21
Alignment explanation
Indices: 15088605--15088696 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
15088595 TTCTGCTCTG
15088605 CTCTGCTTCCCTAGCTGCTGC
1 CTCTGCTTCCCTAGCTGCTGC
* *
15088626 CTCTGCTTCCCTTA-CTACTAC
1 CTCTGCTTCCC-TAGCTGCTGC
* * *
15088647 CGCTGCTTCCCTCGCTGTTGC
1 CTCTGCTTCCCTAGCTGCTGC
* *
15088668 CTCTACTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTAGCTGCTGC
15088689 CTCTGCTT
1 CTCTGCTT
15088697 TAAGTTGTAG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
20 1 0.02
21 55 0.95
22 2 0.03
ACGTcount: A:0.05, C:0.43, G:0.15, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTAGCTGCTGC
Found at i:15097882 original size:25 final size:27
Alignment explanation
Indices: 15097858--15098246 Score: 322
Period size: 25 Copynumber: 15.6 Consensus size: 27
15097848 TATTTTTGTA
15097858 TTATGTAAATTATGTAAGTTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
* *
15097885 TTATGT--ATTATGAAAGGTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
*
15097910 TTGTGT--ATTATGTAAGTTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
*
15097935 TTATG--ATTTATGTAAGTTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
* *
15097960 TTGTGT--ATTATGAAAGTTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
**
15097985 -T-TGTGCATTATGTAAGTTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
*
15098010 TTTTGT--ATTATGTAAGTTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
* *
15098035 TTGTGT--ATTATGTAAGTTGTGT-A-
1 TTATGTAAATTATGTAAGTTATGTAAG
* *
15098058 TTATGTAAGTTATGT--TTTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
* * *
15098083 TTATGTAAGTTGTG-CA-TTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
* *
15098108 TTATGTAAGTTGTGT-A-TTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
* *
15098133 TTATGTAAGTTATGTAAGATATGT-A-
1 TTATGTAAATTATGTAAGTTATGTAAG
* *
15098158 TTATGAAAATTATGTAAGTTGTGT-A-
1 TTATGTAAATTATGTAAGTTATGTAAG
*
15098183 TTATGTAAGTTATGT-A-TTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
* *
15098208 TTATGT-AAGT-TGTGA-TTATGTAAG
1 TTATGTAAATTATGTAAGTTATGTAAG
15098232 TTATGT--ATTATGTAA
1 TTATGTAAATTATGTAA
15098247 CTTGCGTATA
Statistics
Matches: 312, Mismatches: 31, Indels: 41
0.81 0.08 0.11
Matches are distributed among these distances:
23 23 0.07
24 27 0.09
25 245 0.79
26 3 0.01
27 14 0.04
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (27 bp):
TTATGTAAATTATGTAAGTTATGTAAG
Found at i:15097921 original size:16 final size:16
Alignment explanation
Indices: 15097854--15098270 Score: 270
Period size: 16 Copynumber: 26.2 Consensus size: 16
15097844 TATATATTTT
*
15097854 TGTATTATGTAAATTA
1 TGTATTATGTAAGTTA
15097870 TGTAAGTTATGTAAGTTA
1 TGT-A-TTATGTAAGTTA
* *
15097888 TGTATTATGAAAGGTA
1 TGTATTATGTAAGTTA
*
15097904 TGTAAGTTGTGT-A-TTA
1 TGT-A-TTATGTAAGTTA
15097920 TGTAAGTTATGTAAGTTA
1 TGT-A-TTATGTAAGTTA
15097938 TG-ATTTATGTAAGTTA
1 TGTA-TTATGTAAGTTA
*
15097954 TGTAAGTTGTGT-A-TTA
1 TGT-A-TTATGTAAGTTA
* *
15097970 TGAAAGTTATGTAAGTTG
1 TG-TA-TTATGTAAGTTA
*
15097988 TGCATTATGTAAGTTA
1 TGTATTATGTAAGTTA
*
15098004 TGTAAGTTTTGT-A-TTA
1 TGT-A-TTATGTAAGTTA
*
15098020 TGTAAGTTATGTAAGTTG
1 TGT-A-TTATGTAAGTTA
*
15098038 TGTATTATGTAAGTTG
1 TGTATTATGTAAGTTA
15098054 TGTATTATGTAAGTTA
1 TGTATTATGTAAGTTA
*
15098070 TGTTTTATGTAAGTTA
1 TGTATTATGTAAGTTA
* *
15098086 TGTAAGT-TGTGCA-TTA
1 TGT-ATTATGT-AAGTTA
*
15098102 TGTAAGTTATGTAAGTTG
1 TGT-A-TTATGTAAGTTA
15098120 TGTATTATGTAAGTTA
1 TGTATTATGTAAGTTA
*
15098136 TGTAAGTTATGTAAGATA
1 TGT-A-TTATGTAAGTTA
15098154 TGTATTATG-AA---A
1 TGTATTATGTAAGTTA
*
15098166 ---ATTATGTAAGTTG
1 TGTATTATGTAAGTTA
15098179 TGTATTATGTAAGTTA
1 TGTATTATGTAAGTTA
15098195 TGTATTATGT-A---A
1 TGTATTATGTAAGTTA
*
15098207 -G--TTATGTAAGTTG
1 TGTATTATGTAAGTTA
15098220 TG-ATTATGTAAGTTA
1 TGTATTATGTAAGTTA
* *
15098235 TGTATTATGTAACTTG
1 TGTATTATGTAAGTTA
* * *
15098251 CGTATAATGTAAGTTG
1 TGTATTATGTAAGTTA
15098267 TGTA
1 TGTA
15098271 AGTTGTGTAT
Statistics
Matches: 326, Mismatches: 39, Indels: 72
0.75 0.09 0.16
Matches are distributed among these distances:
9 12 0.04
10 3 0.01
11 1 0.00
12 2 0.01
14 1 0.00
15 16 0.05
16 207 0.63
17 19 0.06
18 65 0.20
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (16 bp):
TGTATTATGTAAGTTA
Found at i:15097926 original size:50 final size:50
Alignment explanation
Indices: 15097866--15098292 Score: 461
Period size: 50 Copynumber: 8.3 Consensus size: 50
15097856 TATTATGTAA
* *
15097866 ATTATGTAAGTTATGTAAGTTATGTATTATGAAAGGTATGTAAGTTGTGT
1 ATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTGT
15097916 ATTATGTAAGTTATGTAAGTTATG-ATTTATGTAAGTTATGTAAGTTGTGT
1 ATTATGTAAGTTATGTAAGTTATGTA-TTATGTAAGTTATGTAAGTTGTGT
* * * *
15097966 ATTATGAAAGTTATGTAAGTTGTGCATTATGTAAGTTATGTAAGTTTTGT
1 ATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTGT
* *
15098016 ATTATGTAAGTTATGTAAGTTGTGTATTATGTAAGTTGTGTATTATGTAAGTTATGT
1 ATTATGTAAGTTATGTAAGTTATGTATTATGTAA-----G--TTATGTAAGTTGTGT
* * *
15098073 TTTATGTAAGTTATGTAAGTTGTGCATTATGTAAGTTATGTAAGTTGTGT
1 ATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTGT
* * * *
15098123 ATTATGTAAGTTATGTAAGTTATGTAAGATATGT-A-TTATGAAAATTATGT
1 ATTATGTAAGTTATGTAAGTTATGT-A-TTATGTAAGTTATGTAAGTTGTGT
*
15098173 AAGTTGTGT-A-TTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG-
1 -A-TTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTGT
* * *
15098222 ATTATGTAAGTTATGTATTATGTAACTTGCGTATAATGTAAGTTGTGTAAGTTGTGT
1 ATTATGTAAGTTATGTA--A-GTTA--T--GTATTATGTAAGTTATGTAAGTTGTGT
*
15098279 ATAATGTAAGTTAT
1 ATTATGTAAGTTAT
15098293 ACAAGAAGTG
Statistics
Matches: 324, Mismatches: 28, Indels: 43
0.82 0.07 0.11
Matches are distributed among these distances:
47 5 0.02
48 7 0.02
49 10 0.03
50 197 0.61
51 6 0.02
52 14 0.04
54 1 0.00
55 1 0.00
56 24 0.07
57 59 0.18
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.46
Consensus pattern (50 bp):
ATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTGT
Found at i:15098216 original size:9 final size:9
Alignment explanation
Indices: 15097858--15098292 Score: 359
Period size: 9 Copynumber: 52.4 Consensus size: 9
15097848 TATTTTTGTA
*
15097858 TTATGTAAA
1 TTATGTAAG
15097867 TTATGTAAG
1 TTATGTAAG
15097876 TTATGTAAG
1 TTATGTAAG
15097885 TTATGT-A-
1 TTATGTAAG
*
15097892 TTATGAAAG
1 TTATGTAAG
*
15097901 GTATGTAAG
1 TTATGTAAG
*
15097910 TTGTGT-A-
1 TTATGTAAG
15097917 TTATGTAAG
1 TTATGTAAG
15097926 TTATGTAAG
1 TTATGTAAG
*
15097935 TTATG--AT
1 TTATGTAAG
15097942 TTATGTAAG
1 TTATGTAAG
15097951 TTATGTAAG
1 TTATGTAAG
*
15097960 TTGTGT-A-
1 TTATGTAAG
*
15097967 TTATGAAAG
1 TTATGTAAG
15097976 TTATGTAAG
1 TTATGTAAG
* *
15097985 TTGTG-CA-
1 TTATGTAAG
15097992 TTATGTAAG
1 TTATGTAAG
15098001 TTATGTAAG
1 TTATGTAAG
*
15098010 TTTTGT-A-
1 TTATGTAAG
15098017 TTATGTAAG
1 TTATGTAAG
15098026 TTATGTAAG
1 TTATGTAAG
*
15098035 TTGTGT-A-
1 TTATGTAAG
15098042 TTATGTAAG
1 TTATGTAAG
*
15098051 TTGTGT-A-
1 TTATGTAAG
15098058 TTATGTAAG
1 TTATGTAAG
*
15098067 TTATGT--T
1 TTATGTAAG
15098074 TTATGTAAG
1 TTATGTAAG
15098083 TTATGTAAG
1 TTATGTAAG
* *
15098092 TTGTG-CA-
1 TTATGTAAG
15098099 TTATGTAAG
1 TTATGTAAG
15098108 TTATGTAAG
1 TTATGTAAG
*
15098117 TTGTGT-A-
1 TTATGTAAG
15098124 TTATGTAAG
1 TTATGTAAG
15098133 TTATGTAAG
1 TTATGTAAG
15098142 TTATGTAAG
1 TTATGTAAG
*
15098151 ATATGT-A-
1 TTATGTAAG
* *
15098158 TTATGAAAA
1 TTATGTAAG
15098167 TTATGTAAG
1 TTATGTAAG
*
15098176 TTGTGT-A-
1 TTATGTAAG
15098183 TTATGTAAG
1 TTATGTAAG
15098192 TTATGT-A-
1 TTATGTAAG
15098199 TTATGTAAG
1 TTATGTAAG
15098208 TTATGTAAG
1 TTATGTAAG
*
15098217 -T-TGTGA-
1 TTATGTAAG
15098223 TTATGTAAG
1 TTATGTAAG
15098232 TTATGT-A-
1 TTATGTAAG
*
15098239 TTATGTAAC
1 TTATGTAAG
**
15098248 TTGCGT-A-
1 TTATGTAAG
*
15098255 TAATGTAAG
1 TTATGTAAG
*
15098264 TTGTGTAAG
1 TTATGTAAG
*
15098273 TTGTGT-A-
1 TTATGTAAG
*
15098280 TAATGTAAG
1 TTATGTAAG
15098289 TTAT
1 TTAT
15098293 ACAAGAAGTG
Statistics
Matches: 339, Mismatches: 50, Indels: 74
0.73 0.11 0.16
Matches are distributed among these distances:
7 87 0.26
8 35 0.10
9 217 0.64
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:15098261 original size:56 final size:57
Alignment explanation
Indices: 15098108--15098292 Score: 187
Period size: 56 Copynumber: 3.2 Consensus size: 57
15098098 ATTATGTAAG
* * * * * * *
15098108 TTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTATGTAAGATATGT-A-TTATGAAAA
1 TTATGTAAGTTATGTATTATGTAACTTACGT-A-TAATGTAAGTTATGTAAGTTGTG--TA
* * * *
15098167 TTATGTAAGTTGTGTATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTGTG-A
1 TTATGTAAGTTATGTATTATGTAACTTACGTATAATGTAAGTTATGTAAGTTGTGTA
* *
15098223 TTATGTAAGTTATGTATTATGTAACTTGCGTATAATGTAAGTTGTGTAAGTTGTGTA
1 TTATGTAAGTTATGTATTATGTAACTTACGTATAATGTAAGTTATGTAAGTTGTGTA
*
15098280 TAATGTAAGTTAT
1 TTATGTAAGTTAT
15098293 ACAAGAAGTG
Statistics
Matches: 114, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
56 50 0.44
57 27 0.24
58 2 0.02
59 35 0.31
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (57 bp):
TTATGTAAGTTATGTATTATGTAACTTACGTATAATGTAAGTTATGTAAGTTGTGTA
Found at i:15098271 original size:25 final size:25
Alignment explanation
Indices: 15098242--15098290 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
15098232 TTATGTATTA
15098242 TGTAACTTGCGTATAATGTAAGTTG
1 TGTAACTTGCGTATAATGTAAGTTG
* *
15098267 TGTAAGTTGTGTATAATGTAAGTT
1 TGTAACTTGCGTATAATGTAAGTT
15098291 ATACAAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.43
Consensus pattern (25 bp):
TGTAACTTGCGTATAATGTAAGTTG
Found at i:15099590 original size:26 final size:25
Alignment explanation
Indices: 15099561--15099638 Score: 93
Period size: 28 Copynumber: 2.9 Consensus size: 25
15099551 TTACGCCACA
15099561 AAGGCTATTCCTTAGAGTGCGCCATG
1 AAGG-TATTCCTTAGAGTGCGCCATG
15099587 AAGGTATTCCTTTCTAGAGTGCGCCATG
1 AAGGTATTCC--T-TAGAGTGCGCCATG
* *
15099615 AAGGTATTTCTTTAGAGTGTGCCA
1 AAGGTA-TTCCTTAGAGTGCGCCA
15099639 CCAAGACGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
25 6 0.13
26 15 0.33
27 2 0.04
28 20 0.43
29 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (25 bp):
AAGGTATTCCTTAGAGTGCGCCATG
Found at i:15099609 original size:28 final size:28
Alignment explanation
Indices: 15099573--15099627 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
15099563 GGCTATTCCT
15099573 TAGAGTGCGCCATGAAGGTATTCCTTTC
1 TAGAGTGCGCCATGAAGGTATTCCTTTC
*
15099601 TAGAGTGCGCCATGAAGGTATTTCTTT
1 TAGAGTGCGCCATGAAGGTATTCCTTT
15099628 AGAGTGTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (28 bp):
TAGAGTGCGCCATGAAGGTATTCCTTTC
Found at i:15100326 original size:26 final size:28
Alignment explanation
Indices: 15100275--15100326 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
15100265 AGTTTATAAA
**
15100275 TTCTCTTTGAGTTTTCTTTTTTAAGAAT
1 TTCTCTTTGAGTTTTCTTTTAAAAGAAT
15100303 TTCTC-TTGAG-TTTCTTTTAAAAGA
1 TTCTCTTTGAGTTTTCTTTTAAAAGA
15100327 GTTTTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 5 0.23
28 5 0.23
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.56
Consensus pattern (28 bp):
TTCTCTTTGAGTTTTCTTTTAAAAGAAT
Found at i:15105323 original size:29 final size:29
Alignment explanation
Indices: 15105281--15105390 Score: 132
Period size: 29 Copynumber: 3.8 Consensus size: 29
15105271 ATCCACCATT
15105281 GGTACATAGTACCTGGAATTGTAAACACC
1 GGTACATAGTACCTGGAATTGTAAACACC
* *
15105310 GGTACATAGTACCTAGAATTGTAAACATC
1 GGTACATAGTACCTGGAATTGTAAACACC
* * * *
15105339 GGTACATAGTGCTTGGAACTGT-AACACA
1 GGTACATAGTACCTGGAATTGTAAACACC
* **
15105367 AGTACATAGTAATTGGAATTGTAA
1 GGTACATAGTACCTGGAATTGTAA
15105391 TAACCGACAA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 22 0.32
29 46 0.68
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (29 bp):
GGTACATAGTACCTGGAATTGTAAACACC
Found at i:15105386 original size:57 final size:58
Alignment explanation
Indices: 15105281--15105390 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 58
15105271 ATCCACCATT
* ** *
15105281 GGTACATAGTACCTGGAATTGTAAACACCGGTACATAGTACCTAGAATTGTAAACATC
1 GGTACATAGTACCTGGAACTGTAAACACAAGTACATAGTAACTAGAATTGTAAACATC
* * * *
15105339 GGTACATAGTGCTTGGAACTGT-AACACAAGTACATAGTAATTGGAATTGTAA
1 GGTACATAGTACCTGGAACTGTAAACACAAGTACATAGTAACTAGAATTGTAA
15105391 TAACCGACAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 25 0.57
58 19 0.43
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (58 bp):
GGTACATAGTACCTGGAACTGTAAACACAAGTACATAGTAACTAGAATTGTAAACATC
Found at i:15109652 original size:14 final size:14
Alignment explanation
Indices: 15109633--15109660 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15109623 CTCGAGTGAA
15109633 CCACCCATATACAT
1 CCACCCATATACAT
15109647 CCACCCATATACAT
1 CCACCCATATACAT
15109661 TCTTCCCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (14 bp):
CCACCCATATACAT
Found at i:15114447 original size:127 final size:126
Alignment explanation
Indices: 15114048--15114446 Score: 611
Period size: 127 Copynumber: 3.2 Consensus size: 126
15114038 AAGGCCAAGT
* * *
15114048 AGGAACTATTGTAAAAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTGGCTGACAGTGC
1 AGGAACTACTGT-AGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
15114113 ATCCTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCGTCTTAAAATTATTTTTTC
65 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTC
* * * *
15114175 AGGAACTACTGTAGAAAAAGAGCGT-CATCGTGGGAGCTTTTTTTAGTAATTTTACTGGCTGTGC
1 AGGAACTACTGTAGAAAAAGAGCGTCCA-CGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
15114239 ATCCTGCTTGAAGTGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTTA
65 ATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTA-TTTTTTC
*
15114302 AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* * *
15114367 TCCTGCTTGAAGCGTTTTTGTCACTATTTTTTCAGAACCGTCTTCTGAAAATTAATTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTC
*
15114428 AGAAACTACTGTAGAAAAA
1 AGGAACTACTGTAGAAAAA
15114447 AATCCTTCTT
Statistics
Matches: 246, Mismatches: 23, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
125 2 0.01
126 117 0.48
127 125 0.51
128 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (126 bp):
AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
TCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTC
Found at i:15116967 original size:2 final size:2
Alignment explanation
Indices: 15116960--15116986 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15116950 NNTCTCAACT
15116960 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15116987 CTAGGCCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15119224 original size:16 final size:16
Alignment explanation
Indices: 15119192--15119221 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15119182 TGATGTGATA
15119192 TATTATTATTTTAAAT
1 TATTATTATTTTAAAT
15119208 TATTATT-TTTTAAA
1 TATTATTATTTTAAA
15119222 ATTTATCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTATTATTTTAAAT
Found at i:15121495 original size:16 final size:18
Alignment explanation
Indices: 15121456--15121489 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15121446 TAAGTTTATA
15121456 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
15121473 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
15121490 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:15130428 original size:322 final size:322
Alignment explanation
Indices: 15129843--15130479 Score: 1139
Period size: 322 Copynumber: 2.0 Consensus size: 322
15129833 TCCATATTAG
15129843 GCTCGATTATCATAAAATGAAGTTGTTTAAATGCTCAACCTTTAAGGAAATTGTCATTGTATTTA
1 GCTCGATTATCATAAAATGAAGTTGTTTAAATGCTCAACCTTTAAGGAAATTGTCATTGTATTTA
* ** *
15129908 AACTAAAGCCTGTGCTAGTAGTCCTTTTGTGTGTTTGCACAAACAAATAGATTTTTATGCTACGG
66 AACTAAAGCCTATGCTAGTAGTCCTTTTAAGTGTTTGCACAAACAAATAGATTGTTATGCTACGG
*
15129973 ACGATTGCAAGTTAGAAACAATCATGAATTACTATATTGATATTGTTGTGTATGCAGGGTAGGGT
131 ACGATAGCAAGTTAGAAACAATCATGAATTACTATATTGATATTGTTGTGTATGCAGGGTAGGGT
*
15130038 ATGTATATACAAGTGTGGATTTCTATAAGAGATTATGTGGAGTCTCTATTATTATGAGGTACAAC
196 ATGTACATACAAGTGTGGATTTCTATAAGAGATTATGTGGAGTCTCTATTATTATGAGGTACAAC
* *
15130103 TCCGGTCTAAAATCTTAAAACATTGTGTAAATAACTCCATCGATTGGGTGATTTAAACTAAA
261 TCCGATCTAAAATCTTAAAACATTGTGTAAATAACTCCATCGATTGCGTGATTTAAACTAAA
*
15130165 GCTCGATTATCATAAAATGAAGTTGTTTAAATGCTCAACCTTTAAGGAAGTTGTCATTGTATTTA
1 GCTCGATTATCATAAAATGAAGTTGTTTAAATGCTCAACCTTTAAGGAAATTGTCATTGTATTTA
*
15130230 AACTAAAGCCTATGCTGGTAGTCCTTTTAAGTGTTTGCACAAACAAATAGATTGTTATGCTACGG
66 AACTAAAGCCTATGCTAGTAGTCCTTTTAAGTGTTTGCACAAACAAATAGATTGTTATGCTACGG
* *
15130295 ACGATAGCAAGTTGGAAACAATCATGAATTACTATATTGATGTTGTTGTGTATGCAGGGTAGGGT
131 ACGATAGCAAGTTAGAAACAATCATGAATTACTATATTGATATTGTTGTGTATGCAGGGTAGGGT
15130360 ATGTACATACAAGTGTGGATTTCTATAAGAGATTATGTGGAGTCTCTATTATTATGAGGTACAAC
196 ATGTACATACAAGTGTGGATTTCTATAAGAGATTATGTGGAGTCTCTATTATTATGAGGTACAAC
* * *
15130425 TCCGATCTAAAATTTTAAATCATTGTGTAAATAACTCCATCGCTTGCGTGATTTA
261 TCCGATCTAAAATCTTAAAACATTGTGTAAATAACTCCATCGATTGCGTGATTTA
15130480 CAATTTTCTC
Statistics
Matches: 300, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
322 300 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (322 bp):
GCTCGATTATCATAAAATGAAGTTGTTTAAATGCTCAACCTTTAAGGAAATTGTCATTGTATTTA
AACTAAAGCCTATGCTAGTAGTCCTTTTAAGTGTTTGCACAAACAAATAGATTGTTATGCTACGG
ACGATAGCAAGTTAGAAACAATCATGAATTACTATATTGATATTGTTGTGTATGCAGGGTAGGGT
ATGTACATACAAGTGTGGATTTCTATAAGAGATTATGTGGAGTCTCTATTATTATGAGGTACAAC
TCCGATCTAAAATCTTAAAACATTGTGTAAATAACTCCATCGATTGCGTGATTTAAACTAAA
Found at i:15131922 original size:21 final size:21
Alignment explanation
Indices: 15131882--15131922 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15131872 ATTGAATTAA
*
15131882 ACCCTAAACCCTATACCTTAT
1 ACCCTAAACCCTACACCTTAT
*
15131903 ACCCTAAACCCTACATCTTA
1 ACCCTAAACCCTACACCTTA
15131923 GGGTTTTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.39, G:0.00, T:0.27
Consensus pattern (21 bp):
ACCCTAAACCCTACACCTTAT
Found at i:15144810 original size:22 final size:22
Alignment explanation
Indices: 15144785--15144830 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15144775 TTAAAGTTAA
*
15144785 TCTATTTTCATTTT-TTTTATTT
1 TCTA-TTTCATTTTACTTTATTT
*
15144807 TCTATTTCCTTTTACTTTATTT
1 TCTATTTCATTTTACTTTATTT
15144829 TC
1 TC
15144831 ACGCATTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (22 bp):
TCTATTTCATTTTACTTTATTT
Found at i:15145352 original size:14 final size:14
Alignment explanation
Indices: 15145333--15145362 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15145323 ATTATTGTAT
*
15145333 TTTATTATTTAAAA
1 TTTATTACTTAAAA
15145347 TTTATTACTTAAAA
1 TTTATTACTTAAAA
15145361 TT
1 TT
15145363 CGACATCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATTACTTAAAA
Found at i:15148478 original size:24 final size:24
Alignment explanation
Indices: 15148448--15148529 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
15148438 TCTGGGCTTG
15148448 TTGGGCTAAGATTCAGGTTTAGGT
1 TTGGGCTAAGATTCAGGTTTAGGT
* * * *
15148472 TTGGGCTTTA-ATT-GGGTCTGGGCTT
1 TTGGGC-TAAGATTCAGGTTTAGG--T
*
15148497 GTTGGGCTAAGAATCAGGTTTAGGT
1 -TTGGGCTAAGATTCAGGTTTAGGT
15148522 TTGGGCTA
1 TTGGGCTA
15148530 GAGTCTTCTG
Statistics
Matches: 43, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
23 6 0.14
24 17 0.40
25 6 0.14
26 8 0.19
27 6 0.14
ACGTcount: A:0.17, C:0.10, G:0.35, T:0.38
Consensus pattern (24 bp):
TTGGGCTAAGATTCAGGTTTAGGT
Found at i:15148482 original size:50 final size:50
Alignment explanation
Indices: 15148415--15148528 Score: 212
Period size: 50 Copynumber: 2.3 Consensus size: 50
15148405 GATTCGAGTC
*
15148415 GTTTA-GTTTGGGCTTTAATTGGGTCTGGGCTTGTTGGGCTAAGATTCAG
1 GTTTAGGTTTGGGCTTTAATTGGGTCTGGGCTTGTTGGGCTAAGAATCAG
15148464 GTTTAGGTTTGGGCTTTAATTGGGTCTGGGCTTGTTGGGCTAAGAATCAG
1 GTTTAGGTTTGGGCTTTAATTGGGTCTGGGCTTGTTGGGCTAAGAATCAG
15148514 GTTTAGGTTTGGGCT
1 GTTTAGGTTTGGGCT
15148529 AGAGTCTTCT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
49 5 0.08
50 58 0.92
ACGTcount: A:0.14, C:0.10, G:0.36, T:0.40
Consensus pattern (50 bp):
GTTTAGGTTTGGGCTTTAATTGGGTCTGGGCTTGTTGGGCTAAGAATCAG
Found at i:15153218 original size:9 final size:9
Alignment explanation
Indices: 15153204--15153234 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15153194 GTTAAACGAA
15153204 TCGAGTTAT
1 TCGAGTTAT
*
15153213 TCGAGTTAA
1 TCGAGTTAT
15153222 TCGAGTTAT
1 TCGAGTTAT
15153231 TCGA
1 TCGA
15153235 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15154260 original size:5 final size:5
Alignment explanation
Indices: 15154250--15154275 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15154240 CTCAAAAATT
15154250 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
15154276 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:15154376 original size:22 final size:21
Alignment explanation
Indices: 15154324--15154384 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
15154314 AGTTTTGAGT
15154324 TTTTTTTTTATATATTTTT-G
1 TTTTTTTTTATATATTTTTAG
*** *
15154344 AAGTTTATTATATATTCTTTAG
1 TTTTTTTTTATATATT-TTTAG
*
15154366 TTTTTTTTTATAAATTTTT
1 TTTTTTTTTATATATTTTT
15154385 TAGATATATT
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
20 12 0.40
21 6 0.20
22 12 0.40
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTTTTTTATATATTTTTAG
Found at i:15155580 original size:34 final size:34
Alignment explanation
Indices: 15155537--15155624 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
15155527 TTTTACAAAT
*
15155537 ATCATATCAGAATGTCATATTACCATAAACATAA
1 ATCATATCAGAATGTCATATTACCAGAAACATAA
* ** *
15155571 ATCATATCAGAATATCATATTTTCAGAAACATAT
1 ATCATATCAGAATGTCATATTACCAGAAACATAA
* * *
15155605 ATCAGATCAAAATGTAATAT
1 ATCATATCAGAATGTCATAT
15155625 CAAATCAGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.32
Consensus pattern (34 bp):
ATCATATCAGAATGTCATATTACCAGAAACATAA
Found at i:15157866 original size:18 final size:19
Alignment explanation
Indices: 15157829--15157865 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15157819 TGTAAAAAAA
*
15157829 TATAAAT-TTTGAAATTTT
1 TATAAATATTTTAAATTTT
15157847 TATAAATATTTTAAATTTT
1 TATAAATATTTTAAATTTT
15157866 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:15157875 original size:19 final size:20
Alignment explanation
Indices: 15157834--15157877 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
15157824 AAAAATATAA
*
15157834 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTTAAAAAT
15157854 ATTTT-AAA-TTTTAAAAATT
1 ATTTTGAAATTTTTAAAAA-T
15157873 ATTTT
1 ATTTT
15157878 TGAATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAAAT
Found at i:15164264 original size:43 final size:43
Alignment explanation
Indices: 15164203--15164356 Score: 236
Period size: 43 Copynumber: 3.6 Consensus size: 43
15164193 TGTCCCAGAC
* ** * *
15164203 ATGGTCTTACATAGAAATCTCGTATCGATGCCAATAGCTCAACT
1 ATGGTCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
15164247 ATGGTCTTACATGAAATCTCAAATCGATACCAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
15164290 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
15164333 ATGGTCTTACACGAAATCTCAAAT
1 ATGGTCTTACACGAAATCTCAAAT
15164357 AGATATTGGA
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
43 91 0.89
44 11 0.11
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:15172275 original size:31 final size:30
Alignment explanation
Indices: 15172240--15172301 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
15172230 GTCAACAAAA
*
15172240 AAAAAGAGTAAAAA-ATGAAAAAGTGAAAATG
1 AAAAAGA--AAAAAGATGAAAAAGTAAAAATG
*
15172271 AAAAATAAAAAATGATGAAAAAGTAAAAATG
1 AAAAAGAAAAAA-GATGAAAAAGTAAAAATG
15172302 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.19
31 22 0.81
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (30 bp):
AAAAAGAAAAAAGATGAAAAAGTAAAAATG
Found at i:15172301 original size:17 final size:15
Alignment explanation
Indices: 15172241--15172299 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 15
15172231 TCAACAAAAA
15172241 AAAAGAGTAAAAAATG
1 AAAA-AGTAAAAAATG
*
15172257 AAAAAGT-GAAAATG
1 AAAAAGTAAAAAATG
15172271 AAAAA-TAAAAAATGATG
1 AAAAAGT-AAAAA--ATG
15172288 AAAAAGTAAAAA
1 AAAAAGTAAAAA
15172300 TGGAGAGGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 1 0.03
14 11 0.31
15 6 0.17
16 4 0.11
17 13 0.36
18 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.14
Consensus pattern (15 bp):
AAAAAGTAAAAAATG
Found at i:15173785 original size:129 final size:129
Alignment explanation
Indices: 15173555--15174297 Score: 1234
Period size: 129 Copynumber: 5.8 Consensus size: 129
15173545 AATATAGCAA
** *
15173555 ATCTTGTCTCCCTAAGCAGTTTCGGAGCAGATCGAAGACGACAAATCTTATCTTCAAGAGTAAGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTAAGG
*
15173620 AAGCAGATTTAAGCCACAAGTCCTATATCACTGGTCAGCAGTGGAATAGGTTGGGAAATTACAG
66 AAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAG
** * *
15173684 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGTGTAGGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTAAGG
* * *
15173749 AAGCAGATTTAAGCCACAAGTCTTATATCCCTGGTCAGCAGTGGAATATGTTGGGAAATGACAG
66 AAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAG
*
15173813 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATTTTATCTTCAAGAGTAAGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTAAGG
* **
15173878 AAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGATTAAGAAATTACAG
66 AAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAG
*
15173942 ATCTTGTCTCCCTAAGTAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTAAGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTAAGG
15174007 AAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAG
66 AAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAG
* ** *
15174071 ATCTTGTCTCCCTAAGTAGTAGCAAAGCAGATCGGAGACGGCAAATCTTATCTTCAAGAGTAAGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTAAGG
*
15174136 AAGTAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAG
66 AAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAG
* * * **
15174200 ATCTTGTCTCCTTAAGCAATAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAGAGTAAGG
1 ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTAAGG
* *
15174265 AAGCAGATTTAAGCCACAAGTCTTATCTCCCTG
66 AAGCAGATTTAAGCCACAAGTCCTATATCCCTG
15174298 AAGGTGCAGT
Statistics
Matches: 571, Mismatches: 43, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 571 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (129 bp):
ATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTCAAGAGTAAGG
AAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGGGAAATTACAG
Found at i:15175258 original size:16 final size:15
Alignment explanation
Indices: 15175239--15175278 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
15175229 TTTTTTATTT
*
15175239 TTTTGTTTTCTTTTTC
1 TTTTGTTTTC-CTTTC
15175255 TTTTGTTTTCCTTTC
1 TTTTGTTTTCCTTTC
15175270 TTTT-TTTTC
1 TTTTGTTTTC
15175279 ATGGTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 8 0.35
16 10 0.43
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (15 bp):
TTTTGTTTTCCTTTC
Found at i:15176097 original size:21 final size:22
Alignment explanation
Indices: 15176055--15176097 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
15176045 TATACATTGA
*
15176055 TGTTTTAAATCCATAAGGTATTT
1 TGTTTTAAAT-CATAAGATATTT
*
15176078 TGTTTTAAAT-ATAATATATT
1 TGTTTTAAATCATAAGATATT
15176098 ATTTATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (22 bp):
TGTTTTAAATCATAAGATATTT
Found at i:15179943 original size:20 final size:20
Alignment explanation
Indices: 15179918--15179958 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15179908 ATCAGCCTAT
*
15179918 CATCAATTATAAATTAGTTA
1 CATCAATTAGAAATTAGTTA
15179938 CATCAATTAGAAATTAGTTA
1 CATCAATTAGAAATTAGTTA
15179958 C
1 C
15179959 TAGAGTATCT
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:0.12, G:0.07, T:0.37
Consensus pattern (20 bp):
CATCAATTAGAAATTAGTTA
Found at i:15184320 original size:40 final size:40
Alignment explanation
Indices: 15184265--15184344 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
15184255 TGGAGAGGTG
* *
15184265 GTGTAATAAGGATTATGTAATAGTTATTATGAAAATGAGT
1 GTGTAATAAGGATTATGTAATAGTCATTATAAAAATGAGT
* * *
15184305 GTGTACTATGGATTATGTAATAGTCATTGTAAAAATGAGT
1 GTGTAATAAGGATTATGTAATAGTCATTATAAAAATGAGT
15184345 ATTTTCTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.38
Consensus pattern (40 bp):
GTGTAATAAGGATTATGTAATAGTCATTATAAAAATGAGT
Found at i:15185549 original size:23 final size:22
Alignment explanation
Indices: 15185523--15185566 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
15185513 TCCCTCTCTT
15185523 ACATGTTCTTCTCTTCTCTTTTC
1 ACATGTTCTTCT-TTCTCTTTTC
* * *
15185546 ACATTTTTTTCTTTTTCTTTT
1 ACATGTTCTTCTTTCTCTTTT
15185567 AATCTTTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.09, C:0.23, G:0.02, T:0.66
Consensus pattern (22 bp):
ACATGTTCTTCTTTCTCTTTTC
Found at i:15188531 original size:6 final size:6
Alignment explanation
Indices: 15188515--15188564 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
15188505 TATCGTCCCT
* * *
15188515 CCTCATC CCTCTC CCTCTC TCTCTC CCTC-C CTTTTC CCTCTC CCTCTC
1 CCTC-TC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC
15188563 CC
1 CC
15188565 CACTTATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
5 3 0.08
6 29 0.81
7 4 0.11
ACGTcount: A:0.02, C:0.62, G:0.00, T:0.36
Consensus pattern (6 bp):
CCTCTC
Found at i:15188616 original size:25 final size:28
Alignment explanation
Indices: 15188588--15188647 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 28
15188578 TGACTCAACA
*
15188588 ATTTAATATTAATA-TAAT-T-ATTTTT
1 ATTTAATATTAATATTAATATAACTTTT
15188613 ATTTAATATTAATATTAATATAACTTTT
1 ATTTAATATTAATATTAATATAACTTTT
15188641 ATTTAAT
1 ATTTAAT
15188648 TCGATTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 14 0.45
26 4 0.13
27 1 0.03
28 12 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTTAATATTAATATTAATATAACTTTT
Found at i:15215745 original size:7 final size:7
Alignment explanation
Indices: 15215733--15215757 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15215723 ATAGCCTAAT
15215733 ATATATA
1 ATATATA
15215740 ATATATA
1 ATATATA
15215747 ATATATA
1 ATATATA
15215754 ATAT
1 ATAT
15215758 TATTTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATATA
Done.