Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 185 of 770
Found at i:55389267 original size:47 final size:48
Alignment explanation
Indices: 55389127--55389309 Score: 291
Period size: 47 Copynumber: 3.8 Consensus size: 48
55389117 GCACATCGCC
*
55389127 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
55389177 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
55389225 TACATATTTCACATTAGCCATTC-GCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
55389272 TACATATTTCACATTAGCCATTCGGC-TTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
55389310 GCATGTTCAT
Statistics
Matches: 125, Mismatches: 5, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
47 58 0.46
48 23 0.18
49 2 0.02
50 42 0.34
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:55389342 original size:45 final size:45
Alignment explanation
Indices: 55389185--55389468 Score: 217
Period size: 47 Copynumber: 6.1 Consensus size: 45
55389175 TATATATATT
* *
55389185 TCACATTGACCATTCGGCTTTACCACATAT-GCATATCTCATACATAT-T
1 TCACATTGGCCATTCGGC-TTACCACATATAGCATAT-TCAT--AT-TCA
* *
55389233 TCACATTAGCCATTC-GCTTTACCACATATA-CATATCTCATACATAT-T
1 TCACATTGGCCATTCGGC-TTACCACATATAGCATAT-TCAT--AT-TCA
* *
55389280 TCACATTAGCCATTCGGCTTACCACATATAGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCTTACCACATATAGCATATTCATATTCA
** *
55389325 TCACATTGGCCATTCGGCCTTATCACACATAT-GCATGCTCACATTCA
1 TCACATTGGCCATTCGG-CTTA-C-CACATATAGCATATTCATATTCA
* * *
55389372 TCACATTGGCCATTCGGCCTTATCACATATATGCAT-GTCACATTCA
1 TCACATTGGCCATTCGG-CTTACCACATATA-GCATATTCATATTCA
* * *
55389418 TCACATTGGCCATTCGCCTTATCTCATATATA-CACATTCA-ATTCA
1 TCACATTGGCCATTCGGCTTA-C-CACATATAGCATATTCATATTCA
55389463 TCACAT
1 TCACAT
55389469 AAAATCCTAA
Statistics
Matches: 210, Mismatches: 14, Indels: 27
0.84 0.06 0.11
Matches are distributed among these distances:
44 1 0.00
45 42 0.20
46 32 0.15
47 109 0.52
48 26 0.12
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (45 bp):
TCACATTGGCCATTCGGCTTACCACATATAGCATATTCATATTCA
Found at i:55389350 original size:22 final size:22
Alignment explanation
Indices: 55389324--55389399 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
55389314 GTTCATATTC
55389324 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
55389346 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
55389370 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
55389393 ATCACAT
1 ATCACAT
55389400 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:55389449 original size:47 final size:47
Alignment explanation
Indices: 55389280--55389448 Score: 256
Period size: 47 Copynumber: 3.7 Consensus size: 47
55389270 CATACATATT
* * * *
55389280 TCACATTAGCCATTCGG-CTTACCACATATA-GCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
55389325 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
55389372 TCACATTGGCCATTCGGCCTTATCACATATATGCATG-TCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
55389418 TCACATTGGCCATTC-GCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
55389449 ACACATTCAA
Statistics
Matches: 115, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
45 31 0.27
46 35 0.30
47 49 0.43
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
Found at i:55393695 original size:40 final size:40
Alignment explanation
Indices: 55393620--55393929 Score: 480
Period size: 40 Copynumber: 7.8 Consensus size: 40
55393610 CCAGCATGAT
* * *
55393620 TGCTCTTCGGGACCTAGCCC-GATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * *
55393659 TGCTCTTCGGGGTTTATCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
55393699 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
55393739 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
55393779 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
55393819 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
55393859 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
55393899 TGCTCTTCGGGACTTAGCCC-GATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
55393930 CTCAATTCTC
Statistics
Matches: 247, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 26 0.11
40 221 0.89
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:55395256 original size:37 final size:37
Alignment explanation
Indices: 55395197--55395304 Score: 182
Period size: 36 Copynumber: 2.9 Consensus size: 37
55395187 AGCTCAGACG
* *
55395197 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
55395234 AAATCTCCACACGTAGTCATCGGGTCTTACCC-GACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
55395270 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
55395305 ATATATTTCC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 35 0.52
37 32 0.48
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:55395575 original size:48 final size:48
Alignment explanation
Indices: 55395451--55395635 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
55395441 GCACATCGCC
*
55395451 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
55395501 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
55395549 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
55395597 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
55395636 TGCATGTTCA
Statistics
Matches: 128, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
48 84 0.66
49 2 0.02
50 42 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:55395640 original size:98 final size:97
Alignment explanation
Indices: 55395451--55395634 Score: 318
Period size: 98 Copynumber: 1.9 Consensus size: 97
55395441 GCACATCGCC
*
55395451 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
55395516 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
*
55395549 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
55395612 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
55395635 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 36 0.43
98 46 0.55
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:55395684 original size:47 final size:47
Alignment explanation
Indices: 55395605--55395797 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
55395595 CATACATATT
* * * * *
55395605 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
55395652 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
55395699 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* * ***
55395746 TCACATTGGCCATTC-GCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
55395792 TCACAT
1 TCACAT
55395798 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
46 32 0.24
47 100 0.76
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
Found at i:55406946 original size:23 final size:21
Alignment explanation
Indices: 55406920--55406969 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
55406910 CTCTACAAGG
55406920 TGATTT-GATTCTCATTTTTCTTT
1 TGATTTCGATTCT-A-TTTTC-TT
*
55406943 TGATTTCGTTTCTATTTTCTT
1 TGATTTCGATTCTATTTTCTT
55406964 TGATTT
1 TGATTT
55406970 ATCTATCGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 8 0.32
22 5 0.20
23 7 0.28
24 5 0.20
ACGTcount: A:0.12, C:0.12, G:0.10, T:0.66
Consensus pattern (21 bp):
TGATTTCGATTCTATTTTCTT
Found at i:55408378 original size:2 final size:2
Alignment explanation
Indices: 55408337--55408365 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
55408327 CCTTATGTTT
55408337 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 T
55408366 TGTTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55410845 original size:24 final size:24
Alignment explanation
Indices: 55410818--55410906 Score: 82
Period size: 24 Copynumber: 3.9 Consensus size: 24
55410808 TTCCTTTCCT
*
55410818 TTGCATT-CATCCTATGCATTTACA
1 TTGCATTGCATCATATGCA-TTACA
*
55410842 TTGCATTGCATC--AT---TTGCA
1 TTGCATTGCATCATATGCATTACA
* *
55410861 TTGCATTGCATCATTTGCATTGCA
1 TTGCATTGCATCATATGCATTACA
*
55410885 TTGCATTGCATCATTTGCATTA
1 TTGCATTGCATCATATGCATTA
55410907 AATTTCCCAA
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
19 16 0.29
21 1 0.02
23 2 0.04
24 33 0.59
25 4 0.07
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.43
Consensus pattern (24 bp):
TTGCATTGCATCATATGCATTACA
Found at i:55410850 original size:5 final size:5
Alignment explanation
Indices: 55410840--55410895 Score: 66
Period size: 5 Copynumber: 11.6 Consensus size: 5
55410830 TATGCATTTA
55410840 CATTG CATTG CA-T- CATTTG CATTG CATTG CA-T- CATTTG CATTG CATTG
1 CATTG CATTG CATTG CA-TTG CATTG CATTG CATTG CA-TTG CATTG CATTG
55410888 CATTG CAT
1 CATTG CAT
55410896 CATTTGCATT
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
3 4 0.09
4 2 0.04
5 35 0.78
6 4 0.09
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.41
Consensus pattern (5 bp):
CATTG
Found at i:55410905 original size:19 final size:19
Alignment explanation
Indices: 55410834--55410890 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
55410824 TCATCCTATG
*
55410834 CATTTACATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
55410853 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
55410872 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
55410891 TGCATCATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (19 bp):
CATTTGCATTGCATTGCAT
Found at i:55414934 original size:132 final size:131
Alignment explanation
Indices: 55414709--55415635 Score: 935
Period size: 131 Copynumber: 7.1 Consensus size: 131
55414699 GCTAAAATTT
* * * *
55414709 TAGATCTTGTTTCCCTGAAATTGAAGTGAAGCAGATCGAAGACGGCGAATCTGAGCTTCCTGAAG
1 TAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGTGAATCTGAGCTTCCTGAAG
* * *
55414774 TTGCAGTGAAGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCT-AAAA
66 TTGCAGTGAAGCAGATTTAAG-CA-CATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
55414838 TT-
129 TTA
* *
55414840 TCAGATCTCGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTGAGCTTCCTGAA
1 T-AGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGTGAATCTGAGCTTCCTGAA
* *
55414905 GTTGCAGTGAAGCTA-ATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAA
65 GTTGCAGTGAAGC-AGATTTAAG-CA-CATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAA
*
55414969 AATT-
127 GATTA
* * ** * *
55414973 CAGATCTTGTTTCCCTAAAGTTGCAGTGAAACAGATCGAAGACTGCGAATCTGAGCTTCCTGAAG
1 TAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGTGAATCTGAGCTTCCTGAAG
* * *
55415038 TTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTTCTTAAGGTTGTAGTGGAGTAGGCTGAAGA
66 TTGCAGTGAAGCAGATTTAAG-CA-CATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
55415103 TTA
129 TTA
* * * * *
55415106 TAGATCTTGTTTCCCTGATA-TTGCAGTGGGGCAGATCGATGAAGGCGAATCT-AGGCTTCTTGA
1 TAGATCTTGTTTCCCTGA-AGTTGCAGTGAGGCAGATCGAAGACGGTGAATCTGA-GCTTCCTGA
* * * *
55415169 TGTTGCAGTGAAGCAGATTTAAGCA-AGTCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGTTGAGG
64 AGTTGCAGTGAAGCAGATTTAAGCACA-TCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG
*
55415233 ATTG
128 ATTA
**** * * * * * * * *
55415237 TAGATCTCACCTCCCTAAAGTTGCAGTGAGGCAAATCAAAGATGATAAATCTTAGCTTTCTGAAG
1 TAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGTGAATCTGAGCTTCCTGAAG
* ** *
55415302 ATGCAACGAAGCAGATTTAAG--CATCCTAGCTCCCTAAGGTTGTAGTGGAGTAGGCTGAAGATT
66 TTGCAGTGAAGCAGATTTAAGCACATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATT
55415365 A
131 A
* * * * *
55415366 TAGATCTTGTTTCCCTG-AGATTGTAGTGGGGCAGATCGAAGACAGTGAATCTAAGCTTCCTGAT
1 TAGATCTTGTTTCCCTGAAG-TTGCAGTGAGGCAGATCGAAGACGGTGAATCTGAGCTTCCTGAA
* * * * *
55415430 GTTGTAGTAAAGTAGATTTAAGCA-AGTCCTAGCTCTCTAAAGTTGTAGTGGAGTAGGCTGAGGA
65 GTTGCAGTGAAGCAGATTTAAGCACA-TCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
*
55415494 TTG
129 TTA
* * * * * * * *
55415497 TAGATCTCGTCTCCTTGAAGTTGCAGTGAGGCAAATCAAAGACGATAAATCTTG-GCTTCCTAAA
1 TAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGTGAATC-TGAGCTTCCTGAA
* * ** * * * * *
55415561 GATCCAGCAAAGCATATTTAAGCA-AGTCCTAGCTCTCTAAAGTTGTAGTGAAGTGGGCTGAGGA
65 GTTGCAGTGAAGCAGATTTAAGCACA-TCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
*
55415625 TTG
129 TTA
*
55415628 TAGGTCTT
1 TAGATCTT
55415636 ATCTTCTCGA
Statistics
Matches: 672, Mismatches: 107, Indels: 34
0.83 0.13 0.04
Matches are distributed among these distances:
128 2 0.00
129 97 0.14
130 4 0.01
131 247 0.37
132 242 0.36
133 79 0.12
134 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (131 bp):
TAGATCTTGTTTCCCTGAAGTTGCAGTGAGGCAGATCGAAGACGGTGAATCTGAGCTTCCTGAAG
TTGCAGTGAAGCAGATTTAAGCACATCCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATT
A
Found at i:55415373 original size:260 final size:259
Alignment explanation
Indices: 55414756--55415635 Score: 984
Period size: 260 Copynumber: 3.3 Consensus size: 259
55414746 GAAGACGGCG
* * * * *
55414756 AATCTGAGCTTCCTGAAGTTGCAGTGAAGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGT
1 AATCTTAGCTTCCTGAAGATGCAGCGAAGCAGATTTAAG----CATCCTAGCTCCCTAAAGTTGT
* * ** *
55414821 AGTGGAGTAGGCT-AAAATT-TCAGATCTCGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGAC
62 AGTGGAGTAGGCTGAAGATTAT-AGATCTTGTTTCCCTGAA-TTGCAGTGGGGCAGATCGAAGAA
* * *
55414884 GGTGAATCT-GAGCTTCCTGAAGTTGCAGTGAAGCTA-ATTTAAGCCACCA-ACCTAGCTCCCTA
125 GGTGAATCTAG-GCTTCCTGATGTTGCAGTGAAGC-AGATTTAAG-CA--AGTCCTAGCTCTCTA
* ** * * * ** *
55414946 AAGTTGTAGTGGAGTAGGCTAAAAATT-CAGATCTTGTTTCCCTAAAGTTGCAGTGAAACAGATC
185 AAGTTGTAGTGGAGTAGGCTGAGGATTGTAGATCTCGTCTCCCTAAAGTTGCAGTGAGGCAAATC
* **
55415010 GAAGACTG-CG
250 AAAGA-TGATA
* * * * * *
55415020 AATCTGAGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTTCTTAAGGTTGT
1 AATCTTAGCTTCCTGAAGATGCAGCGAAGCAGATTTAAG----CATCCTAGCTCCCTAAAGTTGT
*
55415085 AGTGGAGTAGGCTGAAGATTATAGATCTTGTTTCCCTGATATTGCAGTGGGGCAGATCGATGAAG
62 AGTGGAGTAGGCTGAAGATTATAGATCTTGTTTCCCTGA-ATTGCAGTGGGGCAGATCGAAGAAG
* *
55415150 GCGAATCTAGGCTTCTTGATGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTG
126 GTGAATCTAGGCTTCCTGATGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTG
* **
55415215 TAGTGGAGTAGGTTGAGGATTGTAGATCTCACCTCCCTAAAGTTGCAGTGAGGCAAATCAAAGAT
191 TAGTGGAGTAGGCTGAGGATTGTAGATCTCGTCTCCCTAAAGTTGCAGTGAGGCAAATCAAAGAT
55415280 GATA
256 GATA
* * *
55415284 AATCTTAGCTTTCTGAAGATGCAACGAAGCAGATTTAAGCATCCTAGCTCCCTAAGGTTGTAGTG
1 AATCTTAGCTTCCTGAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAAGTTGTAGTG
*
55415349 GAGTAGGCTGAAGATTATAGATCTTGTTTCCCTGAGATTGTAGTGGGGCAGATCGAAGACA-GTG
66 GAGTAGGCTGAAGATTATAGATCTTGTTTCCCTGA-ATTGCAGTGGGGCAGATCGAAGA-AGGTG
* * * *
55415413 AATCTAAGCTTCCTGATGTTGTAGTAAAGTAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAG
129 AATCTAGGCTTCCTGATGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAG
* * *
55415478 TGGAGTAGGCTGAGGATTGTAGATCTCGTCTCCTTGAAGTTGCAGTGAGGCAAATCAAAGACGAT
194 TGGAGTAGGCTGAGGATTGTAGATCTCGTCTCCCTAAAGTTGCAGTGAGGCAAATCAAAGATGAT
55415543 A
259 A
* * * * * *
55415544 AATCTTGGCTTCCTAAAGATCCAGCAAAGCATATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAG
1 AATCTTAGCTTCCTGAAGATGCAGCGAAGCAGATTTAAGC-A-TCCTAGCTCCCTAAAGTTGTAG
* * * * *
55415609 TGAAGTGGGCTGAGGATTGTAGGTCTT
64 TGGAGTAGGCTGAAGATTATAGATCTT
55415636 ATCTTCTCGA
Statistics
Matches: 538, Mismatches: 67, Indels: 24
0.86 0.11 0.04
Matches are distributed among these distances:
260 235 0.44
261 2 0.00
262 43 0.08
263 36 0.07
264 143 0.27
265 76 0.14
266 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (259 bp):
AATCTTAGCTTCCTGAAGATGCAGCGAAGCAGATTTAAGCATCCTAGCTCCCTAAAGTTGTAGTG
GAGTAGGCTGAAGATTATAGATCTTGTTTCCCTGAATTGCAGTGGGGCAGATCGAAGAAGGTGAA
TCTAGGCTTCCTGATGTTGCAGTGAAGCAGATTTAAGCAAGTCCTAGCTCTCTAAAGTTGTAGTG
GAGTAGGCTGAGGATTGTAGATCTCGTCTCCCTAAAGTTGCAGTGAGGCAAATCAAAGATGATA
Found at i:55415872 original size:44 final size:44
Alignment explanation
Indices: 55415816--55416439 Score: 1005
Period size: 44 Copynumber: 14.2 Consensus size: 44
55415806 AAGACCAGAT
* **
55415816 AGATTTGGCGTCTCTGTAGTGGTAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
*
55415860 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
55415904 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
*
55415948 AGATTTGGCCTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
*
55415992 AGATTTGGCCTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
* *
55416036 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGATGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
* * *
55416080 ATATTTGGCGTCTCTGCATTGACGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
*
55416124 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
* *
55416168 AGATTTGGCATCTCTATATTGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
* * * * *
55416212 AAATTTGGCGTCTTTGTGTTGGCGGAGAGTAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
* **
55416256 AGATTTGGTGTCTCTGTATTGGCAAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
* *
55416300 AGATTTGGAGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
* *
55416344 AGATTTGGCGTCTCTGTGTTGGCGGAGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
*
55416388 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGGAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
55416432 AGATTTGG
1 AGATTTGG
55416440 TGTTCCTGAG
Statistics
Matches: 537, Mismatches: 43, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 537 1.00
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
Found at i:55418587 original size:2 final size:2
Alignment explanation
Indices: 55418546--55418574 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
55418536 CCTTATGTTT
55418546 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 T
55418575 TGTTATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55423939 original size:46 final size:46
Alignment explanation
Indices: 55423886--55424014 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
55423876 TATTTGGGCA
*
55423886 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
55423932 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
55423978 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55424015 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:55428492 original size:77 final size:78
Alignment explanation
Indices: 55428341--55428501 Score: 281
Period size: 77 Copynumber: 2.1 Consensus size: 78
55428331 AGATATTCTG
* *
55428341 AGTAGAAAGTCTCTGTATACTTTGCAAGCCATGGATACCGATTATGATTGTTTGATAATAGCTTA
1 AGTAGAAAATCTCTGTATACTTTGCAAGCCATGGATACCGATTATGATTGTCTGATAATAGCTTA
55428406 ATTTTAGCTAAGT
66 ATTTTAGCTAAGT
*
55428419 AGTAGAAAATCTCTTTATACTTTGCAAGCCATGGATA-CGATTATGATTGTCTGATAATAGCTTA
1 AGTAGAAAATCTCTGTATACTTTGCAAGCCATGGATACCGATTATGATTGTCTGATAATAGCTTA
55428483 ATTTTAGCTAAGT
66 ATTTTAGCTAAGT
55428496 A-TAGAA
1 AGTAGAA
55428502 CTAAACTGAT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 5 0.06
77 40 0.50
78 35 0.44
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (78 bp):
AGTAGAAAATCTCTGTATACTTTGCAAGCCATGGATACCGATTATGATTGTCTGATAATAGCTTA
ATTTTAGCTAAGT
Found at i:55431265 original size:15 final size:15
Alignment explanation
Indices: 55431245--55431313 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
55431235 GTATCTTGGG
55431245 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
55431260 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
55431275 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
55431290 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
55431305 TTTCTTTAT
1 TTTCTTTAT
55431314 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:55431314 original size:30 final size:30
Alignment explanation
Indices: 55431236--55431323 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
55431226 CATAGTATCG
* * * *
55431236 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
55431266 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
55431296 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
55431324 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:55433760 original size:46 final size:46
Alignment explanation
Indices: 55433707--55433882 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
55433697 TATTTGGGCA
55433707 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55433753 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
55433800 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
55433846 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55433883 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:55433862 original size:93 final size:93
Alignment explanation
Indices: 55433703--55433874 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55433693 GGGATATTTG
* *
55433703 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55433768 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55433796 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55433861 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55433875 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55436850 original size:15 final size:15
Alignment explanation
Indices: 55436830--55436898 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
55436820 GTATCTTGGG
55436830 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
55436845 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
55436860 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
55436875 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
55436890 TTTCTTTAT
1 TTTCTTTAT
55436899 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:55436899 original size:30 final size:30
Alignment explanation
Indices: 55436821--55436908 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
55436811 CATAGTATCG
* * * *
55436821 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
55436851 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
55436881 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
55436909 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:55439345 original size:46 final size:46
Alignment explanation
Indices: 55439292--55439467 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
55439282 TATTTGGGCA
55439292 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55439338 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
55439385 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
55439431 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55439468 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:55439447 original size:93 final size:93
Alignment explanation
Indices: 55439288--55439459 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55439278 GGGATATTTG
* *
55439288 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55439353 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55439381 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55439446 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55439460 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55443948 original size:77 final size:78
Alignment explanation
Indices: 55443797--55443957 Score: 281
Period size: 77 Copynumber: 2.1 Consensus size: 78
55443787 AGATATTCTG
* *
55443797 AGTAGAAAGTCTCTGTATACTTTGCAAGCCATGGATACCGATTATGATTGTTTGATAATAGCTTA
1 AGTAGAAAATCTCTGTATACTTTGCAAGCCATGGATACCGATTATGATTGTCTGATAATAGCTTA
55443862 ATTTTAGCTAAGT
66 ATTTTAGCTAAGT
*
55443875 AGTAGAAAATCTCTTTATACTTTGCAAGCCATGGATA-CGATTATGATTGTCTGATAATAGCTTA
1 AGTAGAAAATCTCTGTATACTTTGCAAGCCATGGATACCGATTATGATTGTCTGATAATAGCTTA
55443939 ATTTTAGCTAAGT
66 ATTTTAGCTAAGT
55443952 A-TAGAA
1 AGTAGAA
55443958 CTAAACTGAT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 5 0.06
77 40 0.50
78 35 0.44
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (78 bp):
AGTAGAAAATCTCTGTATACTTTGCAAGCCATGGATACCGATTATGATTGTCTGATAATAGCTTA
ATTTTAGCTAAGT
Found at i:55446937 original size:40 final size:39
Alignment explanation
Indices: 55446880--55447167 Score: 312
Period size: 40 Copynumber: 7.2 Consensus size: 39
55446870 TGAATGATAC
* * *
55446880 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
* *
55446920 CCGGGCTAAGACTCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
55446960 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
55447000 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* *
55447040 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTACAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
55447080 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* * **
55447120 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
55447160 CC-GGCTAA
1 CCGGGCTAA
55447168 ATTCCGAAGA
Statistics
Matches: 214, Mismatches: 25, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 7 0.03
40 200 0.93
41 3 0.01
42 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:55447017 original size:80 final size:80
Alignment explanation
Indices: 55446880--55447167 Score: 393
Period size: 80 Copynumber: 3.6 Consensus size: 80
55446870 TGAATGATAC
* ** * * *
55446880 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACTCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
* *** *
55446944 GTGCGAGTTGTTATAT
65 GTGCAAGTTACCAAAT
55446960 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
55447025 TGCAAGTTACCAAAT
66 TGCAAGTTACCAAAT
*
55447040 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTACATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
55447105 TGCAAGTTACCAAAT
66 TGCAAGTTACCAAAT
* ** *
55447120 CCGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATATCCGGGCTAA
55447168 ATTCCGAAGA
Statistics
Matches: 189, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
79 6 0.03
80 178 0.94
81 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCAAGTTACCAAAT
Found at i:55447162 original size:120 final size:120
Alignment explanation
Indices: 55446880--55447167 Score: 398
Period size: 120 Copynumber: 2.4 Consensus size: 120
55446870 TGAATGATAC
* * *
55446880 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACTCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
* * *** *
55446945 TGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
66 TGCGAGTTGTTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAAAT
* * ** *
55447000 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
*
55447065 TGCGAGTTGTTACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
66 TGCGAGTTGTTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAAAT
* * * *
55447120 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAA
55447168 ATTCCGAAGA
Statistics
Matches: 144, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
119 6 0.04
120 138 0.96
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTTGTTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAAAT
Found at i:55455172 original size:40 final size:39
Alignment explanation
Indices: 55455115--55455382 Score: 315
Period size: 40 Copynumber: 6.7 Consensus size: 39
55455105 TGAATGATAC
* * * *
55455115 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
55455155 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
55455195 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
55455235 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
*
55455275 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
55455315 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* *
55455355 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
55455383 TTGTGGTTAT
Statistics
Matches: 202, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 194 0.96
41 3 0.01
42 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:55455248 original size:80 final size:80
Alignment explanation
Indices: 55455115--55455375 Score: 398
Period size: 80 Copynumber: 3.3 Consensus size: 80
55455105 TGAATGATAC
* * ** * *
55455115 CCGGGCTAAGTCTCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
* *** *
55455179 GTGCGAGTTGTTATAT
65 GTGCAAGTTACCAAAT
55455195 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
55455260 TGCAAGTTACCAAAT
66 TGCAAGTTACCAAAT
55455275 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
55455340 TGCAAGTTACCAAAT
66 TGCAAGTTACCAAAT
*
55455355 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
55455376 ATTGTGCTTG
Statistics
Matches: 168, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
80 166 0.99
81 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCAAGTTACCAAAT
Found at i:55455328 original size:120 final size:120
Alignment explanation
Indices: 55455115--55455382 Score: 392
Period size: 120 Copynumber: 2.2 Consensus size: 120
55455105 TGAATGATAC
* * * * ** *
55455115 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCG
* *** *
55455180 TGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
66 TGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAAAT
*
55455235 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCG
*
55455300 TGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
66 TGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAAAT
* *
55455355 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
55455383 TTGTGGTTAT
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
120 132 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (120 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTACCAAAT
Found at i:55459177 original size:40 final size:40
Alignment explanation
Indices: 55459122--55459331 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
55459112 GAACATTGAA
55459122 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55459162 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
55459202 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
55459242 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
55459281 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
55459322 CTATATCCGG
1 ATATATCCGG
55459332 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:55466241 original size:27 final size:27
Alignment explanation
Indices: 55466195--55466247 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
55466185 CAGTAATAGT
*
55466195 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAATAACAGAATCAGG
55466222 TGGGCCTAAGCCCAAT-ACAGAATCAG
1 TGGGCCT-AGCCCAATAACAGAATCAG
55466248 TATCAGATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAATAACAGAATCAGG
Found at i:55467892 original size:27 final size:26
Alignment explanation
Indices: 55467848--55467899 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
55467838 CTCGCTGCAA
*
55467848 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
55467875 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
55467900 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:55473435 original size:40 final size:41
Alignment explanation
Indices: 55473352--55473460 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 41
55473342 TCGAATGATG
*
55473352 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAA
* * **
55473392 TCCGGACTAAGAT-CCGAAGGCATTTGTG-TGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCAAA
*
55473432 TCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC
55473461 GAGCTATTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
39 1 0.02
40 50 0.86
41 7 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAA
Found at i:55477820 original size:40 final size:40
Alignment explanation
Indices: 55477765--55477877 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
55477755 TTATTTGATG
55477765 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
55477805 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
55477845 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCCGCAGGCT
55477878 GTGCTAGATA
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 17 0.25
40 52 0.75
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:55480139 original size:41 final size:41
Alignment explanation
Indices: 55480094--55480211 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
55480084 TGAAAGATAA
55480094 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
55480135 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55480165 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55480206 ATGTAG
1 ATGTAG
55480212 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:55480150 original size:71 final size:71
Alignment explanation
Indices: 55480062--55480225 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55480052 GAGATGTATC
55480062 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55480127 AGGACA
66 AGGACA
55480133 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55480198 AGGACA
66 AGGACA
55480204 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
55480226 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:55488675 original size:40 final size:40
Alignment explanation
Indices: 55488569--55488721 Score: 202
Period size: 40 Copynumber: 3.9 Consensus size: 40
55488559 TTATTTGATG
** * *
55488569 TGGAATTGTATCCGGGCTTAAAGACCCACAAGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
*
55488609 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTTGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
* *
55488649 TGGAATTGTATCCGGGCTTAAAGACCTGTAGGCTTCGTAC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
* *
55488689 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCTGCAGGCT
55488722 GTGCTAGATA
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 17 0.17
40 84 0.83
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
Found at i:55512954 original size:27 final size:27
Alignment explanation
Indices: 55512924--55512975 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
55512914 GAGCATAATC
*
55512924 GTCATTCTACCATACAGGGGTATTACG
1 GTCATTCTACCATACAGGGGCATTACG
* * *
55512951 GTCATTTTGCCCTACAGGGGCATTA
1 GTCATTCTACCATACAGGGGCATTA
55512976 TAGTCATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCATTCTACCATACAGGGGCATTACG
Found at i:55516181 original size:27 final size:26
Alignment explanation
Indices: 55516151--55516209 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
55516141 AAGCATAATC
*
55516151 GTCATTCTACCATACAGGGGTATTATA
1 GTCATTCTACCATACA-GGGCATTATA
* * *
55516178 GTCATTTTGCCCTACAGGGCATTATA
1 GTCATTCTACCATACAGGGCATTATA
55516204 GTCATT
1 GTCATT
55516210 TTCTAAACCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCATTCTACCATACAGGGCATTATA
Found at i:55520190 original size:18 final size:19
Alignment explanation
Indices: 55520167--55520202 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
55520157 AAACTAGAAA
55520167 AAAAACAAATGC-TAAATT
1 AAAAACAAATGCATAAATT
*
55520185 AAAAACAAGTGCATAAAT
1 AAAAACAAATGCATAAAT
55520203 CAAGAACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.61, C:0.11, G:0.08, T:0.19
Consensus pattern (19 bp):
AAAAACAAATGCATAAATT
Found at i:55522885 original size:18 final size:18
Alignment explanation
Indices: 55522859--55522915 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
55522849 TATAAGAAAT
*
55522859 AATATAATAACTAAAAGA
1 AATAAAATAACTAAAAGA
55522877 AATAAAATAAC-AGTAAAGA
1 AATAAAATAACTA--AAAGA
55522896 AATAAAATAA-TAAAAAGA
1 AATAAAATAACT-AAAAGA
55522914 AA
1 AA
55522916 AACAACTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 1 0.03
18 17 0.50
19 15 0.44
20 1 0.03
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.18
Consensus pattern (18 bp):
AATAAAATAACTAAAAGA
Found at i:55522994 original size:12 final size:10
Alignment explanation
Indices: 55522986--55523031 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
55522976 AATATAAATG
55522986 AAATAATAAT
1 AAATAATAAT
55522996 AAA-AATAAT
1 AAATAATAAT
55523005 AAATAATAA-
1 AAATAATAAT
55523014 ATAATAAATAATT
1 A-AAT-AATAA-T
55523027 AAATA
1 AAATA
55523032 CAAAGGGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
9 10 0.32
10 11 0.35
11 6 0.19
12 3 0.10
13 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATAATAAT
Found at i:55523010 original size:7 final size:7
Alignment explanation
Indices: 55522986--55523031 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
55522976 AATATAAATG
55522986 AAATAAT
1 AAATAAT
55522993 -AATAA-
1 AAATAAT
55522998 AAATAAT
1 AAATAAT
55523005 AAATAAT
1 AAATAAT
55523012 AAATAAT
1 AAATAAT
55523019 AAATAATT
1 AAATAA-T
55523027 AAATA
1 AAATA
55523032 CAAAGGGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 10 0.28
7 20 0.56
8 6 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:55526726 original size:31 final size:29
Alignment explanation
Indices: 55526682--55526753 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 29
55526672 ACCAGAAGCA
* *
55526682 AATAAAAGA-AAAATTAGAATGTAAAAATT
1 AATAAAA-ATAAAATAAAAATGTAAAAATT
**
55526711 AACTAAAAAATAAAATAAAAATGTCTAAATT
1 AA-T-AAAAATAAAATAAAAATGTAAAAATT
55526742 AATAAAAATAAA
1 AATAAAAATAAA
55526754 CTGTTCCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 11 0.31
30 3 0.08
31 22 0.61
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (29 bp):
AATAAAAATAAAATAAAAATGTAAAAATT
Found at i:55530879 original size:48 final size:48
Alignment explanation
Indices: 55530700--55530892 Score: 208
Period size: 48 Copynumber: 3.9 Consensus size: 48
55530690 TCTATTGTGA
* * *
55530700 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGT
* * * **
55530751 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT
* * *
55530799 GAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTAT
1 --GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGT
* *
55530849 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
55530893 TAGCTTCGGC
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 44 0.36
50 42 0.34
51 35 0.29
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGT
Found at i:55533870 original size:15 final size:15
Alignment explanation
Indices: 55533850--55533914 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
55533840 GTATCTTGGG
55533850 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
55533865 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
55533880 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
55533895 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
55533909 TTTCTT
1 TTTCTT
55533915 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:55533880 original size:30 final size:31
Alignment explanation
Indices: 55533846--55533914 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
55533836 TATCGTATCT
55533846 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
55533876 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
55533906 -GGTTTTCTT
1 TGGGTTTCTT
55533915 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:55536115 original size:50 final size:48
Alignment explanation
Indices: 55536050--55536235 Score: 221
Period size: 50 Copynumber: 3.8 Consensus size: 48
55536040 TGAGGTCGCA
* *
55536050 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC-AGACTGTGATCACG
* **
55536100 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GTGA--TCACG
* * * *
55536150 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTG-TGATCACG
*
55536199 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
55536236 TAGCTTCGGC
Statistics
Matches: 119, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
47 1 0.01
48 6 0.05
49 38 0.32
50 71 0.60
51 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTGATCACG
Found at i:55538117 original size:42 final size:43
Alignment explanation
Indices: 55538043--55538147 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 43
55538033 GATTTGAGAT
* *
55538043 TTACATGTAAGACCATGTCTGGGACATCGGCATCG-TATTTTA
1 TTACATGTAAGACCATGTCTAGGACATCGGCATCGATATTTGA
* * * *
55538085 TTTCGTGTAAGACCTTGTCTAGGATAGT-GGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTAGGACA-TCGGCATCGATATTTGA
*
55538128 TTACATGTAAGACCACGTCT
1 TTACATGTAAGACCATGTCT
55538148 GGGATGTTGG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
42 28 0.55
43 23 0.45
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTAGGACATCGGCATCGATATTTGA
Found at i:55538139 original size:43 final size:42
Alignment explanation
Indices: 55538026--55538147 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
55538016 TCTGGGACGT
* *
55538026 TGGCATCGAT-TTGAGATTTACATGTAAGACCATGTCTGGGACA
1 TGGCATCGATATT-TGA-TTACATGTAAGACCATGTCTAGGACA
* * * * *
55538069 TCGGCATCG-TATTTTATTTCGTGTAAGACCTTGTCTAGGATA
1 T-GGCATCGATATTTGATTACATGTAAGACCATGTCTAGGACA
*
55538111 GTGGCATCGATATTTGATTACATGTAAGACCACGTCT
1 -TGGCATCGATATTTGATTACATGTAAGACCATGTCT
55538148 GGGATGTTGG
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
42 28 0.44
43 26 0.41
44 9 0.14
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (42 bp):
TGGCATCGATATTTGATTACATGTAAGACCATGTCTAGGACA
Found at i:55538159 original size:43 final size:43
Alignment explanation
Indices: 55537989--55538160 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 43
55537979 CATAGGATTC
* * * * *
55537989 CGATATGTGATTTCGTGTAAGACCCCATCTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
* * * *
55538032 CGAT-TTGAGATTTACATGTAAGACCATGTCTGGGACATCGGCAT
1 CGATATT-TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCAT
* * * ** * *
55538076 CG-TATTTTATTTCGTGTAAGACCTTGTCTAGGATAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTGGGA-CGTTGGCAT
*
55538118 CGATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
55538161 TGTACGAACT
Statistics
Matches: 98, Mismatches: 25, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
42 29 0.30
43 39 0.40
44 30 0.31
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:55538465 original size:119 final size:119
Alignment explanation
Indices: 55538311--55538549 Score: 469
Period size: 119 Copynumber: 2.0 Consensus size: 119
55538301 GAGTCTGAAT
*
55538311 ATGATCTTTTGATATGTGAGCTACATGGAAATATGATGTATTTATGAGTAAGTGATTATGAACAA
1 ATGATATTTTGATATGTGAGCTACATGGAAATATGATGTATTTATGAGTAAGTGATTATGAACAA
55538376 TTGAGCTAAATAAGAAATAAGAACTTGCTATTGTGTTATGTCATGATTCATATG
66 TTGAGCTAAATAAGAAATAAGAACTTGCTATTGTGTTATGTCATGATTCATATG
55538430 ATGATATTTTGATATGTGAGCTACATGGAAATATGATGTATTTATGAGTAAGTGATTATGAACAA
1 ATGATATTTTGATATGTGAGCTACATGGAAATATGATGTATTTATGAGTAAGTGATTATGAACAA
55538495 TTGAGCTAAATAAGAAATAAGAACTTGCTATTGTGTTATGTCATGATTCATATG
66 TTGAGCTAAATAAGAAATAAGAACTTGCTATTGTGTTATGTCATGATTCATATG
55538549 A
1 A
55538550 ATGAATTGGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (119 bp):
ATGATATTTTGATATGTGAGCTACATGGAAATATGATGTATTTATGAGTAAGTGATTATGAACAA
TTGAGCTAAATAAGAAATAAGAACTTGCTATTGTGTTATGTCATGATTCATATG
Found at i:55541207 original size:46 final size:45
Alignment explanation
Indices: 55541152--55541321 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 45
55541142 ATTTTTGGCT
*
55541152 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAAGAGAG-C
* * *
55541198 ATTGTAAGACCATATCTGGGACATGGCATCAG---CATTAAGACGAAAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTAAGA-G--AGC
* *
55541245 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GACGTA-AGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTAAG-AGAG-C
55541292 AGTGTAAGACATGTCTGGGACATGCATCGG
1 AGTGTAAGACATGTCTGGGACATGCATCGG
55541322 TGTAAGACCA
Statistics
Matches: 103, Mismatches: 9, Indels: 24
0.76 0.07 0.18
Matches are distributed among these distances:
45 7 0.07
46 47 0.46
47 28 0.27
48 16 0.16
49 3 0.03
50 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAAGAGAGC
Found at i:55541341 original size:29 final size:29
Alignment explanation
Indices: 55541293--55541350 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
55541283 ACGTAAGCCA
*
55541293 GTGTAAGACATGTCTGGGACAT-GCATCG
1 GTGTAAGACATGTCTAGGACATGGCATCG
*
55541321 GTGTAAGACCATGTTTAGGACATGGCATCG
1 GTGTAAGA-CATGTCTAGGACATGGCATCG
55541351 ACTTGAGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 8 0.31
29 12 0.46
30 6 0.23
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
GTGTAAGACATGTCTAGGACATGGCATCG
Found at i:55547849 original size:29 final size:27
Alignment explanation
Indices: 55547815--55547917 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
55547805 TACTCAATCA
*
55547815 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
55547844 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
55547873 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
55547902 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
55547918 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:55555088 original size:29 final size:27
Alignment explanation
Indices: 55555054--55555156 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
55555044 TACTCAATCA
*
55555054 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
55555083 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
55555112 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
55555141 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
55555157 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:55561811 original size:2 final size:2
Alignment explanation
Indices: 55561806--55561830 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55561796 TTTTTTATTG
55561806 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
55561831 ATTTGATCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55563014 original size:36 final size:36
Alignment explanation
Indices: 55562947--55563022 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 36
55562937 TTTAAACATG
*
55562947 ATTTATTGATTTGTAAATATTTTAAAATTTAT-TAGA
1 ATTTATTAATTTGTAAATATTTTAAAATTTATAT-GA
*
55562983 ATTTATTAATTT-TATAATA-TTTATAAGTTTATATGA
1 ATTTATTAATTTGTA-AATATTTTA-AAATTTATATGA
55563019 ATTT
1 ATTT
55563023 TAATATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
35 6 0.17
36 28 0.80
37 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (36 bp):
ATTTATTAATTTGTAAATATTTTAAAATTTATATGA
Found at i:55563252 original size:14 final size:14
Alignment explanation
Indices: 55563233--55563263 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
55563223 TAATGAAAGG
55563233 ATTTGATTATTTTA
1 ATTTGATTATTTTA
55563247 ATTTGATTATTTTA
1 ATTTGATTATTTTA
55563261 ATT
1 ATT
55563264 AACATAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATTTGATTATTTTA
Found at i:55563945 original size:17 final size:20
Alignment explanation
Indices: 55563908--55563947 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
55563898 AATTTTTGGA
55563908 ATTTTTTCGTATTTATTTAT
1 ATTTTTTCGTATTTATTTAT
55563928 ATTTTTTC-T-TTT-TTTAT
1 ATTTTTTCGTATTTATTTAT
55563945 ATT
1 ATT
55563948 CACTCATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 1 0.05
20 8 0.40
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (20 bp):
ATTTTTTCGTATTTATTTAT
Found at i:55564020 original size:20 final size:20
Alignment explanation
Indices: 55563982--55564019 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
55563972 ATTTTTCTTT
* *
55563982 TATATTTCCTTATAATTTTC
1 TATATTTCATCATAATTTTC
55564002 TATATTTCATCAT-ATTTT
1 TATATTTCATCATAATTTT
55564020 TTTGATACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTTCATCATAATTTTC
Found at i:55564356 original size:34 final size:34
Alignment explanation
Indices: 55564285--55564362 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
55564275 GAGTTAACAC
*
55564285 TTAATTTTTATATAAAATTAAACTTTTATCAAAT
1 TTAATTTTTATATAAAAGTAAACTTTTATCAAAT
*
55564319 TTAATATTATTATATTAAAAGTAAA-TTTT-T-AACT
1 TTAAT-TT-TTATA-TAAAAGTAAACTTTTATCAAAT
55564353 TTAATTTTTA
1 TTAATTTTTA
55564363 AGAATATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
32 3 0.08
33 2 0.05
34 13 0.33
35 3 0.08
36 9 0.23
37 9 0.23
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (34 bp):
TTAATTTTTATATAAAAGTAAACTTTTATCAAAT
Found at i:55564657 original size:23 final size:23
Alignment explanation
Indices: 55564629--55564678 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
55564619 AAATTTAGTG
*
55564629 ATAAATAATTT-ATAGTATAAAAT
1 ATAAATAATTTAATAATAT-AAAT
*
55564652 ATAAATATTTTAATAATATAAAT
1 ATAAATAATTTAATAATATAAAT
55564675 ATAA
1 ATAA
55564679 GTGTTTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAAATAATTTAATAATATAAAT
Found at i:55569643 original size:39 final size:39
Alignment explanation
Indices: 55569596--55569675 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 39
55569586 CGGGATTTAA
55569596 CCGGATATAGCT-ACTCGCT-CAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCG-TACAATGCCTTCGGGACATAGC
*
55569635 CCGGATATAGTAACTCGTACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGTA-CAATGCCTTCGGGACATAGC
55569675 C
1 C
55569676 TGTGACAGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
38 2 0.05
39 15 0.41
40 20 0.54
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
CCGGATATAGTAACTCGTACAATGCCTTCGGGACATAGC
Found at i:55571521 original size:39 final size:39
Alignment explanation
Indices: 55571357--55571539 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
55571347 TCGAATGATG
* * * *
55571357 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
*
55571397 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATT-GTGCGAGTTACTAAA
*
55571437 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
*
55571477 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
*
55571517 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
55571540 TGAACGAGTA
Statistics
Matches: 129, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 37 0.29
40 85 0.66
41 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:55571548 original size:79 final size:80
Alignment explanation
Indices: 55571357--55571574 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
55571347 TCGAATGATG
* * **
55571357 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
55571421 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
55571437 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
55571500 T-GTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
* **
55571517 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
55571575 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 18
0.80 0.07 0.12
Matches are distributed among these distances:
78 16 0.13
79 47 0.39
80 48 0.40
81 8 0.07
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:55579564 original size:40 final size:40
Alignment explanation
Indices: 55579372--55579557 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
55579362 TCGAATGATG
* * *
55579372 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
55579412 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55579452 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55579492 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55579533 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55579558 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55579564 original size:80 final size:80
Alignment explanation
Indices: 55579372--55579590 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 80
55579362 TCGAATGATG
* * **
55579372 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
55579436 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
55579452 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
55579514 TCTGTGCGAGTTACTATAA
64 TC-GTGCGAGTTACTA-AA
* **
55579533 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
55579591 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
79 19 0.16
80 90 0.76
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:55580359 original size:19 final size:19
Alignment explanation
Indices: 55580335--55580383 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
55580325 TCTGGTATTG
55580335 ACACGGGCGTGTCAAAGGC
1 ACACGGGCGTGTCAAAGGC
55580354 ACACGGGCGTGTCAAAGGC
1 ACACGGGCGTGTCAAAGGC
55580373 ACACGGGCGTG
1 ACACGGGCGTG
55580384 CCTCTGTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.24, C:0.27, G:0.39, T:0.10
Consensus pattern (19 bp):
ACACGGGCGTGTCAAAGGC
Found at i:55584485 original size:26 final size:30
Alignment explanation
Indices: 55584456--55584511 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
55584446 ATGGGTGATA
55584456 AAATA-ATG-AAA-AAA-AAAAGAAAAAAG
1 AAATAGATGAAAACAAAGAAAAGAAAAAAG
55584482 AAATATGATGAAAACAAAGAAAAGAAAAAA
1 AAATA-GATGAAAACAAAGAAAAGAAAAAA
55584512 AAAAGTGTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 5 0.20
28 3 0.12
29 3 0.12
30 3 0.12
31 11 0.44
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (30 bp):
AAATAGATGAAAACAAAGAAAAGAAAAAAG
Found at i:55585648 original size:28 final size:28
Alignment explanation
Indices: 55585578--55585676 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
55585568 CATGAAATTG
* * *
55585578 GCACTAAGTGTGCGGGTTTAAAATTTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTT-TATA
55585609 GCACTAAGTGTGCGAGTTTGATTTTATA
1 GCACTAAGTGTGCGAGTTTGATTTTATA
*
55585637 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTTTATA
55585664 GCACTAAGTGTGC
1 GCACTAAGTGTGC
55585677 AGACTCACTA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 23 0.36
28 19 0.30
29 4 0.06
31 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTTTATA
Found at i:55585688 original size:27 final size:27
Alignment explanation
Indices: 55585608--55585689 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
55585598 AAATTTGTAC
* * * *
55585608 AGCACTAAGTGTGCGAGTTTGATTTTAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
* * *
55585636 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
55585663 AGCACTAAGTGTGC-AGACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
55585690 GTTTTGAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.04
27 30 0.61
28 17 0.35
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:55589720 original size:29 final size:29
Alignment explanation
Indices: 55589658--55589760 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
55589648 GTGACGAGAT
* * *
55589658 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
55589687 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
55589716 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
55589745 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55589761 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:55600548 original size:28 final size:29
Alignment explanation
Indices: 55600481--55600581 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
55600471 ATAGTGAATC
*
55600481 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
55600510 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
55600538 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
55600568 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55600582 AATCTTGTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:55609540 original size:21 final size:21
Alignment explanation
Indices: 55609514--55609574 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
55609504 CACTTGACAT
55609514 AGGGGCACATGCCCATGTGAA
1 AGGGGCACATGCCCATGTGAA
55609535 AGGGGCACATGCCCATGTGAA
1 AGGGGCACATGCCCATGTGAA
* *
55609556 AGGGGCACACGCCCGTGTG
1 AGGGGCACATGCCCATGTG
55609575 GCCAAATCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.25, C:0.26, G:0.36, T:0.13
Consensus pattern (21 bp):
AGGGGCACATGCCCATGTGAA
Found at i:55612381 original size:43 final size:43
Alignment explanation
Indices: 55612321--55612406 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
55612311 GATATATGTG
** *
55612321 GCATCCGAGCTTGTTGAGTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCGA
**
55612364 GCATCCGAGCTCATTGAGTGGTGTGAGTTCATAATGGATGCGA
1 GCATCCGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCGA
55612407 TAAATGTGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCGA
Found at i:55617304 original size:21 final size:22
Alignment explanation
Indices: 55617279--55617334 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
55617269 CACGGCCTAG
**
55617279 CACACGGGCGTGT-CCTAGGGT
1 CACACGGGCGTGTCCCTAGGAC
* * *
55617300 CACACTGGCATGTCCCTTGGAC
1 CACACGGGCGTGTCCCTAGGAC
55617322 CACACGGGCGTGT
1 CACACGGGCGTGT
55617335 GAGCCCTGTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTCCCTAGGAC
Found at i:55618904 original size:27 final size:27
Alignment explanation
Indices: 55618874--55618928 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
55618864 TAAGAGATCG
55618874 TGCGAGACCATGGCTGAATGCTTGCTA
1 TGCGAGACCATGGCTGAATGCTTGCTA
*
55618901 TGCGAGAGCATGGCTGAATGCTTGCTA
1 TGCGAGACCATGGCTGAATGCTTGCTA
55618928 T
1 T
55618929 CAGGAACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (27 bp):
TGCGAGACCATGGCTGAATGCTTGCTA
Found at i:55622461 original size:58 final size:56
Alignment explanation
Indices: 55622313--55622461 Score: 158
Period size: 56 Copynumber: 2.6 Consensus size: 56
55622303 ATCATATAAC
* * *
55622313 AGGATTACCAGTCCAGGCTAAATCCTTAATATAACGTATGCTCAAAAAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCTTACTATAACGTATACTCAAAAAGATCAATT
* * * * *
55622369 AGGATTACCAGTCCAGGCTAAACCCTAAAC-ATAACGTATACTCAAGAGGTATTATATT
1 AGGATTACCAGTCCAGGCTAAATCCT-TACTATAACGTATACTCAAAAAG-ATCA-ATT
* *
55622427 AGGATTACCCA-TCCGGGCTAAATCCTTCCTATAAC
1 AGGATTA-CCAGTCCAGGCTAAATCCTTACTATAAC
55622462 AAGATCAATA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
56 41 0.54
57 4 0.05
58 28 0.37
59 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (56 bp):
AGGATTACCAGTCCAGGCTAAATCCTTACTATAACGTATACTCAAAAAGATCAATT
Found at i:55625305 original size:16 final size:16
Alignment explanation
Indices: 55625284--55625316 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
55625274 AAGTTGGCTA
55625284 TTCTATACATAATTGG
1 TTCTATACATAATTGG
55625300 TTCTATACATAATTGG
1 TTCTATACATAATTGG
55625316 T
1 T
55625317 ATATACATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (16 bp):
TTCTATACATAATTGG
Found at i:55625468 original size:24 final size:24
Alignment explanation
Indices: 55625453--55625586 Score: 187
Period size: 24 Copynumber: 5.6 Consensus size: 24
55625443 CGGATTTGAG
*
55625453 TGGCACTATGTGTGCGTATTGGTA
1 TGGCACTATGTGTGCGTATTTGTA
*
55625477 TGGAACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTATTTGTA
* *
55625501 TCGCACTATGTGTGCATATTTGTA
1 TGGCACTATGTGTGCGTATTTGTA
*
55625525 TGGCACTATGTGTGCGTATATGTA
1 TGGCACTATGTGTGCGTATTTGTA
* * * *
55625549 TGGCACTACGTGTGCGTAATTATT
1 TGGCACTATGTGTGCGTATTTGTA
55625573 TGGCACTATGTGTG
1 TGGCACTATGTGTG
55625587 TGGAGTTGAA
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 96 1.00
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.39
Consensus pattern (24 bp):
TGGCACTATGTGTGCGTATTTGTA
Found at i:55630390 original size:42 final size:41
Alignment explanation
Indices: 55630278--55630402 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 41
55630268 AAAATCTTTT
* ** *
55630278 TTTTTTCTTTTCAAAATTTAAATTTCAAACTAATTAATTTCA
1 TTTTTTCTTAT-AAAATTTAAATTAAAAACTTATTAATTTCA
*
55630320 TTTTTTCCTTCT-AAATTTAAATTAAAAACTTATTAATTTCA
1 TTTTTT-CTTATAAAATTTAAATTAAAAACTTATTAATTTCA
*
55630361 TTTGTTTCTTATAAAATTTAAAATAAAAACTTATTAATTTCA
1 TTT-TTTCTTATAAAATTTAAATTAAAAACTTATTAATTTCA
55630403 CTTCTTTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 33 0.45
42 37 0.50
43 4 0.05
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.50
Consensus pattern (41 bp):
TTTTTTCTTATAAAATTTAAATTAAAAACTTATTAATTTCA
Found at i:55632883 original size:15 final size:14
Alignment explanation
Indices: 55632849--55632888 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
55632839 ACAACCACTT
55632849 CAAAAATG-AAACC
1 CAAAAATGAAAACC
*
55632862 GAAAAATGAAACACC
1 CAAAAATGAAA-ACC
55632877 CAAAAATGAAAA
1 CAAAAATGAAAA
55632889 AGCGTGCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 7 0.30
14 3 0.13
15 13 0.57
ACGTcount: A:0.65, C:0.17, G:0.10, T:0.07
Consensus pattern (14 bp):
CAAAAATGAAAACC
Found at i:55637334 original size:2 final size:2
Alignment explanation
Indices: 55637322--55637354 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
55637312 ATGATGAAGA
*
55637322 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
55637355 ACAAGTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 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):
AT
Found at i:55641564 original size:96 final size:96
Alignment explanation
Indices: 55641400--55641592 Score: 296
Period size: 96 Copynumber: 2.0 Consensus size: 96
55641390 AACGAAAGGA
* * * * *
55641400 AGAATAAAATTGAGCTATCTCCTTTTGTGTAATGTTATTAGTCTAGTTCAAAAGATTATAAGGGT
1 AGAATAAAATTGAGATATCACCTTTTGTGCAATGTTATTAGTCTAGCTCAAAAGATCATAAGGGT
*
55641465 TTCCAATGTCTAATTAAATATCCAAATAGAG
66 TTCCAATGTCCAATTAAATATCCAAATAGAG
* * *
55641496 AGAATACAATTGAGATATCACCTTTTGTGCAATGTTATTGGTGTAGCTCAAAAGATCATAAGGGT
1 AGAATAAAATTGAGATATCACCTTTTGTGCAATGTTATTAGTCTAGCTCAAAAGATCATAAGGGT
*
55641561 TTCCAATGTCCAATTAAATATCCAACTAGAG
66 TTCCAATGTCCAATTAAATATCCAAATAGAG
55641592 A
1 A
55641593 AGAAAGTAAG
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (96 bp):
AGAATAAAATTGAGATATCACCTTTTGTGCAATGTTATTAGTCTAGCTCAAAAGATCATAAGGGT
TTCCAATGTCCAATTAAATATCCAAATAGAG
Found at i:55652056 original size:80 final size:80
Alignment explanation
Indices: 55651923--55652089 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 80
55651913 AAATGATACT
* * ** * *
55651923 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATTCGGGCTAAGACCCGAAGGC-ATTCG
1 CGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATT-G
*
55651987 TGCGAGTTGTTATATC
65 TGCGAGTGGTTATATC
* *
55652003 CGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CGGGCTAAGACCCGAAGGCATTTATGCAAG-TGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
**
55652067 TGCTTGTGGTTATATC
65 TGCGAGTGGTTATATC
55652083 C-GGCTAA
1 CGGGCTAA
55652090 ATTCCGAAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 6 0.08
80 64 0.86
81 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTGT
GCGAGTGGTTATATC
Found at i:55652084 original size:40 final size:40
Alignment explanation
Indices: 55651923--55652089 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
55651913 AAATGATACT
* * * *
55651923 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATT
1 CGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATC
*
55651963 CGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATATC
1 CGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATATC
* * ** *
55652003 CGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTATATC
* * *
55652043 CGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATC
1 CGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATC
55652083 C-GGCTAA
1 CGGGCTAA
55652090 ATTCCGAAGA
Statistics
Matches: 102, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
39 8 0.08
40 90 0.88
41 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATC
Found at i:55653517 original size:27 final size:26
Alignment explanation
Indices: 55653479--55653698 Score: 199
Period size: 27 Copynumber: 8.2 Consensus size: 26
55653469 TTACACATCC
*
55653479 TACCACATAAGGGCAAAATAATCATTT
1 TACCACATAAGGGCAAAAT-GTCATTT
** * *
55653506 TACCTTATAAGGGAAAAATCATCATTT
1 TACCACATAAGGGCAAAAT-GTCATTT
* *
55653533 CACCACATAAGGGCAAAACTGTCATGT
1 TACCACATAAGGGCAAAA-TGTCATTT
* * *
55653560 TAACACATAAGGGAAAAACTGTTATTT
1 TACCACATAAGGGCAAAA-TGTCATTT
* * *
55653587 TTCCATATAAAGGCAAAACTGTCATTT
1 TACCACATAAGGGCAAAA-TGTCATTT
55653614 T-CTCACATAAGGGCAAAATCGTCATTT
1 TAC-CACATAAGGGCAAAAT-GTCATTT
* *
55653641 TAACACAAAAGGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAAT-GTCATTT
* *
55653668 TAACACAAAAGGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAAT-GTCATTT
55653695 TACC
1 TACC
55653699 TTACAGGGGT
Statistics
Matches: 162, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 159 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (26 bp):
TACCACATAAGGGCAAAATGTCATTT
Found at i:55653718 original size:27 final size:27
Alignment explanation
Indices: 55653688--55653778 Score: 137
Period size: 27 Copynumber: 3.4 Consensus size: 27
55653678 GGGCAAAATA
* *
55653688 GTCATTTTACCTTACAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
55653715 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
* *
55653742 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTTG
*
55653769 ATCATTTTAC
1 GTCATTTTAC
55653779 AAGTAAATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTTG
Found at i:55657639 original size:48 final size:48
Alignment explanation
Indices: 55657568--55658345 Score: 1232
Period size: 48 Copynumber: 16.0 Consensus size: 48
55657558 ATAAATATAT
*
55657568 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* *
55657616 ATATATGTGTGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55657664 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* *
55657712 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGCGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* *
55657760 ATATATGCGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* *
55657808 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGCGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55657856 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATA--T-GT---G--G--TAAAGCCGAATGGCGAATGTGAA
55657914 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55657962 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55658010 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
55658058 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55658106 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55658154 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55658202 ATATATATGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* * *
55658250 ATATATATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* * * * * * *
55658298 ATATGTATGAGATATGAATATGTGGTAAATCCGAATAGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
55658346 GGTTGTAACA
Statistics
Matches: 688, Mismatches: 32, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
48 637 0.93
50 2 0.00
51 2 0.00
52 1 0.00
54 1 0.00
55 2 0.00
56 2 0.00
58 41 0.06
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
Found at i:55658441 original size:37 final size:37
Alignment explanation
Indices: 55658391--55658497 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
55658381 GAAATATATT
55658391 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
* *
55658428 CCGGGTAAGACCCGATGACTACGTGTGGAGAGTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
* *
55658465 CCGAGTAAGACCCGATGACTTCGTGTGGAGATT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATT
55658498 TCGTCTGAGC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:55659775 original size:40 final size:40
Alignment explanation
Indices: 55659731--55660042 Score: 516
Period size: 40 Copynumber: 7.8 Consensus size: 40
55659721 GAGAATTGAG
*
55659731 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
55659771 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
55659811 AGTGATGTATCCGGACTAAGATCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
55659851 AGTGATGTATCCGGACTTAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
55659891 AGTGATGTATTCAGACTAAGATCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
55659931 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
55659971 AGTGATGTATCCGGACTAAGTCCCAAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
55660011 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
55660043 ATCATGCTGG
Statistics
Matches: 255, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 255 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:55662298 original size:29 final size:29
Alignment explanation
Indices: 55662266--55662338 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
55662256 CTTCGAGCTC
*
55662266 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
55662295 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
55662324 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
55662339 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:55669516 original size:29 final size:29
Alignment explanation
Indices: 55669484--55669556 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
55669474 CTTCGAGCTC
*
55669484 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
55669513 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
55669542 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
55669557 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:55673369 original size:48 final size:48
Alignment explanation
Indices: 55673300--55674093 Score: 679
Period size: 48 Copynumber: 16.0 Consensus size: 48
55673290 AGATAAATAT
*
55673300 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55673348 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55673396 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* *
55673444 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGCGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55673492 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55673540 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* *
55673588 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGCGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* *
55673636 ATATATGTGTGATATGTATATGTGGTAAA---TATATGTGTGATATGT---
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGA-ATG-GCGA-ATGTGAA
* * * * ** *
55673681 ATATGTGGTAAAGCCGA-ATGGCTA-ATGTGAAATATATGTGTGATAT-G-TATATGTGGTAA
1 ATATAT-GT---G-TGATAT-G-TATATGTG--GTA-AAG-CCGA-ATGGCGA-ATGT-G-AA
* * * * **
55673740 AGCTGA-ATG-GCGA-ATGTGAAATATGT-GTGATATG--TATATGTG-GTAAAGCCAA
1 A--T-ATATGTGTGATATGT---ATATGTGGT-A-AAGCCGA-ATG-GCG-AATGTGAA
* * * * * * ** *
55673792 ATGGCTA-ATGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 AT--ATATGTGTGATATGTATATGTG----GTA-AAGCCG-AATG--G-----CGAATGTGAA
*
55673854 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
55673902 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
55673950 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* * *
55673998 ATATATATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
* * * * * *
55674046 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAACGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
55674094 GGTTGTAACA
Statistics
Matches: 631, Mismatches: 62, Indels: 106
0.79 0.08 0.13
Matches are distributed among these distances:
45 6 0.01
46 5 0.01
47 3 0.00
48 496 0.79
49 3 0.00
50 14 0.02
51 3 0.00
52 13 0.02
53 6 0.01
54 16 0.03
55 17 0.03
56 7 0.01
57 13 0.02
59 1 0.00
60 3 0.00
61 16 0.03
62 8 0.01
63 1 0.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
Found at i:55673560 original size:144 final size:144
Alignment explanation
Indices: 55673300--55674093 Score: 863
Period size: 144 Copynumber: 5.3 Consensus size: 144
55673290 AGATAAATAT
* *
55673300 ATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
1 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
55673365 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCGA
55673430 ATGGCGAATGTGAA
131 ATGGCGAATGTGAA
*
55673444 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGCGAAATATATGTGTGATATGT
1 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
55673509 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCGA
55673574 ATGGCGAATGTGAA
131 ATGGCGAATGTGAA
*
55673588 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGCGAAATATATGTGTGATATGT
1 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
* * * *
55673653 ATATGTGGTAAA---TATATGTG-TGATATG---TATATGTGGTAAAGCCGAATGGCTA-ATGTG
66 ATATGTGGTAAAGCCGA-ATG-GCTAATGTGAAATATATGT-GT---G--AAAT-G-TATATGTG
* * ** *
55673710 AAATATATGTGTGATAT-G-TATATGTGGTAA
121 --GTA-AAG-CCGA-ATGGCGA-ATGT-G-AA
* * * * *
55673740 AGCTGA-ATGGCGAATGTGAAATATGTGTGATATGTATATGTGGTAAAGCCAAATGGCTAATGTG
1 A--T-ATAT-GC----GTGATATGT-A----------TATGTGGTAAAGCCGAATGGCGAATGTG
* * *
55673804 AAATATATGTGTGAAATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATAT
47 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAAT
*
55673869 GTATATGTGGTAAAGCCGAATGGCTAATGTGAA
112 GTATATGTGGTAAAGCCGAATGGCGAATGTGAA
*
55673902 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
1 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
* * * * *
55673967 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGTATATGTCGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCGA
55674032 ATGGCGAATGTGAA
131 ATGGCGAATGTGAA
* ** * * * *
55674046 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAACGTGAA
1 ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
55674094 GGTTGTAACA
Statistics
Matches: 556, Mismatches: 46, Indels: 96
0.80 0.07 0.14
Matches are distributed among these distances:
139 7 0.01
140 2 0.00
141 1 0.00
142 8 0.01
143 2 0.00
144 379 0.68
145 3 0.01
146 6 0.01
147 2 0.00
148 2 0.00
149 3 0.01
150 7 0.01
151 3 0.01
152 3 0.01
154 3 0.01
155 10 0.02
159 9 0.02
160 3 0.01
162 3 0.01
163 3 0.01
164 7 0.01
165 4 0.01
166 2 0.00
167 2 0.00
168 6 0.01
169 2 0.00
170 55 0.10
171 2 0.00
172 7 0.01
173 1 0.00
174 2 0.00
175 7 0.01
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (144 bp):
ATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATATGTGTGATATGT
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGAAATGTATATGTGGTAAAGCCGA
ATGGCGAATGTGAA
Found at i:55673657 original size:15 final size:15
Alignment explanation
Indices: 55673637--55673687 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
55673627 GAATGCGAAA
55673637 TATATGTGTGATATG
1 TATATGTGTGATATG
**
55673652 TATATGTG-G-TAAA
1 TATATGTGTGATATG
55673665 TATATGTGTGATATG
1 TATATGTGTGATATG
55673680 TATATGTG
1 TATATGTG
55673688 GTAAAGCCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 10 0.33
14 2 0.07
15 18 0.60
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.45
Consensus pattern (15 bp):
TATATGTGTGATATG
Found at i:55673674 original size:28 final size:28
Alignment explanation
Indices: 55673634--55673692 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
55673624 GGCGAATGCG
55673634 AAATATATGTGTGATATGTATATGTGGT
1 AAATATATGTGTGATATGTATATGTGGT
55673662 AAATATATGTGTGATATGTATATGTGGT
1 AAATATATGTGTGATATGTATATGTGGT
55673690 AAA
1 AAA
55673693 GCCGAATGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.41
Consensus pattern (28 bp):
AAATATATGTGTGATATGTATATGTGGT
Found at i:55673679 original size:76 final size:76
Alignment explanation
Indices: 55673586--55673740 Score: 283
Period size: 76 Copynumber: 2.0 Consensus size: 76
55673576 GGCGAATGTG
55673586 AAATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGCGAAATATATGTGTGATAT
1 AAATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGCGAAATATATGTGTGATAT
55673651 GTATATGTGGT
66 GTATATGTGGT
* * *
55673662 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATAT
1 AAATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGCGAAATATATGTGTGATAT
55673727 GTATATGTGGT
66 GTATATGTGGT
55673738 AAA
1 AAA
55673741 GCTGAATGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (76 bp):
AAATATATGCGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGCGAAATATATGTGTGATAT
GTATATGTGGT
Found at i:55674189 original size:37 final size:37
Alignment explanation
Indices: 55674139--55674245 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
55674129 GAAATATATT
55674139 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
* * *
55674176 CCGGGTAAGACCCGATGACTACGTGTGAAGAGTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
55674213 CCGGGTAAGACCCGATGACTTCGTGTGGAGATT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATT
55674246 TCGTCTTAGC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:55679274 original size:22 final size:22
Alignment explanation
Indices: 55679249--55679309 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
55679239 TGGACATTAT
*
55679249 AGTGCTAAATAGTAGGCACTGA
1 AGTGCTAAATAGTAAGCACTGA
55679271 AGTG-TAGAATAGTAAGCACTGA
1 AGTGCTA-AATAGTAAGCACTGA
* *
55679293 AGTGCGAAACAGTAAGC
1 AGTGCTAAATAGTAAGC
55679310 GCTAAAGCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.06
22 31 0.91
23 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (22 bp):
AGTGCTAAATAGTAAGCACTGA
Found at i:55680483 original size:12 final size:12
Alignment explanation
Indices: 55680466--55680505 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
55680456 TCAGTTGAGG
55680466 GATTTGAAGAGA
1 GATTTGAAGAGA
*
55680478 GATTTGAAGAGG
1 GATTTGAAGAGA
* *
55680490 GATTTTAGGAGA
1 GATTTGAAGAGA
55680502 GATT
1 GATT
55680506 AGGGGAGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (12 bp):
GATTTGAAGAGA
Found at i:55680513 original size:24 final size:24
Alignment explanation
Indices: 55680462--55680507 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
55680452 GTGATCAGTT
*
55680462 GAGGGATTTGAAGAGAGATTTGAA
1 GAGGGATTTGAAGAGAGATTAGAA
* *
55680486 GAGGGATTTTAGGAGAGATTAG
1 GAGGGATTTGAAGAGAGATTAG
55680508 GGGAGGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (24 bp):
GAGGGATTTGAAGAGAGATTAGAA
Found at i:55681953 original size:27 final size:27
Alignment explanation
Indices: 55681922--55682053 Score: 174
Period size: 27 Copynumber: 4.9 Consensus size: 27
55681912 TAATTTGATG
55681922 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
*
55681949 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* *
55681976 GAATGGCTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* * * *
55682003 AAATGACTATATTGCCCTTATATGCTC
1 AAATGACTATTTTGCCCTTATGTGGTA
* * *
55682030 AGATGACTGTTTTGCCCCTATGTG
1 AAATGACTATTTTGCCCTTATGTG
55682054 ATGTATGTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGGTA
Found at i:55683819 original size:37 final size:37
Alignment explanation
Indices: 55683719--55683821 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
55683709 CGAATAGTCC
* *
55683719 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
55683756 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
55683793 CCACACGTAGTCAACGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
55683822 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:55684020 original size:48 final size:48
Alignment explanation
Indices: 55683962--55684395 Score: 760
Period size: 48 Copynumber: 9.0 Consensus size: 48
55683952 ATATACACAC
* *
55683962 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACGTATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55684010 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
55684058 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55684106 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55684154 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55684202 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55684250 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55684298 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
55684346 ATCTCATATATATTTCACACTAGCCATTCAGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55684394 AT
1 AT
55684396 ATTTATCTTG
Statistics
Matches: 374, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 374 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:55687052 original size:27 final size:27
Alignment explanation
Indices: 55687022--55687075 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
55687012 ACAAAATCAA
55687022 AACATGAAATTTTCACACACACACTTT
1 AACATGAAATTTTCACACACACACTTT
55687049 AACATGAAATTTTCACACACACACTTT
1 AACATGAAATTTTCACACACACACTTT
55687076 CACTTATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.30
Consensus pattern (27 bp):
AACATGAAATTTTCACACACACACTTT
Found at i:55691257 original size:10 final size:11
Alignment explanation
Indices: 55691231--55691257 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
55691221 TTTGTTTTTG
55691231 GTTTTTATTTA
1 GTTTTTATTTA
55691242 GTTTTTATTTA
1 GTTTTTATTTA
55691253 GTTTT
1 GTTTT
55691258 CTTGACGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (11 bp):
GTTTTTATTTA
Found at i:55693508 original size:29 final size:29
Alignment explanation
Indices: 55693461--55693562 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
55693451 GTCTATAAAT
* *
55693461 ACCCTAAACTTT-TCCTAAATTTTATTTTG
1 ACCCTAAACTTTCT-TTAAATTTCATTTTG
*
55693490 ACCCTAAACTTTCTTTAAATTTCACTTTG
1 ACCCTAAACTTTCTTTAAATTTCATTTTG
* * *
55693519 ACCCCTAAACTTTCCTTAAATTACATTTTA
1 A-CCCTAAACTTTCTTTAAATTTCATTTTG
*
55693549 ACCCTAAATTTTCT
1 ACCCTAAACTTTCT
55693563 AAAAATTACA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
29 36 0.58
30 26 0.42
ACGTcount: A:0.29, C:0.25, G:0.02, T:0.44
Consensus pattern (29 bp):
ACCCTAAACTTTCTTTAAATTTCATTTTG
Found at i:55693527 original size:30 final size:29
Alignment explanation
Indices: 55693486--55693577 Score: 112
Period size: 29 Copynumber: 3.1 Consensus size: 29
55693476 TAAATTTTAT
*
55693486 TTTGACCCTAAACTTTCTTTAAATTTCAC
1 TTTGACCCTAAACTTTCTTTAAATTACAC
* *
55693515 TTTGACCCCTAAACTTTCCTTAAATTACAT
1 TTTGA-CCCTAAACTTTCTTTAAATTACAC
* * **
55693545 TTTAACCCTAAATTTTCTAAAAATTACAC
1 TTTGACCCTAAACTTTCTTTAAATTACAC
55693574 TTTG
1 TTTG
55693578 GTCCCAGAAG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 27 0.52
30 25 0.48
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTGACCCTAAACTTTCTTTAAATTACAC
Found at i:55693554 original size:59 final size:59
Alignment explanation
Indices: 55693462--55693577 Score: 153
Period size: 59 Copynumber: 2.0 Consensus size: 59
55693452 TCTATAAATA
** * ** *
55693462 CCCTAAACTTTTCCTAAATTTTATTTTGACCCTAAACTTTCTTTAAATTTCACTTTGAC
1 CCCTAAACTTTTCCTAAATTACATTTTAACCCTAAACTTTCTAAAAATTACACTTTGAC
*
55693521 CCCTAAAC-TTTCCTTAAATTACATTTTAACCCTAAATTTTCTAAAAATTACACTTTG
1 CCCTAAACTTTTCC-TAAATTACATTTTAACCCTAAACTTTCTAAAAATTACACTTTG
55693578 GTCCCAGAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
58 5 0.10
59 44 0.90
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.43
Consensus pattern (59 bp):
CCCTAAACTTTTCCTAAATTACATTTTAACCCTAAACTTTCTAAAAATTACACTTTGAC
Found at i:55695067 original size:18 final size:18
Alignment explanation
Indices: 55695033--55695078 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
55695023 TTTTTTTAAT
*
55695033 AAAAATATTCG-GGTTTC
1 AAAAATTTTCGTGGTTTC
*
55695050 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGGTTTC
55695068 -AAAATTTTCGT
1 AAAAATTTTCGT
55695079 TCTTTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (18 bp):
AAAAATTTTCGTGGTTTC
Found at i:55695084 original size:18 final size:18
Alignment explanation
Indices: 55695046--55695084 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
55695036 AATATTCGGG
*
55695046 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTCT
55695064 TTTC-AAAATTTTCGTTCT
1 TTTCAAAAATTTTCG-TCT
55695082 TTT
1 TTT
55695085 TTAAATCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.23, C:0.13, G:0.08, T:0.56
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTCT
Found at i:55696927 original size:29 final size:29
Alignment explanation
Indices: 55696865--55696967 Score: 82
Period size: 29 Copynumber: 3.6 Consensus size: 29
55696855 GTGACGAGAT
* * *
55696865 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
55696894 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * * **
55696923 TGGCACTATGTGTGTGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
*
55696952 TGGCACTACGTGTGCG
1 TGGCACTAAGTGTGCG
55696968 TGATTGAGTA
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
28 3 0.05
29 54 0.95
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Done.