Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 293 of 410
Found at i:90309586 original size:22 final size:21
Alignment explanation
Indices: 90309550--90309603 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
90309540 AAAATATGGT
* *
90309550 AAAATAATTAGTATAAAAAAA
1 AAAATAAATAATATAAAAAAA
* *
90309571 CAAAATAAATAATATATAATAA
1 -AAAATAAATAATATAAAAAAA
*
90309593 AAAATATATAA
1 AAAATAAATAA
90309604 GAAAGATAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAATAAATAATATAAAAAAA
Found at i:90309593 original size:14 final size:14
Alignment explanation
Indices: 90309574--90309603 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90309564 AAAAAAACAA
*
90309574 AATAAATAATATAT
1 AATAAAAAATATAT
90309588 AATAAAAAATATAT
1 AATAAAAAATATAT
90309602 AA
1 AA
90309604 GAAAGATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAAAATATAT
Found at i:90310030 original size:20 final size:21
Alignment explanation
Indices: 90309996--90310035 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
90309986 ATTAGCCATT
*
90309996 TACAAATTTAGTAAATAATAA
1 TACAAATTTAGTAAAAAATAA
*
90310017 TACAATTTTA-TAAAAAATA
1 TACAAATTTAGTAAAAAATA
90310036 TATATAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
TACAAATTTAGTAAAAAATAA
Found at i:90310041 original size:13 final size:14
Alignment explanation
Indices: 90310025--90310062 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
90310015 AATACAATTT
90310025 TATAAA-AAATATA
1 TATAAAGAAATATA
90310038 TATAAAGAAATATA
1 TATAAAGAAATATA
*
90310052 TA-AAATAAATA
1 TATAAAGAAATA
90310063 AAATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
TATAAAGAAATATA
Found at i:90310068 original size:18 final size:19
Alignment explanation
Indices: 90310045--90310082 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
90310035 ATATATAAAG
90310045 AAATATATAAAATAA-ATA
1 AAATATATAAAATAATATA
*
90310063 AAATATATAATATAATATA
1 AAATATATAAAATAATATA
90310082 A
1 A
90310083 TTTATAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATATATAAAATAATATA
Found at i:90310105 original size:12 final size:11
Alignment explanation
Indices: 90310025--90310081 Score: 55
Period size: 12 Copynumber: 5.2 Consensus size: 11
90310015 AATACAATTT
*
90310025 TATAAAAAATA
1 TATATAAAATA
*
90310036 TATATAAAGAAA
1 TATATAAA-ATA
90310048 TATATAAAATA
1 TATATAAAATA
90310059 -A-ATAAAATA
1 TATATAAAATA
*
90310068 TATAATATAATA
1 TAT-ATAAAATA
90310080 TA
1 TA
90310082 ATTTATAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 8 0.21
10 2 0.05
11 9 0.24
12 19 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
TATATAAAATA
Found at i:90310111 original size:16 final size:15
Alignment explanation
Indices: 90310029--90310113 Score: 66
Period size: 16 Copynumber: 5.5 Consensus size: 15
90310019 CAATTTTATA
90310029 AAAAATATATATAA-
1 AAAAATATATATAAT
* *
90310043 AGAAATATATAAAAT
1 AAAAATATATATAAT
*
90310058 AAATAAAATATATAAT
1 AAA-AATATATATAAT
* *
90310074 ATAATATAATTTATAGAT
1 A-AAAAT-ATATATA-AT
90310092 -AAAATATATGATAAT
1 AAAAATATAT-ATAAT
90310107 AAAAATA
1 AAAAATA
90310114 ATGTATTGGA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
14 12 0.22
15 7 0.13
16 25 0.46
17 8 0.15
18 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (15 bp):
AAAAATATATATAAT
Found at i:90310149 original size:17 final size:16
Alignment explanation
Indices: 90310029--90310159 Score: 58
Period size: 17 Copynumber: 7.8 Consensus size: 16
90310019 CAATTTTATA
90310029 AAAAATATAT-ATAA-
1 AAAAATATATAATAAT
*
90310043 AGAAATATATAA-AAT
1 AAAAATATATAATAAT
*
90310058 AAATAAAATAT-ATAAT
1 AAA-AATATATAATAAT
* *
90310074 -ATAATATAATTTATAGAT
1 AAAAATAT-A-TAATA-AT
90310092 AAAATATATGATAATAA-
1 AAAA-ATAT-ATAATAAT
90310109 AAATAATGTATTGGATAATAAT
1 AAA-AA--TA-T--ATAATAAT
*
90310131 AATAATATATAACTAAT
1 AAAAATATATAA-TAAT
90310148 AAAAATATATAA
1 AAAAATATATAA
90310160 AGTATTTAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 31
0.69 0.08 0.24
Matches are distributed among these distances:
14 15 0.17
15 6 0.07
16 14 0.16
17 22 0.24
18 5 0.06
19 10 0.11
20 6 0.07
21 10 0.11
22 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.33
Consensus pattern (16 bp):
AAAAATATATAATAAT
Found at i:90310180 original size:28 final size:28
Alignment explanation
Indices: 90310149--90310204 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
90310139 ATAACTAATA
* * *
90310149 AAAATATATAAAGTATTTAAATTAAATT
1 AAAATATAAAAAGGATTAAAATTAAATT
*
90310177 AAAATATAAAAAGGATTAAAATTGAATT
1 AAAATATAAAAAGGATTAAAATTAAATT
90310205 TAATTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (28 bp):
AAAATATAAAAAGGATTAAAATTAAATT
Found at i:90312074 original size:206 final size:206
Alignment explanation
Indices: 90311715--90312476 Score: 1231
Period size: 206 Copynumber: 3.7 Consensus size: 206
90311705 AAATCTGCTT
* * *
90311715 CTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGGAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * * *
90311780 GCGAAAACCAAATCAGCTATGTCTTCGATTT-TCTCCTTGTAAGCACAAGGATACCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGT-TCCTTGTAAACACAAGGATGCCAAATCATCT
*
90311844 TGGATCTGCTTCAGTCAAATCATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
130 TGGATCTGCTTCAGTCTAATCATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
90311909 GGAGATGCCAAA
195 GGAGATGCCAAA
* *
90311921 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGTTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
90311986 ATGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCTTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
*
90312050 TGGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
130 TGGATCTGCTTCAGTCTAATCATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
* *
90312115 GGAGACGCTAAA
195 GGAGATGCCAAA
*
90312127 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
90312192 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
* * * * * *
90312257 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATATA
131 GGATCTGCTTCAGTCTAATCATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
90312322 GAGATGCCAAA
196 GAGATGCCAAA
* *
90312333 CTTCGATTTGTTCTCTGACAATACAGAGATACCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
90312398 GTGAAAGTCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
90312463 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
90312477 CCAGATCTGC
Statistics
Matches: 517, Mismatches: 35, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
205 1 0.00
206 506 0.98
207 10 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
GGATCTGCTTCAGTCTAATCATCTGAAGGCTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATG
GAGATGCCAAA
Found at i:90324330 original size:5 final size:5
Alignment explanation
Indices: 90324320--90324374 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
90324310 GTTATATATA
* * * *
90324320 ATAAT ATAAT ATGAAT AAAAT ATAAG AAAAT ATAAT ATAAA AT-A- ATAAT
1 ATAAT ATAAT AT-AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
90324369 ATAAT A
1 ATAAT A
90324375 AGTATTTTGC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 32 0.80
6 4 0.10
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (5 bp):
ATAAT
Found at i:90324369 original size:13 final size:14
Alignment explanation
Indices: 90324315--90324372 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 14
90324305 AATGAGTTAT
*
90324315 ATATAATAAT-ATA
1 ATATAAGAATAATA
90324328 ATAT--GAATAA-A
1 ATATAAGAATAATA
*
90324339 ATATAAGAAAATATA
1 ATATAAGAATA-ATA
90324354 ATATAA-AATAATA
1 ATATAAGAATAATA
90324367 ATATAA
1 ATATAA
90324373 TAAGTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
11 8 0.22
12 1 0.03
13 17 0.46
14 4 0.11
15 7 0.19
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
ATATAAGAATAATA
Found at i:90324880 original size:20 final size:21
Alignment explanation
Indices: 90324846--90324885 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
90324836 ATTAGCCATT
*
90324846 TACAAATTTAGTAAATAATAA
1 TACAAATTTAGTAAAAAATAA
*
90324867 TACAATTTTA-TAAAAAATA
1 TACAAATTTAGTAAAAAATA
90324886 TATATAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
TACAAATTTAGTAAAAAATAA
Found at i:90324891 original size:13 final size:13
Alignment explanation
Indices: 90324875--90324967 Score: 71
Period size: 13 Copynumber: 6.8 Consensus size: 13
90324865 AATACAATTT
90324875 TATAAAAAATATA
1 TATAAAAAATATA
90324888 TATAAAAAATATA
1 TATAAAAAATATA
*
90324901 TAATAAAATAAAATA
1 T-ATAAAA-AATATA
*
90324916 TATAATATAATATA
1 TATAA-AAAATATA
* **
90324930 -ATATAATTTATA
1 TATAAAAAATATA
* *
90324942 GATAAAATATATGA
1 TATAAAAAATAT-A
90324956 TAATAAAAAATA
1 T-ATAAAAAATA
90324968 ATGTATTGGA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
12 5 0.08
13 26 0.41
14 16 0.25
15 16 0.25
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
TATAAAAAATATA
Found at i:90324915 original size:17 final size:17
Alignment explanation
Indices: 90324876--90324967 Score: 84
Period size: 17 Copynumber: 5.5 Consensus size: 17
90324866 ATACAATTTT
*
90324876 ATAAAAAATAT-ATATA
1 ATAAAATATATAATATA
*
90324892 A-AAAATATATAATAAA
1 ATAAAATATATAATATA
90324908 ATAAAATATATAATATA
1 ATAAAATATATAATATA
* *
90324925 ATATAATATA-ATTTATA
1 ATAAAATATATA-ATATA
*
90324942 GATAAAATATATGATAATA
1 -ATAAAATATATAAT-ATA
90324961 A-AAAATA
1 ATAAAATA
90324968 ATGTATTGGA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
15 8 0.13
16 7 0.11
17 33 0.53
18 11 0.18
19 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
ATAAAATATATAATATA
Found at i:90324926 original size:22 final size:23
Alignment explanation
Indices: 90324898--90324950 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
90324888 TATAAAAAAT
90324898 ATATAATAAAATAAAATATATA-
1 ATATAATAAAATAAAATATATAG
* * *
90324920 ATATAATATAATATAATTTATAG
1 ATATAATAAAATAAAATATATAG
*
90324943 ATAAAATA
1 ATATAATA
90324951 TATGATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATAAAATAAAATATATAG
Found at i:90324952 original size:33 final size:35
Alignment explanation
Indices: 90324915--90324993 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 35
90324905 AAAATAAAAT
* * *
90324915 ATATAATATAATATAATATAATTTA-TAGATAA-A
1 ATATAATATAATAAAAAATAATGTATTAGATAATA
*
90324948 ATAT-ATGATAATAAAAAATAATGTATTGGATAATA
1 ATATAAT-ATAATAAAAAATAATGTATTAGATAATA
90324983 ATAATAATATA
1 AT-ATAATATA
90324994 TAACTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
32 2 0.05
33 19 0.51
34 6 0.16
35 3 0.08
36 5 0.14
37 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (35 bp):
ATATAATATAATAAAAAATAATGTATTAGATAATA
Found at i:90324959 original size:23 final size:22
Alignment explanation
Indices: 90324858--90324952 Score: 61
Period size: 22 Copynumber: 4.3 Consensus size: 22
90324848 CAAATTTAGT
*
90324858 AAATAATAATACAATTTTATAA-A
1 AAAT-ATAATATAA-TTTATAATA
***
90324881 AAATAT-ATATAAAAAAT-ATA
1 AAATATAATATAATTTATAATA
* * * *
90324901 TAATAAAATAAAATATATAATA
1 AAATATAATATAATTTATAATA
*
90324923 TAATATAATATAATTTATAGATA
1 AAATATAATATAATTTATA-ATA
90324946 AAATATA
1 AAATATA
90324953 TGATAATAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.02
20 7 0.13
21 13 0.24
22 21 0.38
23 13 0.24
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (22 bp):
AAATATAATATAATTTATAATA
Found at i:90325003 original size:17 final size:16
Alignment explanation
Indices: 90324879--90325013 Score: 71
Period size: 17 Copynumber: 7.8 Consensus size: 16
90324869 CAATTTTATA
90324879 AAAAATATAT-AT-A-
1 AAAAATATATAATAAT
*
90324892 AAAAATATATAATAAA
1 AAAAATATATAATAAT
90324908 ATAAAATATATAAT-AT
1 A-AAAATATATAATAAT
*
90324924 AATATAATATAATTTATAGAT
1 AA-A-AATAT-A-TAATA-AT
*
90324945 AAAATATATGATAATAAA
1 AAAA-ATAT-ATAATAAT
90324963 AAATAATGTATTGGATAATAAT
1 AAA-AA--TA-T--ATAATAAT
*
90324985 AATAATATATAACTAAT
1 AAAAATATATAA-TAAT
90325002 AAAAATATATAA
1 AAAAATATATAA
90325014 AGTATTTAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 30
0.72 0.06 0.22
Matches are distributed among these distances:
13 10 0.10
14 2 0.02
15 2 0.02
16 8 0.08
17 32 0.33
18 7 0.07
19 11 0.11
20 8 0.08
21 7 0.07
22 10 0.10
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (16 bp):
AAAAATATATAATAAT
Found at i:90331873 original size:232 final size:233
Alignment explanation
Indices: 90331467--90331933 Score: 882
Period size: 232 Copynumber: 2.0 Consensus size: 233
90331457 AAATCCTTTC
*
90331467 TCATTAGACACTTAAGCTATTTAATCATTCTAGCAACTTTTACACCTTTTTTAATTTAATCCTTT
1 TCATTAGACACTTAAGCTATTTAATCATTCTAGCAACTTTTACACCTTTTTCAATTTAATCCTTT
90331532 TTATTTAATTGACTACGGAAACGTTAAAATTTTCTAACGAAATTTTAATACCACAATACCAACAT
66 TTATTTAATTGACTACGGAAACGTTAAAATTTTCTAACGAAATTTTAATACCACAATACCAACAT
90331597 TTCATAAATATTTATAAAAATATTTTTGACTCAGTTTTACAAGATCGAGGTCTCGATACCTCTTT
131 TTCATAAATATTTATAAAAATATTTTTGACTCAGTTTTACAAGATCGAGGTCTCGATACCTCTTT
* *
90331662 TTTACCCAATTTATTCAATAAATTT-TTTAATTTTTTT
196 TTTACCCAATTTATTCAATAAATTTCTTTAAATGTTTT
90331699 TCATTAGACACTTAAGCTATTTAATCATTCTAGCAACTTTTACACCTTTTTCAATTTAATCCTTT
1 TCATTAGACACTTAAGCTATTTAATCATTCTAGCAACTTTTACACCTTTTTCAATTTAATCCTTT
90331764 TTATTTAATTGACTACGGAAACGTTAAAATTTTCTAACGAAATTTTAATACCACAATACCAACAT
66 TTATTTAATTGACTACGGAAACGTTAAAATTTTCTAACGAAATTTTAATACCACAATACCAACAT
*
90331829 TTTATAAATATTTATAAAAATATTTTTGACTCAGTTTTACAAGATCGAGGTCTCGATACCTCTTT
131 TTCATAAATATTTATAAAAATATTTTTGACTCAGTTTTACAAGATCGAGGTCTCGATACCTCTTT
*
90331894 TTTACCCAATTTATTCAATAATTTTCTTTAAATGTTTT
196 TTTACCCAATTTATTCAATAAATTTCTTTAAATGTTTT
90331932 TC
1 TC
90331934 TAATTAACCG
Statistics
Matches: 229, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
232 217 0.95
233 12 0.05
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (233 bp):
TCATTAGACACTTAAGCTATTTAATCATTCTAGCAACTTTTACACCTTTTTCAATTTAATCCTTT
TTATTTAATTGACTACGGAAACGTTAAAATTTTCTAACGAAATTTTAATACCACAATACCAACAT
TTCATAAATATTTATAAAAATATTTTTGACTCAGTTTTACAAGATCGAGGTCTCGATACCTCTTT
TTTACCCAATTTATTCAATAAATTTCTTTAAATGTTTT
Found at i:90335557 original size:47 final size:46
Alignment explanation
Indices: 90335477--90335578 Score: 109
Period size: 47 Copynumber: 2.2 Consensus size: 46
90335467 GTCTTAAATA
*
90335477 TGTCTTAAGTCTATTAATGCATGTTAATTAGTACA-TCATTTTAATG
1 TGTCTTAAGTCTATTAAT-CATGTTAATAAGTACACTCATTTTAATG
* **
90335523 TGTCTTAAGTTTAATTAAT-ATGTTATAATAAGTACACCTTTTTTTAATG
1 TGTCTTAAGTCT-ATTAATCATG-T-TAATAAGTACA-CTCATTTTAATG
90335572 TGTCTTA
1 TGTCTTA
90335579 GATTAAGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
45 3 0.06
46 12 0.26
47 16 0.34
49 16 0.34
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (46 bp):
TGTCTTAAGTCTATTAATCATGTTAATAAGTACACTCATTTTAATG
Found at i:90336922 original size:10 final size:10
Alignment explanation
Indices: 90336907--90336958 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
90336897 TAATTTTAGG
90336907 ATTTATTTTT
1 ATTTATTTTT
*
90336917 ATTTATCTTT
1 ATTTATTTTT
*
90336927 ATTTATCTTT
1 ATTTATTTTT
*
90336937 ATTTATTTGT
1 ATTTATTTTT
90336947 ATTTATCTTTT
1 ATTTAT-TTTT
90336958 A
1 A
90336959 GAATTTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
10 33 0.89
11 4 0.11
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:90339514 original size:18 final size:18
Alignment explanation
Indices: 90339488--90339555 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
90339478 TTCAACGAAA
*
90339488 TTGAGAGAAGAAAAAGAG
1 TTGAAAGAAGAAAAAGAG
* *
90339506 TTGAAAGAA-AAAGA-AT
1 TTGAAAGAAGAAAAAGAG
90339522 TTGAAA-AAGGAAAAGAGAG
1 TTGAAAGAA-GAAAA-AGAG
90339541 -TGAAAGAAAGAAAAA
1 TTGAAAG-AAGAAAAA
90339556 AGCGATTGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
15 2 0.05
16 7 0.18
17 7 0.18
18 15 0.38
19 6 0.15
20 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.26, T:0.12
Consensus pattern (18 bp):
TTGAAAGAAGAAAAAGAG
Found at i:90347899 original size:13 final size:13
Alignment explanation
Indices: 90347881--90347906 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90347871 CTGTGCATTC
90347881 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
90347894 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
90347907 AACAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:90353349 original size:16 final size:17
Alignment explanation
Indices: 90353328--90353360 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
90353318 ACAACTTTTT
90353328 ATTTTATTTTT-CTTTA
1 ATTTTATTTTTACTTTA
90353344 ATTTTATTTTTACTTTA
1 ATTTTATTTTTACTTTA
90353361 TCCTTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTATTTTTACTTTA
Found at i:90356256 original size:13 final size:13
Alignment explanation
Indices: 90356238--90356263 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90356228 CTGTACATTC
90356238 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
90356251 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
90356264 AACAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:90356520 original size:23 final size:24
Alignment explanation
Indices: 90356469--90356521 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
90356459 CATCAGTGAG
* *
90356469 CTTCCTGATCAATGGCTCTCTGGAG
1 CTTCCTGAT-AATGGCTCGCTGGAA
*
90356494 CTTCCTGAT-ATGGCTCGCTTGAA
1 CTTCCTGATAATGGCTCGCTGGAA
90356517 CTTCC
1 CTTCC
90356522 CTATGCATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.64
25 9 0.36
ACGTcount: A:0.15, C:0.30, G:0.21, T:0.34
Consensus pattern (24 bp):
CTTCCTGATAATGGCTCGCTGGAA
Found at i:90356604 original size:24 final size:24
Alignment explanation
Indices: 90356572--90356624 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
90356562 AAAGCTACCC
*
90356572 ATTATTGGCTCGCATGGGCTTCCTG
1 ATTA-TGGCTCGCATGAGCTTCCTG
**
90356597 ATTATGGCTCTTATGAGCTTCCTG
1 ATTATGGCTCGCATGAGCTTCCTG
90356621 -TTAT
1 ATTAT
90356625 ACAACCCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.16
24 17 0.68
25 4 0.16
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.42
Consensus pattern (24 bp):
ATTATGGCTCGCATGAGCTTCCTG
Found at i:90359906 original size:30 final size:29
Alignment explanation
Indices: 90359858--90359918 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
90359848 CAAGTAGCCG
90359858 AAGCTAGTTAAATCGCACACTTAGTACCA
1 AAGCTAGTTAAATCGCACACTTAGTACCA
* *
90359887 AAGCTAGTTTAAATTGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTACCA
90359917 AA
1 AA
90359919 ACTTCCGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTACCA
Found at i:90364077 original size:48 final size:48
Alignment explanation
Indices: 90363995--90364239 Score: 249
Period size: 48 Copynumber: 5.1 Consensus size: 48
90363985 ATGTGTAACC
* * * ** * *
90363995 GTGTAAGACCATATATGGGATATGGCATTAGCATTATTATGCGATCCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGA-CCCA
* * * *
90364044 -TATAAGACCATGTCTGGGACATAGCATCGGCATTGTTACGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGACCCA
* * *
90364091 GTGTAAGACCACGTCTGGGACATGGCATCGACATTGTTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGACCCA
* * * * *
90364139 ATGTAAGACCATGTTTGGGACATGGCATCGACATTGTTATGTGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGACCCA
* * * * * *
90364187 GTGTAAGACCATGTCTGGGAAATGGTATCGGTATTATTATGTGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGACCCA
90364235 GTGTA
1 GTGTA
90364240 TGTGAGCCAG
Statistics
Matches: 168, Mismatches: 27, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
47 3 0.02
48 165 0.98
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGACCCA
Found at i:90364159 original size:96 final size:96
Alignment explanation
Indices: 90363995--90364232 Score: 280
Period size: 96 Copynumber: 2.5 Consensus size: 96
90363985 ATGTGTAACC
** * * * * * * *
90363995 GTGTAAGACCATATATGGGATATGGCAT-TAGCATTATTATGCGATCCCATATAAGACCATGTCT
1 GTGTAAGACCACGTCTGGGAAATGGCATCGA-CATTATTATGTGAGCCAATGTAAGACCATGTCT
*
90364059 GGGACATAGCATCGGCATTGTTACGTGAGCCA
65 GGGACATAGCATCGACATTGTTACGTGAGCCA
* * *
90364091 GTGTAAGACCACGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAATGTAAGACCATGTTTG
1 GTGTAAGACCACGTCTGGGAAATGGCATCGACATTATTATGTGAGCCAATGTAAGACCATGTCTG
* * *
90364156 GGACATGGCATCGACATTGTTATGTGAGCTA
66 GGACATAGCATCGACATTGTTACGTGAGCCA
* * **
90364187 GTGTAAGACCATGTCTGGGAAATGGTATCGGTATTATTATGTGAGC
1 GTGTAAGACCACGTCTGGGAAATGGCATCGACATTATTATGTGAGC
90364233 TAGTGTATGT
Statistics
Matches: 120, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
96 119 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (96 bp):
GTGTAAGACCACGTCTGGGAAATGGCATCGACATTATTATGTGAGCCAATGTAAGACCATGTCTG
GGACATAGCATCGACATTGTTACGTGAGCCA
Found at i:90364243 original size:14 final size:14
Alignment explanation
Indices: 90364224--90364253 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90364214 TCGGTATTAT
*
90364224 TATGTGAGCTAGTG
1 TATGTGAGCCAGTG
90364238 TATGTGAGCCAGTG
1 TATGTGAGCCAGTG
90364252 TA
1 TA
90364254 AGACCATGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.33
Consensus pattern (14 bp):
TATGTGAGCCAGTG
Found at i:90364279 original size:62 final size:62
Alignment explanation
Indices: 90364176--90364294 Score: 193
Period size: 62 Copynumber: 1.9 Consensus size: 62
90364166 TCGACATTGT
* * * *
90364176 TATGTGAGCTAGTGTAAGACCATGTCTGGGAAATGGTATCGGTATTATTATGTGAGCTAGTG
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCATCATTATGTGAGCTAGTG
*
90364238 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGC
1 TATGTGAGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCATCATTATGTGAGC
90364295 CAGTATAAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.30
Consensus pattern (62 bp):
TATGTGAGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCATCATTATGTGAGCTAGTG
Found at i:90364309 original size:48 final size:48
Alignment explanation
Indices: 90364238--90364330 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
90364228 TGAGCTAGTG
* *
90364238 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAT
1 TATGTGAGCCAGTATAAGACCATGTCTGGGACATGACATCGGCATCAT
*
90364286 TATGTGAGCCAGTATAAGACCATGTTTGGGACATGACATCGGCAT
1 TATGTGAGCCAGTATAAGACCATGTCTGGGACATGACATCGGCAT
90364331 GAGGCATCGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
TATGTGAGCCAGTATAAGACCATGTCTGGGACATGACATCGGCATCAT
Found at i:90364327 original size:110 final size:110
Alignment explanation
Indices: 90364128--90364327 Score: 301
Period size: 110 Copynumber: 1.8 Consensus size: 110
90364118 TCGACATTGT
* ** * *
90364128 TATGTGAGCCAATGTAAGACCATGTTTGGGACATGGCATCGACATTGTTATGTGAGCTAGTGTAA
1 TATGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATCATTATGTGAGCCAGTATAA
**
90364193 GACCATGTCTGGGAAATGGTATCGGTATTATTATGTGAGCTAGTG
66 GACCATGTCTGGGAAATGACATCGGTATTATTATGTGAGCTAGTG
* *
90364238 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGTATAA
1 TATGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATCATTATGTGAGCCAGTATAA
* *
90364303 GACCATGTTTGGGACATGACATCGG
66 GACCATGTCTGGGAAATGACATCGG
90364328 CATGAGGCAT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
110 79 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (110 bp):
TATGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATCATTATGTGAGCCAGTATAA
GACCATGTCTGGGAAATGACATCGGTATTATTATGTGAGCTAGTG
Found at i:90368472 original size:35 final size:35
Alignment explanation
Indices: 90368424--90368490 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
90368414 ATTAAGGTCC
90368424 TTATATGGAAAAAGACCATTAAGAGGAGTTAACAG
1 TTATATGGAAAAAGACCATTAAGAGGAGTTAACAG
* *
90368459 TTATATGGCAAAAGGCCATTAAGAGGAGTTAA
1 TTATATGGAAAAAGACCATTAAGAGGAGTTAA
90368491 TAGATAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (35 bp):
TTATATGGAAAAAGACCATTAAGAGGAGTTAACAG
Found at i:90369650 original size:26 final size:26
Alignment explanation
Indices: 90369592--90369663 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
90369582 GTCCCGTTAT
* *
90369592 ATGGCTCTTCATGAGCTTCTTGATTA
1 ATGGCTCTTCATGAGCTTCCTAATTA
** **
90369618 AAAGCTCTTTGTGAGCTTCCTAATTA
1 ATGGCTCTTCATGAGCTTCCTAATTA
*
90369644 ATGGCTCTCCA-GAGCTTCCT
1 ATGGCTCTTCATGAGCTTCCT
90369664 GATATGGCTC
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
25 9 0.26
26 26 0.74
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (26 bp):
ATGGCTCTTCATGAGCTTCCTAATTA
Found at i:90369831 original size:24 final size:24
Alignment explanation
Indices: 90369799--90369844 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
90369789 ACAGCCCGAA
*
90369799 TAAGCTTCCCGTTACATGGCTCAC
1 TAAGCTTCCCATTACATGGCTCAC
*
90369823 TAAGCTTCCTATTACATGGCTC
1 TAAGCTTCCCATTACATGGCTC
90369845 GAGAGAGGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (24 bp):
TAAGCTTCCCATTACATGGCTCAC
Found at i:90369970 original size:68 final size:68
Alignment explanation
Indices: 90369856--90369987 Score: 255
Period size: 68 Copynumber: 1.9 Consensus size: 68
90369846 AGAGAGGGCT
90369856 TCCTAATTATATGCTCTAATGAGCACTCCTGAATATGAATTTATGGATTATAGTTTATACACTTG
1 TCCTAATTATATGCTCTAATGAGCACTCCTGAATATGAATTTATGGATTATAGTTTATACACTTG
90369921 CCC
66 CCC
*
90369924 TCCTGATTATATGCTCTAATGAGCACTCCTGAATATGAATTTATGGATTATAGTTTATACACTT
1 TCCTAATTATATGCTCTAATGAGCACTCCTGAATATGAATTTATGGATTATAGTTTATACACTT
90369988 CAAGTGTATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (68 bp):
TCCTAATTATATGCTCTAATGAGCACTCCTGAATATGAATTTATGGATTATAGTTTATACACTTG
CCC
Found at i:90372275 original size:48 final size:47
Alignment explanation
Indices: 90372157--90372285 Score: 168
Period size: 47 Copynumber: 2.7 Consensus size: 47
90372147 AATTGATAAG
* * * * *
90372157 TACCAATACCATGGCCCGTAGCCAAATCAAAGTAACTTATCCCGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAA
* *
90372204 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTGAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATC-CCGAAA
**
90372252 TACCTATACCATGGCCTATAGCCAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
90372286 TCATTCACAC
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 37 0.51
48 35 0.49
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGAAA
Found at i:90372940 original size:21 final size:20
Alignment explanation
Indices: 90372916--90372955 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
90372906 AAAACATGAA
90372916 AATCTATCATCAAACTCTCAT
1 AATCTATCATCAAAC-CTCAT
90372937 AATCTATCATCAAACCTCA
1 AATCTATCATCAAACCTCA
90372956 AACACATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (20 bp):
AATCTATCATCAAACCTCAT
Found at i:90375640 original size:28 final size:26
Alignment explanation
Indices: 90375569--90375655 Score: 88
Period size: 28 Copynumber: 3.3 Consensus size: 26
90375559 CACACCATAA
*
90375569 AAAGGAAGCCTTTGTGGCAATCTATG
1 AAAGGAAACCTTTGTGGCAATCTATG
* *
90375595 AAATGAAAGCCTTTGTGGCGATCTATGG
1 AAAGGAAA-CCTTTGTGGCAATCTAT-G
*
90375623 AAAGGAATACCTTCGTGGCACAT-TAT-
1 AAAGGAA-ACCTTTGTGGCA-ATCTATG
90375649 AAAGGAA
1 AAAGGAA
90375656 TGCGCTAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
26 13 0.25
27 16 0.31
28 19 0.37
29 3 0.06
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (26 bp):
AAAGGAAACCTTTGTGGCAATCTATG
Found at i:90375761 original size:50 final size:52
Alignment explanation
Indices: 90375681--90375778 Score: 146
Period size: 50 Copynumber: 1.9 Consensus size: 52
90375671 CATCTTAGAG
* *
90375681 GAATGGTAAGTGCAGTAAACCCTAAAAGAATGATATGTATGGCTAACTTTGAA
1 GAATGGTAAGT-CAGTAAAACCTAAAAGAATGATACGTATGGCTAACTTTGAA
*
90375734 GAATGGTAAGT-A-TAAAACCTAAAAGAATGATACGTGTGGCTAACT
1 GAATGGTAAGTCAGTAAAACCTAAAAGAATGATACGTATGGCTAACT
90375779 CTAAAGGACT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 30 0.71
51 1 0.02
53 11 0.26
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (52 bp):
GAATGGTAAGTCAGTAAAACCTAAAAGAATGATACGTATGGCTAACTTTGAA
Found at i:90378827 original size:30 final size:30
Alignment explanation
Indices: 90378791--90378851 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
90378781 ATATATGAGA
90378791 TCATTTATTGGTTTAATCCCAATCTACCCT
1 TCATTTATTGGTTTAATCCCAATCTACCCT
*
90378821 TCATTTATTGGTTTAATCTCAATCTACCCT
1 TCATTTATTGGTTTAATCCCAATCTACCCT
90378851 T
1 T
90378852 ACATAGAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.46
Consensus pattern (30 bp):
TCATTTATTGGTTTAATCCCAATCTACCCT
Found at i:90386915 original size:3 final size:3
Alignment explanation
Indices: 90386907--90386939 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
90386897 TTAAAAAGGG
90386907 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
90386940 GGTATTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:90392743 original size:2 final size:2
Alignment explanation
Indices: 90392736--90392763 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
90392726 CAAGAATTTC
90392736 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90392764 CATAATTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90405482 original size:25 final size:25
Alignment explanation
Indices: 90405453--90405503 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
90405443 CAAAGGAAAA
** *
90405453 TCCTAATCTAATTCCTATTTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
90405478 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
90405503 T
1 T
90405504 TTATAAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:90409890 original size:10 final size:9
Alignment explanation
Indices: 90409869--90409898 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
90409859 TCAATAGGGC
90409869 TTTATTTTT
1 TTTATTTTT
90409878 TTTATTGTTT
1 TTTATT-TTT
90409888 TTTATTTTT
1 TTTATTTTT
90409897 TT
1 TT
90409899 GCAAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTATTTTT
Found at i:90411205 original size:11 final size:10
Alignment explanation
Indices: 90411181--90411218 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
90411171 GTATGCTCCC
*
90411181 TTTGTTTTGT
1 TTTGTTTTTT
90411191 TTTGTTTTTT
1 TTTGTTTTTT
90411201 GTTTGTTTTTT
1 -TTTGTTTTTT
90411212 TTT-TTTT
1 TTTGTTTT
90411219 AGTGTGTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 4 0.15
10 12 0.46
11 10 0.38
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (10 bp):
TTTGTTTTTT
Found at i:90411217 original size:17 final size:17
Alignment explanation
Indices: 90411181--90411215 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
90411171 GTATGCTCCC
90411181 TTTGTTTTGTTTTGTTT
1 TTTGTTTTGTTTTGTTT
90411198 TTTG-TTTGTTTT-TTT
1 TTTGTTTTGTTTTGTTT
90411213 TTT
1 TTT
90411216 TTTAGTGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (17 bp):
TTTGTTTTGTTTTGTTT
Found at i:90411597 original size:18 final size:17
Alignment explanation
Indices: 90411539--90411595 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
90411529 TTTTTGTTGC
*
90411539 TGTTTTTTTTACTCTCTT
1 TGTTTTTTTTACTAT-TT
90411557 T-TTTTTTGTTACTATTT
1 TGTTTTTT-TTACTATTT
*
90411574 TCTTATTTTTTACTATTT
1 TGTT-TTTTTTACTATTT
90411592 TGTT
1 TGTT
90411596 ATCTTTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 9 0.26
18 21 0.62
19 4 0.12
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.74
Consensus pattern (17 bp):
TGTTTTTTTTACTATTT
Found at i:90411602 original size:18 final size:18
Alignment explanation
Indices: 90411565--90411602 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
90411555 TTTTTTTTTG
*
90411565 TTACTATTTTCTTATTTT
1 TTACTATTTTCTTATCTT
*
90411583 TTACTATTTTGTTATCTT
1 TTACTATTTTCTTATCTT
90411601 TT
1 TT
90411603 CAATATTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.71
Consensus pattern (18 bp):
TTACTATTTTCTTATCTT
Found at i:90413334 original size:144 final size:143
Alignment explanation
Indices: 90413056--90413336 Score: 428
Period size: 143 Copynumber: 2.0 Consensus size: 143
90413046 AGCTAAGTAG
*
90413056 CAAAAGAAAAACAAATATAAGAGGATTGTAAAAAAGAGTTATTTAACAATTAAAAAAAAGTTACT
1 CAAAAGAAAAACAAATATAAGAGGATTGTAAAAAAGAATTATTTAACAATTAAAAAAAAG-TACT
* *
90413121 AAAAGAGAAGAAAGAATAGTGAGAAGAGTTGGTGTAAAAAAAGATTAGTTTTAATTTAATTTAAA
65 AAAAGAGAAGAAAGAAGAGTGAGAAGAGTAGGTGTAAAAAAAGATTAGTTTTAATTTAATTTAAA
90413186 TTTTTTTATTATAA
130 TTTTTTTATTATAA
90413200 CAAAAGAAAAACAAATATAAGAGGATTGTAAAGAAA-AATTATTTAACAATT-AAAAAAA-TACA
1 CAAAAGAAAAACAAATATAAGAGGATTGTAAA-AAAGAATTATTTAACAATTAAAAAAAAGTAC-
** *
90413262 TTAAAAGAGAAGAAAGAAGCTTGAGAAGAG-AGGATGTAAAAAAAGATTAGTTTTAGTTTAATTT
64 -TAAAAGAGAAGAAAGAAGAGTGAGAAGAGTAGG-TGTAAAAAAAGATTAGTTTTAATTTAATTT
90413326 -AATTTTTTTAT
127 AAATTTTTTTAT
90413337 AATTTAATTA
Statistics
Matches: 127, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
141 3 0.02
142 13 0.10
143 62 0.49
144 46 0.36
145 3 0.02
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.29
Consensus pattern (143 bp):
CAAAAGAAAAACAAATATAAGAGGATTGTAAAAAAGAATTATTTAACAATTAAAAAAAAGTACTA
AAAGAGAAGAAAGAAGAGTGAGAAGAGTAGGTGTAAAAAAAGATTAGTTTTAATTTAATTTAAAT
TTTTTTATTATAA
Found at i:90417812 original size:7 final size:7
Alignment explanation
Indices: 90417800--90417825 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
90417790 ATAGTGAATG
90417800 ATTTTCA
1 ATTTTCA
90417807 ATTTTCA
1 ATTTTCA
90417814 ATTTTCA
1 ATTTTCA
90417821 ATTTT
1 ATTTT
90417826 TAGACTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTCA
Found at i:90417974 original size:19 final size:20
Alignment explanation
Indices: 90417932--90417976 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
90417922 ATGAATGATA
*
90417932 AATTG-TTAAATTTGTGACT
1 AATTGATTAAATTTGTGAAT
90417951 AATTGATTAAATTTGTGAAT
1 AATTGATTAAATTTGTGAAT
90417971 -ATTGAT
1 AATTGAT
90417977 ATACCTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (20 bp):
AATTGATTAAATTTGTGAAT
Found at i:90428375 original size:27 final size:26
Alignment explanation
Indices: 90428345--90428406 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
90428335 ATCAAAGCTG
90428345 CCAGTATCAGTATATGTGGCAAAGCCA
1 CCAGTAT-AGTATATGTGGCAAAGCCA
*
90428372 CCAGTAGTAGTATATGTGGCGAAGCCA
1 CCAGTA-TAGTATATGTGGCAAAGCCA
*
90428399 CCGGTATA
1 CCAGTATA
90428407 ATACACTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 2 0.06
27 29 0.91
28 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (26 bp):
CCAGTATAGTATATGTGGCAAAGCCA
Found at i:90454950 original size:15 final size:13
Alignment explanation
Indices: 90454917--90454941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90454907 ACAAACGCTA
90454917 AAATTTTCACACT
1 AAATTTTCACACT
90454930 AAATTTTCACAC
1 AAATTTTCACAC
90454942 ATATAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTTTCACACT
Found at i:90480672 original size:40 final size:40
Alignment explanation
Indices: 90480627--90480806 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
90480617 TTCGAATGAT
90480627 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
**
90480667 ATCCGGGTTAATTCCCGAAGGCATTTGTATGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
90480707 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
90480747 ATTCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
90480788 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGTTAAT-TCCCGAAG
90480807 ACAATCGAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 120 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:90484963 original size:15 final size:15
Alignment explanation
Indices: 90484940--90484977 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
90484930 GGATTAAATA
90484940 GATCATTCAGACCAG
1 GATCATTCAGACCAG
* *
90484955 GATCGTTCAGACTAG
1 GATCATTCAGACCAG
90484970 GATCATTC
1 GATCATTC
90484978 CCGTCCCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (15 bp):
GATCATTCAGACCAG
Found at i:90488724 original size:17 final size:17
Alignment explanation
Indices: 90488702--90488734 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
90488692 AAATAGAAAT
90488702 GGCACATTCTTGGCAAA
1 GGCACATTCTTGGCAAA
90488719 GGCACATTCTTGGCAA
1 GGCACATTCTTGGCAA
90488735 TGTTCTGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (17 bp):
GGCACATTCTTGGCAAA
Found at i:90493559 original size:9 final size:9
Alignment explanation
Indices: 90493545--90493607 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
90493535 AATTAAAAAA
90493545 TGAGAGAGT
1 TGAGAGAGT
*
90493554 TGAGAGACT
1 TGAGAGAGT
*
90493563 TGAGAGGGTT
1 TGAGAGAG-T
*
90493573 TGAGAGAATT
1 TGAGAG-AGT
* * *
90493583 TGACAAAAT
1 TGAGAGAGT
90493592 TGAGAGAGT
1 TGAGAGAGT
90493601 TGAGAGA
1 TGAGAGA
90493608 AGGATATGAA
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
9 29 0.71
10 12 0.29
ACGTcount: A:0.37, C:0.03, G:0.37, T:0.24
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:90506684 original size:19 final size:18
Alignment explanation
Indices: 90506637--90506686 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
90506627 AAAATATTTC
*
90506637 TTTTAAAAAATCTAAAAAA
1 TTTTAAAAAAT-AAAAAAA
90506656 TATTT-AAAAATAAATAAAA
1 T-TTTAAAAAATAAA-AAAA
90506675 TTTTAAAAAATA
1 TTTTAAAAAATA
90506687 TAATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
19 19 0.70
20 3 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
TTTTAAAAAATAAAAAAA
Found at i:90509053 original size:32 final size:31
Alignment explanation
Indices: 90508992--90509057 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
90508982 TTAGTGGTTG
* *
90508992 TGAGGTCTAGTTTTACATAGTGTCTTAGTTT
1 TGAGGTCTAGTTTTACATAGTGACCTAGTTT
*
90509023 TGAGGTCTA-TTTTAGATTTAGTGACCTAGTTT
1 TGAGGTCTAGTTTTACA--TAGTGACCTAGTTT
90509055 TGA
1 TGA
90509058 ATTTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 6 0.20
31 9 0.30
32 15 0.50
ACGTcount: A:0.21, C:0.09, G:0.23, T:0.47
Consensus pattern (31 bp):
TGAGGTCTAGTTTTACATAGTGACCTAGTTT
Found at i:90515046 original size:17 final size:17
Alignment explanation
Indices: 90515026--90515058 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
90515016 TTAATAAATT
90515026 TAATATTTAATTTAATG
1 TAATATTTAATTTAATG
*
90515043 TAATATTTACTTTAAT
1 TAATATTTAATTTAAT
90515059 AGTATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TAATATTTAATTTAATG
Found at i:90524286 original size:5 final size:6
Alignment explanation
Indices: 90524250--90524283 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
90524240 ATTTTTGTTC
* *
90524250 TTTTTG TTTTTG TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
90524284 ATTATGCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:90527460 original size:5 final size:5
Alignment explanation
Indices: 90527450--90527481 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
90527440 ATTGCTGTGA
90527450 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
90527482 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:90527475 original size:9 final size:9
Alignment explanation
Indices: 90527451--90527481 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
90527441 TTGCTGTGAA
90527451 AAATAAAAT
1 AAATAAAAT
90527460 AAAATAAAAT
1 -AAATAAAAT
90527470 AAATAAAAT
1 AAATAAAAT
90527479 AAA
1 AAA
90527482 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:90531890 original size:5 final size:5
Alignment explanation
Indices: 90531880--90531911 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
90531870 CCAATTTGTG
90531880 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
90531912 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:90531905 original size:9 final size:9
Alignment explanation
Indices: 90531881--90531911 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
90531871 CAATTTGTGA
90531881 AAATAAAAT
1 AAATAAAAT
90531890 AAAATAAAAT
1 -AAATAAAAT
90531900 AAATAAAAT
1 AAATAAAAT
90531909 AAA
1 AAA
90531912 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:90537325 original size:6 final size:6
Alignment explanation
Indices: 90537316--90537340 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
90537306 TTTTATTTTG
90537316 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
90537341 CGAAGGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:90538298 original size:177 final size:177
Alignment explanation
Indices: 90538002--90538355 Score: 645
Period size: 177 Copynumber: 2.0 Consensus size: 177
90537992 ACTCACCCGA
*
90538002 ATGGCACTTATTACAGAACCCACAAACTGGAATATCTATGCCACTGCTAGAACCACTCATATTAT
1 ATGGCACTTATTACAGAACCCACAAACTGGAATATCTATGCCACTGCTAGAACCACTCACATTAT
* *
90538067 TTTTTCTAACATGATGTTGAGACCTAGCCCGCTTCGTAGATAGTAGCTCTAAACTAGAAAGACTA
66 TTTTTCCAACATGATGTTGAGACCTAGCCCGCTTCGTAGATAGCAGCTCTAAACTAGAAAGACTA
90538132 GGGCCTCTCTTATTTCGAACCTTACCTTCACACTTAATACACTTATC
131 GGGCCTCTCTTATTTCGAACCTTACCTTCACACTTAATACACTTATC
90538179 ATGGCACTTATTACAGAACCCACAAACTGGAATATCTATGCCACTGCTAGAACCACTCACATTAT
1 ATGGCACTTATTACAGAACCCACAAACTGGAATATCTATGCCACTGCTAGAACCACTCACATTAT
* *
90538244 TTTTTCCAACATGGTGTTGAGACCTAGCCCGCTTCGTAGATCGCAGCTCTAAACTAGAAAGACTA
66 TTTTTCCAACATGATGTTGAGACCTAGCCCGCTTCGTAGATAGCAGCTCTAAACTAGAAAGACTA
* *
90538309 GGGCCTCTTTTATTTCGAACCTTACCTTTACACTTAATACACTTATC
131 GGGCCTCTCTTATTTCGAACCTTACCTTCACACTTAATACACTTATC
90538356 CATATTTTCC
Statistics
Matches: 170, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
177 170 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (177 bp):
ATGGCACTTATTACAGAACCCACAAACTGGAATATCTATGCCACTGCTAGAACCACTCACATTAT
TTTTTCCAACATGATGTTGAGACCTAGCCCGCTTCGTAGATAGCAGCTCTAAACTAGAAAGACTA
GGGCCTCTCTTATTTCGAACCTTACCTTCACACTTAATACACTTATC
Found at i:90546601 original size:22 final size:23
Alignment explanation
Indices: 90546574--90546619 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
90546564 CAACCAAACC
90546574 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
90546596 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
90546619 A
1 A
90546620 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:90548742 original size:2 final size:2
Alignment explanation
Indices: 90548735--90548761 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
90548725 TCCATTTCCT
90548735 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
90548762 TTTCTTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90551968 original size:54 final size:54
Alignment explanation
Indices: 90551886--90551993 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
90551876 ATCATATTGG
*
90551886 GAGAACAAATTTATCCCAAAAAGATTAAGGATATCTAATGAGGGTAACACACTT
1 GAGAAAAAATTTATCCCAAAAAGATTAAGGATATCTAATGAGGGTAACACACTT
*
90551940 GAGAAAAAATTTATCCCAAAGAGATTAAGGATATCTAATGAGGGTAACACACTT
1 GAGAAAAAATTTATCCCAAAAAGATTAAGGATATCTAATGAGGGTAACACACTT
90551994 ATGACAATGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (54 bp):
GAGAAAAAATTTATCCCAAAAAGATTAAGGATATCTAATGAGGGTAACACACTT
Found at i:90552504 original size:16 final size:15
Alignment explanation
Indices: 90552483--90552544 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 15
90552473 TTGGATTGAG
90552483 AAAATTATTTAATTGT
1 AAAATTATTTAATT-T
*
90552499 AAAATTAATTAATTT
1 AAAATTATTTAATTT
90552514 -AAATTAATTTAA-TT
1 AAAATT-ATTTAATTT
*
90552528 AATAATT-TTTATTTT
1 AA-AATTATTTAATTT
90552543 AA
1 AA
90552545 GAATAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 11 0.28
15 11 0.28
16 17 0.44
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
AAAATTATTTAATTT
Found at i:90559986 original size:13 final size:14
Alignment explanation
Indices: 90559970--90560011 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
90559960 TTTTAATTTT
90559970 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
90559983 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
90559998 ATTTTAAATAATAT
1 ATTTT-AATAATAT
90560012 TATTCAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:90559996 original size:16 final size:16
Alignment explanation
Indices: 90559974--90560010 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
90559964 AATTTTATTT
90559974 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
90559991 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
90560006 TAATA
1 TAATA
90560011 TTATTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:90563213 original size:16 final size:16
Alignment explanation
Indices: 90563187--90563231 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
90563177 TAAAATTAGG
90563187 TTGAGAAAATTATTTAA
1 TTGA-AAAATTATTTAA
*
90563204 TTGAAAAATTAATTAA
1 TTGAAAAATTATTTAA
90563220 TT--AAAATTATTT
1 TTGAAAAATTATTT
90563232 TTATAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 9 0.35
16 13 0.50
17 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (16 bp):
TTGAAAAATTATTTAA
Found at i:90584511 original size:43 final size:43
Alignment explanation
Indices: 90584429--90584543 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 43
90584419 GGTTACCGAG
* * *** *
90584429 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTTCGTGTAAGACCATGTCTGGGACAGAAGCATCGAT
* * *
90584472 ATTTGATTTCGTGTAAGACCTTGTCTGGGATAGAAGCATCGAT
1 ATGTGATTTCGTGTAAGACCATGTCTGGGACAGAAGCATCGAT
** * *
90584515 ATGTGATAACATGTAAGACCATATCTGGG
1 ATGTGATTTCGTGTAAGACCATGTCTGGG
90584544 TTATGGCATT
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
ATGTGATTTCGTGTAAGACCATGTCTGGGACAGAAGCATCGAT
Found at i:90588343 original size:14 final size:14
Alignment explanation
Indices: 90588324--90588353 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90588314 AATCACATGA
*
90588324 ATGTATATATGTAT
1 ATGTATATATATAT
90588338 ATGTATATATATAT
1 ATGTATATATATAT
90588352 AT
1 AT
90588354 ACACTCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
ATGTATATATATAT
Found at i:90591515 original size:11 final size:11
Alignment explanation
Indices: 90591489--90591526 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
90591479 TTACATAAAA
*
90591489 ATTTTA-AATA
1 ATTTTATAATT
90591499 ATTTTATAATT
1 ATTTTATAATT
90591510 ATTTTATAATT
1 ATTTTATAATT
*
90591521 TTTTTA
1 ATTTTA
90591527 AAAATTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTTTATAATT
Found at i:90592056 original size:25 final size:26
Alignment explanation
Indices: 90591989--90592053 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 26
90591979 GATTTTTTTA
* *
90591989 ATAA-TTATAATATAATACAAAATAT
1 ATAATTTATAATATAATATAAAATAC
* * * *
90592014 TTAATTT-TTATATGATATAAATTAC
1 ATAATTTATAATATAATATAAAATAC
90592039 ATAATTTATAATATA
1 ATAATTTATAATATA
90592054 TATTAGGATA
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (26 bp):
ATAATTTATAATATAATATAAAATAC
Found at i:90593928 original size:40 final size:40
Alignment explanation
Indices: 90593820--90594029 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
90593810 CGGGATTTAA
* * * * *
90593820 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
90593860 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90593900 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90593940 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90593980 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90594020 CCGGATATAT
1 CCGGATATAT
90594030 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:90602060 original size:40 final size:40
Alignment explanation
Indices: 90601952--90602161 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
90601942 CGGGATTTAA
* * * * *
90601952 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
90601992 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90602032 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90602072 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90602112 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90602152 CCGGATATAT
1 CCGGATATAT
90602162 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:90606828 original size:40 final size:40
Alignment explanation
Indices: 90606720--90606929 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
90606710 CGGGATTTAA
* * * * *
90606720 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
90606760 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90606800 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90606840 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90606880 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
90606920 CCGGATATAT
1 CCGGATATAT
90606930 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:90615835 original size:42 final size:42
Alignment explanation
Indices: 90615726--90615844 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
90615716 CGTACCAATG
* *
90615726 CAATATCCCAGGTATGGTCTTACATGAAATCTCATATCGATGC
1 CAATATCCCAGATATGGTCTTACACG-AATCTCATATCGATGC
* * *
90615769 CAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCGATGT
1 CAATATCCCAGATATGGTCTTACACGAA-TCTCATATCGATGC
* *
90615812 C-GTATCCTAGATATGGTCTTACACGTAATCTCA
1 CAATATCCCAGATATGGTCTTACACG-AATCTCA
90615845 GCAAGCCTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 27 0.41
43 39 0.59
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
CAATATCCCAGATATGGTCTTACACGAATCTCATATCGATGC
Found at i:90617024 original size:7 final size:7
Alignment explanation
Indices: 90617012--90617064 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
90617002 TTCTATGTTG
90617012 GGGTTTA
1 GGGTTTA
90617019 GGGTTTA
1 GGGTTTA
*
90617026 TGGTTTTA
1 -GGGTTTA
*
90617034 AGGTTTA
1 GGGTTTA
90617041 GGGTTTTA
1 GGG-TTTA
90617049 GGGTTTA
1 GGGTTTA
*
90617056 AGGTTTA
1 GGGTTTA
90617063 GG
1 GG
90617065 ATTTGGTCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
7 25 0.66
8 13 0.34
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (7 bp):
GGGTTTA
Found at i:90617033 original size:15 final size:15
Alignment explanation
Indices: 90617015--90617061 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
90617005 TATGTTGGGG
*
90617015 TTTAGGGTTTATGGT
1 TTTAGGGTTTAAGGT
* *
90617030 TTTAAGGTTTAGGGT
1 TTTAGGGTTTAAGGT
90617045 TTTAGGGTTTAAGGT
1 TTTAGGGTTTAAGGT
90617060 TT
1 TT
90617062 AGGATTTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (15 bp):
TTTAGGGTTTAAGGT
Found at i:90617038 original size:22 final size:22
Alignment explanation
Indices: 90617013--90617064 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
90617003 TCTATGTTGG
*
90617013 GGTTTAGGG-TTTATGGTTTTAA
1 GGTTTAGGGTTTTA-GGGTTTAA
90617035 GGTTTAGGGTTTTAGGGTTTAA
1 GGTTTAGGGTTTTAGGGTTTAA
90617057 GGTTTAGG
1 GGTTTAGG
90617065 ATTTGGTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (22 bp):
GGTTTAGGGTTTTAGGGTTTAA
Found at i:90623984 original size:9 final size:9
Alignment explanation
Indices: 90623970--90624079 Score: 103
Period size: 9 Copynumber: 11.6 Consensus size: 9
90623960 ATGTATTAGT
90623970 TAAGTTATG
1 TAAGTTATG
90623979 TAAGTTGTTATG
1 TAA---GTTATG
*
90623991 TAAATTATG
1 TAAGTTATG
90624000 TAAGTTATG
1 TAAGTTATG
*
90624009 TGAGTTATG
1 TAAGTTATG
90624018 TAAGTTGTTATG
1 TAA---GTTATG
*
90624030 TAAATTATG
1 TAAGTTATG
*
90624039 TAAGTTATA
1 TAAGTTATG
*
90624048 TGAGTTATG
1 TAAGTTATG
90624057 TAAGTTATG
1 TAAGTTATG
* *
90624066 TAATTTATT
1 TAAGTTATG
90624075 TAAGT
1 TAAGT
90624080 AATGATCAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
9 64 0.78
12 18 0.22
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:90624000 original size:21 final size:21
Alignment explanation
Indices: 90623974--90624044 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
90623964 ATTAGTTAAG
90623974 TTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAA
* *
90623995 TTATGTAA---GTTATGTGAG
1 TTATGTAAGTTGTTATGTAAA
90624013 TTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAA
90624034 TTATGTAAGTT
1 TTATGTAAGTT
90624045 ATATGAGTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
18 16 0.37
21 27 0.63
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (21 bp):
TTATGTAAGTTGTTATGTAAA
Found at i:90624015 original size:39 final size:39
Alignment explanation
Indices: 90623972--90624062 Score: 173
Period size: 39 Copynumber: 2.3 Consensus size: 39
90623962 GTATTAGTTA
*
90623972 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATG
90624011 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATG
90624050 AGTTATGTAAGTT
1 AGTTATGTAAGTT
90624063 ATGTAATTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (39 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATG
Found at i:90625551 original size:64 final size:64
Alignment explanation
Indices: 90625240--90625541 Score: 541
Period size: 64 Copynumber: 4.7 Consensus size: 64
90625230 GATTTTATTG
* *
90625240 ATATTATATTAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGGGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
* *
90625304 ATATTATATTAATAAATGAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
90625368 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTATATATTAGATGAGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
90625432 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGGGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
90625496 ATATTATATCAATAAATAAATTTATTAAAAATTGTGATAGAAATAT
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATAT
90625542 AGAAATATTA
Statistics
Matches: 230, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 230 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (64 bp):
ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
Found at i:90629730 original size:16 final size:17
Alignment explanation
Indices: 90629711--90629746 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
90629701 ATTATTTTAT
90629711 ATATAAA-TAAAAAACA
1 ATATAAATTAAAAAACA
90629727 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
90629744 ATA
1 ATA
90629747 AGTTATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:90630068 original size:7 final size:7
Alignment explanation
Indices: 90630045--90630262 Score: 69
Period size: 7 Copynumber: 30.3 Consensus size: 7
90630035 TCCCCTTAAT
90630045 CCCTAAA
1 CCCTAAA
*
90630052 CCCCTCAA
1 -CCCTAAA
90630060 CCCTAAA
1 CCCTAAA
* *
90630067 CCATTAA
1 CCCTAAA
*
90630074 CCCTTAAT
1 CCC-TAAA
*
90630082 CCTTAAA
1 CCCTAAA
***
90630089 ATTTAAA
1 CCCTAAA
*
90630096 CACTAAA
1 CCCTAAA
90630103 CCCTAAA
1 CCCTAAA
* * *
90630110 TCAT-AT
1 CCCTAAA
*
90630116 CCCATTAA
1 CCC-TAAA
90630124 CCCCTAAA
1 C-CCTAAA
*
90630132 CCCTTGAA
1 CCC-TAAA
*
90630140 CCTTAAA
1 CCCTAAA
90630147 CCCTAAA
1 CCCTAAA
* *
90630154 CCTTAAT
1 CCCTAAA
90630161 CCCTAAA
1 CCCTAAA
**
90630168 CTTTAAA
1 CCCTAAA
* *
90630175 CACTAAT
1 CCCTAAA
90630182 CCCTAAA
1 CCCTAAA
**
90630189 CCCTATC
1 CCCTAAA
*
90630196 CCCTTAA
1 CCCTAAA
*
90630203 CCCTAGA
1 CCCTAAA
*
90630210 CCCTCAA
1 CCCTAAA
*
90630217 CCTTTAAA
1 CC-CTAAA
*** *
90630225 TGTTAAC
1 CCCTAAA
90630232 CCCTAAA
1 CCCTAAA
**
90630239 CTATAAA
1 CCCTAAA
90630246 CCCTAAA
1 CCCTAAA
90630253 TCCCTAAA
1 -CCCTAAA
90630261 CC
1 CC
90630263 TTTAGCCATT
Statistics
Matches: 144, Mismatches: 59, Indels: 15
0.66 0.27 0.07
Matches are distributed among these distances:
6 2 0.01
7 109 0.76
8 31 0.22
9 2 0.01
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (7 bp):
CCCTAAA
Found at i:90630175 original size:79 final size:79
Alignment explanation
Indices: 90630011--90630218 Score: 231
Period size: 79 Copynumber: 2.6 Consensus size: 79
90630001 TAACTTTTTT
* * * * *
90630011 AACACTAATTACCCTTAACCCATGTCCCCTTAATCCCTAAACCCCTCAACCCTAAACCATTAACC
1 AACACTAA--ACCC-TAAACCATATCCCCTTAA-CCCTAAACCCTTCAACCCTAAACCACTAAAC
*
90630076 CTTAATCCTTAAAATTTA
62 CTTAATCCCTAAAATTTA
* * * *
90630094 AACACTAAACCCTAAATCATATCCCATTAACCCCTAAACCCTTGAACCTTAAACC-CTAAACCTT
1 AACACTAAACCCTAAACCATATCCCCTTAA-CCCTAAACCCTTCAACCCTAAACCACTAAACCTT
*
90630158 AATCCCTAAACTTTA
65 AATCCCTAAAATTTA
* * *
90630173 AACACTAATCCCTAAACCCTATCCCCTTAACCCTAGACCC-TCAACC
1 AACACTAAACCCTAAACCATATCCCCTTAACCCTAAACCCTTCAACC
90630219 TTTAAATGTT
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
77 5 0.05
78 9 0.08
79 46 0.43
80 35 0.33
81 4 0.04
83 8 0.07
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (79 bp):
AACACTAAACCCTAAACCATATCCCCTTAACCCTAAACCCTTCAACCCTAAACCACTAAACCTTA
ATCCCTAAAATTTA
Found at i:90630708 original size:14 final size:14
Alignment explanation
Indices: 90630689--90630742 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
90630679 GTGTCATTAA
90630689 TTTAGGGTTTATAG
1 TTTAGGGTTTATAG
*
90630703 TTTAGGGTTTCA-AA
1 TTTAGGGTTT-ATAG
*
90630717 TTTAAGGTTTATAG
1 TTTAGGGTTTATAG
90630731 TTTATGGGTTTA
1 TTTA-GGGTTTA
90630743 GGGGTTAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
13 1 0.03
14 25 0.76
15 7 0.21
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTATAG
Found at i:90630727 original size:28 final size:29
Alignment explanation
Indices: 90630687--90630741 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
90630677 ATGTGTCATT
*
90630687 AATTTAGGGTTTATAGTTTA-GGGTTTCA
1 AATTTAAGGTTTATAGTTTATGGGTTTCA
90630715 AATTTAAGGTTTATAGTTTATGGGTTT
1 AATTTAAGGTTTATAGTTTATGGGTTT
90630742 AGGGGTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.49
Consensus pattern (29 bp):
AATTTAAGGTTTATAGTTTATGGGTTTCA
Found at i:90631314 original size:42 final size:42
Alignment explanation
Indices: 90631255--90631439 Score: 171
Period size: 42 Copynumber: 4.4 Consensus size: 42
90631245 AATAGTTTAC
*
90631255 ATCTATAGCGGCGTTTTTCCAAAAAGCGCTGCCAAAACTCAA
1 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCGCCAAAACTCAA
* * *
90631297 ATCTATAACGGCGTTTTTCCAAAAAGTGCCGCTAAAACTCAA
1 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCGCCAAAACTCAA
* ** * * *
90631339 ATCTATTGCGGCGTTTTTTTATAGAAA-CGCCACTAAAACCCAA
1 ATCTATAGCGGCGTTTTTCCA-A-AAAGCGCCGCCAAAACTCAA
* * * * **
90631382 ATCCT-TAGAGGCGTTTTT-GAAAATGCGCCGCTAATTCTC-A
1 AT-CTATAGCGGCGTTTTTCCAAAAAGCGCCGCCAAAACTCAA
90631422 ATCTATAGCGGCGTTTTT
1 ATCTATAGCGGCGTTTTT
90631440 GAGGAAGCGC
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 2 0.02
40 17 0.14
41 11 0.09
42 56 0.47
43 27 0.23
44 5 0.04
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTCCAAAAAGCGCCGCCAAAACTCAA
Found at i:90631715 original size:153 final size:154
Alignment explanation
Indices: 90631407--90631745 Score: 465
Period size: 153 Copynumber: 2.2 Consensus size: 154
90631397 TTTGAAAATG
* *
90631407 CGCCGCTAATTCTCAATCTATAGCGGCGTTTTTGAGGAAGCGCCGCTATTGCCACTGAAGCTTAG
1 CGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAGGAAGCGCCGCTATTGCCACCGAAGCTTAG
* * * * * *
90631472 AATAAATGATGCCGTTCGGCTTAATCTTTTAGCGGCGTTTTTGTACAAACGCCGCTATAAGTCGA
66 AATAAACGACGCCATTCGGCTTAATCTTTTAGCGGCGTTTTTATAAAAACGCCGCTATAAGTAGA
90631537 CCTATAGCGGCGCTTCCATAAAAA
131 CCTATAGCGGCGCTTCCATAAAAA
*
90631561 CGCCGCTAATACTCAAACCTATAGCGGCGTTTTTG-GTGAAGCG-CGCTATTGCCACCGAAGC-T
1 CGCCGCTAATACTC-AATCTATAGCGGCGTTTTTGAG-GAAGCGCCGCTATTGCCACCGAAGCTT
* * *
90631623 CGCAATAAACGACGTCATTCGGCTTAATC-TTTAGTGGCGTTTTTATAAAAACGCCGCTAT-AGA
64 AG-AATAAACGACGCCATTCGGCTTAATCTTTTAGCGGCGTTTTTATAAAAACGCCGCTATAAG-
*
90631686 TAGACCTATAGCGGCGCTTTCATAAAAA
127 TAGACCTATAGCGGCGCTTCCATAAAAA
* *
90631714 CGCCTC-AATACTCAATCTATAGTGGCGTTTTT
1 CGCCGCTAATACTCAATCTATAGCGGCGTTTTT
90631746 TCAAAAACAC
Statistics
Matches: 165, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
151 17 0.10
152 9 0.05
153 61 0.37
154 53 0.32
155 25 0.15
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (154 bp):
CGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAGGAAGCGCCGCTATTGCCACCGAAGCTTAG
AATAAACGACGCCATTCGGCTTAATCTTTTAGCGGCGTTTTTATAAAAACGCCGCTATAAGTAGA
CCTATAGCGGCGCTTCCATAAAAA
Found at i:90635618 original size:30 final size:30
Alignment explanation
Indices: 90635563--90635693 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
90635553 ATAGTGAATC
*
90635563 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
90635592 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
90635622 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
90635650 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
90635680 CGCACACTTAGTGC
1 CGCACACTTAGTGC
90635694 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:90635673 original size:58 final size:58
Alignment explanation
Indices: 90635562--90635693 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
90635552 TATAGTGAAT
* * * * *
90635562 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
90635621 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
90635679 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
90635694 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:90652442 original size:79 final size:79
Alignment explanation
Indices: 90652342--90652491 Score: 221
Period size: 79 Copynumber: 1.9 Consensus size: 79
90652332 CTGGAAATTA
* * *
90652342 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCA
90652406 TTCGTGCGAGTATTC
65 TTCGTGCGAGTATTC
* * *
90652421 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTATTCTATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCAT
*
90652486 TTGTGC
66 TCGTGC
90652492 ACGTGATTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
78 3 0.05
79 60 0.95
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (79 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTATTC
Found at i:90652505 original size:40 final size:40
Alignment explanation
Indices: 90652301--90652507 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
90652291 AAATTGAATG
* * * * **
90652301 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGATT
* * * **
90652341 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
90652381 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-ATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * *
90652420 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
90652460 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGATT
90652500 ATATCCGG
1 ATATCCGG
90652508 TTATATTCCG
Statistics
Matches: 145, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 37 0.26
40 108 0.74
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:90660574 original size:40 final size:40
Alignment explanation
Indices: 90660369--90660576 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
90660359 AAATTGAATG
* * * * **
90660369 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGATT
* * * **
90660409 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
90660449 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * *
90660489 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
90660529 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGATT
90660569 ATATCCGG
1 ATATCCGG
90660577 TTATATTCCG
Statistics
Matches: 146, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 145 0.99
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:90669156 original size:42 final size:42
Alignment explanation
Indices: 90669035--90669156 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
90669025 TATCGTACCA
* * *
90669035 ATGCCATAACCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATAACCCAGCTATGGTCTTACAAGTAATCTCATATCG
* * *
90669077 ATGCCAATAGCCCAACTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATAACCCAGCTATGGTCTTACAAGTAA-TCTCATATCG
*
90669120 ATGCCATATCCCAGCTATGGTCTTACAAGTAATCTCA
1 ATGCCATAACCCAGCTATGGTCTTACAAGTAATCTCA
90669157 GTAGCCCTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 33 0.48
43 36 0.52
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATAACCCAGCTATGGTCTTACAAGTAATCTCATATCG
Found at i:90676045 original size:55 final size:56
Alignment explanation
Indices: 90675931--90676063 Score: 139
Period size: 55 Copynumber: 2.4 Consensus size: 56
90675921 TCGTCGTGGG
* * * ** *
90675931 CGAACCTGCCAAA-ACAGCACGGGCATGCGACACGCCCGTGCCTTGAACCTGTGGC
1 CGAACCTGTCAAATTCACCACGGGCATGCGACACGCCCGTGCCAAGAACCTATGGC
* *
90675986 CGAACCTGTCAAATTCA-CACGGGCGTGCGACACGCCCGTGCCAAGCAACC-ATGGT
1 CGAACCTGTCAAATTCACCACGGGCATGCGACACGCCCGTGCCAAG-AACCTATGGC
* *
90676041 CGAACCCGTTAAATT-ACCACGGG
1 CGAACCTGTCAAATTCACCACGGG
90676064 AGTAGGGATA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
54 1 0.02
55 59 0.89
56 6 0.09
ACGTcount: A:0.26, C:0.35, G:0.26, T:0.14
Consensus pattern (56 bp):
CGAACCTGTCAAATTCACCACGGGCATGCGACACGCCCGTGCCAAGAACCTATGGC
Found at i:90685022 original size:35 final size:35
Alignment explanation
Indices: 90684976--90685047 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
90684966 CATTCTAGGG
90684976 ATTAGACGTTATTAGTCTTGAATAGGGATAATAAC
1 ATTAGACGTTATTAGTCTTGAATAGGGATAATAAC
90685011 ATTAGACGTTATTAGTCTTGAATAGGGATAATAAC
1 ATTAGACGTTATTAGTCTTGAATAGGGATAATAAC
90685046 AT
1 AT
90685048 AACTTAGGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (35 bp):
ATTAGACGTTATTAGTCTTGAATAGGGATAATAAC
Found at i:90686506 original size:40 final size:40
Alignment explanation
Indices: 90686462--90686646 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
90686452 CAAGCACGAA
90686462 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATAAT
* *
90686502 TGCCTTCGGGTCTTAACTCGGATATAACAACTCGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATAAT
**
90686542 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAT
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATAAT
* * *
90686582 TGCCTTCGGGTCTTAACCCGGATATAATC-ACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCGCATAAT
* *
90686622 TGTCTTCGGGACTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
90686647 CATTCAATTG
Statistics
Matches: 130, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 129 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATAAT
Found at i:90686573 original size:80 final size:80
Alignment explanation
Indices: 90686439--90686646 Score: 301
Period size: 80 Copynumber: 2.6 Consensus size: 80
90686429 CAGAATATAA
* * ** *
90686439 CCGGATATAACCACAAGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCATAATTG
1 CCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAATTG
90686504 CCTTCGGGTCTTAAC
66 CCTTCGGGTCTTAAC
* * * *
90686519 TCGGATATAA-CAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGATT
1 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAATT
90686583 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
* *
90686599 CCGGATATAATCACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATAT
90686647 CATTCAATTG
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.01
80 111 0.98
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
CCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACAATTG
CCTTCGGGTCTTAAC
Found at i:90692336 original size:22 final size:23
Alignment explanation
Indices: 90692291--90692345 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
90692281 TCTAGATTAA
* *
90692291 TTTTTATTTTTTTTCATGTTCAAG
1 TTTTT-TTTTATTTCATGTACAAG
90692315 TTTTTTTTTATTTCAT-TACAAG
1 TTTTTTTTTATTTCATGTACAAG
* *
90692337 ATTTCTTTT
1 TTTTTTTTT
90692346 CTCCATTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 12 0.44
23 10 0.37
24 5 0.19
ACGTcount: A:0.18, C:0.09, G:0.05, T:0.67
Consensus pattern (23 bp):
TTTTTTTTTATTTCATGTACAAG
Found at i:90692345 original size:23 final size:22
Alignment explanation
Indices: 90692297--90692345 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
90692287 TTAATTTTTA
* *
90692297 TTTTTTTTCATGTTCAAGTTTT
1 TTTTTTTTCATGTACAAGTTTC
90692319 TTTTTATTTCAT-TACAAGATTTC
1 TTTTT-TTTCATGTACAAG-TTTC
90692342 TTTT
1 TTTT
90692346 CTCCATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.18, C:0.10, G:0.06, T:0.65
Consensus pattern (22 bp):
TTTTTTTTCATGTACAAGTTTC
Found at i:90697781 original size:16 final size:16
Alignment explanation
Indices: 90697760--90697794 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
90697750 AGTCCTTGTA
90697760 ATTTTA-TCATTTTAAC
1 ATTTTAGTC-TTTTAAC
90697776 ATTTTAGTCTTTTAAC
1 ATTTTAGTCTTTTAAC
90697792 ATT
1 ATT
90697795 AAAATTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTTTAGTCTTTTAAC
Found at i:90705158 original size:21 final size:20
Alignment explanation
Indices: 90705134--90705173 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
90705124 ACTTGTTTAA
90705134 CTATCAACAACCATTCAAAAT
1 CTATCAACAACCA-TCAAAAT
* *
90705155 CTATCATCAATCATCAAAA
1 CTATCAACAACCATCAAAA
90705174 ATCATTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (20 bp):
CTATCAACAACCATCAAAAT
Found at i:90708921 original size:35 final size:35
Alignment explanation
Indices: 90708882--90708949 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
90708872 AGATTCACAA
* *
90708882 TCGGGCCTGGGCCC-ATGTTAGATACAGATACAGAT
1 TCGGGCCTGAGCCCAAT-TTAGATACAAATACAGAT
* *
90708917 TCGGGCTTGAGCCCAATTTAGGTACAAATACAG
1 TCGGGCCTGAGCCCAATTTAGATACAAATACAG
90708950 TTACAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 26 0.93
36 2 0.07
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (35 bp):
TCGGGCCTGAGCCCAATTTAGATACAAATACAGAT
Found at i:90713037 original size:25 final size:27
Alignment explanation
Indices: 90712988--90713036 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
90712978 AAAGAAATAA
90712988 CTAAAATTGATAATTAAAAATAAAATT
1 CTAAAATTGATAATTAAAAATAAAATT
90713015 CTAAAA-T-ATAA-TAAAAATAAAA
1 CTAAAATTGATAATTAAAAATAAAA
90713037 AGTAGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 1 0.05
27 6 0.27
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (27 bp):
CTAAAATTGATAATTAAAAATAAAATT
Found at i:90733209 original size:21 final size:20
Alignment explanation
Indices: 90733185--90733224 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
90733175 ACTTGTTTAA
90733185 CTATCAACAACCATTCAAAAT
1 CTATCAACAACCA-TCAAAAT
* *
90733206 CTATCATCAATCATCAAAA
1 CTATCAACAACCATCAAAA
90733225 CTCATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (20 bp):
CTATCAACAACCATCAAAAT
Found at i:90737144 original size:46 final size:46
Alignment explanation
Indices: 90737077--90737250 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
90737067 TGTAACCCGC
*
90737077 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
90737123 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
90737173 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
90737215 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
90737251 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:90737243 original size:92 final size:93
Alignment explanation
Indices: 90737085--90737255 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
90737075 GCCCATAAGT
* *
90737085 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
90737150 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
90737178 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
90737242 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
90737256 CAAATATCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 47 0.63
93 28 0.37
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:90739635 original size:29 final size:29
Alignment explanation
Indices: 90739596--90739683 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
90739586 CAAAGATAAC
*
90739596 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
90739625 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
90739654 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
90739684 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Done.