Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 197 of 310
Found at i:64439519 original size:54 final size:54
Alignment explanation
Indices: 64439418--64439526 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 54
64439408 AAGCGTCCTA
*
64439418 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATTTCTGTTCTG
* * *
64439472 GTGGCTTTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTTCTG
1 GTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATTTCTGTTCTG
64439526 G
1 G
64439527 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATTTCTGTTCTG
Found at i:64439548 original size:54 final size:55
Alignment explanation
Indices: 64439424--64439548 Score: 130
Period size: 54 Copynumber: 2.3 Consensus size: 55
64439414 CCTAGTGGCT
* * * ** *
64439424 ATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATTTCTGTTCTGGTGGCT
1 ATGCCACGATAATCTGTATCTGGTGACTCTGCCACATATTTCTGTTCTGGCAGCC
* * *
64439478 TTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTTCTGGCAGCC
1 ATGCCACGATAATCTGTATCTGGTGACTCTGCCACATATTTCTGTTCTGGCAGCC
*
64439532 ATGCTAC-ATAATTCTGT
1 ATGCCACGATAA-TCTGT
64439549 GGCGTGTAGC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 3 0.05
54 38 0.64
55 18 0.31
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (55 bp):
ATGCCACGATAATCTGTATCTGGTGACTCTGCCACATATTTCTGTTCTGGCAGCC
Found at i:64444117 original size:22 final size:24
Alignment explanation
Indices: 64444092--64444144 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
64444082 TACAAATTGA
64444092 TAAA-AAT-TGATAATGGGTTAGG
1 TAAATAATCTGATAATGGGTTAGG
*
64444114 TAAATATTCCATGATAATGGGTTAGG
1 TAAATAAT-C-TGATAATGGGTTAGG
64444140 TAAAT
1 TAAAT
64444145 GTTCCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 4 0.15
23 2 0.08
26 20 0.77
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.34
Consensus pattern (24 bp):
TAAATAATCTGATAATGGGTTAGG
Found at i:64444129 original size:26 final size:26
Alignment explanation
Indices: 64444099--64444154 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
64444089 TGATAAAAAT
64444099 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
64444125 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
64444151 TGAT
1 TGAT
64444155 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:64445782 original size:43 final size:43
Alignment explanation
Indices: 64445687--64446545 Score: 1300
Period size: 43 Copynumber: 20.3 Consensus size: 43
64445677 ACATAAAATT
* * *
64445687 TGCTAGGC-ATAAAGCCT-AGTATAATACACCG-G-CATAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACTGAGATATAAAGCC
64445728 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64445771 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64445814 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64445857 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64445900 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64445943 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64445986 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64446029 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64446072 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64446115 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64446158 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
* * *
64446201 TGCTAGGCAATAAGCCTGATATAATACACCG-G-CACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
* * * * * *
64446242 TACTAGGCAATAAACCTGATTTAATACA-T-CGACACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64446283 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
*
64446326 TGCTAGGCAATAAGCCTGATATAATACACTGAGATACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
* * * * *
64446369 TGCTAGGCAATAAGCCTGATTTAATACACCG-G-CACAAAGCG
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
* * * * * * *
64446410 TGCTAGGCAATAAGCTTGATTTAAAACACCG-G-CACAAAGCT
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
* * * *
64446451 TGCTAGGCAATAAGCTTGATATAATACACCG-G-CACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
* * *
64446492 TGCTAGGCAATAAGCCTGATATAATACAC--CGACACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
64446533 TGCTAGGCAATAA
1 TGCTAGGCAATAA
64446546 AGCCCGAATA
Statistics
Matches: 780, Mismatches: 28, Indels: 20
0.94 0.03 0.02
Matches are distributed among these distances:
40 2 0.00
41 224 0.29
42 7 0.01
43 547 0.70
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.22
Consensus pattern (43 bp):
TGCTAGGCAATAAGCCTGATATAATACACTGAGATATAAAGCC
Found at i:64450606 original size:20 final size:20
Alignment explanation
Indices: 64450577--64450614 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64450567 GTTGATTCAT
* *
64450577 TTAATTTTCTAATCACGTTA
1 TTAATCTTCTAAACACGTTA
64450597 TTAATCTTCTAAACACGT
1 TTAATCTTCTAAACACGT
64450615 ACTTTTGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (20 bp):
TTAATCTTCTAAACACGTTA
Found at i:64453121 original size:41 final size:41
Alignment explanation
Indices: 64453064--64453193 Score: 165
Period size: 41 Copynumber: 3.2 Consensus size: 41
64453054 ACATAAAATT
* *
64453064 TGCTAGGC-ATAAAGCCT-AGTATAATACACCGGCATAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
*
64453105 TGCTAGGCAATAAGCCTGATATAATACACCGACACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * *
64453146 TGCTAGGCAAAAAGCATGATTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
*
64453187 TACTAGG
1 TGCTAGG
64453194 TCATTCACAT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
41 76 0.96
42 3 0.04
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:64453322 original size:41 final size:41
Alignment explanation
Indices: 64453265--64453359 Score: 140
Period size: 41 Copynumber: 2.3 Consensus size: 41
64453255 ACATAAAATT
* *
64453265 TGCTAGGC-ATAAAGCCT-AGTATAATACACCGGCATAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
64453306 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
64453347 TGCTAGGCAATAA
1 TGCTAGGCAATAA
64453360 AGCCCGAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
41 47 0.94
42 3 0.06
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:64453344 original size:201 final size:202
Alignment explanation
Indices: 64452994--64453362 Score: 722
Period size: 201 Copynumber: 1.8 Consensus size: 202
64452984 AAGTAAACCA
64452994 CATTCACATACCTGATCACTTTAGCTCATTTAACACATTTGATTACTTTTACCATTGTTCACATA
1 CATTCACATACCTGATCACTTTAGCTCATTTAACACATTTGATTACTTTTACCATTGTTCACATA
64453059 AAATTTGCTAGGCATAAAGCCTAGTATAATACACCGGCATAGAGCCTGCTAGGCAATAAGCCTGA
66 AAATTTGCTAGGCATAAAGCCTAGTATAATACACCGGCATAGAGCCTGCTAGGCAATAAGCCTGA
64453124 TATAATACACCGACACAAAGCCTGCTAGGCAA-AAAGCATGATTTAATACACCGGCACAAAGCCT
131 TATAATACACCGACACAAAGCCTGCTAGGCAATAAAGCATGATTTAATACACCGGCACAAAGCCT
64453188 ACTAGGT
196 ACTAGGT
64453195 CATTCACATACCTGATCACTTTAGCTCATTTAACACATTTGATTACTTTTACCATTGTTCACATA
1 CATTCACATACCTGATCACTTTAGCTCATTTAACACATTTGATTACTTTTACCATTGTTCACATA
64453260 AAATTTGCTAGGCATAAAGCCTAGTATAATACACCGGCATAGAGCCTGCTAGGCAATAAGCCTGA
66 AAATTTGCTAGGCATAAAGCCTAGTATAATACACCGGCATAGAGCCTGCTAGGCAATAAGCCTGA
*
64453325 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAAGC
131 TATAATACACCGACACAAAGCCTGCTAGGCAATAAAGC
64453363 CCGAATATCA
Statistics
Matches: 166, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
201 161 0.97
202 5 0.03
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (202 bp):
CATTCACATACCTGATCACTTTAGCTCATTTAACACATTTGATTACTTTTACCATTGTTCACATA
AAATTTGCTAGGCATAAAGCCTAGTATAATACACCGGCATAGAGCCTGCTAGGCAATAAGCCTGA
TATAATACACCGACACAAAGCCTGCTAGGCAATAAAGCATGATTTAATACACCGGCACAAAGCCT
ACTAGGT
Found at i:64454683 original size:26 final size:26
Alignment explanation
Indices: 64454654--64454731 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
64454644 TGTTACATAT
*
64454654 TTATTTAGCAGGCTTTGAGCCGGTGA
1 TTATTTAGCAGGCTTTGAGCTGGTGA
* *
64454680 TTATTTAGCAGGCTTTGAGTTGGTGT
1 TTATTTAGCAGGCTTTGAGCTGGTGA
64454706 TTATTTAGCAGGCTTTGAGCTGGTGA
1 TTATTTAGCAGGCTTTGAGCTGGTGA
64454732 ATATATAGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.18, C:0.12, G:0.31, T:0.40
Consensus pattern (26 bp):
TTATTTAGCAGGCTTTGAGCTGGTGA
Found at i:64455153 original size:26 final size:26
Alignment explanation
Indices: 64455117--64455170 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
64455107 ATGGGATGTT
64455117 AGTAAGGTCGTATTAAAATTTTGATA
1 AGTAAGGTCGTATTAAAATTTTGATA
64455143 AGTAAGGTCGTATTAAAATTTTGATA
1 AGTAAGGTCGTATTAAAATTTTGATA
64455169 AG
1 AG
64455171 AATTATGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (26 bp):
AGTAAGGTCGTATTAAAATTTTGATA
Found at i:64458237 original size:12 final size:13
Alignment explanation
Indices: 64458211--64458241 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
64458201 TGCAAAATTA
64458211 AAGAAAAGAAAAG
1 AAGAAAAGAAAAG
64458224 AAGAAAAG-AAAG
1 AAGAAAAGAAAAG
64458236 AAGAAA
1 AAGAAA
64458242 GAACGCACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAGAAAAGAAAAG
Found at i:64458472 original size:13 final size:13
Alignment explanation
Indices: 64458454--64458478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64458444 AATTGATATC
64458454 TGTGAAAATTTTG
1 TGTGAAAATTTTG
64458467 TGTGAAAATTTT
1 TGTGAAAATTTT
64458479 ATCGTTTGTG
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:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:64459415 original size:28 final size:28
Alignment explanation
Indices: 64459375--64459431 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
64459365 CGTACGAGGT
64459375 AAGTCTATATACAAATAAATGTGTTTGA
1 AAGTCTATATACAAATAAATGTGTTTGA
64459403 AAGTCTATATACAAATAAATGTGTTTGA
1 AAGTCTATATACAAATAAATGTGTTTGA
64459431 A
1 A
64459432 TTGATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (28 bp):
AAGTCTATATACAAATAAATGTGTTTGA
Found at i:64459696 original size:42 final size:41
Alignment explanation
Indices: 64459589--64459706 Score: 121
Period size: 44 Copynumber: 2.8 Consensus size: 41
64459579 AGGATTTTCG
* * **
64459589 ATATTTGATTTCGTGTAAGAACACATCTGGGACATTGGCAT
1 ATATTTGATTTCGTGTAAGACCATATCTGGGACATCAGCAT
* *
64459630 -TGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATCAGTAT
1 AT-ATTT--GATTT-CGTGTAAGACCATATCTGGGACATCAGCAT
*
64459674 CATATTTGATTTCGTGTAAGACCCTATCTGGGA
1 -ATATTTGATTTCGTGTAAGACCATATCTGGGA
64459707 TAGTGGCATT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
40 1 0.02
41 4 0.06
42 19 0.30
43 10 0.16
44 24 0.38
45 4 0.06
46 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (41 bp):
ATATTTGATTTCGTGTAAGACCATATCTGGGACATCAGCAT
Found at i:64459757 original size:43 final size:43
Alignment explanation
Indices: 64459588--64459760 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
64459578 TAGGATTTTC
* *
64459588 GATATTTGATTTCGTGTAAGAACACATCTGGGACATTGGCATT
1 GATATTTGATTACGTGTAAGACCACATCTGGGACATTGGCATT
* ** ** *
64459631 GAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATCAGTA-T
1 GATATT-TGA-TTACGTGTAAGACCACATCTGGGACATTGGCATT
* * * *
64459674 CATATTTGATTTCGTGTAAGACC-CTATCTGGGATAGTGGCATT
1 GATATTTGATTACGTGTAAGACCAC-ATCTGGGACATTGGCATT
* * * *
64459717 GATAATTGATTACATGTAAGACCACGTCTGGGACGTTGGCATT
1 GATATTTGATTACGTGTAAGACCACATCTGGGACATTGGCATT
64459760 G
1 G
64459761 TACGAACTTT
Statistics
Matches: 98, Mismatches: 26, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
42 25 0.26
43 45 0.46
44 28 0.29
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
GATATTTGATTACGTGTAAGACCACATCTGGGACATTGGCATT
Found at i:64462732 original size:24 final size:24
Alignment explanation
Indices: 64462705--64462763 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 24
64462695 GTAAGGAGGG
64462705 GATAAGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
*
64462729 GATAAGGGGAGAAGTTTTAGGAGCT
1 GATAA-GGGAGAAGATTTAGGAGCT
*
64462754 GATTAGGGAG
1 GATAAGGGAG
64462764 GGCAGTGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 10 0.31
25 22 0.69
ACGTcount: A:0.34, C:0.03, G:0.41, T:0.22
Consensus pattern (24 bp):
GATAAGGGAGAAGATTTAGGAGCT
Found at i:64463650 original size:16 final size:15
Alignment explanation
Indices: 64463624--64463654 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
64463614 ACTAGATCGG
64463624 TAAAAGCCGAAAAGC
1 TAAAAGCCGAAAAGC
64463639 TAAAATGCCGAAAAGC
1 TAAAA-GCCGAAAAGC
64463655 CAGTATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (15 bp):
TAAAAGCCGAAAAGC
Found at i:64464105 original size:27 final size:26
Alignment explanation
Indices: 64464073--64464178 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 26
64464063 AGGAAGCGTC
*
64464073 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
64464100 CTGGTGGCTCTGTCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
64464127 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
64464155 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
64464179 TTCTAGCAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.03
27 50 0.72
28 17 0.25
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:64464177 original size:54 final size:54
Alignment explanation
Indices: 64464073--64464182 Score: 177
Period size: 54 Copynumber: 2.0 Consensus size: 54
64464063 AGGAAGCGTC
*
64464073 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGTCACATATATCTGTT
* *
64464127 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGTCACATATATCTGTT
64464181 CT
1 CT
64464183 AGCAGCTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 33 0.63
55 19 0.37
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGTCACATATATCTGTT
Found at i:64470462 original size:24 final size:24
Alignment explanation
Indices: 64470435--64470493 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 24
64470425 GTAAGGAGGG
64470435 GATAAGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
*
64470459 GATAAGGGGAGAAGTTTTAGGAGCT
1 GATAA-GGGAGAAGATTTAGGAGCT
*
64470484 GATTAGGGAG
1 GATAAGGGAG
64470494 GGCAGTGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 10 0.31
25 22 0.69
ACGTcount: A:0.34, C:0.03, G:0.41, T:0.22
Consensus pattern (24 bp):
GATAAGGGAGAAGATTTAGGAGCT
Found at i:64471476 original size:27 final size:26
Alignment explanation
Indices: 64471435--64471573 Score: 152
Period size: 27 Copynumber: 5.2 Consensus size: 26
64471425 AGGAAGCATC
*
64471435 CTGGTGGCTGTGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
64471462 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
64471489 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
64471516 CTGGTGGCTCTGCTACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
64471544 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
64471570 CTGG
1 CTGG
64471574 CAGCTATGCT
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.07
27 74 0.76
28 16 0.16
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:64471523 original size:54 final size:55
Alignment explanation
Indices: 64471435--64471573 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 55
64471425 AGGAAGCATC
* * *
64471435 CTGGTGGCTGTGCCACA-ATTATCTGATCTAGTGGCTCTGCCAC-ATATATCTGT-T
1 CTGGTGGCTCTGCCACATA-TATCTGTTCTGGTGGCTCTGCCACGAT-TATCTGTAT
* *
64471489 CTGGTGGCTCTACCACATATATCTGTTCTGGTGGCTCTGCTACGATTATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTAT
* *
64471544 CTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 CTGGTGGCTCTGCCACATATATCTGTTCTGG
64471574 CAGCTATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
54 55 0.74
55 19 0.26
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (55 bp):
CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTAT
Found at i:64471595 original size:54 final size:54
Alignment explanation
Indices: 64471476--64471595 Score: 136
Period size: 54 Copynumber: 2.2 Consensus size: 54
64471466 TGGCTCTGCC
* ** *
64471476 ACATATATCTGTTCTGGTGGCTCTACCACATATATCTGTTCTGGTGGCTCTGCT
1 ACATATATCTGTTCTGGTGACTCTACCACATATATCTGTTCTGGCAGCTATGCT
**
64471530 ACGAT-TATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTGGCAGCTATGCT
1 AC-ATATATCTGT-TCTGGTGACTCTACCACATATATCTGTTCTGGCAGCTATGCT
* *
64471584 GCATATCTCTGT
1 ACATATATCTGT
64471596 GGCGTGTAGC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
53 2 0.04
54 35 0.64
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (54 bp):
ACATATATCTGTTCTGGTGACTCTACCACATATATCTGTTCTGGCAGCTATGCT
Found at i:64473683 original size:11 final size:10
Alignment explanation
Indices: 64473662--64473694 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
64473652 CCTGTAGTTG
64473662 AATTTTTCTA
1 AATTTTTCTA
64473672 AATTTTTCCTA
1 AATTTTT-CTA
64473683 AATTTTT-TA
1 AATTTTTCTA
64473692 AAT
1 AAT
64473695 GTTCCCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.23
10 7 0.32
11 10 0.45
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTTTTCTA
Found at i:64477701 original size:49 final size:49
Alignment explanation
Indices: 64477603--64477701 Score: 112
Period size: 49 Copynumber: 2.0 Consensus size: 49
64477593 TATACCAGGC
* * * *
64477603 AACTCATAAGAGTCTATAACAGGAAGTTCACAAAGAACTTTTAATTAGGA
1 AACTCATAAGAGCCTAT-ACAGGAAGATCACAAAGAACATGTAATTAGGA
*
64477653 AACTCATGAAGAGCCTAT-CAGGAAGATCACAAAGAGCAATGTAA-TAGGA
1 AACTCAT-AAGAGCCTATACAGGAAGATCACAAAGAAC-ATGTAATTAGGA
64477702 CCTCCAATAG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
49 22 0.52
50 11 0.26
51 9 0.21
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.21
Consensus pattern (49 bp):
AACTCATAAGAGCCTATACAGGAAGATCACAAAGAACATGTAATTAGGA
Found at i:64481727 original size:41 final size:41
Alignment explanation
Indices: 64481677--64481813 Score: 193
Period size: 41 Copynumber: 3.3 Consensus size: 41
64481667 TGTAAACAGT
* **
64481677 GGCACGTATGTGTAATTCAGGGGTACCAAAGTACAAATAGG
1 GGCACATATGTGTAATTCAGGGGTACTGAAGTACAAATAGG
** * *
64481718 GGCATGTATGTGTAATTTAGGGGTACTGAAGTACAAACAGG
1 GGCACATATGTGTAATTCAGGGGTACTGAAGTACAAATAGG
* *
64481759 GGCACAAATGTGCAATTCAGGGGTACTGAAGTACAAATAGG
1 GGCACATATGTGTAATTCAGGGGTACTGAAGTACAAATAGG
64481800 GGCACATATGTGTA
1 GGCACATATGTGTA
64481814 GTTTATAGAA
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (41 bp):
GGCACATATGTGTAATTCAGGGGTACTGAAGTACAAATAGG
Found at i:64487505 original size:39 final size:39
Alignment explanation
Indices: 64487461--64487579 Score: 136
Period size: 39 Copynumber: 3.1 Consensus size: 39
64487451 CCTTCAGAAT
* *
64487461 TTAGCCGAATATAGCT-ACTTGCTCAAATGCCTTCGGGAC
1 TTAGCCGGATATAG-TAACTTGCACAAATGCCTTCGGGAC
* *
64487500 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTC-GGAC
1 TTAG-CCGGATATAGTAACTTGCACAAATGCCTTCGGGAC
* *
64487539 TTATCCCGGATATAGTAAC-TCCACAAATGCCTTCGGGAC
1 TTA-GCCGGATATAGTAACTTGCACAAATGCCTTCGGGAC
64487578 TT
1 TT
64487580 CACGAGCGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
38 13 0.19
39 31 0.46
40 24 0.35
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (39 bp):
TTAGCCGGATATAGTAACTTGCACAAATGCCTTCGGGAC
Found at i:64487573 original size:38 final size:40
Alignment explanation
Indices: 64487484--64487579 Score: 160
Period size: 39 Copynumber: 2.5 Consensus size: 40
64487474 GCTACTTGCT
*
64487484 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
64487524 CAAATGCCTTC-GGACTTATCCCGGATATAGTAACTC-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
64487562 CAAATGCCTTCGGGACTT
1 CAAATGCCTTCGGGACTT
64487580 CACGAGCGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
38 13 0.25
39 29 0.55
40 11 0.21
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:64490649 original size:80 final size:80
Alignment explanation
Indices: 64490526--64490945 Score: 705
Period size: 80 Copynumber: 5.2 Consensus size: 80
64490516 CTAGCATGAT
* * * * * *
64490526 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCTTCGGGACTTAACCCTGATA
1 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
64490591 TAACTCTAGCACAAA
66 TAACTCTAGCACAAA
*
64490606 TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
64490671 TAACTCTAGCACAAA
66 TAACTCTAGCACAAA
*
64490686 TGCTCTTCGAGACTTAGCTCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
64490751 TAACTCTAGCACAAA
66 TAACTCTAGCACAAA
*
64490766 TGCTCTTCGAGACTTAGCTCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
64490831 TAACTCTAGCACAAA
66 TAACTCTAGCACAAA
*
64490846 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATA
1 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* * *
64490911 TATCACTAGCACGAA
66 TAACTCTAGCACAAA
* *
64490926 TGCTATTCGGGACTTAGCCC
1 TGCTCTTCGAGACTTAGCCC
64490946 AGATATATAT
Statistics
Matches: 326, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 326 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (80 bp):
TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TAACTCTAGCACAAA
Found at i:64490953 original size:40 final size:40
Alignment explanation
Indices: 64490514--64490952 Score: 590
Period size: 40 Copynumber: 11.0 Consensus size: 40
64490504 GAATACACAT
* * * *
64490514 CACTAGCATGATTGCTCTTCGGGACCTAGCCCAGATATAA
1 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
64490554 CACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
64490594 CTCTAGCACAAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
64490634 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
64490674 CTCTAGCACAAATGCTCTTCGAGACTTAGCTCGGACATAA
1 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
64490714 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
64490754 CTCTAGCACAAATGCTCTTCGAGACTTAGCTCGGACATAA
1 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
64490794 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
64490834 CTCTAGCACAAATGCTCTTCGAGACTTAGCCCGGACATAA
1 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
64490874 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAT
1 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
64490914 CACTAGCACGAATGCTATTCGGGACTTAGCCCAGATATA
1 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
64490953 TATAACTCTC
Statistics
Matches: 345, Mismatches: 54, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 345 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:64491112 original size:47 final size:46
Alignment explanation
Indices: 64491059--64491152 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 46
64491049 CAACTTTCAG
64491059 TTCCATAGCCACATACAAAGATCACATTTATAGTCATAACACTCTT
1 TTCCATAGCCACATACAAAGATCACATTTATAGTCATAACACTCTT
64491105 NTTCCATAGCCACATACAAAGATCACATTTATAGTCATAACACTCTT
1 -TTCCATAGCCACATACAAAGATCACATTTATAGTCATAACACTCTT
64491152 T
1 T
64491153 CAAAATTGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 1 0.02
47 46 0.98
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (46 bp):
TTCCATAGCCACATACAAAGATCACATTTATAGTCATAACACTCTT
Found at i:64492363 original size:37 final size:37
Alignment explanation
Indices: 64492256--64492364 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
64492246 AGCTCAGATG
* * * *
64492256 AAATCTCCACACGAAGTTATTGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
64492293 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
64492330 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
64492365 ATATATATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:64492690 original size:52 final size:48
Alignment explanation
Indices: 64492513--64492810 Score: 445
Period size: 48 Copynumber: 6.0 Consensus size: 48
64492503 ACACATCGCC
*
64492513 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
64492561 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
64492609 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
64492661 TATATATTTCATATT-GACCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTC----A
* *
64492713 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
64492761 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
64492809 TA
1 TA
64492811 TATCAATTTC
Statistics
Matches: 236, Mismatches: 8, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
48 142 0.60
51 1 0.00
52 92 0.39
53 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:64492788 original size:152 final size:148
Alignment explanation
Indices: 64492530--64492813 Score: 496
Period size: 152 Copynumber: 1.9 Consensus size: 148
64492520 TTCACACTAG
64492530 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
64492595 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
66 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
64492660 ATATATATTTCATATTGA
131 ATATATATTTCATATTGA
* * *
64492678 CCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCGCATTAGCCATTCGGCTTTA
1 CCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACACTAGCCATTCGGCTTTA
64492743 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
62 CCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC
64492808 ATATAT
127 ATATAT
64492814 CAATTTCAGC
Statistics
Matches: 128, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
148 30 0.23
152 98 0.77
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (148 bp):
CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
ATATATATTTCATATTGA
Found at i:64492959 original size:48 final size:48
Alignment explanation
Indices: 64492903--64493067 Score: 258
Period size: 48 Copynumber: 3.4 Consensus size: 48
64492893 TTTTCCTGAG
64492903 TCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCAT
1 TCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCAT
*
64492951 TCGACTTTACCACATATACATATCTCATATATATATATTTCACATTAGCCAT
1 TCGGCTTTACCACATATACATATCTC----ATATATATTTCACATTAGCCAT
* * *
64493003 TCGGCTTTACCACATATACATATCTTATACATATTTCACACTAGCCAT
1 TCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCAT
64493051 TCGGCTTTACCACATAT
1 TCGGCTTTACCACATAT
64493068 CGGCTTTACC
Statistics
Matches: 108, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
48 62 0.57
52 46 0.43
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
TCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCAT
Found at i:64493072 original size:16 final size:16
Alignment explanation
Indices: 64493051--64493083 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
64493041 CACTAGCCAT
64493051 TCGGCTTTACCACATA
1 TCGGCTTTACCACATA
64493067 TCGGCTTTACCACATA
1 TCGGCTTTACCACATA
64493083 T
1 T
64493084 ACATATCTTA
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:0.24, C:0.30, G:0.12, T:0.33
Consensus pattern (16 bp):
TCGGCTTTACCACATA
Found at i:64495939 original size:70 final size:70
Alignment explanation
Indices: 64495826--64495965 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
64495816 CTCGGTTTAG
64495826 CGGTCCTGAAACCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACAACTCTCCCCCACTTAAGA
1 CGGTCCTGAAACCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACAACTCTCCCCCACTTAAGA
64495891 AATTT
66 AATTT
*
64495896 CGGTCCTGAAACCGCTTTCTGACTAGGGTCACTTTAGGGCTGTCACAACTCTCCCCCACTTAAGA
1 CGGTCCTGAAACCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACAACTCTCCCCCACTTAAGA
64495961 AATTT
66 AATTT
64495966 TCGTCCCCGA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (70 bp):
CGGTCCTGAAACCGCTTTCCGACTAGGGTCACTTTAGGGCTGTCACAACTCTCCCCCACTTAAGA
AATTT
Found at i:64497125 original size:40 final size:40
Alignment explanation
Indices: 64497060--64497301 Score: 367
Period size: 40 Copynumber: 6.0 Consensus size: 40
64497050 CTAGCATGAT
* * * *
64497060 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
* * * * * * *
64497100 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
*
64497140 TGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
*
64497180 TGCTCTTCGGGACTTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
64497220 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
64497260 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
64497300 TG
1 TG
64497302 TCGGACATAA
Statistics
Matches: 187, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 187 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (40 bp):
TGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
Found at i:64497273 original size:120 final size:120
Alignment explanation
Indices: 64497060--64497546 Score: 565
Period size: 120 Copynumber: 4.2 Consensus size: 120
64497050 CTAGCATGAT
* * * *
64497060 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCTTCGGGACTTAACCCTGATA
1 TGCTCTTCGGGACCTAGCCCAGACATAACACCAGCACGAATGCTCTTCGAGACTTAACCCGGACA
* * *
64497125 TAACTCTAGCACAAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAA
66 TAACACCAGCACAAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
* * *
64497180 TGCTCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACA
1 TGCTCTTCGGGACCTAGCCCAGACATAACACCAGCACGAATGCTCTTCGAGACTTAACCCGGACA
*
64497245 TAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
66 TAACACCAGCACAAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
* * * * * *
64497300 TG----TC-GGA-C-A---TA-AC--ACCAGC---ACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACCTAGCCCAGACATAACACCAGCACGAATGCTCTTCGAGACTTAACCCGGACA
* * *
64497349 TAACTCTAGCACAAATGCTCTTCGAGACTTAGCTCGGACATAACACCAGCACGAA
66 TAACACCAGCACAAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
* * * * * * *
64497404 TGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATGCTCTTCGAGACTTAGCCCGGACA
1 TGCTCTTCGGGACCTAGCCCAGACATAACACCAGCACGAATGCTCTTCGAGACTTAACCCGGACA
* * * *
64497469 TAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAA
66 TAACACCAGCACAAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
* *
64497524 TGCTATTCGGGACTTAGCCCAGA
1 TGCTCTTCGGGACCTAGCCCAGA
64497547 TATATATAAC
Statistics
Matches: 309, Mismatches: 42, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
104 81 0.26
107 4 0.01
108 2 0.01
109 5 0.02
111 1 0.00
113 1 0.00
115 4 0.01
116 2 0.01
117 2 0.01
120 207 0.67
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (120 bp):
TGCTCTTCGGGACCTAGCCCAGACATAACACCAGCACGAATGCTCTTCGAGACTTAACCCGGACA
TAACACCAGCACAAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAA
Found at i:64497311 original size:24 final size:24
Alignment explanation
Indices: 64497279--64497325 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
64497269 AGACTTAGCC
64497279 CGGACATAACACCAGCACGAATGT
1 CGGACATAACACCAGCACGAATGT
64497303 CGGACATAACACCAGCACGAATG
1 CGGACATAACACCAGCACGAATG
64497326 CTCTTCGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.30, G:0.21, T:0.11
Consensus pattern (24 bp):
CGGACATAACACCAGCACGAATGT
Found at i:64497360 original size:64 final size:64
Alignment explanation
Indices: 64497239--64497365 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 64
64497229 AGACTTAGCC
*
64497239 CGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGT
1 CGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACAAATGT
* * * *
64497303 CGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATG
1 CGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACAAATG
64497366 CTCTTCGAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.17
Consensus pattern (64 bp):
CGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACAAATGT
Found at i:64497379 original size:104 final size:104
Alignment explanation
Indices: 64497199--64497405 Score: 360
Period size: 104 Copynumber: 2.0 Consensus size: 104
64497189 GGACTTAGCC
*
64497199 CGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCT
1 CGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACAAATGCT
64497264 CTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGT
66 CTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGT
* * * *
64497303 CGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATGCT
1 CGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACAAATGCT
*
64497368 CTTCGAGACTTAGCTCGGACATAACACCAGCACGAATG
66 CTTCGAGACTTAGCCCGGACATAACACCAGCACGAATG
64497406 CTCTTCGGGA
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 97 1.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.18
Consensus pattern (104 bp):
CGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACAAATGCT
CTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGT
Found at i:64497448 original size:184 final size:184
Alignment explanation
Indices: 64497132--64497485 Score: 600
Period size: 184 Copynumber: 1.9 Consensus size: 184
64497122 ATATAACTCT
* *
64497132 AGCACAAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAG
1 AGCACAAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCGAGACTTAG
*
64497197 CCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATG
66 CCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACAAATG
64497262 CTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGTCGGACATAACACC
131 CTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGTCGGACATAACACC
* * * *
64497316 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATGCTCTTCGAGACTTAG
1 AGCACAAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCGAGACTTAG
* * * * *
64497381 CTCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATG
66 CCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACAAATG
64497446 CTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATG
131 CTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATG
64497486 CTCTTCGAGA
Statistics
Matches: 158, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 158 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (184 bp):
AGCACAAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCGAGACTTAG
CCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACAAATG
CTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGTCGGACATAACACC
Found at i:64497474 original size:224 final size:224
Alignment explanation
Indices: 64497084--64497525 Score: 785
Period size: 224 Copynumber: 2.0 Consensus size: 224
64497074 TAGCCCAGAT
*
64497084 ATAACACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAATGCTCTTCG
1 ATAACACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACTCTAGCACAAATGCTCTTCG
*
64497149 AGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACACCAG
66 AGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACACCAG
*
64497214 CACGAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCC
131 CACAAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCC
64497279 CGGACATAACACCAGCACGAATGTCGGAC
196 CGGACATAACACCAGCACGAATGTCGGAC
*
64497308 ATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATGCTCTTCG
1 ATAACACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACTCTAGCACAAATGCTCTTCG
* * * *
64497373 AGACTTAGCTCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAG
66 AGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACACCAG
64497438 CACAAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCC
131 CACAAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCC
* * *
64497503 CGGATATATCACTAGCACGAATG
196 CGGACATAACACCAGCACGAATG
64497526 CTATTCGGGA
Statistics
Matches: 207, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
224 207 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (224 bp):
ATAACACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAACTCTAGCACAAATGCTCTTCG
AGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACACCAG
CACAAATGCTCTTCGAGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCC
CGGACATAACACCAGCACGAATGTCGGAC
Found at i:64497542 original size:80 final size:80
Alignment explanation
Indices: 64497303--64497543 Score: 419
Period size: 80 Copynumber: 3.0 Consensus size: 80
64497293 GCACGAATGT
64497303 CGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATGCT
1 CGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATGCT
*
64497368 CTTCGAGACTTAGCT
66 CTTCGAGACTTAGCC
64497383 CGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATGCT
1 CGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATGCT
64497448 CTTCGAGACTTAGCC
66 CTTCGAGACTTAGCC
* * * *
64497463 CGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAATGCT
1 CGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATGCT
* *
64497528 ATTCGGGACTTAGCC
66 CTTCGAGACTTAGCC
64497543 C
1 C
64497544 AGATATATAT
Statistics
Matches: 154, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 154 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (80 bp):
CGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACTCTAGCACAAATGCT
CTTCGAGACTTAGCC
Found at i:64497551 original size:40 final size:40
Alignment explanation
Indices: 64497303--64497550 Score: 343
Period size: 40 Copynumber: 6.2 Consensus size: 40
64497293 GCACGAATGT
* * *
64497303 CGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCC
1 CGGATATAACACTAGCACGAATGCTCTTCGAGACTTAGCC
* * *
64497343 CGGATATAACTCTAGCACAAATGCTCTTCGAGACTTAGCT
1 CGGATATAACACTAGCACGAATGCTCTTCGAGACTTAGCC
* * *
64497383 CGGACATAACACCAGCACGAATGCTCTTCGGGACTTAGCC
1 CGGATATAACACTAGCACGAATGCTCTTCGAGACTTAGCC
* *
64497423 CGGATATAACTCTAGCACAAATGCTCTTCGAGACTTAGCC
1 CGGATATAACACTAGCACGAATGCTCTTCGAGACTTAGCC
* *
64497463 CGGACATAACACCAGCACGAATGCTCTTCGAGACTTAGCC
1 CGGATATAACACTAGCACGAATGCTCTTCGAGACTTAGCC
* * *
64497503 CGGATATATCACTAGCACGAATGCTATTCGGGACTTAGCC
1 CGGATATAACACTAGCACGAATGCTCTTCGAGACTTAGCC
*
64497543 CAGATATA
1 CGGATATA
64497551 TATAACTCTC
Statistics
Matches: 181, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
CGGATATAACACTAGCACGAATGCTCTTCGAGACTTAGCC
Found at i:64498869 original size:37 final size:37
Alignment explanation
Indices: 64498808--64499541 Score: 1407
Period size: 37 Copynumber: 19.8 Consensus size: 37
64498798 GCTCAGATGA
* * * * *
64498808 AATCTCCACACGAAGTTATTGGGTCTTACCCGAACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64498845 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64498882 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA-AT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64498918 ATATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 A-ATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64498956 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64498993 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499030 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499067 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499104 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499141 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499178 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499215 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499252 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499289 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499326 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499363 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499400 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499437 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499474 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
64499511 AATCTCCACACGTAGTCATCGGGTCTTACCC
1 AATCTCCACACGTAGTCATCGGGTCTTACCC
64499542 AGAATATATT
Statistics
Matches: 690, Mismatches: 5, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
36 3 0.00
37 684 0.99
38 3 0.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:64499743 original size:48 final size:48
Alignment explanation
Indices: 64499685--64500508 Score: 1011
Period size: 48 Copynumber: 17.0 Consensus size: 48
64499675 ATATACACAC
*
64499685 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
64499733 ATCTCATACATATTTCACACTGGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
64499781 ATCTCATACATATTTCACACTGGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
64499829 ATCTCATACATATTTCACACTGGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
64499877 ATCTCATACATATTTCACACTGGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * * * *
64499925 ATCTCATACATATTTCACACTAGCCATATC-TC-ATA-CATATTTCCCGCT
1 ATCTCATACATATTTCACACTAGCCAT-TCGGCTTTACCACATAT-AC-AT
* * *** ** * * * * *
64499973 AGC-CATTCGGCTTT-ACCACTTATACATATC-TC-ATA-TATATTTCACATT
1 ATCTCATACATATTTCA-CAC-TAGCCAT-TCGGCTTTACCACATAT-ACA-T
* * * * *
64500021 AGC-CATTC-GATTTCACACTAGCAATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
64500067 ATCTCATACATGTTTCACACTAGCAATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
64500115 ATCTCATACATGTTTCACACTAGCAATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
64500163 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATTCAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
64500211 ATCTCATACATATTTCAATGTTTCACACTAGCAATTTGGCTTTACCACATATACAT
1 ATCTCATAC--A--T--A--TTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
64500267 ATCTCATACATGTTTCACACTAGCAATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
64500315 ATCTCATACATATTTCACACTAGCCATTCGGCTTAACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
64500363 ATCTCATACATATTTCACACTGGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
64500411 ATCTCATATATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
64500459 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
64500507 AT
1 AT
64500509 TTATCTTGTA
Statistics
Matches: 702, Mismatches: 54, Indels: 40
0.88 0.07 0.05
Matches are distributed among these distances:
45 1 0.00
46 14 0.02
47 29 0.04
48 609 0.87
49 2 0.00
50 1 0.00
52 2 0.00
54 2 0.00
56 42 0.06
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:64499952 original size:27 final size:27
Alignment explanation
Indices: 64499922--64499978 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
64499912 ACCACATATA
64499922 CATATCTCATACATATTTCACACTAGC
1 CATATCTCATACATATTTCACACTAGC
* *
64499949 CATATCTCATACATATTTCCCGCTAGC
1 CATATCTCATACATATTTCACACTAGC
64499976 CAT
1 CAT
64499979 TCGGCTTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.05, T:0.33
Consensus pattern (27 bp):
CATATCTCATACATATTTCACACTAGC
Found at i:64499963 original size:75 final size:75
Alignment explanation
Indices: 64499874--64500090 Score: 288
Period size: 75 Copynumber: 3.0 Consensus size: 75
64499864 ACCACATATA
*
64499874 CATATCTCATACATATTTCACACTGGCCATTCGGCTTTACCACATATACATATCTCATACATATT
1 CATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
64499939 TCACACTAGC
66 TCACACTAGC
* * * *
64499949 CATATCTCATACATATTTCCCGCTAGCCATTCGGCTTTACCACTTATACATATCTCATATATATT
1 CATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
*
64500014 TCACATTAGC
66 TCACACTAGC
* * * *
64500024 C--A--T--T-C-GATTTCACACTAGCAATTTGGCTTTACCACATATACATATCTCATACATGTT
1 CATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
64500081 TCACACTAGC
66 TCACACTAGC
64500091 AATTTGGCTT
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
67 53 0.42
68 1 0.01
69 1 0.01
71 1 0.01
73 1 0.01
75 70 0.55
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.35
Consensus pattern (75 bp):
CATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATT
TCACACTAGC
Found at i:64500273 original size:200 final size:192
Alignment explanation
Indices: 64499685--64500508 Score: 957
Period size: 200 Copynumber: 4.3 Consensus size: 192
64499675 ATATACACAC
* * * *
64499685 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATGTTTCACACTAGCAATTTGGCTTTACCACATATACATATCTCATACATATTTCA
* * * *
64499750 CACTGGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTGGCCATTCGGCTT
66 CACTAGCAATTCGGCTTAACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
* * * *
64499815 TACCACATATACATATCTCATACATATTTCACACTGGCCATTCGGCTTTACCACATATACAT
131 TACCACATATACATATCTCATATATATTTCACACTAGCAATTTGGCTTTACCACATATACAT
* * * *
64499877 ATCTCATACATATTTCACACTGGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATGTTTCACACTAGCAATTTGGCTTTACCACATATACATATCTCATACATATTTCA
* * * * * * * * * *** **
64499942 CACTAGCCATATC-TCAT-A-CATATTTCCCGCTAGC-CATTCGGCTTT-ACCACTTATACATAT
66 CACTAGCAAT-TCGGCTTAACCACATAT-AC-ATATCTCATACATATTTCA-CAC-TAGCCAT-T
* * * * * * **
64500002 C-TC-ATA-TATATTTCACATTAGC-CAT-TCGATTTCACACTAGCAATTTGGCTTTACCACATA
125 CGGCTTTACCACATAT-ACA-TATCTCATATATATTTCACACTAGCAATTTGGCTTTACCACATA
64500062 TACAT
188 TACAT
*
64500067 ATCTCATACATGTTTCACACTAGCAATTTGGCTTTACCACATATACATATCTCATACATGTTTCA
1 ATCTCATACATGTTTCACACTAGCAATTTGGCTTTACCACATATACATATCTCATACATATTTCA
* *
64500132 CACTAGCAATTTGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
66 CACTAGCAATTCGGCTTAACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
*
64500197 TACCACATATTCATATCTCATACATATTTCAATGTTTCACACTAGCAATTTGGCTTTACCACATA
131 TACCACATATACATATCTCAT--ATA--T--A--TTTCACACTAGCAATTTGGCTTTACCACATA
64500262 TACAT
188 TACAT
64500267 ATCTCATACATGTTTCACACTAGCAATTTGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATGTTTCACACTAGCAATTTGGCTTTACCACATATACATATCTCATACATATTTCA
* *
64500332 CACTAGCCATTCGGCTTAACCACATATACATATCTCATACATATTTCACACTGGCCATTCGGCTT
66 CACTAGCAATTCGGCTTAACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
* * * *
64500397 TACCACATATACATATCTCATATATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
131 TACCACATATACATATCTCATATATATTTCACACTAGCAATTTGGCTTTACCACATATACAT
* * * * *
64500459 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATAT
1 ATCTCATACATGTTTCACACTAGCAATTTGGCTTTACCACATATACATAT
64500509 TTATCTTGTA
Statistics
Matches: 533, Mismatches: 73, Indels: 52
0.81 0.11 0.08
Matches are distributed among these distances:
189 3 0.01
190 127 0.24
191 39 0.07
192 172 0.32
193 4 0.01
194 2 0.00
196 1 0.00
198 4 0.01
200 181 0.34
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (192 bp):
ATCTCATACATGTTTCACACTAGCAATTTGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCAATTCGGCTTAACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
TACCACATATACATATCTCATATATATTTCACACTAGCAATTTGGCTTTACCACATATACAT
Found at i:64508399 original size:50 final size:50
Alignment explanation
Indices: 64508337--64508436 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
64508327 AACAAATCAT
64508337 GCCCCATGAGAAAGAGGCAATAGAGAATGTAGCCCTAGAGGAAGGGAAAG
1 GCCCCATGAGAAAGAGGCAATAGAGAATGTAGCCCTAGAGGAAGGGAAAG
* *
64508387 GCCCCATGAGAAAGAGGTAATAGAGAATGTAGCCCTAGAGGAGGGGAAAG
1 GCCCCATGAGAAAGAGGCAATAGAGAATGTAGCCCTAGAGGAAGGGAAAG
64508437 AGGTGAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.39, C:0.15, G:0.35, T:0.11
Consensus pattern (50 bp):
GCCCCATGAGAAAGAGGCAATAGAGAATGTAGCCCTAGAGGAAGGGAAAG
Found at i:64512701 original size:44 final size:44
Alignment explanation
Indices: 64512642--64512770 Score: 179
Period size: 44 Copynumber: 2.9 Consensus size: 44
64512632 GATCTAAGAT
**
64512642 GATTTGGTGTCTCTGTATTGTCAGA-AGGCAGATTGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGA-GCAGATTGAAGATAGCA
* * * *
64512686 GATTTGTCATTTCTGTATTGTCAGAGAGTAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCA
*
64512730 GATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGATA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAGATA
64512771 TAGCAGATCT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 72 0.99
45 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCA
Found at i:64512948 original size:87 final size:87
Alignment explanation
Indices: 64512857--64513266 Score: 407
Period size: 87 Copynumber: 4.7 Consensus size: 87
64512847 GAGAGCAGAC
* * *
64512857 ACATAACAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * *
64512922 GTTTACAAGGAGTAAATCAAAG
66 GTCTACAAGAAGCAAATCAAAG
* * * * *** *
64512944 ACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGAT-A-ACAG-AT-CTA
1 ACATAGCAGATCTGACCTTCAGATGTTTATAC-T-GAAGCAGATCCAAGATGATTTGGCATCCTT
* * * * * * * *
64513005 GCGTCTCCATATTCGACGGAGAGCAGAC
64 GTGTCTACA-A---GAAGCAAATCAAAG
*
64513033 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
*
64513098 GTTTACAAGAAGCAAATCAAAG
66 GTCTACAAGAAGCAAATCAAAG
* *
64513120 ACATAGCAGGTCTGACCTTCAGATGTTTATACTGAAGCAGATCTAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
* *
64513185 GTCGACAAGAAGCAAATCGAAG
66 GTCTACAAGAAGCAAATCAAAG
* * * ** * *
64513207 ACATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATC
1 ACATAGCAGATCTGACCTTCA-GATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATC
64513267 TCTATATTGT
Statistics
Matches: 261, Mismatches: 51, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
85 8 0.03
86 3 0.01
87 183 0.70
88 5 0.02
89 51 0.20
90 3 0.01
91 8 0.03
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (87 bp):
ACATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
GTCTACAAGAAGCAAATCAAAG
Found at i:64513024 original size:176 final size:176
Alignment explanation
Indices: 64512756--64513168 Score: 659
Period size: 176 Copynumber: 2.4 Consensus size: 176
64512746 ATTGTCAGAG
** *
64512756 AGCAAATTGAAGATATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAA
1 AGCAAATCAAAGACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAA
* *
64512821 CAGATCGGGTATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTA
66 CAGATCGAGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTA
* *
64512886 TACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
131 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGA
*
64512932 AGTAAATCAAAGACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAA
1 AGCAAATCAAAGACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAA
* * *
64512997 CAGATCTAGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTA
66 CAGATCGAGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTA
64513062 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGA
131 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGA
* * * * * *
64513108 AGCAAATCAAAGACATAGCAGGTCTGACCTTCAGATGTTTATAC-T-GAAGCAGATCTAAGAT
1 AGCAAATCAAAGACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGAT
64513169 GATTTGGCAT
Statistics
Matches: 219, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
174 14 0.06
175 1 0.00
176 204 0.93
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (176 bp):
AGCAAATCAAAGACATAGCAGATCTGACTTTCAGAGGTTTTTACATCAAAGCAGATCCAAGATAA
CAGATCGAGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTCAGATGTTTA
TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGA
Found at i:64516081 original size:24 final size:24
Alignment explanation
Indices: 64516049--64516156 Score: 74
Period size: 24 Copynumber: 4.5 Consensus size: 24
64516039 ATTTCAGCAA
* **
64516049 TATGTGTGCGAGGTTATGCGGCAC
1 TATGTGTGCGAGATTACACGGCAC
* * * *
64516073 TATGTGTGCAAAAACTACATGGCAC
1 TATGTGTGC-GAGATTACACGGCAC
* **
64516098 TATGTGTGCGAGATTATATAGCAC
1 TATGTGTGCGAGATTACACGGCAC
* * *
64516122 TATGTGTGCGAGGA-AACGCGACAC
1 TATGTGTGCGA-GATTACACGGCAC
64516146 TATGTGTGCGA
1 TATGTGTGCGA
64516157 ATGAGTAAGA
Statistics
Matches: 64, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
24 45 0.70
25 19 0.30
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (24 bp):
TATGTGTGCGAGATTACACGGCAC
Found at i:64520683 original size:38 final size:38
Alignment explanation
Indices: 64520640--64520753 Score: 113
Period size: 38 Copynumber: 3.2 Consensus size: 38
64520630 TACCAGCCTT
64520640 ACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCA
1 ACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCA
* * *
64520678 ACACTCC---------ACAGCTCCACCCGTA-CCAGCCCT
1 ACACTCCATGTGGGGAATAGCTCAACCC--ACCCAGCCCA
64520708 ACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCA
1 ACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCA
64520746 ACACTCCA
1 ACACTCCA
64520754 CAGTTGCAGC
Statistics
Matches: 58, Mismatches: 6, Indels: 24
0.66 0.07 0.27
Matches are distributed among these distances:
29 10 0.17
30 14 0.24
31 1 0.02
37 1 0.02
38 22 0.38
39 10 0.17
ACGTcount: A:0.28, C:0.44, G:0.15, T:0.13
Consensus pattern (38 bp):
ACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCA
Found at i:64520683 original size:60 final size:61
Alignment explanation
Indices: 64520600--64520754 Score: 206
Period size: 68 Copynumber: 2.5 Consensus size: 61
64520590 GGGGAGACTA
* * *
64520600 CTCAACCCA-CCAACCACTACACTCCACCCGTACCAGCCTTACACTCCATGTGGGGAATAG
1 CTCAACCCACCCAGCCACAACACTCCACCCGTACCAGCCCTACACTCCATGTGGGGAATAG
64520660 CTCAACCCACCCAGCCCAACACTCCACAGCTCCACCCGTACCAGCCCTACACTCCATGTGGGGAA
1 CTCAACCCACCCAG-CC-ACA----ACA-CTCCACCCGTACCAGCCCTACACTCCATGTGGGGAA
64520725 TAG
59 TAG
64520728 CTCAACCCACCCAGCC-CAACACTCCAC
1 CTCAACCCACCCAGCCACAACACTCCAC
64520755 AGTTGCAGCC
Statistics
Matches: 84, Mismatches: 3, Indels: 16
0.82 0.03 0.16
Matches are distributed among these distances:
60 15 0.18
61 6 0.07
62 2 0.02
63 2 0.02
65 2 0.02
67 5 0.06
68 52 0.62
ACGTcount: A:0.28, C:0.46, G:0.12, T:0.14
Consensus pattern (61 bp):
CTCAACCCACCCAGCCACAACACTCCACCCGTACCAGCCCTACACTCCATGTGGGGAATAG
Found at i:64520730 original size:68 final size:68
Alignment explanation
Indices: 64520621--64520756 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
64520611 AACCACTACA
*
64520621 CTCCACCCGTACCAGCCTTACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCA
1 CTCCACCCGTACCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCA
64520686 CAG
66 CAG
64520689 CTCCACCCGTACCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCA
1 CTCCACCCGTACCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCA
64520754 CAG
66 CAG
64520757 TTGCAGCCTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.26, C:0.45, G:0.15, T:0.14
Consensus pattern (68 bp):
CTCCACCCGTACCAGCCCTACACTCCATGTGGGGAATAGCTCAACCCACCCAGCCCAACACTCCA
CAG
Found at i:64522463 original size:26 final size:26
Alignment explanation
Indices: 64522427--64522532 Score: 153
Period size: 26 Copynumber: 4.1 Consensus size: 26
64522417 GAAATGCCCG
*
64522427 TCATGGAACATTTACCTAAACCATTA
1 TCATGGAACATTTACCTAACCCATTA
64522453 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
64522479 TCATGGAATATTTACCTAATCCA-TA
1 TCATGGAACATTTACCTAACCCATTA
*
64522504 TCAAT-TAACATTTACCTAACCCATTA
1 TC-ATGGAACATTTACCTAACCCATTA
64522530 TCA
1 TCA
64522533 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
25 20 0.28
26 52 0.72
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:64522522 original size:51 final size:52
Alignment explanation
Indices: 64522427--64522532 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 52
64522417 GAAATGCCCG
64522427 TCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTA
* * *
64522479 TCATGGAATATTTACCTAATCCA-TATCAAT-TAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAAACCATTATC-ATGGAACATTTACCTAACCCATTA
64522530 TCA
1 TCA
64522533 ATTTGTACCA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
51 27 0.54
52 23 0.46
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (52 bp):
TCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTA
Found at i:64532553 original size:26 final size:26
Alignment explanation
Indices: 64532523--64532967 Score: 737
Period size: 26 Copynumber: 17.1 Consensus size: 26
64532513 GAAATGCCCG
* *
64532523 TCATGGAACATTTACCTAAACCGTTA
1 TCATGGAACATTTACCTAACCCATTA
64532549 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
64532575 TCATGGAACGTTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
64532601 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
64532627 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
64532653 TCATGGAACGTTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
64532679 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
64532705 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
64532731 TCATGGAACGTTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
64532757 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
64532783 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
64532809 TCATGGAACGTTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
64532835 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
64532861 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
*
64532887 TCATGGAACGTTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
* *
64532913 TCATGGAATATTTACCTAATCCATTA
1 TCATGGAACATTTACCTAACCCATTA
64532939 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTA
64532965 TCA
1 TCA
64532968 ATTTGTACCA
Statistics
Matches: 387, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 387 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTA
Found at i:64532993 original size:78 final size:78
Alignment explanation
Indices: 64532523--64532967 Score: 863
Period size: 78 Copynumber: 5.7 Consensus size: 78
64532513 GAAATGCCCG
* * *
64532523 TCATGGAACATTTACCTAAACCGTTATCATGGAACATTTACCTAACCCATTATCATGGAACGTTT
1 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCATGGAACGTTT
64532588 ACCTAACCCATTA
66 ACCTAACCCATTA
64532601 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCATGGAACGTTT
1 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCATGGAACGTTT
64532666 ACCTAACCCATTA
66 ACCTAACCCATTA
64532679 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCATGGAACGTTT
1 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCATGGAACGTTT
64532744 ACCTAACCCATTA
66 ACCTAACCCATTA
64532757 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCATGGAACGTTT
1 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCATGGAACGTTT
64532822 ACCTAACCCATTA
66 ACCTAACCCATTA
64532835 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCATGGAACGTTT
1 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCATGGAACGTTT
64532900 ACCTAACCCATTA
66 ACCTAACCCATTA
64532913 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
1 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCA
64532968 ATTTGTACCA
Statistics
Matches: 364, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 364 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (78 bp):
TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCATGGAACGTTT
ACCTAACCCATTA
Found at i:64539604 original size:61 final size:61
Alignment explanation
Indices: 64539490--64539611 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
64539480 CCCAAACCAC
* * * ** *
64539490 CATGATCATTCAACGGCGAGGTAAGTCGAGCTTAGACTATAAATAAATGCTTCTCGGGAGG
1 CATGATCATTCAACAGAGAGGTAAGTCAAGCTTAGACTATAAATAAACACTTCTCGAGAGG
* *
64539551 CATGATTATTCAACAGAGAGGTAAGTCAAGCTTAGACTATAAATAGACACTTCTCGAGAGG
1 CATGATCATTCAACAGAGAGGTAAGTCAAGCTTAGACTATAAATAAACACTTCTCGAGAGG
64539612 AAACCCGAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (61 bp):
CATGATCATTCAACAGAGAGGTAAGTCAAGCTTAGACTATAAATAAACACTTCTCGAGAGG
Found at i:64542766 original size:27 final size:27
Alignment explanation
Indices: 64542736--64542913 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
64542726 ATATTGAGTC
* *
64542736 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
64542763 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
64542790 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
64542818 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
64542845 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
64542872 CGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCTACATAATCAACT
64542899 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64542914 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:64542875 original size:82 final size:81
Alignment explanation
Indices: 64542757--64542912 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
64542747 TGCTATATAA
* *
64542757 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
64542822 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
64542839 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTTAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
64542903 CACTTAGTGC
65 CACTTAGTGC
64542913 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:64542902 original size:54 final size:54
Alignment explanation
Indices: 64542736--64542912 Score: 196
Period size: 54 Copynumber: 3.3 Consensus size: 54
64542726 ATATTGAGTC
* * * *
64542736 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
64542790 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
64542845 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
64542899 CGCACACTTAGTGC
1 CGCACACTTAGTGC
64542913 TGTACAATTT
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.01
54 56 0.54
55 45 0.44
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:64549796 original size:42 final size:43
Alignment explanation
Indices: 64549740--64549835 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 43
64549730 ACACACAGCC
64549740 AGAACACACGCCCAAGGGGCAAGCCGTGTGTCACATACAGCAT
1 AGAACACACGCCCAAGGGGCAAGCCGTGTGTCACATACAGCAT
* *
64549783 AGAA-ACATGCCCAAGGGGCAAGCCGTGTGTCACATACGGCAT
1 AGAACACACGCCCAAGGGGCAAGCCGTGTGTCACATACAGCAT
*
64549825 AG-ACAGACGCC
1 AGAACACACGCC
64549836 TGTTTGTCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
41 1 0.02
42 43 0.90
43 4 0.08
ACGTcount: A:0.32, C:0.29, G:0.27, T:0.11
Consensus pattern (43 bp):
AGAACACACGCCCAAGGGGCAAGCCGTGTGTCACATACAGCAT
Found at i:64552795 original size:14 final size:14
Alignment explanation
Indices: 64552759--64552797 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
64552749 ATATAAAGTA
64552759 AAACAAAAGAAAAAG
1 AAAC-AAAGAAAAAG
* *
64552774 AGAGAAAGAAAAAG
1 AAACAAAGAAAAAG
64552788 AAACAAAGAA
1 AAACAAAGAA
64552798 GGAGACGAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (14 bp):
AAACAAAGAAAAAG
Found at i:64553102 original size:21 final size:21
Alignment explanation
Indices: 64553048--64553103 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
64553038 TATGAAATGG
* *
64553048 ATTGAATATTGATTATATTGA
1 ATTGATTATTGAATATATTGA
64553069 ATTGATT-TATGAATATATGTGA
1 ATTGATTAT-TGAATATAT-TGA
64553091 ATTG-TTATTGAAT
1 ATTGATTATTGAAT
64553104 TGAAATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 1 0.03
21 21 0.70
22 8 0.27
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (21 bp):
ATTGATTATTGAATATATTGA
Found at i:64553496 original size:5 final size:5
Alignment explanation
Indices: 64553469--64553525 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
64553459 AGTGGAAAAG
* * * * *
64553469 TGAATT TGATT TGATT TGGAT TGAAT TGAAT GGAAT TGAAT TGAAT GGAAT
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT
*
64553520 GGAAT T
1 TGAAT T
64553526 ATGATTAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
5 40 0.93
6 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.40
Consensus pattern (5 bp):
TGAAT
Found at i:64553497 original size:15 final size:15
Alignment explanation
Indices: 64553488--64553525 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
64553478 TTTGATTTGG
64553488 ATTGAATTGAATGGA
1 ATTGAATTGAATGGA
64553503 ATTGAATTGAATGGA
1 ATTGAATTGAATGGA
*
64553518 ATGGAATT
1 ATTGAATT
64553526 ATGATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.34
Consensus pattern (15 bp):
ATTGAATTGAATGGA
Found at i:64554121 original size:45 final size:45
Alignment explanation
Indices: 64553934--64554128 Score: 219
Period size: 45 Copynumber: 4.3 Consensus size: 45
64553924 CTGTTACCGC
* * *
64553934 TACTGCTACTGTTATCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
** * * * *
64553979 TACTACTACTGTTATCGATTCGGCACTGTGTCTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * *
64554024 TACTGTTACCATTACTGATTCGGCACTTTGTGTGTTGAACATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
** * *
64554069 TACTGTTACCGTTACCGATTCAACACTTTGTGTGTTGAATACTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
64554114 TATTGTTACTGTTAC
1 TACTGTTACCGTTAC
64554129 TATTCCGGAT
Statistics
Matches: 129, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 129 1.00
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:64554329 original size:18 final size:18
Alignment explanation
Indices: 64554308--64554498 Score: 135
Period size: 18 Copynumber: 10.6 Consensus size: 18
64554298 TAACTGATTA
64554308 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
64554326 TTACCGAATAACTGACTG
1 TTACTGAATAATTGACTG
*
64554344 TTACT-AGAT-ATTAGACTA
1 TTACTGA-ATAATT-GACTG
* * *
64554362 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
64554380 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
64554398 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
64554416 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* * *
64554434 CTACTAAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
64554453 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
64554470 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
64554488 TTAATGAATAA
1 TTACTGAATAA
64554499 CCGATCAATT
Statistics
Matches: 138, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
17 19 0.14
18 103 0.75
19 16 0.12
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:64554348 original size:36 final size:36
Alignment explanation
Indices: 64554296--64554578 Score: 182
Period size: 36 Copynumber: 7.6 Consensus size: 36
64554286 AAAGGTATAA
* * *
64554296 AATAACTGATTATTACTGAATAATTGACTGTTACCG
1 AATAACTGACTGTTACTGAATAATTGACTGTTACTG
*
64554332 AATAACTGACTGTTACT-AGAT-ATTAGACTATTACTG
1 AATAACTGACTGTTACTGA-ATAATT-GACTGTTACTG
* * *
64554368 AATAACTGAATATTACTGAATAATTGA-TCATTACTG
1 AATAACTGACTGTTACTGAATAATTGACT-GTTACTG
* * * *
64554404 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTA
1 AATAACTGACTGTTACTGAAT-AATTGACTGTTACTG
* * *
64554440 AATAACTTAATAGTTACTGAAT-ATCTGA-TTTTACTG
1 AATAACTGACT-GTTACTGAATAAT-TGACTGTTACTG
* * **
64554476 AATAATTGACTGTTAATGAATAACCGATCAATTGATCGATACTG
1 AATAACTGACTGTTACTGAATAATTGA-C---TG-T---TACTG
** * * * *
64554520 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGACTGTTACTGAATAATTGACTGTTACTG
64554556 AATAACTGACTGTTACTGAATAA
1 AATAACTGACTGTTACTGAATAA
64554579 ATAATTATTC
Statistics
Matches: 189, Mismatches: 38, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
35 17 0.09
36 123 0.65
37 19 0.10
39 1 0.01
40 3 0.02
41 1 0.01
44 25 0.13
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (36 bp):
AATAACTGACTGTTACTGAATAATTGACTGTTACTG
Found at i:64554558 original size:18 final size:18
Alignment explanation
Indices: 64554537--64554578 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
64554527 GGTTATTATT
* *
64554537 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
*
64554555 GAATAACTGACTGTTACT
1 GAATAACTGACTGTTACC
64554573 GAATAA
1 GAATAA
64554579 ATAATTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:64555908 original size:15 final size:16
Alignment explanation
Indices: 64555876--64555908 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
64555866 TCTTTGATCC
64555876 TTCTTTTCTTTCTCAT
1 TTCTTTTCTTTCTCAT
*
64555892 TTCTTTT-TTTCTTAT
1 TTCTTTTCTTTCTCAT
64555907 TT
1 TT
64555909 ATAAGGTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (16 bp):
TTCTTTTCTTTCTCAT
Found at i:64557770 original size:94 final size:94
Alignment explanation
Indices: 64557609--64557798 Score: 371
Period size: 94 Copynumber: 2.0 Consensus size: 94
64557599 CTTTCACATG
*
64557609 AAATAAACATAGGATATAACATCTAATTATTATTGTGACTCGGTTTAGCGGTCCCGAAACCACTT
1 AAATAAACATAGGATATAACATCTAATTATTATTGTGACTCGGTTTAGCGGTCCCAAAACCACTT
64557674 CCCGACTAGGGTCAATTTTGGGCTGTCAC
66 CCCGACTAGGGTCAATTTTGGGCTGTCAC
64557703 AAATAAACATAGGATATAACATCTAATTATTATTGTGACTCGGTTTAGCGGTCCCAAAACCACTT
1 AAATAAACATAGGATATAACATCTAATTATTATTGTGACTCGGTTTAGCGGTCCCAAAACCACTT
64557768 CCCGACTAGGGTCAATTTTGGGCTGTCAC
66 CCCGACTAGGGTCAATTTTGGGCTGTCAC
64557797 AA
1 AA
64557799 CTCTCCCCCA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (94 bp):
AAATAAACATAGGATATAACATCTAATTATTATTGTGACTCGGTTTAGCGGTCCCAAAACCACTT
CCCGACTAGGGTCAATTTTGGGCTGTCAC
Found at i:64563996 original size:39 final size:39
Alignment explanation
Indices: 64563953--64564092 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 39
64563943 CTCGTTCAAG
* *
64563953 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAA
1 TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAA
* *
64563992 TGCCTTCGGGACTTAACCCGGAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGG--TTATAGTAACTCACAC-AA
* * * *
64564032 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCA-CACAA
*
64564072 AGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
64564093 ACAGCATTCA
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
38 2 0.02
39 31 0.38
40 39 0.48
41 9 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAA
Found at i:64566147 original size:37 final size:37
Alignment explanation
Indices: 64566092--64566162 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
64566082 ACCTTTAGCT
* * * *
64566092 CGGACGAAATCTCTACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCCCCACACGAAGTCATCGGGTCTTACC
*
64566129 CGGACAAAATCCCCACACGTAGTCATCGGGTCTT
1 CGGACAAAATCCCCACACGAAGTCATCGGGTCTT
64566163 TAGAGCTCGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (37 bp):
CGGACAAAATCCCCACACGAAGTCATCGGGTCTTACC
Found at i:64566384 original size:46 final size:47
Alignment explanation
Indices: 64566281--64566402 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
64566271 CCCTTCGGGA
* * * * *
64566281 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
* * * *
64566328 CCTGTCACATATATACACTTTGACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
64566374 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
64566403 TATTCAAATA
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
46 19 0.31
47 24 0.39
48 18 0.30
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
Found at i:64571060 original size:46 final size:46
Alignment explanation
Indices: 64571007--64571135 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 46
64570997 GTGCGAATAA
* * * *
64571007 TACCTTGATTTAGCTACGGCCCATGGTATAGGTATTTAGAGA-GAGT
1 TACCTTGATTT-GCTACGGGCCATGGTATAGGTACTCAGAGATAAGT
* * *
64571053 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTT-GCTACGGGCCATGGTATAGGTACTCAGAGATAAGT
*
64571100 TACCTTGATTTGACTACGGGTCATGGTATAGGTACT
1 TACCTTGATTTG-CTACGGGCCATGGTATAGGTACT
64571136 TATCAATTGT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
46 36 0.51
47 35 0.49
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (46 bp):
TACCTTGATTTGCTACGGGCCATGGTATAGGTACTCAGAGATAAGT
Found at i:64571110 original size:47 final size:46
Alignment explanation
Indices: 64571007--64571135 Score: 159
Period size: 47 Copynumber: 2.8 Consensus size: 46
64570997 GTGCGAATAA
* * * * *
64571007 TACCTTGATTTAGCTACGGCCCATGGTATAGGTATTTAGAGAGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAAAGT
* * *
64571053 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGA-AAGT
* *
64571100 TACCTTGATTTGACTACGGGTCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
64571136 TATCAATTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 35 0.49
47 36 0.51
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (46 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAAAGT
Found at i:64577880 original size:31 final size:31
Alignment explanation
Indices: 64577845--64577905 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
64577835 TACGTATGTG
64577845 ATACGTGCCAAAGAAGACACAGAGGCTCCAA
1 ATACGTGCCAAAGAAGACACAGAGGCTCCAA
** *
64577876 ATACGTGCCATGGAAGACGCAGAGGCTCCA
1 ATACGTGCCAAAGAAGACACAGAGGCTCCA
64577906 GATGTTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.26, G:0.26, T:0.11
Consensus pattern (31 bp):
ATACGTGCCAAAGAAGACACAGAGGCTCCAA
Found at i:64580247 original size:47 final size:47
Alignment explanation
Indices: 64580193--64580383 Score: 240
Period size: 47 Copynumber: 4.1 Consensus size: 47
64580183 TTAGGATTTT
* ** * *
64580193 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAACGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
64580240 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAACGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
64580287 ATGTGATGAACGTGAACATGCATATATGTGATAAGGAAGAATGGCCA
1 ATGTGATGAACGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
64580334 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAACGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
64580381 ATG
1 ATG
64580384 CGAAACGTGT
Statistics
Matches: 127, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
47 124 0.98
48 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAACGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:64580410 original size:46 final size:46
Alignment explanation
Indices: 64580357--64580447 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
64580347 GGAAGTGTAT
* *
64580357 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
64580403 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
64580448 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:64580908 original size:72 final size:72
Alignment explanation
Indices: 64580791--64581655 Score: 1730
Period size: 72 Copynumber: 12.0 Consensus size: 72
64580781 CAAGTTTATA
64580791 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64580856 CTATTCC
66 CTATTCC
64580863 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64580928 CTATTCC
66 CTATTCC
64580935 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64581000 CTATTCC
66 CTATTCC
64581007 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64581072 CTATTCC
66 CTATTCC
64581079 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64581144 CTATTCC
66 CTATTCC
64581151 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64581216 CTATTCC
66 CTATTCC
64581223 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64581288 CTATTCC
66 CTATTCC
64581295 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64581360 CTATTCC
66 CTATTCC
64581367 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64581432 CTATTCC
66 CTATTCC
64581439 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64581504 CTATTCC
66 CTATTCC
64581511 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64581576 CTATTCC
66 CTATTCC
64581583 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
1 TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
64581648 CTATTCC
66 CTATTCC
64581655 T
1 T
64581656 ATGATTATGT
Statistics
Matches: 793, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 793 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (72 bp):
TGTGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGA
CTATTCC
Found at i:64585949 original size:36 final size:36
Alignment explanation
Indices: 64585907--64585978 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
64585897 TCATCAAAGA
*
64585907 TCATTTGGACTTCATCTAGGAAGTCTTAAGATGTAT
1 TCATTTGCACTTCATCTAGGAAGTCTTAAGATGTAT
64585943 TCATTTGCACTTCATCTAGGAAGTCTTAAGATGTAT
1 TCATTTGCACTTCATCTAGGAAGTCTTAAGATGTAT
64585979 CGAGATCTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (36 bp):
TCATTTGCACTTCATCTAGGAAGTCTTAAGATGTAT
Found at i:64588579 original size:14 final size:14
Alignment explanation
Indices: 64588556--64588595 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
64588546 CGGGATAATC
64588556 TGCATGTATGAATT
1 TGCATGTATGAATT
*
64588570 TGCATCTATGAATT
1 TGCATGTATGAATT
*
64588584 CGCATGTATGAA
1 TGCATGTATGAA
64588596 ATCCACATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (14 bp):
TGCATGTATGAATT
Found at i:64588612 original size:14 final size:14
Alignment explanation
Indices: 64588576--64588668 Score: 87
Period size: 14 Copynumber: 6.6 Consensus size: 14
64588566 AATTTGCATC
* *
64588576 TATGAATTCGCATG
1 TATGAATCCACATG
*
64588590 TATGAAATCCACATA
1 TATG-AATCCACATG
** *
64588605 TATGAATCCGTATC
1 TATGAATCCACATG
*
64588619 TATGAATCCACACG
1 TATGAATCCACATG
*
64588633 TATGAATACACATG
1 TATGAATCCACATG
* *
64588647 TATGAATTCACATT
1 TATGAATCCACATG
64588661 TATGAATC
1 TATGAATC
64588669 TACAAAAGTT
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
14 52 0.83
15 11 0.17
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (14 bp):
TATGAATCCACATG
Found at i:64588650 original size:28 final size:28
Alignment explanation
Indices: 64588557--64588667 Score: 96
Period size: 28 Copynumber: 3.9 Consensus size: 28
64588547 GGGATAATCT
*** * *
64588557 GCATGTATGAATTTGCATCTATGAATTC
1 GCATGTATGAATCCACATATATGAATAC
*
64588585 GCATGTATGAAATCCACATATATGAATCC
1 GCATGTATG-AATCCACATATATGAATAC
* * **
64588614 GTATCTATGAATCCACACGTATGAATAC
1 GCATGTATGAATCCACATATATGAATAC
* * *
64588642 ACATGTATGAATTCACATTTATGAAT
1 GCATGTATGAATCCACATATATGAAT
64588668 CTACAAAAGT
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 45 0.68
29 21 0.32
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (28 bp):
GCATGTATGAATCCACATATATGAATAC
Found at i:64590017 original size:35 final size:35
Alignment explanation
Indices: 64589978--64590047 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
64589968 CTATTGGCCA
* *
64589978 TCTAAAGAGTGCACCTACTATAGGATCCAATCACT
1 TCTAAAAAGTGCACCCACTATAGGATCCAATCACT
64590013 TCTAAAAAGTGCACCCACTATAGGATCCAATCACT
1 TCTAAAAAGTGCACCCACTATAGGATCCAATCACT
64590048 AAGTTATGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (35 bp):
TCTAAAAAGTGCACCCACTATAGGATCCAATCACT
Found at i:64595221 original size:85 final size:86
Alignment explanation
Indices: 64595073--64595235 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 86
64595063 CAAACAAGTG
* * * *
64595073 GTGGCTCGTCCACAAAACCTAGTGACAATTTGTTTAATCTGTAAATATGTTGTGCACTCACAACA
1 GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAACATGTTATGCACTCACAACA
**
64595138 AGTGGTAGTAACTATAAATAT
66 AGTGACAGTAACTATAAATAT
* * * *
64595159 GTGGCTTGTCCAC-AAACCCAGTTG-CAATTTGTTTAATTTGCAACCATGTTATGCACTTACAAC
1 GTGGCTCGTCCACAAAACCCAG-TGACAATTTGTTTAATCTGCAAACATGTTATGCACTCACAAC
64595222 AAGTGACAGTAACT
65 AAGTGACAGTAACT
64595236 GCAAATGTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
85 52 0.79
86 14 0.21
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (86 bp):
GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAACATGTTATGCACTCACAACA
AGTGACAGTAACTATAAATAT
Found at i:64599540 original size:24 final size:28
Alignment explanation
Indices: 64599508--64599567 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 28
64599498 AACTTATTTC
64599508 ATTAAATAA-AAA-A-ATTTAAAAC-AT
1 ATTAAATAACAAATACATTTAAAACAAT
64599532 ATTAAATAATCAAATACATTTAAAACAAAT
1 ATTAAATAA-CAAATACATTTAAAAC-AAT
64599562 ATTAAA
1 ATTAAA
64599568 ACAAGAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 9 0.30
26 3 0.10
27 1 0.03
28 9 0.30
30 8 0.27
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (28 bp):
ATTAAATAACAAATACATTTAAAACAAT
Found at i:64599583 original size:28 final size:28
Alignment explanation
Indices: 64599552--64599625 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
64599542 CAAATACATT
64599552 TAAAACAA-ATATTAAAACAAGAAACAAA
1 TAAAA-AATATATTAAAACAAGAAACAAA
* *
64599580 TAAAAAATATATTAAAACAAGACACAAGT
1 TAAAAAATATATTAAAACAAGAAACAA-A
* *
64599609 TGAAAAATATAATAAAA
1 TAAAAAATATATTAAAA
64599626 ATTGATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.05
28 23 0.57
29 15 0.38
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.19
Consensus pattern (28 bp):
TAAAAAATATATTAAAACAAGAAACAAA
Found at i:64599624 original size:29 final size:28
Alignment explanation
Indices: 64599564--64599625 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
64599554 AAACAAATAT
*
64599564 TAAAACAAGAAACAAATAAAAAATATAT
1 TAAAACAAGAAACAAATAAAAAATATAA
* * *
64599592 TAAAACAAGACACAAGTTGAAAAATATAA
1 TAAAACAAGAAACAA-ATAAAAAATATAA
64599621 TAAAA
1 TAAAA
64599626 ATTGATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.68, C:0.08, G:0.06, T:0.18
Consensus pattern (28 bp):
TAAAACAAGAAACAAATAAAAAATATAA
Found at i:64601014 original size:16 final size:16
Alignment explanation
Indices: 64600988--64601033 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
64600978 TTGAACATAG
64600988 CTATTCTTAAACAACAA
1 CTATTC-TAAACAACAA
* * *
64601005 TTGTTCTAAATAACAA
1 CTATTCTAAACAACAA
64601021 CTATTCTAAACAA
1 CTATTCTAAACAA
64601034 AGTTGTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.33
Consensus pattern (16 bp):
CTATTCTAAACAACAA
Found at i:64608022 original size:24 final size:24
Alignment explanation
Indices: 64607994--64608045 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
64607984 TTAGTAGGTC
* *
64607994 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
64608018 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
64608042 AAAT
1 AAAT
64608046 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:64608548 original size:35 final size:34
Alignment explanation
Indices: 64608489--64608561 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
64608479 CAACATAGAT
* * *
64608489 TTTCTTTAAAAATTCAGAACAACTTGTTATAGCA
1 TTTCCTTAAAAATGCAAAACAACTTGTTATAGCA
*
64608523 TTTCCTTAAAAATGCGAAAACAACTTGTTATAGTA
1 TTTCCTTAAAAATGC-AAAACAACTTGTTATAGCA
64608558 TTTC
1 TTTC
64608562 TAGAACAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 13 0.38
35 21 0.62
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (34 bp):
TTTCCTTAAAAATGCAAAACAACTTGTTATAGCA
Found at i:64609759 original size:16 final size:15
Alignment explanation
Indices: 64609740--64609811 Score: 67
Period size: 14 Copynumber: 4.7 Consensus size: 15
64609730 TAATATAATT
*
64609740 TATAAATAAAATATAA
1 TATAAAT-ATATATAA
*
64609756 TATAAATCGTATAGTAA
1 TATAAAT-ATATA-TAA
* *
64609773 TAAAAATACATATAA
1 TATAAATATATATAA
64609788 TA-AAATATATATAA
1 TATAAATATATATAA
64609802 TAT-AATATAT
1 TATAAATATAT
64609812 GAGGAAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
14 20 0.43
15 5 0.11
16 13 0.28
17 9 0.19
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (15 bp):
TATAAATATATATAA
Found at i:64609809 original size:14 final size:14
Alignment explanation
Indices: 64609729--64609811 Score: 59
Period size: 14 Copynumber: 6.0 Consensus size: 14
64609719 ATGGTGAAAC
64609729 ATAATATAAT-T-T
1 ATAATATAATATAT
64609741 ATAA-ATAA-A-AT
1 ATAATATAATATAT
*
64609752 ATAATATAAATCGTAT
1 ATAATAT-AAT-ATAT
* *
64609768 AGTAATAAAAATACAT
1 A-TAAT-ATAATATAT
*
64609784 ATAATAAAATATAT
1 ATAATATAATATAT
64609798 ATAATATAATATAT
1 ATAATATAATATAT
64609812 GAGGAAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
11 9 0.16
12 6 0.11
13 2 0.04
14 21 0.38
15 4 0.07
16 6 0.11
17 7 0.12
18 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (14 bp):
ATAATATAATATAT
Found at i:64609962 original size:17 final size:16
Alignment explanation
Indices: 64609939--64609977 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
64609929 TTTACAACAT
64609939 ATAAAAAATAATATATA
1 ATAAAAAAT-ATATATA
*
64609956 CT-AAAAATATATATA
1 ATAAAAAATATATATA
64609971 ATAAAAA
1 ATAAAAA
64609978 TATGAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 8 0.42
16 10 0.53
17 1 0.05
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAATATATATA
Found at i:64609988 original size:15 final size:15
Alignment explanation
Indices: 64609942--64609980 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
64609932 ACAACATATA
*
64609942 AAAAATAATATATACT
1 AAAAAT-ATATATAAT
64609958 AAAAATATATATAAT
1 AAAAATATATATAAT
64609973 AAAAATAT
1 AAAAATAT
64609981 GAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAATATATATAAT
Found at i:64609989 original size:37 final size:37
Alignment explanation
Indices: 64609945--64610015 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
64609935 ACATATAAAA
64609945 AATAATATATACTA-AA-AATATATATAATAAAAATATG
1 AATAATATATA-TATAATAA-ATATATAATAAAAATATG
*
64609982 AATAATATATATATAATAAATATATGATAAAAAT
1 AATAATATATATATAATAAATATATAATAAAAAT
64610016 TTAAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 2 0.06
37 27 0.87
38 2 0.06
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (37 bp):
AATAATATATATATAATAAATATATAATAAAAATATG
Found at i:64609995 original size:15 final size:13
Alignment explanation
Indices: 64609948--64610015 Score: 72
Period size: 13 Copynumber: 5.2 Consensus size: 13
64609938 TATAAAAAAT
64609948 AATATATACTAA-A
1 AATATATA-TAATA
64609961 AATATATATAATA
1 AATATATATAATA
64609974 AA-A-ATATGAATA
1 AATATATAT-AATA
64609986 ATATATATATAATA
1 A-ATATATATAATA
64610000 AATATATGATAA-A
1 AATATAT-ATAATA
64610013 AAT
1 AAT
64610016 TTAAAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.08
12 9 0.18
13 22 0.45
14 10 0.20
15 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (13 bp):
AATATATATAATA
Found at i:64611492 original size:21 final size:21
Alignment explanation
Indices: 64611468--64611508 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64611458 ATAGCTACCA
64611468 TATCTCTGTCAAAAAGTATAT
1 TATCTCTGTCAAAAAGTATAT
* *
64611489 TATCTCTTTCTAAAAGTATA
1 TATCTCTGTCAAAAAGTATA
64611509 AAGAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (21 bp):
TATCTCTGTCAAAAAGTATAT
Found at i:64613487 original size:18 final size:18
Alignment explanation
Indices: 64613445--64613488 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
64613435 CACTGTTTGG
* *
64613445 CAAATTAATACAGTTCGC
1 CAAATTAATACAGATCAC
*
64613463 CATATTAATACAGATCAC
1 CAAATTAATACAGATCAC
64613481 CAAATTAA
1 CAAATTAA
64613489 CATACTTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (18 bp):
CAAATTAATACAGATCAC
Found at i:64613726 original size:15 final size:16
Alignment explanation
Indices: 64613694--64613726 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
64613684 CATTATCAAC
64613694 AAAATTCATATGTTATA
1 AAAATTCATA-GTTATA
64613711 AAAATTCATA-TTATA
1 AAAATTCATAGTTATA
64613726 A
1 A
64613727 TATTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATTCATAGTTATA
Found at i:64614458 original size:18 final size:18
Alignment explanation
Indices: 64614432--64614468 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
64614422 CTCAAATCTC
64614432 ACTTATAAGCTTAGATTT
1 ACTTATAAGCTTAGATTT
*
64614450 ACTTCTAAGCTTAGATTT
1 ACTTATAAGCTTAGATTT
64614468 A
1 A
64614469 AACTTCATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ACTTATAAGCTTAGATTT
Found at i:64615309 original size:19 final size:21
Alignment explanation
Indices: 64615267--64615328 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 21
64615257 AATTATTAAT
* *
64615267 TTTAATTATTATAATAT-TTTA
1 TTTAATTA-TATAATCTAATTA
*
64615288 TTTAATTA-ATTAT-TAATTA
1 TTTAATTATATAATCTAATTA
64615307 TTTAATTATATAATCTAATTA
1 TTTAATTATATAATCTAATTA
64615328 T
1 T
64615329 GGTTTTCGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 1 0.03
19 15 0.43
20 4 0.11
21 15 0.43
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAATTATATAATCTAATTA
Found at i:64615326 original size:32 final size:31
Alignment explanation
Indices: 64615261--64615327 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
64615251 ACCTAAAATT
* * *
64615261 ATTAATTTTAATTATTATAATATTTTATTTA
1 ATTAATTTTAATTATTATAATATATAATCTA
64615292 ATTAATTATTAATTATT-TAATTATATAATCTA
1 ATTAATT-TTAATTATTATAA-TATATAATCTA
64615324 ATTA
1 ATTA
64615328 TGGTTTTCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTAATTTTAATTATTATAATATATAATCTA
Found at i:64615588 original size:31 final size:31
Alignment explanation
Indices: 64615553--64615618 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
64615543 TTCAAAATAT
*
64615553 TCACTATACTATT-CAAAAGTTTATATTTACA
1 TCACTAAACTATTAC-AAAGTTTATATTTACA
* *
64615584 TCACTAAACTATTACAAAGTTTTTATTTAGA
1 TCACTAAACTATTACAAAGTTTATATTTACA
64615615 TCAC
1 TCAC
64615619 CGTGTTGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.41
Consensus pattern (31 bp):
TCACTAAACTATTACAAAGTTTATATTTACA
Found at i:64620437 original size:145 final size:145
Alignment explanation
Indices: 64620246--64620510 Score: 433
Period size: 145 Copynumber: 1.8 Consensus size: 145
64620236 CTTACTCCGT
*
64620246 ATTCTCTTCTACTCTCCATCAATTTCTAAAGCATAACAAGAAAGAATAAAAATTCATTTCTCAAC
1 ATTCTCTTCTACTCTCCAACAATTTCTAAAGCATAACAAGAAAGAATAAAAATTCATTTCTCAAC
** *
64620311 ACCTTCAACTCTCAATCAATTTCCGGAAGATAATAAAAAAAATAAAACTAAAACTCATTTCTTAA
66 ACCTTCAACTCTCAATCAATTTCCAAAAGATAACAAAAAAAATAAAACTAAAACTCATTTCTTAA
64620376 TAATAGATCTGTAAA
131 TAATAGATCTGTAAA
*
64620391 ATTCTCTTCTACTCTCCAACAATTTCTAGAA-TATAACAAGAAAGAATAAAAATTCATTTCTCAA
1 ATTCTCTTCTACTCTCCAACAATTTCTA-AAGCATAACAAGAAAGAATAAAAATTCATTTCTCAA
* ** *
64620455 TAGTTTCAACTCTCAATCAATTTCCAAAAGATAACAAAAAAACTAAAACTAAAACT
65 CACCTTCAACTCTCAATCAATTTCCAAAAGATAACAAAAAAAATAAAACTAAAACT
64620511 AAAACTAAAA
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
145 108 0.98
146 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (145 bp):
ATTCTCTTCTACTCTCCAACAATTTCTAAAGCATAACAAGAAAGAATAAAAATTCATTTCTCAAC
ACCTTCAACTCTCAATCAATTTCCAAAAGATAACAAAAAAAATAAAACTAAAACTCATTTCTTAA
TAATAGATCTGTAAA
Found at i:64620504 original size:6 final size:6
Alignment explanation
Indices: 64620493--64620521 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
64620483 AGATAACAAA
64620493 AAAACT AAAACT AAAACT AAAACT AAAAC
1 AAAACT AAAACT AAAACT AAAACT AAAAC
64620522 CCATTTCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAACT
Found at i:64621152 original size:22 final size:23
Alignment explanation
Indices: 64621127--64621181 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
64621117 TTTTAATGAT
64621127 AATTATATTAAGAATT-TTATTA
1 AATTATATTAAGAATTATTATTA
***
64621149 AATTAT-TTATTTATTATTATTA
1 AATTATATTAAGAATTATTATTA
64621171 AATTATATTAA
1 AATTATATTAA
64621182 AATATGATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 6 0.22
22 18 0.67
23 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTATATTAAGAATTATTATTA
Found at i:64623248 original size:13 final size:13
Alignment explanation
Indices: 64623230--64623255 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64623220 TCATTTAGTG
64623230 TGGGTTTAAACGA
1 TGGGTTTAAACGA
64623243 TGGGTTTAAACGA
1 TGGGTTTAAACGA
64623256 GTAGTATAGC
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:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
TGGGTTTAAACGA
Found at i:64623777 original size:17 final size:17
Alignment explanation
Indices: 64623735--64623777 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
64623725 CAACATATCC
64623735 AAAATAAAAATAAATTT
1 AAAATAAAAATAAATTT
* * *
64623752 AAATTTAAAATATATTTT
1 AAAATAAAAATA-AATTT
64623770 AAAATAAA
1 AAAATAAA
64623778 CTTTTAGTAC
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATAAAAATAAATTT
Found at i:64626702 original size:77 final size:77
Alignment explanation
Indices: 64626571--64626725 Score: 292
Period size: 77 Copynumber: 2.0 Consensus size: 77
64626561 TAATGAGTAT
*
64626571 TGAGTATTAATTATTTAGAGCAATTGGTTGTTAGAAAATGTGATTATGCCTGTTATGGGGTGCAG
1 TGAGTATTAATTATTTAGAGCAATTGGTTGTTAGAAAATGTGATTATGCATGTTATGGGGTGCAG
64626636 CTTAAGTCATTG
66 CTTAAGTCATTG
*
64626648 TGAGTATTAATTATTTAGAGCAATTGGTTGTTAGAAAATGTGATTATGCATGTTATGGTGTGCAG
1 TGAGTATTAATTATTTAGAGCAATTGGTTGTTAGAAAATGTGATTATGCATGTTATGGGGTGCAG
64626713 CTTAAGTCATTG
66 CTTAAGTCATTG
64626725 T
1 T
64626726 CGGGGTACTG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (77 bp):
TGAGTATTAATTATTTAGAGCAATTGGTTGTTAGAAAATGTGATTATGCATGTTATGGGGTGCAG
CTTAAGTCATTG
Found at i:64629875 original size:26 final size:26
Alignment explanation
Indices: 64629846--64629949 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
64629836 TGGTACAAAT
64629846 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
64629872 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64629898 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64629924 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64629950 CGATGGGCAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Done.