Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 141 of 328
Found at i:41062160 original size:24 final size:23
Alignment explanation
Indices: 41062128--41062178 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
41062118 TTTTTTATAA
41062128 TTTTCAAAAATAGATTATGATTTT
1 TTTTCAAAAAT-GATTATGATTTT
* **
41062152 TTTTTAAAAATTTTTATGATTTT
1 TTTTCAAAAATGATTATGATTTT
41062175 TTTT
1 TTTT
41062179 GGATTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (23 bp):
TTTTCAAAAATGATTATGATTTT
Found at i:41065945 original size:2 final size:2
Alignment explanation
Indices: 41065938--41065965 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
41065928 AAATCAAAGT
41065938 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41065966 AAAGCCTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:41066185 original size:22 final size:22
Alignment explanation
Indices: 41066160--41066202 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
41066150 TGTAATAATA
*
41066160 ATATTTTAATTTTAGAATATAT
1 ATATTTTAATTTTAAAATATAT
*
41066182 ATATTTTAGTTTTAAAATATA
1 ATATTTTAATTTTAAAATATA
41066203 ATTACATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
ATATTTTAATTTTAAAATATAT
Found at i:41066759 original size:41 final size:41
Alignment explanation
Indices: 41066712--41066817 Score: 112
Period size: 41 Copynumber: 2.6 Consensus size: 41
41066702 AAAAGGTAAG
41066712 CAATAGTAGTGTTTTTGGTCCAAACGCCGTAAAA-AGTTGAA
1 CAATAGTAGTGTTTTTGGTCCAAACGCCGTAAAACA-TTGAA
* *
41066753 CAATAGTGACGT-TTTTT-GTCCAAATGCCGTAAAACATTGAG
1 CAATAGT-A-GTGTTTTTGGTCCAAACGCCGTAAAACATTGAA
* **
41066794 CAATAATAACGTTTTTGGT-CAAAC
1 CAATAGTAGTGTTTTTGGTCCAAAC
41066818 TCCGCGAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
40 10 0.19
41 35 0.65
42 7 0.13
43 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (41 bp):
CAATAGTAGTGTTTTTGGTCCAAACGCCGTAAAACATTGAA
Found at i:41067248 original size:7 final size:7
Alignment explanation
Indices: 41067236--41067369 Score: 76
Period size: 7 Copynumber: 18.7 Consensus size: 7
41067226 TGACTTTCTC
41067236 TAAACCT
1 TAAACCT
*
41067243 TAAACCC
1 TAAACCT
*
41067250 TAAAACT
1 TAAACCT
41067257 CTAAACCT
1 -TAAACCT
*
41067265 TAAACCA
1 TAAACCT
*
41067272 TAAACCA
1 TAAACCT
41067279 TAAACAC-
1 TAAAC-CT
*
41067286 TAAACAT
1 TAAACCT
***
41067293 TAAATAA
1 TAAACCT
41067300 TAAACAC-
1 TAAAC-CT
41067307 TAAACCT
1 TAAACCT
41067314 TAAAGCC-
1 TAAA-CCT
41067321 TAAACCAT
1 TAAACC-T
* *
41067329 AAAACCA
1 TAAACCT
*
41067336 TAAACCA
1 TAAACCT
*
41067343 TAAACCA
1 TAAACCT
41067350 TAAACTCT
1 TAAAC-CT
*
41067358 AAAACCT
1 TAAACCT
41067365 TAAAC
1 TAAAC
41067370 ACTAAAAACT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
6 3 0.03
7 80 0.78
8 19 0.19
ACGTcount: A:0.53, C:0.26, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCT
Found at i:41067261 original size:22 final size:22
Alignment explanation
Indices: 41067233--41067275 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
41067223 ATATGACTTT
*
41067233 CTCTAAACCTTAAACCCTAAAA
1 CTCTAAACCTTAAACCATAAAA
41067255 CTCTAAACCTTAAACCATAAA
1 CTCTAAACCTTAAACCATAAA
41067276 CCATAAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (22 bp):
CTCTAAACCTTAAACCATAAAA
Found at i:41067335 original size:8 final size:7
Alignment explanation
Indices: 41067236--41067354 Score: 86
Period size: 7 Copynumber: 16.7 Consensus size: 7
41067226 TGACTTTCTC
*
41067236 TAAACCT
1 TAAACCA
*
41067243 TAAACCC
1 TAAACCA
41067250 TAAAACTC-
1 T-AAAC-CA
*
41067258 TAAACCT
1 TAAACCA
41067265 TAAACCA
1 TAAACCA
41067272 TAAACCA
1 TAAACCA
41067279 TAAA-CA
1 TAAACCA
41067285 CTAAA-CA
1 -TAAACCA
**
41067292 TTAAATAA
1 -TAAACCA
41067300 TAAA-CA
1 TAAACCA
*
41067306 CTAAACCT
1 -TAAACCA
41067314 TAAAGCC-
1 TAAA-CCA
41067321 TAAACCA
1 TAAACCA
41067328 TAAAACCA
1 T-AAACCA
41067336 TAAACCA
1 TAAACCA
41067343 TAAACCA
1 TAAACCA
41067350 TAAAC
1 TAAAC
41067355 TCTAAAACCT
Statistics
Matches: 96, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
6 6 0.06
7 73 0.76
8 16 0.17
9 1 0.01
ACGTcount: A:0.54, C:0.26, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:41067346 original size:29 final size:29
Alignment explanation
Indices: 41067307--41067369 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
41067297 TAATAAACAC
*
41067307 TAAACCTTAAAGCC-TAAAC-CATAAAACCA
1 TAAACCATAAA-CCATAAACTC-TAAAACCA
*
41067336 TAAACCATAAACCATAAACTCTAAAACCT
1 TAAACCATAAACCATAAACTCTAAAACCA
41067365 TAAAC
1 TAAAC
41067370 ACTAAAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.07
29 27 0.90
30 1 0.03
ACGTcount: A:0.52, C:0.27, G:0.02, T:0.19
Consensus pattern (29 bp):
TAAACCATAAACCATAAACTCTAAAACCA
Found at i:41067852 original size:41 final size:41
Alignment explanation
Indices: 41067779--41067857 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
41067769 AATTTTAATT
* * *
41067779 AAGTTGAGCAATAGTGTGTTTTTGGCTTCAAACGCCGCAAA
1 AAGTTGAGCAATAGTGTGTTTTTAGCTCCAAACACCGCAAA
41067820 AAGTTG-GACAATAGTGGTGTTTTTAG-TCCAAACACCGC
1 AAGTTGAG-CAATAGT-GTGTTTTTAGCTCCAAACACCGC
41067858 GAATATGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 1 0.03
41 23 0.70
42 9 0.27
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (41 bp):
AAGTTGAGCAATAGTGTGTTTTTAGCTCCAAACACCGCAAA
Found at i:41068156 original size:116 final size:116
Alignment explanation
Indices: 41067849--41068374 Score: 669
Period size: 116 Copynumber: 4.5 Consensus size: 116
41067839 TTTTTAGTCC
* * * * *
41067849 AAACACCGCGAATATGTATTAAAAGATTGCAAAACGTTGTCGTTTTTACCTGCGCTTTTAGTGGC
1 AAACACCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
* * *
41067914 GTTTTTACTAAAACGCCACAAAAGTATATGCGTTAGTGTCGTTTTCAAAAAAAAAA
66 GTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTC-----ACAAA
* * * *
41067970 AAACGCCACGAATATGTTTTAAGAGTTTGCAAAACATTGTCGTTTTTATTTGCGTTTTTAGTGGC
1 AAACACCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
*
41068035 ATTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCACAAA
66 GTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCACAAA
* * * * *
41068086 AAACACCGCGAATATGTTTTACGAGTTTGCAAAATGTTGCCATTTTTATCTGTGTTTTTAGTGGC
1 AAACACCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
* * *
41068151 GTTTTTACTAAAACCCCGA-AAAAGGATATGCATTAGTGGCATTTTCACAAA
66 GTTTTTACTAAAACGCC-ACAAAAGGATATGCGTTAGTGGCGTTTTCACAAA
* * * *
41068202 AAA-ACGTCGCGAATATGTTTTAAGAGTTTGCAAAATGTTGTCTTTTTTTTCTGTGTTTTTAGTG
1 AAACAC--CGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTG
* * * *
41068266 GCGTTTTTACTAAAAAGCCGCAAAAGGATATGTGTTAGTGGTGTTTTCACAAA
64 GCGTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCACAAA
* * * *
41068319 AAACGCTGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTAGCTGCGTT
1 AAACACCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTT
41068375 AATGGCGCTT
Statistics
Matches: 355, Mismatches: 45, Indels: 15
0.86 0.11 0.04
Matches are distributed among these distances:
115 2 0.01
116 151 0.43
117 102 0.29
118 1 0.00
121 99 0.28
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (116 bp):
AAACACCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGTCGTTTTTATCTGCGTTTTTAGTGGC
GTTTTTACTAAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCACAAA
Found at i:41068292 original size:233 final size:234
Alignment explanation
Indices: 41067849--41068372 Score: 712
Period size: 233 Copynumber: 2.2 Consensus size: 234
41067839 TTTTTAGTCC
* * * *
41067849 AAACACCGCGAATATGTATTAAAAGATTGCAAAACGTTGTCGTTTTTACCTGCGCTTTTAGTGGC
1 AAACACCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTACCTGCGCTTTTAGTGGC
* * * * *
41067914 GTTTTTACTAAAACGCCACAAAAGTATATGCGTTAGTGTCGTTTTCAAAAAAAAAAAAACGCCAC
66 GTTTTTACTAAAACCCCACAAAAGGATATGCATTAGTGGCATTTTC---AAAAAAAAAACGCCAC
41067979 GAATATGTTTTAAGAGTTTGCAAAACATTGTCGTTTTTATTTGCGTTTTTAGTGGCATTTTTACT
128 GAATATGTTTTAAGAGTTTGCAAAACATTGTCGTTTTTATTTGCGTTTTTAGTGGCATTTTTACT
*
41068044 AAAACGCCACAAAAGGATATGCGTTAGTGGCGTTTTCACAAA
193 AAAAAGCCACAAAAGGATATGCGTTAGTGGCGTTTTCACAAA
* * * * * *
41068086 AAACACCGCGAATATGTTTTACGAGTTTGCAAAATGTTGCCATTTTTATCTGTGTTTTTAGTGGC
1 AAACACCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTACCTGCGCTTTTAGTGGC
* * *
41068151 GTTTTTACTAAAACCCCGA-AAAAGGATATGCATTAGTGGCATTTTC-ACAAAAAAACGTCGCGA
66 GTTTTTACTAAAACCCC-ACAAAAGGATATGCATTAGTGGCATTTTCAAAAAAAAAACGCCACGA
** * * *
41068214 ATATGTTTTAAGAGTTTGCAAAATGTTGTC-TTTTTTTTCTGTGTTTTTAGTGGCGTTTTTACTA
130 ATATGTTTTAAGAGTTTGCAAAACATTGTCGTTTTTATT-TGCGTTTTTAGTGGCATTTTTACTA
* * *
41068278 AAAAGCCGCAAAAGGATATGTGTTAGTGGTGTTTTCACAAA
194 AAAAGCCACAAAAGGATATGCGTTAGTGGCGTTTTCACAAA
* * *
41068319 AAACGCTGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTAGCTGCG
1 AAACACCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTACCTGCG
41068373 TTAATGGCGC
Statistics
Matches: 251, Mismatches: 34, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
232 7 0.03
233 149 0.59
237 94 0.37
238 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (234 bp):
AAACACCGCGAATATGTTTTAAGAGTTTGCAAAACGTTGCCGTTTTTACCTGCGCTTTTAGTGGC
GTTTTTACTAAAACCCCACAAAAGGATATGCATTAGTGGCATTTTCAAAAAAAAAACGCCACGAA
TATGTTTTAAGAGTTTGCAAAACATTGTCGTTTTTATTTGCGTTTTTAGTGGCATTTTTACTAAA
AAGCCACAAAAGGATATGCGTTAGTGGCGTTTTCACAAA
Found at i:41071920 original size:43 final size:43
Alignment explanation
Indices: 41071854--41071977 Score: 117
Period size: 43 Copynumber: 2.9 Consensus size: 43
41071844 AGCTCGTACA
* * * *
41071854 ATGCC-ATATCCTAGATATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATAAT-G
* * * * *
41071896 ATGCCACTATCTCAGACAGGGTCTTATATGAAATCATATAATG
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATAATG
* * *
41071939 ATGCCAATGTCCCAGACATGGTCTTACATGTAATAACAT
1 ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACAT
41071978 CTCGGTAATC
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
42 5 0.08
43 56 0.89
44 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (43 bp):
ATGCCAATATCCCAGACAGGGTCTTACATGTAATCACATAATG
Found at i:41080912 original size:17 final size:18
Alignment explanation
Indices: 41080892--41080927 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
41080882 TAATCTTGTT
41080892 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
*
41080909 TTAATAATTTAATATGCA
1 TTAATAAATTAATATGCA
41080927 T
1 T
41080928 ATATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:41080971 original size:6 final size:6
Alignment explanation
Indices: 41080960--41080984 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
41080950 TAACTTTGAG
41080960 TAGAAT TAGAAT TAGAAT TAGAAT T
1 TAGAAT TAGAAT TAGAAT TAGAAT T
41080985 TCTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (6 bp):
TAGAAT
Found at i:41093856 original size:13 final size:14
Alignment explanation
Indices: 41093838--41093870 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
41093828 GCAGTATACC
41093838 TACATACATACAT-
1 TACATACATACATG
41093851 TACATACATACATG
1 TACATACATACATG
41093865 TACATA
1 TACATA
41093871 TATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.30
Consensus pattern (14 bp):
TACATACATACATG
Found at i:41102851 original size:14 final size:14
Alignment explanation
Indices: 41102827--41102873 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
41102817 TAAAGGGACC
*
41102827 AAAAATCAAAAGCAA
1 AAAAATGAAAAG-AA
41102842 AAAAA-GAAAAGAA
1 AAAAATGAAAAGAA
41102855 AAGAAATG-AAAGAA
1 AA-AAATGAAAAGAA
41102869 AAAAA
1 AAAAA
41102874 CCCATATCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 7 0.24
14 16 0.55
15 6 0.21
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.04
Consensus pattern (14 bp):
AAAAATGAAAAGAA
Found at i:41106492 original size:45 final size:43
Alignment explanation
Indices: 41106432--41106520 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 43
41106422 TATATAACTG
*
41106432 TGTAATTACAATCTAT-ACTACCAAACATGACATAGGAAATTATAA
1 TGTAATTACAATCTATCA-T-CCAAACATGAC-CAGGAAATTATAA
* *
41106477 TGTAATTACACTCTATCATCCAAACATGTCCAGGAAATTATAA
1 TGTAATTACAATCTATCATCCAAACATGACCAGGAAATTATAA
41106520 T
1 T
41106521 TCTTTGTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
43 13 0.32
44 10 0.25
45 16 0.40
46 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (43 bp):
TGTAATTACAATCTATCATCCAAACATGACCAGGAAATTATAA
Found at i:41110239 original size:2 final size:2
Alignment explanation
Indices: 41110232--41110261 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
41110222 ATTAATAATT
41110232 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41110262 AACTTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:41111910 original size:34 final size:35
Alignment explanation
Indices: 41111871--41111941 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 35
41111861 AAACCAATAG
41111871 AAAACTC-TCTCTAATAGAAACCAATAAAATTATT
1 AAAACTCGTCTCTAATAGAAACCAATAAAATTATT
*
41111905 AAAACTCTGTCTCTAATAGAAACCAATAGAATTATT
1 AAAACTC-GTCTCTAATAGAAACCAATAAAATTATT
41111941 A
1 A
41111942 TTCCCAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 7 0.21
36 27 0.79
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.30
Consensus pattern (35 bp):
AAAACTCGTCTCTAATAGAAACCAATAAAATTATT
Found at i:41111957 original size:22 final size:22
Alignment explanation
Indices: 41111929--41111981 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
41111919 AATAGAAACC
*
41111929 AATAGAATTATTATTCCCAAGA-
1 AATAGAATTACTATTCCCAA-AT
*
41111951 AATAGAATTGCTATTCCCAAAT
1 AATAGAATTACTATTCCCAAAT
41111973 AATAGAATT
1 AATAGAATT
41111982 TATACTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.32
Consensus pattern (22 bp):
AATAGAATTACTATTCCCAAAT
Found at i:41116068 original size:46 final size:46
Alignment explanation
Indices: 41116001--41116182 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
41115991 AGTGTGCTCT
*
41116001 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
41116047 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
41116093 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
41116139 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
41116183 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:41119372 original size:239 final size:238
Alignment explanation
Indices: 41118949--41119426 Score: 735
Period size: 239 Copynumber: 2.0 Consensus size: 238
41118939 TAAACCTATG
* *
41118949 ATGATTATAGTGTTTGTCACTCTTAGCTAAGAATCTCCTTTCAGTCTCATCCTAGACTAAAAGAT
1 ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCTCCTCTCAGTCTCATCCTAGACTAAAAGAT
* * *
41119014 ACCACCTAGGTTCTCCCTCGGTCTCACCTAGACATATAGATATCCTCTTGGTTTCACTATTAGAC
66 ACAACCTAGGTTCTCCCTCGGTCTCACCTAGACATATAGATATCCTCTTGATCTCACTATTAGAC
* * *
41119079 ACAAGTGTATCAAAGTCCTACACGATAGAGTCTCTTCTCAGTCTCATCTATCTAAAT-TTTCCAC
131 ACAAGTGTAACAAAGTCCTACACGATAGAATCTCCTCTCAGTCTCATCTATCTAAATATTT-CAC
*
41119143 TAGAGGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
195 TAGAAGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
*
41119187 ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCTCCTCTCAGTTTCATCCTAGACTAAAAGAT
1 ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCTCCTCTCAGTCTCATCCTAGACTAAAAGAT
* * *
41119252 GCAACCTAGGTTCTCCTCTCGGTCTCACCTAGGCATATAGATCTCCTCTTGATCTCACTATTCA-
66 ACAACCTAGGTTCTCC-CTCGGTCTCACCTAGACATATAGATATCCTCTTGATCTCACTATT-AG
* * * *
41119316 ACACAAGTGTAACAAAGTCCTACATGATAGAATCTCCTCTTAGTCTCGTTTATCTAAATATTTCA
129 ACACAAGTGTAACAAAGTCCTACACGATAGAATCTCCTCTCAGTCTCATCTATCTAAATATTTCA
* **
41119381 TTAGAAGTTTCAATTCTAGTATAATATGCAATTTAATACACTTGA
194 CTAGAAGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
41119426 A
1 A
41119427 CAAACAACCA
Statistics
Matches: 217, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
238 76 0.35
239 137 0.63
240 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (238 bp):
ATGATTATAATGTTTGTCACTCTTAGCTAAGAATCTCCTCTCAGTCTCATCCTAGACTAAAAGAT
ACAACCTAGGTTCTCCCTCGGTCTCACCTAGACATATAGATATCCTCTTGATCTCACTATTAGAC
ACAAGTGTAACAAAGTCCTACACGATAGAATCTCCTCTCAGTCTCATCTATCTAAATATTTCACT
AGAAGAGTCAATTCTAGTATAATATGCAATTTAATACACTTGA
Found at i:41122083 original size:17 final size:18
Alignment explanation
Indices: 41122047--41122083 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
41122037 GCTCGTGTGT
*
41122047 CATGCCTGTGTGGTCCCA
1 CATGCCCGTGTGGTCCCA
41122065 CATGCCCGTGTGG-CCCA
1 CATGCCCGTGTGGTCCCA
41122082 CA
1 CA
41122084 CGGCCATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.14, C:0.38, G:0.27, T:0.22
Consensus pattern (18 bp):
CATGCCCGTGTGGTCCCA
Found at i:41125272 original size:16 final size:16
Alignment explanation
Indices: 41125251--41125285 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
41125241 TATCTAAATT
41125251 ATGAAATTCAACTTTA
1 ATGAAATTCAACTTTA
41125267 ATGAAATTCAACTTTA
1 ATGAAATTCAACTTTA
41125283 ATG
1 ATG
41125286 CCCAAGTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (16 bp):
ATGAAATTCAACTTTA
Found at i:41125425 original size:22 final size:22
Alignment explanation
Indices: 41125363--41125427 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
41125353 CTACGATTAT
* *
41125363 TAGCACATTAGTGCTCTCCGTT
1 TAGCACATTAGTGCTCTCTGTA
* **
41125385 TAGCGCATCCGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
41125407 TAGCACTTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
41125428 TCAATAGTGC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:41132515 original size:22 final size:22
Alignment explanation
Indices: 41132453--41132517 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
41132443 CTCCGATTAT
* *
41132453 TAGCACATTAGTGCTCTCCGTT
1 TAGCACATTAGTGCTCTCTGTA
*
41132475 TAGCACATTCGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
41132497 TAGCACTTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
41132518 TCAATAGTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.38
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:41143209 original size:32 final size:32
Alignment explanation
Indices: 41143173--41143233 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
41143163 TCCACACGCC
* *
41143173 CGTGTGGCCCATACAGCCCAATTGGTCGAGCT
1 CGTGTCGCCCACACAGCCCAATTGGTCGAGCT
* * *
41143205 CGTGTCTCGCACACGGCCCAATTGGTCGA
1 CGTGTCGCCCACACAGCCCAATTGGTCGA
41143234 ACATGTGTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (32 bp):
CGTGTCGCCCACACAGCCCAATTGGTCGAGCT
Found at i:41143242 original size:32 final size:32
Alignment explanation
Indices: 41143188--41143253 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
41143178 GGCCCATACA
* *
41143188 GCCCAATTGGTCGAGCTCGTGTCTCGCACACG
1 GCCCAATTGGTCGAACTCGTGTCTCACACACG
*
41143220 GCCCAATTGGTCGAACAT-GTGTCTCATACACG
1 GCCCAATTGGTCGAAC-TCGTGTCTCACACACG
41143252 GC
1 GC
41143254 TTTGCTTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.20, C:0.32, G:0.26, T:0.23
Consensus pattern (32 bp):
GCCCAATTGGTCGAACTCGTGTCTCACACACG
Found at i:41145605 original size:2 final size:2
Alignment explanation
Indices: 41145598--41145628 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
41145588 ACATACATAC
41145598 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41145629 GGCCATGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:41145950 original size:8 final size:8
Alignment explanation
Indices: 41145937--41145969 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
41145927 TTTTTAATTT
41145937 TATTTTAA
1 TATTTTAA
41145945 TATTTTAA
1 TATTTTAA
41145953 TA-TTT-A
1 TATTTTAA
41145959 TATTTTAA
1 TATTTTAA
41145967 TAT
1 TAT
41145970 ATTTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 3 0.13
7 6 0.26
8 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTTTAA
Found at i:41145973 original size:16 final size:14
Alignment explanation
Indices: 41145924--41145969 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
41145914 AAAAATGTTA
*
41145924 TAATTTTTA-ATTT
1 TAATATTTATATTT
41145937 T-AT-TTTAATATTT
1 TAATATTT-ATATTT
41145950 TAATATTTATATTT
1 TAATATTTATATTT
41145964 TAATAT
1 TAATAT
41145970 ATTTTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 3 0.10
12 3 0.10
13 6 0.21
14 14 0.48
15 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TAATATTTATATTT
Found at i:41146064 original size:20 final size:22
Alignment explanation
Indices: 41146014--41146064 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
41146004 TATTTAAAAC
41146014 TAATAAA-AT-ATATAAATTTT
1 TAATAAATATAATATAAATTTT
**
41146034 TAATATTTATAAT-TAAA-TTT
1 TAATAAATATAATATAAATTTT
41146054 TAATAAATATA
1 TAATAAATATA
41146065 TTTTAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 17 0.68
21 6 0.24
22 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATAAATATAATATAAATTTT
Found at i:41147529 original size:31 final size:30
Alignment explanation
Indices: 41147441--41147529 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 30
41147431 CTGTATATAT
* *
41147441 AAATTTTAA-TTTAATGTAATTATACACGTA
1 AAATTTTAATTTTAATTTAA-TATATACGTA
* * * * *
41147471 AAACTTTAATTGTAATTTAAATGTATACTTG
1 AAATTTTAATTTTAATTT-AATATATACGTA
41147502 AAATTTTAATTTTAATTTAATCATATAC
1 AAATTTTAATTTTAATTTAAT-ATATAC
41147530 ATTTAAATAA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
30 11 0.24
31 33 0.72
32 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.46
Consensus pattern (30 bp):
AAATTTTAATTTTAATTTAATATATACGTA
Found at i:41147767 original size:3 final size:3
Alignment explanation
Indices: 41147753--41147809 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
41147743 TATCCTGTAA
*
41147753 TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
41147801 TAT TAT TAT
1 TAT TAT TAT
41147810 ATTTTGCTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:41150818 original size:21 final size:20
Alignment explanation
Indices: 41150768--41150820 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
41150758 GCCCATTAAG
41150768 CCCCCCAAAAAAACCTAACC
1 CCCCCCAAAAAAACCTAACC
****
41150788 CCAAAAAAAAAATACCTAACC
1 CCCCCCAAAAAA-ACCTAACC
41150809 CCCCCCAAAAAA
1 CCCCCCAAAAAA
41150821 GCCAAGAAAC
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.53, C:0.42, G:0.00, T:0.06
Consensus pattern (20 bp):
CCCCCCAAAAAAACCTAACC
Found at i:41151372 original size:9 final size:11
Alignment explanation
Indices: 41151344--41151375 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
41151334 ATTCCCCCTC
41151344 CCTTCTCTCTT
1 CCTTCTCTCTT
41151355 CCTTCTCTCTT
1 CCTTCTCTCTT
41151366 CCTTCTCTCT
1 CCTTCTCTCT
41151376 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (11 bp):
CCTTCTCTCTT
Found at i:41152109 original size:23 final size:22
Alignment explanation
Indices: 41152078--41152121 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
41152068 TTAGTGTATA
41152078 TTTTTATATATATATATATATG
1 TTTTTATATATATATATATATG
* *
41152100 TTTTTAATATATTTATGTATAT
1 TTTTT-ATATATATATATATAT
41152122 ACTTATGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTTTATATATATATATATATG
Found at i:41152245 original size:24 final size:25
Alignment explanation
Indices: 41152204--41152259 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
41152194 TATGTATATC
*
41152204 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
41152228 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
41152253 TATATAT
1 TATATAT
41152260 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:41152338 original size:19 final size:19
Alignment explanation
Indices: 41152314--41152350 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
41152304 TACTATTTTA
*
41152314 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
41152333 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
41152351 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:41152437 original size:9 final size:9
Alignment explanation
Indices: 41152419--41152454 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
41152409 TCATTTCTAA
41152419 TATATATAT
1 TATATATAT
*
41152428 TATATGTAT
1 TATATATAT
*
41152437 TTTATATAT
1 TATATATAT
41152446 TATATATAT
1 TATATATAT
41152455 ATTTTAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (9 bp):
TATATATAT
Found at i:41152442 original size:20 final size:20
Alignment explanation
Indices: 41152418--41152460 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
41152408 ATCATTTCTA
*
41152418 ATATATATATTATATGTATTTT
1 ATATAT-TA-TATATATATTTT
41152440 ATATATTATATATATATTTT
1 ATATATTATATATATATTTT
41152460 A
1 A
41152461 ATGTTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATATTATATATATATTTT
Found at i:41152537 original size:24 final size:24
Alignment explanation
Indices: 41152510--41152555 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
41152500 ATATTTTTTT
*
41152510 ATATCATCTTATGTACATATATAA
1 ATATCATCTTATATACATATATAA
* *
41152534 ATATTATGTTATATACATATAT
1 ATATCATCTTATATACATATAT
41152556 GTAATATGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATCATCTTATATACATATATAA
Found at i:41152749 original size:37 final size:35
Alignment explanation
Indices: 41152684--41152753 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
41152674 TTATATATAG
41152684 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
41152721 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
41152754 TTTAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:41152889 original size:25 final size:24
Alignment explanation
Indices: 41152861--41152916 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
41152851 GTTATATTTT
*
41152861 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
41152886 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
41152909 CACTATTA
1 CACTATTA
41152917 CTATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:41164853 original size:73 final size:72
Alignment explanation
Indices: 41164763--41166194 Score: 1092
Period size: 72 Copynumber: 18.7 Consensus size: 72
41164753 TGATGTTTTT
* * *
41164763 ATTTCTG-TTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACATTGAG
1 ATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
*
41164827 GTATTTTCA
64 GTAATTTCA
**
41164836 ATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
1 ATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
41164901 GGTATTTTCAATTTCTGTTCA
63 GG-----T-AA----T-TTCA
* * *
41164922 ATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 ATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
*
41164987 TATTTTCA
65 TAATTTCA
** * *
41164995 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
1 ATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
41165060 T-ATTGTCA
65 TAATT-TCA
* * ** *
41165068 ATTTTTGTGTTTCAATCTATTTTTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAG
1 A---------TT---TCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* *
41165133 GACACGCTGAGGTAATCTCA
53 GACACGTTGAGGTAATTTCA
*
41165153 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
41165218 TAATTTCA
65 TAATTTCA
** ** * * * * * *
41165226 ATTTCTGCTTTTCAATTTGTATTTTTCAA-AAAAATTTAACTCATATTGCGAGAGGTGAGTTGAG
1 ATTTCTG-TTTTCAA-----A--AATCAACTCATA-TT-GC-GAGA--G-GTGAGTTGAG-----
* *
41165290 CCTCAGGACACGCTGAGGTAATTTCA
47 CCTCAAGACACGTTGAGGTAATTTCA
* ** * *
41165316 ATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
1 ATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
*
41165381 GTATTTTCA
64 GTAATTTCA
* * * *
41165390 ATTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGATGTGAGTTGAGCCTCAAGGCACGTTGAG
1 ATTTCTGT-TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
41165455 GTAATTTCA
64 GTAATTTCA
* ** * * * * * *
41165464 ATTTCTGCTTTTCAATTTATATTTTTCAA-AAAAATTCAACTCATATTGCGAGAGGTGAGTTAAA
1 ATTTCTG-TTTTCAA---A-A---ATCAACTCATATT--GC-GAGA--G-GTGAGTTGAG-----
* *
41165528 CCTCAGGACACGCTGAGGTAATTTCA
47 CCTCAAGACACGTTGAGGTAATTTCA
* ** * * *
41165554 ATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACATGCTGAG
1 ATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
*
41165619 GTATTTTCA
64 GTAATTTCA
* * * * *
41165628 ATTTTTGTCTTTCAAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
41165693 GGTAATTTCA
63 GGTAATTTCA
* * ** * *
41165703 ATTTCTGTTGTTAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTGTT-TT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
41165768 GTAATTTCA
64 GTAATTTCA
* ** * *
41165777 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
*
41165842 ATTTTCA
66 AATTTCA
* * *
41165849 ATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAGACACGC
1 ATTTCTG-TTTTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
41165914 TGAGGTAATTTCA
60 TGAGGTAATTTCA
* * ** *
41165927 ATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
41165992 AATTTCA
66 AATTTCA
* * ** *
41165999 ATTTCTGTTTTCAAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGTTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
**
41166064 TTTTTCA
66 AATTTCA
* * * *
41166071 ATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTCCACATGCTG
1 ATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTG
*
41166135 AGGTATTTTCA
62 AGGTAATTTCA
41166146 ATTTCTGTCTTTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ATTTCTGT-TTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
41166195 TTCAGATTAC
Statistics
Matches: 1114, Mismatches: 156, Indels: 175
0.77 0.11 0.12
Matches are distributed among these distances:
72 197 0.18
73 189 0.17
74 194 0.17
75 151 0.14
76 36 0.03
77 6 0.01
78 61 0.05
79 20 0.02
80 11 0.01
81 3 0.00
82 10 0.01
83 2 0.00
84 59 0.05
85 83 0.07
86 18 0.02
87 1 0.00
88 1 0.00
89 8 0.01
90 60 0.05
91 4 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
AATTTCA
Found at i:41165345 original size:74 final size:74
Alignment explanation
Indices: 41165248--41166199 Score: 848
Period size: 74 Copynumber: 12.6 Consensus size: 74
41165238 CAATTTGTAT
*
41165248 TTTTCAAAAAAATTTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
41165313 TCAATTTCTG
65 TCAATTTCTG
* ** * * *
41165323 TTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
41165388 CAATTTTTG
66 CAATTTCTG
* * *
41165397 TCTTTC-AAAAAATCAACTCATACTGCGAGATGTGAGTTGAGCCTCAAGG-CACGTTGAGGTAAT
1 T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAAT
41165460 TTCAATTTCTG
64 TTCAATTTCTG
** * * * * * * *
41165471 CTTTTCAATTTATATTTTTCAAAAAAATTCA-ACT-C-ATATTGCGAGAGGTGAG--TTA-AAC-
1 -TTTTCAA---A-A------AAATCAACTCATATTGCGAGA--G-GTGAGTTGAGCCTCAGGACA
* * * * **
41165529 CTCAGGACACGCTGAGGT-AATTTCAATTTCTG
52 CGC-TG--A-GGTAATTTCAA------TTTCTG
* ** * * * *
41165561 TTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACATGCTGAGGTATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
41165626 CAATTTTTG
66 CAATTTCTG
* *
41165635 TCTTTCAAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
41165700 TCAATTTCTG
65 TCAATTTCTG
* **
41165710 TTGTT-AAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
41165774 TCAATTTCTG
65 TCAATTTCTG
* ** * * *
41165784 TTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
41165847 CAATTTCTG
66 CAATTTCTG
*
41165856 TTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC-GAGACACGCTGAGGT
1 -TTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGT
*
41165920 AATTTCAATTTCTA
61 AATTTCAATTTCTG
* *
41165934 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
41165997 CAATTTCTG
66 CAATTTCTG
* * ** * * * **
41166006 TTTTC--AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGTTGAGGTTTTTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
41166069 CAATTTCTG
66 CAATTTCTG
* * *
41166078 TTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTCCACATGCTGAGGTAT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAA
41166141 TTTCAATTTCTG
63 TTTCAATTTCTG
* *
41166153 TCTTTC-AAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
41166200 ATTACACACT
Statistics
Matches: 718, Mismatches: 106, Indels: 104
0.77 0.11 0.11
Matches are distributed among these distances:
72 191 0.27
73 41 0.06
74 192 0.27
75 107 0.15
76 40 0.06
77 6 0.01
78 59 0.08
79 19 0.03
80 5 0.01
81 5 0.01
82 10 0.01
83 3 0.00
84 6 0.01
85 21 0.03
86 1 0.00
89 6 0.01
90 6 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
CAATTTCTG
Found at i:41165466 original size:238 final size:228
Alignment explanation
Indices: 41165091--41166199 Score: 1339
Period size: 238 Copynumber: 4.9 Consensus size: 228
41165081 AATCTATTTT
* * * * *
41165091 TCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATCTCAATT
1 TCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
*
41165156 TCTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTA
66 TCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTA
*
41165220 ATTTCAATTTCTGCTTTTCAATTTGTATTTTTCAAAAAAATTTAACTCATATTGCGAGAGGTGAG
130 ATTTCAATTTCTG--TTTC---TTGTA-TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAG
*
41165285 TTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
188 TTAAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
41165326 TCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAA
1 TC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAA
* * * *
41165391 TTTTTGTCTTTCAAAAAATCAACTCATACTGCGAGATGTGAGTTGAGCCTCAAGGCACGTTGAGG
64 TTTCTGT-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGG
*
41165456 TAATTTCAATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTG
128 TAATTTCAATTTCTG--TTTC---TTGTA-TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTG
*
41165521 AGTTAAACCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
186 AGTTAAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
*
41165564 TCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACATGCTGAGGTATTTTCAA
1 TC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAA
* * *
41165629 TTTTTGTCTTTCAAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTC-AGGACACGCTGA
64 TTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGA
* ** *
41165693 GGTAATTTCAATTTCTG----TTG----TT-AAAAAAATCAACTCATATTACGAGAAATGAGTTG
126 GGTAATTTCAATTTCTGTTTCTTGTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTA
*
41165749 AGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
191 AGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
*
41165787 TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
* * *
41165852 TCTGTTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAGACACGCTGA
66 TCTG-TTTTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGA
41165917 GGTAATTTCAA------TTTC---TATTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTA
126 GGTAATTTCAATTTCTGTTTCTTGTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTA
* *
41165971 AGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTT
191 AGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
* * * * * *
41166009 TCAAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGTTGAGGTTTTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
*
41166074 TCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC--GGTCCACATGCTGAG
66 TCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG--CAC--GCTGAG
* * *
41166137 GTATTTTCAATTTCTG--TC------TTTC-AAAAAGTCAACTCATATTGCGAGAGGTGAGTTGA
127 GTAATTTCAATTTCTGTTTCTTGTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAA
*
41166193 GCTTCAG
192 GCCTCAG
41166200 ATTACACACT
Statistics
Matches: 795, Mismatches: 48, Indels: 76
0.87 0.05 0.08
Matches are distributed among these distances:
215 1 0.00
217 40 0.05
219 15 0.02
220 4 0.01
221 109 0.14
222 130 0.16
223 65 0.08
224 63 0.08
225 4 0.01
230 2 0.00
235 2 0.00
237 64 0.08
238 235 0.30
239 61 0.08
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (228 bp):
TCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
TCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAA
TTTCAATTTCTGTTTCTTGTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
CAGGACACGCTGAGGTAATTTCAATTTCTGTTG
Found at i:41165491 original size:88 final size:90
Alignment explanation
Indices: 41165384--41165560 Score: 252
Period size: 90 Copynumber: 2.0 Consensus size: 90
41165374 TGCTGAGGTA
* * * * *
41165384 TTTTCAATTTTTGTCTTTC-AAAAAA-TCAACTCATACTGCGAGATGTGAGTTGAGCCTCAAGG-
1 TTTTCAATTTATATCTTTCAAAAAAATTCAACTCATACTGCGAGAGGTGAGTTAAACCTC-AGGA
*
41165446 CACGTTGAGGTAATTTCAATTTCTGC
65 CACGCTGAGGTAATTTCAATTTCTGC
* *
41165472 TTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAACCTCAGGAC
1 TTTTCAATTTATATCTTTCAAAAAAATTCAACTCATACTGCGAGAGGTGAGTTAAACCTCAGGAC
41165537 ACGCTGAGGTAATTTCAATTTCTG
66 ACGCTGAGGTAATTTCAATTTCTG
41165561 TTGTCAAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
88 16 0.21
89 9 0.12
90 53 0.68
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (90 bp):
TTTTCAATTTATATCTTTCAAAAAAATTCAACTCATACTGCGAGAGGTGAGTTAAACCTCAGGAC
ACGCTGAGGTAATTTCAATTTCTGC
Found at i:41165672 original size:149 final size:147
Alignment explanation
Indices: 41165472--41166194 Score: 929
Period size: 149 Copynumber: 4.9 Consensus size: 147
41165462 CAATTTCTGC
* * * *
41165472 TTTTCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAACCTCAGGAC
1 TTTTCAATTTCT-GTTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
41165537 ACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
63 ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
* *
41165602 CCTTAAGACATGCTGAGGTA
128 CCTCAAGACACGCTGAGGTA
* * *
41165622 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
41165687 CGCTGAGGTAATTTCAATTTCTGTTGTT-AAAAAAATCAACTCATATTACGAGAAATGAGTTGAG
64 CGCTGAGGTAATTTCAATTTCTGTT-TTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
*
41165751 CCTCAGGACACGCTGAGGTA
128 CCTCAAGACACGCTGAGGTA
* * ** * *
41165771 ATTTCAATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * **
41165835 CTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGA
66 CTGAGGTAATTTCAATTTCTG-TTTTC---AAAAAAATCAACTCATATTGCGAGAAATGAGTTGA
*
41165900 GCCTCGAGACACGCTGAGGTA
127 GCCTCAAGACACGCTGAGGTA
* * * *
41165921 ATTTCAATTTCTATTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* *
41165985 CTGAGGTAATTTCAATTTCTGTTTTC--AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCT
66 CTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
* * *
41166048 CAAGATACGTTGAGGTT
131 CAAGACACGCTGAGGTA
*
41166065 TTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTCCAC
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---AC
* * * **
41166129 ATGCTGAGGTATTTTCAATTTCTGTCTTTC-AAAAAGTCAACTCATATTGCGAGAGGTGAGTTGA
63 ACGCTGAGGTAATTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGA
41166193 GC
127 GC
41166195 TTCAGATTAC
Statistics
Matches: 505, Mismatches: 55, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
144 63 0.12
145 36 0.07
146 61 0.12
147 27 0.05
148 8 0.02
149 161 0.32
150 149 0.30
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (147 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
CAAGACACGCTGAGGTA
Found at i:41167084 original size:21 final size:22
Alignment explanation
Indices: 41167060--41167109 Score: 93
Period size: 21 Copynumber: 2.3 Consensus size: 22
41167050 ATTAAGCCCA
41167060 AAAAAAAACCTAACCCCCC-CC
1 AAAAAAAACCTAACCCCCCTCC
41167081 AAAAAAAACCTAACCCCCCTCC
1 AAAAAAAACCTAACCCCCCTCC
41167103 AAAAAAA
1 AAAAAAA
41167110 GCCAAGAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.54, C:0.40, G:0.00, T:0.06
Consensus pattern (22 bp):
AAAAAAAACCTAACCCCCCTCC
Found at i:41169181 original size:28 final size:28
Alignment explanation
Indices: 41169150--41169361 Score: 300
Period size: 28 Copynumber: 7.6 Consensus size: 28
41169140 TGATATTTCA
41169150 CACACTAAGTGCCATAC-CAAATGTCTCG
1 CACACTAAGTGCCATACTC-AATGTCTCG
* *
41169178 CACACTAAGTGTCATATTCAATGTCTCG
1 CACACTAAGTGCCATACTCAATGTCTCG
* *
41169206 CACACTAAGTGCCATACTCAACGTCTTG
1 CACACTAAGTGCCATACTCAATGTCTCG
41169234 CACACTAAGTGCCATACTCAATGTCTCG
1 CACACTAAGTGCCATACTCAATGTCTCG
*
41169262 CACACTAAGTGCCATACTCAATGTATCG
1 CACACTAAGTGCCATACTCAATGTCTCG
*
41169290 CACACTAAGTGCCATACTCAATGTCTTG
1 CACACTAAGTGCCATACTCAATGTCTCG
*** **
41169318 CACACTAAGTGTTGTACTCAATGTCTTA
1 CACACTAAGTGCCATACTCAATGTCTCG
*
41169346 TACACTAAGTGCCATA
1 CACACTAAGTGCCATA
41169362 TATAGTCGAA
Statistics
Matches: 164, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
28 163 0.99
29 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
CACACTAAGTGCCATACTCAATGTCTCG
Found at i:41169407 original size:40 final size:40
Alignment explanation
Indices: 41169347--41169437 Score: 155
Period size: 40 Copynumber: 2.3 Consensus size: 40
41169337 AATGTCTTAT
*
41169347 ACACTAAGTGCCATATATAGTCGAAGCTATCTTAAATCGC
1 ACACTAAGTGCCATATATAGTCAAAGCTATCTTAAATCGC
* *
41169387 ACACAAAGTGCCGTATATAGTCAAAGCTATCTTAAATCGC
1 ACACTAAGTGCCATATATAGTCAAAGCTATCTTAAATCGC
41169427 ACACTAAGTGC
1 ACACTAAGTGC
41169438 TAAACATAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGTCAAAGCTATCTTAAATCGC
Found at i:41170607 original size:20 final size:21
Alignment explanation
Indices: 41170584--41170633 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
41170574 TTAAATTCTA
41170584 AAAGATAAATATAA-ATAAAT-
1 AAAGATAAATA-AAGATAAATG
*
41170604 AAAGATAATTAAAGATAAATG
1 AAAGATAAATAAAGATAAATG
41170625 AAA-ATAAAT
1 AAAGATAAAT
41170634 CCTAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (21 bp):
AAAGATAAATAAAGATAAATG
Found at i:41173770 original size:21 final size:21
Alignment explanation
Indices: 41173746--41173795 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
41173736 TGGGGATGAT
41173746 GAGCCGTGTGA-TGGAGAGGAG
1 GAGCCGTGTGACT-GAGAGGAG
41173767 GAGCCGTGTGACTGAGAGGAG
1 GAGCCGTGTGACTGAGAGGAG
41173788 GAGCCGTG
1 GAGCCGTG
41173796 CGACGAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.22, C:0.14, G:0.50, T:0.14
Consensus pattern (21 bp):
GAGCCGTGTGACTGAGAGGAG
Found at i:41173807 original size:21 final size:21
Alignment explanation
Indices: 41173762--41173803 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
41173752 TGTGATGGAG
* *
41173762 AGGAGGAGCCGTGTGACTGAG
1 AGGAGGAGCCGTGCGACTGAA
41173783 AGGAGGAGCCGTGCGAC-GAA
1 AGGAGGAGCCGTGCGACTGAA
41173803 A
1 A
41173804 AGGAAGAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.29, C:0.17, G:0.45, T:0.10
Consensus pattern (21 bp):
AGGAGGAGCCGTGCGACTGAA
Found at i:41174279 original size:7 final size:6
Alignment explanation
Indices: 41174253--41174293 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
41174243 AAGAAGAGAT
*
41174253 AAAAT- AAAATA AAAATA AAAATAA AAAATA AAAGTA AAAAT
1 AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA AAAAT
41174294 TGGGTTGCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
5 5 0.16
6 21 0.66
7 6 0.19
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:41174281 original size:13 final size:13
Alignment explanation
Indices: 41174253--41174292 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
41174243 AAGAAGAGAT
41174253 AAAAT-AAAAT-A
1 AAAATAAAAATAA
41174264 AAAATAAAAATAA
1 AAAATAAAAATAA
*
41174277 AAAATAAAAGTAA
1 AAAATAAAAATAA
41174290 AAA
1 AAA
41174293 TTGGGTTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
13 16 0.62
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:41180660 original size:10 final size:10
Alignment explanation
Indices: 41180641--41180690 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
41180631 TTAAATTTTA
41180641 AAAGATAAAT
1 AAAGATAAAT
41180651 ACAA-ATAAAT
1 A-AAGATAAAT
*
41180661 AAAGATAATT
1 AAAGATAAAT
41180671 AAAGATAAAT
1 AAAGATAAAT
41180681 GAAA-ATAAAT
1 -AAAGATAAAT
41180691 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:41186663 original size:21 final size:21
Alignment explanation
Indices: 41186637--41186679 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
41186627 TTAAAGTGTC
41186637 TTAGCTACTACACGTTTTAAA
1 TTAGCTACTACACGTTTTAAA
*
41186658 TTAGCTCCTACACGTTTTAAA
1 TTAGCTACTACACGTTTTAAA
41186679 T
1 T
41186680 GTGTCCTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (21 bp):
TTAGCTACTACACGTTTTAAA
Found at i:41190105 original size:19 final size:20
Alignment explanation
Indices: 41190064--41190107 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
41190054 GTGAGAGTGC
*
41190064 AAAAGAAAAGAAAACCAAGA
1 AAAAGAAAAGAAAAACAAGA
* *
41190084 AAAAGAAAGGAAAAATAA-A
1 AAAAGAAAAGAAAAACAAGA
41190103 AAAAG
1 AAAAG
41190108 GGAATGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAGAAAAACAAGA
Found at i:41193284 original size:27 final size:28
Alignment explanation
Indices: 41193254--41193322 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
41193244 TTTTAATGCT
41193254 TGTTTTTAATATGTCATAGT-TAGTACA
1 TGTTTTTAATATGTCATAGTCTAGTACA
* * * *
41193281 TGTTATTAATTTGTCTTAGTCTATTACA
1 TGTTTTTAATATGTCATAGTCTAGTACA
*
41193309 TATTTTTAATATGT
1 TGTTTTTAATATGT
41193323 TCTAGCTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.54
Consensus pattern (28 bp):
TGTTTTTAATATGTCATAGTCTAGTACA
Found at i:41193317 original size:28 final size:27
Alignment explanation
Indices: 41193256--41193322 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
41193246 TTAATGCTTG
*
41193256 TTTTTAATATGTCATAGTTAGTACATG
1 TTTTTAATATGTCATAGTTAGTACATA
* * * *
41193283 TTATTAATTTGTCTTAGTCTATTACATA
1 TTTTTAATATGTCATAGT-TAGTACATA
41193311 TTTTTAATATGT
1 TTTTTAATATGT
41193323 TCTAGCTTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
27 15 0.47
28 17 0.53
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.54
Consensus pattern (27 bp):
TTTTTAATATGTCATAGTTAGTACATA
Found at i:41194779 original size:23 final size:23
Alignment explanation
Indices: 41194753--41194825 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
41194743 GCTCGATTCA
* *
41194753 TTTAGCGTTTGTGAACATGTTCG
1 TTTAGTGTTCGTGAACATGTTCG
*
41194776 TTTAGTGTTCGCGAACATGTTCG
1 TTTAGTGTTCGTGAACATGTTCG
* *
41194799 TTTAGTGTTCGTCAACATGTTCA
1 TTTAGTGTTCGTGAACATGTTCG
41194822 TTTA
1 TTTA
41194826 TATTCACGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (23 bp):
TTTAGTGTTCGTGAACATGTTCG
Found at i:41197159 original size:12 final size:12
Alignment explanation
Indices: 41197142--41197168 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
41197132 GAAAATAGGG
41197142 TTTTAGCGGCGT
1 TTTTAGCGGCGT
41197154 TTTTAGCGGCGT
1 TTTTAGCGGCGT
41197166 TTT
1 TTT
41197169 ATCAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:41197443 original size:41 final size:41
Alignment explanation
Indices: 41197199--41197445 Score: 318
Period size: 41 Copynumber: 6.0 Consensus size: 41
41197189 TTGTAAAACA
* * * *
41197199 CAGATCAATAGCGGCGTTTTTGGTAAAACGCCACTAAAA-A
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* *
41197239 CAGAGCAATAGCGGCGCTTTTTGTTAAAACGCCGCTAAAA-A
1 CAGAGCAATAGCGGCGC-TTTTGGTAAAACGCCGCTAAAAGT
* * * *
41197280 AAGAGAAATACCGGCGCTTTTGGTCAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* **
41197321 CGGAGCAATAGCGGCGCTTCCGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* *
41197362 CGGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* *
41197403 CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
41197444 CA
1 CA
41197446 TATAACCCCT
Statistics
Matches: 183, Mismatches: 22, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
40 35 0.19
41 148 0.81
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
Found at i:41197678 original size:7 final size:7
Alignment explanation
Indices: 41197666--41197729 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
41197656 TTTATTTTTT
*
41197666 GGTTTAC
1 GGTTTAA
41197673 GGTTTAA
1 GGTTTAA
**
41197680 TATTTAA
1 GGTTTAA
41197687 GGTTTAA
1 GGTTTAA
* *
41197694 GGTCTAT
1 GGTTTAA
*
41197701 GGTTTAG
1 GGTTTAA
*
41197708 GGTTTTAT
1 GG-TTTAA
41197716 GGTTTAA
1 GGTTTAA
41197723 GGTTTAA
1 GGTTTAA
41197730 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:41197718 original size:15 final size:15
Alignment explanation
Indices: 41197682--41197732 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
41197672 CGGTTTAATA
*
41197682 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* *
41197696 TCTATGGTTTAGGGT
1 TTTATGGTTTAAGGT
41197711 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
41197726 TTAATGG
1 TTTATGG
41197733 CCATGGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:41198345 original size:8 final size:8
Alignment explanation
Indices: 41198334--41198410 Score: 106
Period size: 8 Copynumber: 10.0 Consensus size: 8
41198324 ACTCAAAAAA
41198334 TAAAAATT
1 TAAAAATT
41198342 TAAAAATT
1 TAAAAATT
41198350 TAAAAATT
1 TAAAAATT
41198358 TAAAAATT
1 TAAAAATT
41198366 TAAAAA-T
1 TAAAAATT
41198373 T-AAAATT
1 TAAAAATT
41198380 TAAAAA-T
1 TAAAAATT
*
41198387 AAAAAATT
1 TAAAAATT
* *
41198395 AAAAAACT
1 TAAAAATT
41198403 TAAAAATT
1 TAAAAATT
41198411 AATATTTTAG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
6 4 0.06
7 10 0.16
8 48 0.77
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (8 bp):
TAAAAATT
Found at i:41198346 original size:14 final size:14
Alignment explanation
Indices: 41198342--41198399 Score: 80
Period size: 14 Copynumber: 4.0 Consensus size: 14
41198332 AATAAAAATT
41198342 TAAAAATTTAAAAA
1 TAAAAATTTAAAAA
41198356 TTTAAAAATTTAAAAA
1 --TAAAAATTTAAAAA
*
41198372 TTAAAATTTAAAAA
1 TAAAAATTTAAAAA
*
41198386 TAAAAAATTAAAAA
1 TAAAAATTTAAAAA
41198400 ACTTAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
14 25 0.64
16 14 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAAATTTAAAAA
Found at i:41199667 original size:17 final size:17
Alignment explanation
Indices: 41199645--41199677 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41199635 TGGAAGAAGA
*
41199645 AATGGGTTTTCTGAAAC
1 AATGGGTTTTCAGAAAC
41199662 AATGGGTTTTCAGAAA
1 AATGGGTTTTCAGAAA
41199678 GAAAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (17 bp):
AATGGGTTTTCAGAAAC
Found at i:41201130 original size:17 final size:18
Alignment explanation
Indices: 41201110--41201147 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
41201100 CATTGATATC
41201110 TTTA-TATTTAATTTAAT
1 TTTATTATTTAATTTAAT
* *
41201127 TTTATTATTTATTTTAGT
1 TTTATTATTTAATTTAAT
41201145 TTT
1 TTT
41201148 GATTCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTATTATTTAATTTAAT
Found at i:41201166 original size:19 final size:21
Alignment explanation
Indices: 41201138--41201185 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
41201128 TTATTATTTA
41201138 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
41201158 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
41201178 TTTTAGTT
1 TTTTAGTT
41201186 AAAAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:41201284 original size:27 final size:28
Alignment explanation
Indices: 41201249--41201302 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
41201239 TATTTTGATA
*
41201249 ATGAATTTTA-AATTTTTTATATTTTTC
1 ATGAATTTTATAATATTTTATATTTTTC
* *
41201276 ATGACTTTTATAATATTTTATTTTTTT
1 ATGAATTTTATAATATTTTATATTTTT
41201303 TAAAATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (28 bp):
ATGAATTTTATAATATTTTATATTTTTC
Found at i:41201383 original size:43 final size:43
Alignment explanation
Indices: 41201317--41201455 Score: 214
Period size: 43 Copynumber: 3.3 Consensus size: 43
41201307 ATTTCATTAT
* *
41201317 CTTTAGTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGAC
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAC
41201360 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAC
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAC
* *
41201403 CTGTAGCGGCGTTTGT-GG---AGCGCCGCTAAAGGTAATGAC
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAC
41201442 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
41201456 TTTTAAATAA
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 33 0.36
42 2 0.02
43 56 0.62
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAC
Found at i:41205268 original size:7 final size:7
Alignment explanation
Indices: 41205256--41205286 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
41205246 TTGTCCTCAT
41205256 AACAAGA
1 AACAAGA
41205263 AACAAGA
1 AACAAGA
41205270 AACAAGA
1 AACAAGA
41205277 AACAAGA
1 AACAAGA
41205284 AAC
1 AAC
41205287 TGGGTTAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.71, C:0.16, G:0.13, T:0.00
Consensus pattern (7 bp):
AACAAGA
Found at i:41206383 original size:30 final size:31
Alignment explanation
Indices: 41206347--41206404 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
41206337 ACTTAACAAG
41206347 CAAATGCCTCTAAAATAATAA-AAAATTTAA
1 CAAATGCCTCTAAAATAATAACAAAATTTAA
*
41206377 CAAATGCCTTTAAAATAATAACAAAATT
1 CAAATGCCTCTAAAATAATAACAAAATT
41206405 AATAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.28
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAACAAAATTTAA
Found at i:41209659 original size:29 final size:29
Alignment explanation
Indices: 41209600--41209659 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
41209590 TATGGTTTAA
* *
41209600 TGTGCAAATGTATACATGAACTTTGATTT
1 TGTGCAAATGTATACATGAAATTTGAATT
* * * *
41209629 TGTGCAATTTTATCCATGAAATTTTAATT
1 TGTGCAAATGTATACATGAAATTTGAATT
41209658 TG
1 TG
41209660 ATCCAATTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (29 bp):
TGTGCAAATGTATACATGAAATTTGAATT
Found at i:41223446 original size:38 final size:37
Alignment explanation
Indices: 41223386--41223464 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 37
41223376 AAATTCAAAA
41223386 AAAATTATAAAAACTATGTTTAAAAATTAAAAATTATT
1 AAAATTATAAAAACTATGTTTAAAAATTAAAAATT-TT
* * * * *
41223424 AAAATTCTAAAAAAC-ATTTTTAATATTTTAAAATTTT
1 AAAATTAT-AAAAACTATGTTTAAAAATTAAAAATTTT
41223461 AAAA
1 AAAA
41223465 AATTAATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 6 0.17
38 23 0.66
39 6 0.17
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (37 bp):
AAAATTATAAAAACTATGTTTAAAAATTAAAAATTTT
Found at i:41223455 original size:21 final size:20
Alignment explanation
Indices: 41223414--41223456 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
41223404 TTTAAAAATT
41223414 AAAAATTATTAAAATTCTAA
1 AAAAATTATTAAAATTCTAA
* * *
41223434 AAAACATTTTTAATATTTTAA
1 AAAA-ATTATTAAAATTCTAA
41223455 AA
1 AA
41223457 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTATTAAAATTCTAA
Found at i:41223477 original size:29 final size:32
Alignment explanation
Indices: 41223410--41223482 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 32
41223400 TATGTTTAAA
*
41223410 AATTAAAAATTATTAAAATTCTAAAAAACATT
1 AATTAAATATTATTAAAATTCTAAAAAACATT
* *
41223442 --TTTAATATT-TTAAAATT-TTAAAAA-ATT
1 AATTAAATATTATTAAAATTCTAAAAAACATT
41223469 AATTAAATACTTAT
1 AATTAAATA-TTAT
41223483 GTGTCATCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
27 3 0.09
28 6 0.18
29 14 0.42
30 9 0.27
31 1 0.03
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (32 bp):
AATTAAATATTATTAAAATTCTAAAAAACATT
Found at i:41225247 original size:24 final size:25
Alignment explanation
Indices: 41225210--41225257 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
41225200 TTTTATAAAT
41225210 AAAAAATTTATTT-ATTAAAAACAA
1 AAAAAATTTATTTAATTAAAAACAA
*
41225234 AAAAAATATT-TTTAATTATAAACA
1 AAAAAAT-TTATTTAATTAAAAACA
41225258 TTAATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAAAATTTATTTAATTAAAAACAA
Found at i:41227486 original size:45 final size:45
Alignment explanation
Indices: 41227419--41227716 Score: 241
Period size: 45 Copynumber: 6.6 Consensus size: 45
41227409 TTCAAGGATA
* * * *
41227419 CCATAGCGTCTTTCAACCATGGTCTTATTAATTTCCGACAT-GATG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATATAG-TG
* *
41227464 CCATAGTGTCTTTCAACTATGGTCTTTTTCATTTTCG-TCAT-GTTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGAT-ATAG-TG
* * * *
41227509 -CATAATATCTTTCAATTATAGTCTTATTCATTTCC-AGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGA-TATAGTG
* * * *
41227553 TCATGGTGTCTTTCAACTATGATCTTATTCATTTTC-AGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGA-TATAGTG
* ** * *
41227598 TCATAGTGTCTTTCAACTATGGTAGTATTCATTTCTGGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATATAGTG
* * * *
41227643 CCAAAGTTTCTTTCAACTATGGTTTTATTCATTTTC-AGTATAGTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGA-TATAGTG
* * * * *
41227688 TCACAATGTCTTTTAACTATGGTTTTATT
1 CCATAGTGTCTTTCAACTATGGTCTTATT
41227717 TGTTTTTCAA
Statistics
Matches: 206, Mismatches: 40, Indels: 14
0.79 0.15 0.05
Matches are distributed among these distances:
44 33 0.16
45 173 0.84
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.45
Consensus pattern (45 bp):
CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGATATAGTG
Found at i:41227641 original size:90 final size:90
Alignment explanation
Indices: 41227462--41227710 Score: 297
Period size: 90 Copynumber: 2.8 Consensus size: 90
41227452 TCCGACATGA
* * *
41227462 TGCCATAGTGTCTTTCAACTATGGTCTTTTTCATTTTC-GTCAT-GT-TGCATAATATCTTTCAA
1 TGCCAAAGTGTCTTTCAACTATGGTCTTATTCATTTTCAGT-ATAGTGT-CATAATGTCTTTCAA
* * **
41227524 TTATAGTCTTATTCATTTCCAGTATAG
64 CTATGGTAGTATTCATTTCCAGTATAG
* ** * *
41227551 TGTCATGGTGTCTTTCAACTATGATCTTATTCATTTTCAGTATAGTGTCATAGTGTCTTTCAACT
1 TGCCAAAGTGTCTTTCAACTATGGTCTTATTCATTTTCAGTATAGTGTCATAATGTCTTTCAACT
**
41227616 ATGGTAGTATTCATTTCTGGTATAG
66 ATGGTAGTATTCATTTCCAGTATAG
* * * *
41227641 TGCCAAAGTTTCTTTCAACTATGGTTTTATTCATTTTCAGTATAGTGTCACAATGTCTTTTAACT
1 TGCCAAAGTGTCTTTCAACTATGGTCTTATTCATTTTCAGTATAGTGTCATAATGTCTTTCAACT
41227706 ATGGT
66 ATGGT
41227711 TTTATTTGTT
Statistics
Matches: 136, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
89 36 0.26
90 99 0.73
91 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.46
Consensus pattern (90 bp):
TGCCAAAGTGTCTTTCAACTATGGTCTTATTCATTTTCAGTATAGTGTCATAATGTCTTTCAACT
ATGGTAGTATTCATTTCCAGTATAG
Found at i:41227716 original size:135 final size:134
Alignment explanation
Indices: 41227465--41227708 Score: 314
Period size: 135 Copynumber: 1.8 Consensus size: 134
41227455 GACATGATGC
** * *
41227465 CATAGTGTCTTTCAACTATGGTCTTTTTCATTTTCGTCATGTTGCATAATATCTTTCAATTATAG
1 CATAGTGTCTTTCAACTATGGTAGTATTCATTTTCGTCATGTTGCATAATATCTTTCAACTATAG
***
41227530 TCTTATTCATTTCCAGTATAGTGTCATGGTGTCTTTCAACTATGATCTTATTCATTTTCAGTATA
66 TCTTATTCATTTCCAGTATAGTGTCACAATGTCTTTCAACTATGATCTTATTCATTTTCAGTATA
41227595 GTGT
131 GTGT
* *
41227599 CATAGTGTCTTTCAACTATGGTAGTATTCATTTCTGGT-ATAG-TGCCA-AAGTTTCTTTCAACT
1 CATAGTGTCTTTCAACTATGGTAGTATTCATTT-TCGTCAT-GTTG-CATAA-TATCTTTCAACT
* * * *
41227661 ATGGTTTTATTCATTTTCAGTATAGTGTCACAATGTCTTTTAACTATG
62 ATAGTCTTATTCATTTCCAGTATAGTGTCACAATGTCTTTCAACTATG
41227709 GTTTTATTTG
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
134 36 0.39
135 57 0.61
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.46
Consensus pattern (134 bp):
CATAGTGTCTTTCAACTATGGTAGTATTCATTTTCGTCATGTTGCATAATATCTTTCAACTATAG
TCTTATTCATTTCCAGTATAGTGTCACAATGTCTTTCAACTATGATCTTATTCATTTTCAGTATA
GTGT
Found at i:41230605 original size:73 final size:73
Alignment explanation
Indices: 41230485--41230686 Score: 242
Period size: 73 Copynumber: 2.8 Consensus size: 73
41230475 CAGACATATT
** ** ** *
41230485 AATTGCTTGTCTGAGCTGAACATATAATCATGTCAAGTTACTTGTTTGGGCTAAACCTTTATGTC
1 AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
41230550 AATACATC
66 AATACATC
*
41230558 AATTGCTCATCTGAGCTGACCATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
1 AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
*
41230623 AATACATT
66 AATACATC
* * * ** * * **
41230631 AGTTGCTCATTTGAACTGAACATATAATTGTGTCAGGTTACCTGTCCGGGCTAAAA
1 AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAA
41230687 CTTAATGTAG
Statistics
Matches: 110, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 110 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (73 bp):
AATTGCTCATCTGAGCTGAACATATAATCATGTCAAGTTACCCGTTTGGGCTAAAAATTTATATC
AATACATC
Found at i:41234656 original size:8 final size:8
Alignment explanation
Indices: 41234623--41234672 Score: 64
Period size: 9 Copynumber: 5.8 Consensus size: 8
41234613 TAGCTAATTG
41234623 TTTTATTT
1 TTTTATTT
41234631 TATTTATTT
1 T-TTTATTT
41234640 CTTTATATTT
1 -TTT-TATTT
41234650 TTTTATTT
1 TTTTATTT
41234658 TTTTACTTT
1 TTTTA-TTT
41234667 TTTTAT
1 TTTTAT
41234673 AAATTAATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
8 12 0.32
9 20 0.53
10 6 0.16
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTATTT
Found at i:41234656 original size:18 final size:16
Alignment explanation
Indices: 41234623--41234672 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 16
41234613 TAGCTAATTG
41234623 TTTTATTTTATTTATTT
1 TTTTATTTT-TTTATTT
41234640 CTTTATATTTTTTTATTT
1 -TTT-TATTTTTTTATTT
41234658 TTTTACTTTTTTTAT
1 TTTTA-TTTTTTTAT
41234673 AAATTAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.07
17 12 0.40
18 10 0.33
19 6 0.20
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTTTTTATTT
Found at i:41242410 original size:62 final size:62
Alignment explanation
Indices: 41242331--41242483 Score: 177
Period size: 62 Copynumber: 2.5 Consensus size: 62
41242321 CATGTGACTC
* * *
41242331 ACACAGTCGGGGCACACGTCCATGTCCCTAGTCATGTGG-CTTTGCT-CCACAAATAGTGAGTT
1 ACACAGCCTGGGCACACGTCCATGTCCCTAGCCATGTGGTC-TTG-TACCACAAATAGTGAGTT
* * *
41242393 ACACAGCCTGGGCACACGGT-CGTGTCCCTGGCCGTGTGGTCTTGTACCACAAATAGTGAGTT
1 ACACAGCCTGGGCACAC-GTCCATGTCCCTAGCCATGTGGTCTTGTACCACAAATAGTGAGTT
* * *
41242455 ACACAGCTTGGGCACACGCCCCTGTCCCT
1 ACACAGCCTGGGCACACGTCCATGTCCCT
41242484 GGCCGTGAGA
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
61 2 0.03
62 73 0.94
63 3 0.04
ACGTcount: A:0.20, C:0.31, G:0.25, T:0.24
Consensus pattern (62 bp):
ACACAGCCTGGGCACACGTCCATGTCCCTAGCCATGTGGTCTTGTACCACAAATAGTGAGTT
Found at i:41245440 original size:10 final size:8
Alignment explanation
Indices: 41245418--41245442 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
41245408 CATCCATTTT
41245418 AATATATC
1 AATATATC
41245426 AATATATC
1 AATATATC
41245434 AATATATC
1 AATATATC
41245442 A
1 A
41245443 TGTGCCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (8 bp):
AATATATC
Found at i:41245711 original size:21 final size:21
Alignment explanation
Indices: 41245687--41245828 Score: 158
Period size: 21 Copynumber: 6.8 Consensus size: 21
41245677 GAAGCTCGAA
* *
41245687 AGCTGAACAGAAGCTCATAAA
1 AGCTGAACAAAAGCTCATAAG
*
41245708 AGCTGAACAAAAACTCATAAG
1 AGCTGAACAAAAGCTCATAAG
* * *
41245729 AGTTGAACAGAAGCTCGTAAG
1 AGCTGAACAAAAGCTCATAAG
* *
41245750 AGCTAAACAAAAACTCATAAG
1 AGCTGAACAAAAGCTCATAAG
* **
41245771 AGTTGAACAAAAGCTTGTAAG
1 AGCTGAACAAAAGCTCATAAG
* **
41245792 AGCTAAACAAAAGCTTGTAAG
1 AGCTGAACAAAAGCTCATAAG
41245813 AGCTGAACAAAAGCTC
1 AGCTGAACAAAAGCTC
41245829 GAAAGTGCTA
Statistics
Matches: 100, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 100 1.00
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (21 bp):
AGCTGAACAAAAGCTCATAAG
Found at i:41245737 original size:42 final size:42
Alignment explanation
Indices: 41245690--41245842 Score: 198
Period size: 42 Copynumber: 3.6 Consensus size: 42
41245680 GCTCGAAAGC
* * * *
41245690 TGAACAGAAGCTCATAAAAGCTGAACAAAAACTCATAAGAGT
1 TGAACAAAAGCTCGTAAGAGCTAAACAAAAACTCATAAGAGT
*
41245732 TGAACAGAAGCTCGTAAGAGCTAAACAAAAACTCATAAGAGT
1 TGAACAAAAGCTCGTAAGAGCTAAACAAAAACTCATAAGAGT
* * ** *
41245774 TGAACAAAAGCTTGTAAGAGCTAAACAAAAGCTTGTAAGAGC
1 TGAACAAAAGCTCGTAAGAGCTAAACAAAAACTCATAAGAGT
* *
41245816 TGAACAAAAGCTCGAAAGTGCTAAACA
1 TGAACAAAAGCTCGTAAGAGCTAAACA
41245843 GAAAGTAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 99 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (42 bp):
TGAACAAAAGCTCGTAAGAGCTAAACAAAAACTCATAAGAGT
Found at i:41245778 original size:63 final size:63
Alignment explanation
Indices: 41245676--41245824 Score: 176
Period size: 63 Copynumber: 2.4 Consensus size: 63
41245666 ATACGGCAAA
* * * *
41245676 AGAAGCTCG-AA-AGCTGAACAGAAGCTCATAAAAGCTGAACAAAAACTCATAAGAGTTGAAC
1 AGAAGCTCGTAAGAGCTGAACAAAAACTCATAAAAGCTGAACAAAAACTCATAAGAGCTAAAC
* * * * **
41245737 AGAAGCTCGTAAGAGCTAAACAAAAACTCATAAGAGTTGAACAAAAGCTTGTAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTGAACAAAAACTCATAAAAGCTGAACAAAAACTCATAAGAGCTAAAC
* *
41245800 AAAAGCTTGTAAGAGCTGAACAAAA
1 AGAAGCTCGTAAGAGCTGAACAAAA
41245825 GCTCGAAAGT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
61 9 0.12
62 2 0.03
63 62 0.85
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (63 bp):
AGAAGCTCGTAAGAGCTGAACAAAAACTCATAAAAGCTGAACAAAAACTCATAAGAGCTAAAC
Found at i:41245842 original size:21 final size:21
Alignment explanation
Indices: 41245678--41245847 Score: 146
Period size: 21 Copynumber: 8.1 Consensus size: 21
41245668 ACGGCAAAAG
* *
41245678 AAGCTCG-AA-AGCTGAACAG
1 AAGCTCGTAAGAGCTAAACAA
* * *
41245697 AAGCTCATAAAAGCTGAACAA
1 AAGCTCGTAAGAGCTAAACAA
* * * * *
41245718 AAACTCATAAGAGTTGAACAG
1 AAGCTCGTAAGAGCTAAACAA
41245739 AAGCTCGTAAGAGCTAAACAA
1 AAGCTCGTAAGAGCTAAACAA
* * * *
41245760 AAACTCATAAGAGTTGAACAA
1 AAGCTCGTAAGAGCTAAACAA
*
41245781 AAGCTTGTAAGAGCTAAACAA
1 AAGCTCGTAAGAGCTAAACAA
* *
41245802 AAGCTTGTAAGAGCTGAACAA
1 AAGCTCGTAAGAGCTAAACAA
* *
41245823 AAGCTCGAAAGTGCTAAACAGA
1 AAGCTCGTAAGAGCTAAACA-A
41245845 AAG
1 AAG
41245848 TAAAATACGA
Statistics
Matches: 123, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
19 6 0.05
20 2 0.02
21 111 0.90
22 4 0.03
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (21 bp):
AAGCTCGTAAGAGCTAAACAA
Found at i:41247434 original size:29 final size:29
Alignment explanation
Indices: 41247361--41247434 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 29
41247351 ATGTTTAGGG
41247361 TTAGGG-TTAGGGTTTTTGAAAAAATAAA
1 TTAGGGTTTAGGGTTTTTGAAAAAATAAA
* *
41247389 TTAGGGTTTATGGTTTTTG-AAAATTAAA
1 TTAGGGTTTAGGGTTTTTGAAAAAATAAA
*
41247417 TTTGGGTTTAGGGTTTTT
1 TTAGGGTTTAGGGTTTTT
41247435 AATAGGTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 30 0.73
29 11 0.27
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (29 bp):
TTAGGGTTTAGGGTTTTTGAAAAAATAAA
Found at i:41247691 original size:126 final size:126
Alignment explanation
Indices: 41247502--41247931 Score: 562
Period size: 126 Copynumber: 3.4 Consensus size: 126
41247492 TTTTTGTATA
* * * * *
41247502 GTCAACAAAAGTACTG-AAAAAGCT-CTCAACTAGACACTCTTTTTGTACATTAGTTTCTTAAAA
1 GTCAACAAAAGTACTGAAAAAAGCTCCT-AGCTGGACACTCTTTTTGTACAGTAGTTTATGAAAA
* * * *
41247565 AGTAATTTTGAGAAGATAGTTCTAAAAAAATAGGTTGAAAAACATTTCAAGCAGGATGCACT
65 AATAATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACATTTCAAGTAGGATGCACT
* * * * **
41247627 GTCAACAAAAGTATTGAAAAAAGCTTCTAGCTGGACACTGTTTTTGTATAGTAAATTATGAAAAA
1 GTCAACAAAAGTACTGAAAAAAGCTCCTAGCTGGACACTCTTTTTGTACAGTAGTTTATGAAAAA
* * * * *
41247692 ATAATTTTGAGAAGATGGTTCTGAAAAAGTAGG-TCAAAAA-ATGCTTCAAGTAAGATACGCT
66 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACAT--TTCAAGTAGGATGCACT
* * * * *
41247753 GTCAGCAAAAGTATTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGAACAGTAGTTTTTGAAAAA
1 GTCAACAAAAGTACTGAAAAAAGCTCCTAGCTGGACACTCTTTTTGTACAGTAGTTTATGAAAAA
41247818 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACATTTCAAGTAGGATGCACT
66 ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACATTTCAAGTAGGATGCACT
* *
41247879 ATCAGCAAAAGTACTGAAAAAAGCTCCTAGCTGGACACTCTTTTTGTACAGTA
1 GTCAACAAAAGTACTGAAAAAAGCTCCTAGCTGGACACTCTTTTTGTACAGTA
41247932 CATTCTGCTT
Statistics
Matches: 262, Mismatches: 37, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
124 2 0.01
125 21 0.08
126 229 0.87
127 8 0.03
128 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (126 bp):
GTCAACAAAAGTACTGAAAAAAGCTCCTAGCTGGACACTCTTTTTGTACAGTAGTTTATGAAAAA
ATAATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACATTTCAAGTAGGATGCACT
Found at i:41248028 original size:25 final size:25
Alignment explanation
Indices: 41247999--41248071 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
41247989 TTACATCAAG
41247999 AGAAATTGAAGAAGTTTAGAAGGAT
1 AGAAATTGAAGAAGTTTAGAAGGAT
* * * *
41248024 AGAAATTAAAGAAGTTCAAAAGAAT
1 AGAAATTGAAGAAGTTTAGAAGGAT
*
41248049 AAAAATTGAAGAA-TTTGAGAAGG
1 AGAAATTGAAGAAGTTT-AGAAGG
41248072 TATAAGTTGA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 2 0.05
25 36 0.95
ACGTcount: A:0.53, C:0.01, G:0.23, T:0.22
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTTAGAAGGAT
Found at i:41251171 original size:60 final size:59
Alignment explanation
Indices: 41251105--41251232 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 59
41251095 TGTATTACCT
*
41251105 TATTCAAAAGAACTTCTATTTTATTAAATATGACAA-AATATAAAAATAATTTATACAAA-A
1 TATTCAAAACAACTTCTATTTTATT-AA-ATGA-AACAATATAAAAATAATTTATACAAATA
* * * *
41251165 TATTCAAAACAACTTTTGTTTTATTAAATGAAACAATATAAAAATAATTTGTATAAATA
1 TATTCAAAACAACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTATACAAATA
*
41251224 TATTAAAAA
1 TATTCAAAA
41251233 AATAAATGCA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
57 2 0.03
58 25 0.42
59 11 0.18
60 22 0.37
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (59 bp):
TATTCAAAACAACTTCTATTTTATTAAATGAAACAATATAAAAATAATTTATACAAATA
Found at i:41254872 original size:21 final size:20
Alignment explanation
Indices: 41254839--41254880 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
41254829 GATTCAAAAT
41254839 AACTCTAAAGGTGCAATGTC
1 AACTCTAAAGGTGCAATGTC
*
41254859 AACTCCTAGAGGTGCAATGTC
1 AACT-CTAAAGGTGCAATGTC
41254880 A
1 A
41254881 TCTGAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
AACTCTAAAGGTGCAATGTC
Found at i:41255484 original size:13 final size:13
Alignment explanation
Indices: 41255466--41255490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41255456 AAATTAATTC
41255466 AAGATTTAAATCT
1 AAGATTTAAATCT
41255479 AAGATTTAAATC
1 AAGATTTAAATC
41255491 ACATCAATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (13 bp):
AAGATTTAAATCT
Found at i:41261068 original size:13 final size:13
Alignment explanation
Indices: 41261050--41261089 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
41261040 ATGGGGGTAG
41261050 GATTCTGTATATCT
1 GATTCTGT-TATCT
41261064 G-TTCTGCTTATCT
1 GATTCTG-TTATCT
41261077 GATTCTGTTATCT
1 GATTCTGTTATCT
41261090 ATATCTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 17 0.71
14 7 0.29
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.53
Consensus pattern (13 bp):
GATTCTGTTATCT
Found at i:41261960 original size:33 final size:33
Alignment explanation
Indices: 41261923--41261990 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
41261913 GGTTTATGCT
*
41261923 TTTTCAATTTGTACAAGCTCGAGGGAGTTTTTG
1 TTTTCAATTTGTACAAACTCGAGGGAGTTTTTG
*
41261956 TTTTCAATTTGTACAAACTTGAGGGAGTTTTTG
1 TTTTCAATTTGTACAAACTCGAGGGAGTTTTTG
41261989 TT
1 TT
41261991 CCCTATGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.46
Consensus pattern (33 bp):
TTTTCAATTTGTACAAACTCGAGGGAGTTTTTG
Found at i:41273785 original size:15 final size:14
Alignment explanation
Indices: 41273761--41273791 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
41273751 ATTTAGTTAA
41273761 TACCTTAATCGAAT
1 TACCTTAATCGAAT
41273775 TACCATTAATCGAAT
1 TACC-TTAATCGAAT
41273790 TA
1 TA
41273792 ACTGAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.35
Consensus pattern (14 bp):
TACCTTAATCGAAT
Found at i:41275785 original size:12 final size:12
Alignment explanation
Indices: 41275768--41275794 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
41275758 TTGTAAAAAT
41275768 AATATTAGATTA
1 AATATTAGATTA
41275780 AATATTAGATTA
1 AATATTAGATTA
41275792 AAT
1 AAT
41275795 TTAATACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
AATATTAGATTA
Found at i:41275938 original size:37 final size:37
Alignment explanation
Indices: 41275876--41275946 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
41275866 GATAATCACT
*
41275876 TTAATATTAAATTAATAAAATACTATTAAGATAAGTC
1 TTAATATTAAATTAATAAAATACTATTAAAATAAGTC
*
41275913 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAA
41275947 TACTATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 6 0.20
37 22 0.73
38 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAGTC
Found at i:41282087 original size:30 final size:30
Alignment explanation
Indices: 41282052--41282109 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
41282042 AACAGGGGAC
* *
41282052 ACACGCCCATGTGGCTAGGCCGTGTGTCAG
1 ACACGCCCATATGGCCAGGCCGTGTGTCAG
*
41282082 ACACGCCCGTATGGCCAGGCCGTGTGTC
1 ACACGCCCATATGGCCAGGCCGTGTGTC
41282110 TCACACAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.19
Consensus pattern (30 bp):
ACACGCCCATATGGCCAGGCCGTGTGTCAG
Found at i:41284965 original size:25 final size:27
Alignment explanation
Indices: 41284921--41284972 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
41284911 TAAGTTTCAA
41284921 ATAAGAAAAATATCTCTAGA-AATTTT
1 ATAAGAAAAATATCTCTAGAGAATTTT
* *
41284947 ATAA-AAAAATCTCTTTAGAGAATTTT
1 ATAAGAAAAATATCTCTAGAGAATTTT
41284973 CTCTCTACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (27 bp):
ATAAGAAAAATATCTCTAGAGAATTTT
Found at i:41285211 original size:20 final size:18
Alignment explanation
Indices: 41285161--41285212 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
41285151 CTTGTGGATA
41285161 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
41285178 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
41285198 AATATTAAATTAATA
1 AATATTAAATTAATA
41285213 AAATACTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:41300379 original size:45 final size:45
Alignment explanation
Indices: 41300312--41300443 Score: 176
Period size: 45 Copynumber: 2.9 Consensus size: 45
41300302 AATCAAATAC
* * * *
41300312 GATGCCGATGTCCCAGATATGGTCTTACACGTAACCACATATATT
1 GATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATATT
* * *
41300357 GATGCCAACGTCCTAGACATGGTTTTACACGTAAACACATTTATT
1 GATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATATT
*
41300402 GATGCCAACGTCCCAGACGTGGTCTTACACG-AGAACACATAT
1 GATGCCAACGTCCCAGACATGGTCTTACACGTA-AACACATAT
41300444 TGGATCCTAT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 74 0.99
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (45 bp):
GATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATATT
Found at i:41307759 original size:27 final size:28
Alignment explanation
Indices: 41307721--41307821 Score: 134
Period size: 29 Copynumber: 3.5 Consensus size: 28
41307711 AAAATTGTAC
*
41307721 AGCACTAAGTGTGCGAGTTTG-ATTAT-T
1 AGCACTAAGTGTGCGAG-CTGAATTATAT
41307748 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTG--AATTATAT
*
41307778 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AATTATAT
41307807 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
41307822 GATTCACTAT
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
26 2 0.03
27 17 0.25
29 28 0.41
30 21 0.31
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAATTATAT
Found at i:41307761 original size:57 final size:58
Alignment explanation
Indices: 41307692--41307822 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 58
41307682 ATTGGTCTCG
* * * * *
41307692 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTAT-TA
1 GCACTAAGTGTGCGGGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
* *
41307749 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGGGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
41307808 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
41307823 ATTCACTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
56 2 0.03
57 41 0.65
58 4 0.06
59 16 0.25
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGGGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:41307815 original size:29 final size:30
Alignment explanation
Indices: 41307692--41307821 Score: 162
Period size: 30 Copynumber: 4.5 Consensus size: 30
41307682 ATTGGTCTCG
* * * * *
41307692 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
41307722 GCACTAAGTGTGCGAGTTTG---ATTAT-TA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
41307749 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
41307779 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
41307808 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
41307822 GATTCACTAT
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.02
27 17 0.19
28 4 0.04
29 25 0.28
30 40 0.44
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:41315638 original size:30 final size:30
Alignment explanation
Indices: 41315602--41315732 Score: 162
Period size: 30 Copynumber: 4.5 Consensus size: 30
41315592 ATTGGTCTCG
* * * * *
41315602 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
41315632 GCACTAAGTGTGCGAGTTTG---ATTATTTA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
41315660 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
41315690 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
41315719 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
41315733 GATTCACTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
27 2 0.02
28 21 0.23
29 20 0.22
30 45 0.50
31 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:41315672 original size:58 final size:58
Alignment explanation
Indices: 41315602--41315733 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
41315592 ATTGGTCTCG
* * * * * *
41315602 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATTTA
1 GCACTAAGTGTGCGGGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
* *
41315660 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGGGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
41315719 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
41315734 ATTCACTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.65
59 20 0.32
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (58 bp):
GCACTAAGTGTGCGGGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:41321338 original size:148 final size:148
Alignment explanation
Indices: 41321077--41321371 Score: 527
Period size: 148 Copynumber: 2.0 Consensus size: 148
41321067 GTACTGAGCT
* * * *
41321077 GATTTCTTTTATAGTTGAAAAACATGGCTGGAAAATATTTTTCCTTCATCCCGGCGATGTTCTCA
1 GATTTCTTCTATAGTTGAAAAACATGACTGGAAAATATTTTGCCTTCATCCCGGCAATGTTCTCA
*
41321142 CAAAGGTTGTAATGGAATTTTATGCCCACTTAACCTCTCCAGATGATGTACTCCATCAACGCACA
66 CAAAGGTTGTAAAGGAATTTTATGCCCACTTAACCTCTCCAGATGATGTACTCCATCAACGCACA
41321207 GTATGGTTTACCTGAGGC
131 GTATGGTTTACCTGAGGC
41321225 GATTTCTTCTATAGTTGAAAAACATGACTGGAAAATATTTTGCCTTCATCCCGGCAATGTTCTCA
1 GATTTCTTCTATAGTTGAAAAACATGACTGGAAAATATTTTGCCTTCATCCCGGCAATGTTCTCA
*
41321290 CAAAGGTTGTAAAGGAATTTTATGCCCACTTAACCTTTCCAGATGATGTACTCCATCAACGCACA
66 CAAAGGTTGTAAAGGAATTTTATGCCCACTTAACCTCTCCAGATGATGTACTCCATCAACGCACA
*
41321355 GTATGGTTTACTTGAGG
131 GTATGGTTTACCTGAGG
41321372 TCTAGATGAA
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
148 140 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (148 bp):
GATTTCTTCTATAGTTGAAAAACATGACTGGAAAATATTTTGCCTTCATCCCGGCAATGTTCTCA
CAAAGGTTGTAAAGGAATTTTATGCCCACTTAACCTCTCCAGATGATGTACTCCATCAACGCACA
GTATGGTTTACCTGAGGC
Found at i:41322684 original size:18 final size:18
Alignment explanation
Indices: 41322661--41322696 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
41322651 TTGGGGGTGT
41322661 GTTGTACTTATTGTATGC
1 GTTGTACTTATTGTATGC
41322679 GTTGTACTTATTGTATGC
1 GTTGTACTTATTGTATGC
41322697 ATTAGATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.22, T:0.50
Consensus pattern (18 bp):
GTTGTACTTATTGTATGC
Found at i:41325023 original size:30 final size:30
Alignment explanation
Indices: 41324987--41325087 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
41324977 GACAAGATTG
* * *
41324987 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
41325017 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
41325045 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
41325074 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
41325088 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:41325099 original size:29 final size:28
Alignment explanation
Indices: 41325016--41325091 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
41325006 AAAATTGTAC
* *
41325016 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
41325044 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
41325073 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
41325092 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:41328585 original size:28 final size:29
Alignment explanation
Indices: 41328518--41328618 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
41328508 ATAGTGAATC
*
41328518 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
41328547 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
41328575 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
41328605 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41328619 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:41336384 original size:28 final size:29
Alignment explanation
Indices: 41336317--41336417 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
41336307 ATAGTGAATC
*
41336317 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
41336346 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
41336374 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
41336404 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41336418 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:41340430 original size:12 final size:12
Alignment explanation
Indices: 41340413--41340437 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41340403 TTTTAATAAG
41340413 ATTTAATATTAA
1 ATTTAATATTAA
41340425 ATTTAATATTAA
1 ATTTAATATTAA
41340437 A
1 A
41340438 GTGATTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Done.