Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 157 of 230
Found at i:46526320 original size:79 final size:81
Alignment explanation
Indices: 46526218--46526402 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
46526208 GCTCCTCGTT
* *
46526218 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
46526281 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
46526298 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
46526362 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
46526378 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46526403 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:46526402 original size:40 final size:40
Alignment explanation
Indices: 46526218--46526402 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
46526208 GCTCCTCGTT
* *
46526218 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
46526258 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
46526298 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
46526337 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
46526378 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46526403 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:46534160 original size:79 final size:81
Alignment explanation
Indices: 46534057--46534241 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
46534047 GCTCCTCGTT
* *
46534057 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACCCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACCCGCACAAATGCCTTC-GGATCTTAACCC
* *
46534120 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* * **
46534137 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACCCGCACAAATGCCTTCGGATCTTAACCCGG
* *
46534201 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
46534217 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46534242 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACCCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:46534241 original size:40 final size:40
Alignment explanation
Indices: 46534057--46534241 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
46534047 GCTCCTCGTT
* * *
46534057 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
46534097 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
46534137 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
46534176 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
46534217 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46534242 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:46537082 original size:18 final size:18
Alignment explanation
Indices: 46537061--46537103 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
46537051 CCTTAGCTTT
*
46537061 GTCTTCGTCATAGTGTTC
1 GTCTTCATCATAGTGTTC
*
46537079 GTCTTCATTATAGTGTTC
1 GTCTTCATCATAGTGTTC
*
46537097 GCCTTCA
1 GTCTTCA
46537104 GAACAGAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (18 bp):
GTCTTCATCATAGTGTTC
Found at i:46537722 original size:12 final size:12
Alignment explanation
Indices: 46537697--46537735 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46537687 ACTCGCTTCT
* *
46537697 TTACTTACTCAC
1 TTACTTGCTTAC
*
46537709 TTACTTGTTTAC
1 TTACTTGCTTAC
46537721 TTACTTGCTTAC
1 TTACTTGCTTAC
46537733 TTA
1 TTA
46537736 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:46538060 original size:50 final size:51
Alignment explanation
Indices: 46537934--46538176 Score: 183
Period size: 50 Copynumber: 4.7 Consensus size: 51
46537924 TTAATAATGC
* * * * **
46537934 ATGCCAAAGCTATGTCCCAAACATAGTCTTACATGGGATGTT-TT-T-T-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
* * * * *
46537981 TACTGCCAATCCCATATCCCAGATATGGTCTTACATGGGA-GTTCTTATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
* *** *
46538033 ATGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACC-TCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
* * * * *
46538083 GTGCCAACGCCATGTCCTAGGCATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-TC-TTATCTC---G
*
46538139 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
46538177 TCTCATTCCC
Statistics
Matches: 152, Mismatches: 31, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
48 4 0.03
49 32 0.21
50 71 0.47
51 2 0.01
52 3 0.02
53 6 0.04
56 34 0.22
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (51 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATCTCG
Found at i:46541973 original size:18 final size:19
Alignment explanation
Indices: 46541938--46541974 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
46541928 CATGACATTG
46541938 AATGAAATGTATGTATACA
1 AATGAAATGTATGTATACA
46541957 AATG-AATGT-TGTGATACA
1 AATGAAATGTATGT-ATACA
46541975 TATGCTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 10 0.59
19 4 0.24
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (19 bp):
AATGAAATGTATGTATACA
Found at i:46543719 original size:16 final size:17
Alignment explanation
Indices: 46543698--46543730 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
46543688 TTGTTTTGTT
46543698 ATATGTTCTG-TATATG
1 ATATGTTCTGATATATG
*
46543714 ATATGTTTTGATATATG
1 ATATGTTCTGATATATG
46543731 CTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (17 bp):
ATATGTTCTGATATATG
Found at i:46553971 original size:20 final size:20
Alignment explanation
Indices: 46553943--46553980 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46553933 TACAGACTAA
46553943 AACAAAC-AACACATTTCATC
1 AACAAACAAACA-ATTTCATC
*
46553963 AACACACAAACAATTTCA
1 AACAAACAAACAATTTCA
46553981 CATTCAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (20 bp):
AACAAACAAACAATTTCATC
Found at i:46555142 original size:3 final size:3
Alignment explanation
Indices: 46555127--46555168 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
46555117 TCTAGATGAT
*
46555127 AAC AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
46555169 TATATACATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.31, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:46559282 original size:44 final size:44
Alignment explanation
Indices: 46559234--46559355 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 44
46559224 ATGATGCTTC
46559234 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
1 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
* * * *
46559278 TGTCCCAGATATGGTCTTACACATAAATC-TCA-AATCGATGCCAA
1 TGTCCCAGACAGGGTCTTACAC-GAAATCAT-ATATTCGATGCCAA
* * * *
46559322 CGTCCTAGAC-GTGGTCTTACACGATATCACATAT
1 TGTCCCAGACAG-GGTCTTACACGAAATCATATAT
46559356 CAGAATTCCA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
43 5 0.08
44 50 0.82
45 6 0.10
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
Found at i:46562824 original size:139 final size:139
Alignment explanation
Indices: 46562645--46562919 Score: 496
Period size: 139 Copynumber: 2.0 Consensus size: 139
46562635 CAAACTTCAA
* *
46562645 ATACATTTCTCGGAGGCTTCCAATCCAGTATAGCTGAAATCTTGCTCGAATCAACCCGAATACCC
1 ATACATTTCTCAGAGGCTTCCAATCCAGTATAGCTAAAATCTTGCTCGAATCAACCCGAATACCC
*
46562710 GATGCTGATACAACATGTCCCAGAAAACTGACTTCTCGTAACCAAAACTCACATTTACTGAACTT
66 GATGCTGATACAACATGTCCCAGAAAACTGACTTCTCGTAACCAAAACTCACATTTACTAAACTT
46562775 CGCATACGG
131 CGCATACGG
* *
46562784 ATACATTTCTCAGAGGCTTCCAATCTAGTATAGCTAAAATCTTGCTCGGATCAACCCGAATACCC
1 ATACATTTCTCAGAGGCTTCCAATCCAGTATAGCTAAAATCTTGCTCGAATCAACCCGAATACCC
*
46562849 GATGCTGATACAACATGTCCCAGAAAACTGACTTCTCGTAACCAAAACTTACATTTACTAAACTT
66 GATGCTGATACAACATGTCCCAGAAAACTGACTTCTCGTAACCAAAACTCACATTTACTAAACTT
46562914 CGCATA
131 CGCATA
46562920 TAAATGCTTA
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 130 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (139 bp):
ATACATTTCTCAGAGGCTTCCAATCCAGTATAGCTAAAATCTTGCTCGAATCAACCCGAATACCC
GATGCTGATACAACATGTCCCAGAAAACTGACTTCTCGTAACCAAAACTCACATTTACTAAACTT
CGCATACGG
Found at i:46567319 original size:44 final size:44
Alignment explanation
Indices: 46567271--46567392 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 44
46567261 ATGATGCTTC
46567271 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
1 TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
* * * *
46567315 TGTCCCAGATATGGTCTTACACATAAATC-TCA-AATCGATGCCAA
1 TGTCCCAGACAGGGTCTTACAC-GAAATCAT-ATATTCGATGCCAA
* * * *
46567359 CGTCCTAGAC-GTGGTCTTACACGATATCACATAT
1 TGTCCCAGACAG-GGTCTTACACGAAATCATATAT
46567393 CAGAATTCCA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
43 5 0.08
44 50 0.82
45 6 0.10
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
TGTCCCAGACAGGGTCTTACACGAAATCATATATTCGATGCCAA
Found at i:46568054 original size:9 final size:8
Alignment explanation
Indices: 46568031--46568060 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
46568021 CATGAATACA
46568031 TCAACAAAT
1 TCAA-AAAT
46568040 TCAAAAAT
1 TCAAAAAT
46568048 TCAAAAAT
1 TCAAAAAT
46568056 TCAAA
1 TCAAA
46568061 GATGGGTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (8 bp):
TCAAAAAT
Found at i:46569593 original size:359 final size:359
Alignment explanation
Indices: 46568925--46569649 Score: 1209
Period size: 359 Copynumber: 2.0 Consensus size: 359
46568915 ATATCAATAA
* *
46568925 TCATATTAGTATCAATTAAAAACATAAATATTGTCCCTTATACGAGCCCTTGAGGCCCTAAATAT
1 TCAT-TTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATAT
46568990 GCGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTT
65 GCGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTT
* * * *
46569055 TGAACACTGCAGTGGTCACACACCGCGTGGGCATTCGAAGTACGAACACATGGCCATGTCCGTGC
130 TCAACACTGCAGGGGTCACACACCGCGTGGGCATTCAAAGTACGAACACAAGGCCATGTCCGTGC
*
46569120 CCGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCTGTGTACCC
195 CCGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCCGTGTACCC
* *
46569185 TTCAAAATAACATCACACGCCCATGTACCAGGCTATGTGCTAGGCCATGTAACAGACTAACTTGC
260 TTCAAAAAAACATCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAACAGACTAACTTGC
**
46569250 AACCCTTTGAAAGCTACAGGGGACACACGACTGTG
325 AACCCTTTGAAAGCTACAGGGGACACACGACCATG
46569285 TCATTTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATATG
1 TCATTTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATATG
* *
46569350 CGTTAGAAACAAGTCGAGACTAAATCAAAAACTTAGAGAATTTTTTAGAAAACAATAAAAATTTT
66 CGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTTT
* * * * * *
46569415 CAACACTGTAGGGGTCACACGCCGTGTGGGCATTCAAAGTAGGGACACAAGGCCATGTCTGTGCC
131 CAACACTGCAGGGGTCACACACCGCGTGGGCATTCAAAGTACGAACACAAGGCCATGTCCGTGCC
* * *
46569480 CGTGTAACTTACTGACTTGGGCCACACGGCCAAGCCATATGCCCGTGTGTCAGGCCGTGTACCCT
196 CGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCCGTGTACCCT
* *
46569545 TCAAAAAAA-ACTCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAATAGACTAACTTGT
261 TCAAAAAAACA-TCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAACAGACTAACTTGC
46569609 AACCCTTTGAAAGCTACAGGGGACACACGACCATG
325 AACCCTTTGAAAGCTACAGGGGACACACGACCATG
46569644 TCATTT
1 TCATTT
46569650 GGCCGTGTGT
Statistics
Matches: 340, Mismatches: 24, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
358 1 0.00
359 335 0.99
360 4 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (359 bp):
TCATTTAATATCAATTAAAAACATAAATATTCTCCCTTATACGAGCCCTTGAGGCCCTAAATATG
CGTTAGAAACAAGTCAAGACTAAATCAAAAACTCAGAGAATTTTTTAGAAAACAATAAAAATTTT
CAACACTGCAGGGGTCACACACCGCGTGGGCATTCAAAGTACGAACACAAGGCCATGTCCGTGCC
CGTGTAACTCACTGACTTGGGCCACACGACCAAGCCACATGCCCGTGTGTCAGGCCGTGTACCCT
TCAAAAAAACATCACACGCCCATGTACCAGGCCATGTGCTAGGCCATGTAACAGACTAACTTGCA
ACCCTTTGAAAGCTACAGGGGACACACGACCATG
Found at i:46570829 original size:25 final size:24
Alignment explanation
Indices: 46570790--46570874 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 24
46570780 TCCTGTACCT
46570790 GTATGCTCA-TACGAGCTATGAATCG
1 GTATGCTCACT-CGAGCT-TGAATCG
*
46570815 GTATGCTCACTCGAG-TTGTAGATTG
1 GTATGCTCACTCGAGCTTG-A-ATCG
** * *
46570840 GTATGCTTTCACGAGCTGTAAATCG
1 GTATGCTCACTCGAGCT-TGAATCG
46570865 GTATGCTCAC
1 GTATGCTCAC
46570875 ATGAGTTGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 39 0.83
26 3 0.06
27 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (24 bp):
GTATGCTCACTCGAGCTTGAATCG
Found at i:46571321 original size:16 final size:17
Alignment explanation
Indices: 46571300--46571331 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
46571290 CAATGTAGCC
46571300 CAAAATTAT-ATTTTGG
1 CAAAATTATCATTTTGG
46571316 CAAAATTATCATTTTG
1 CAAAATTATCATTTTG
46571332 CCCCTATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (17 bp):
CAAAATTATCATTTTGG
Found at i:46575377 original size:40 final size:40
Alignment explanation
Indices: 46575195--46575417 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
46575185 TCCTCGTTCA
* * * *
46575195 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46575234 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
46575274 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
46575314 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
46575354 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
46575394 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
46575418 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 38 0.24
40 115 0.71
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:46575417 original size:120 final size:119
Alignment explanation
Indices: 46575195--46575417 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
46575185 TCCTCGTTCA
* * *
46575195 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
46575260 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * **
46575314 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
46575378 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
46575418 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 38 0.44
120 43 0.49
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:46575426 original size:41 final size:41
Alignment explanation
Indices: 46575349--46575426 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
46575339 TTAGTATCTC
* * *
46575349 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
46575390 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
46575427 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:46584064 original size:17 final size:17
Alignment explanation
Indices: 46584042--46584077 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
46584032 ATCTGTGGGA
46584042 TCCGCGGGCTGACCGGT
1 TCCGCGGGCTGACCGGT
46584059 TCCGCGGGCTGACCGGT
1 TCCGCGGGCTGACCGGT
46584076 TC
1 TC
46584078 TTCTCGGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.36, G:0.39, T:0.19
Consensus pattern (17 bp):
TCCGCGGGCTGACCGGT
Found at i:46590671 original size:22 final size:22
Alignment explanation
Indices: 46590645--46590717 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
46590635 GTACCTTTGC
*
46590645 AGAAGTACAATTACTTCATGGG
1 AGAAGTACAAATACTTCATGGG
** *
46590667 AGAAGTACAGGTACCTC-T-GG
1 AGAAGTACAAATACTTCATGGG
*
46590687 AGAAGTATAAATACTT-ATTGGG
1 AGAAGTACAAATACTTCA-TGGG
46590709 AGAAGTACA
1 AGAAGTACA
46590718 GGTACCTCTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 14 0.35
21 2 0.05
22 24 0.60
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (22 bp):
AGAAGTACAAATACTTCATGGG
Found at i:46590690 original size:20 final size:20
Alignment explanation
Indices: 46590629--46590736 Score: 81
Period size: 20 Copynumber: 5.2 Consensus size: 20
46590619 TGGAACAATG
* *
46590629 GTACAGGTACCTTTGCAGAA
1 GTACAGGTACCTCTGGAGAA
** *
46590649 GTACAATTACTTCATGGGAGAA
1 GTACAGGTACCTC-T-GGAGAA
46590671 GTACAGGTACCTCTGGAGAA
1 GTACAGGTACCTCTGGAGAA
* ** * *
46590691 GTATAAATACTTATTGGGAGAA
1 GTACAGGTACCT-CT-GGAGAA
*
46590713 GTACAGGTACCTCTTGAGAA
1 GTACAGGTACCTCTGGAGAA
46590733 GTAC
1 GTAC
46590737 TGGTGCAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
20 32 0.49
21 4 0.06
22 29 0.45
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (20 bp):
GTACAGGTACCTCTGGAGAA
Found at i:46590691 original size:42 final size:42
Alignment explanation
Indices: 46590629--46590736 Score: 155
Period size: 42 Copynumber: 2.6 Consensus size: 42
46590619 TGGAACAATG
* * *
46590629 GTACAGGTACCTTTGCAGAAGTACAATTACTTCA-TGGGAGAA
1 GTACAGGTACCTCTGGAGAAGTACAAATACTT-ATTGGGAGAA
*
46590671 GTACAGGTACCTCTGGAGAAGTATAAATACTTATTGGGAGAA
1 GTACAGGTACCTCTGGAGAAGTACAAATACTTATTGGGAGAA
*
46590713 GTACAGGTACCTCTTGAGAAGTAC
1 GTACAGGTACCTCTGGAGAAGTAC
46590737 TGGTGCAAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 1 0.02
42 58 0.98
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (42 bp):
GTACAGGTACCTCTGGAGAAGTACAAATACTTATTGGGAGAA
Found at i:46593992 original size:29 final size:29
Alignment explanation
Indices: 46593910--46594030 Score: 125
Period size: 29 Copynumber: 4.1 Consensus size: 29
46593900 GTATCGATAC
** *
46593910 CCATCGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
*
46593939 CCATCGAATATGAAAGGGGATGGTTTCAA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
* * *
46593968 CCATTGAATATGAAAAGAGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCAA
* * * * *
46593997 TCATCGATTAAAGAAAATGGATGGTTTCGA
1 CCATCGAAT-ATGAAAAGGGATGGTTTCAA
46594027 CCAT
1 CCAT
46594031 AATTTAGCAC
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 56 0.74
30 20 0.26
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTCAA
Found at i:46602377 original size:20 final size:19
Alignment explanation
Indices: 46602347--46602398 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
46602337 TTGGCGCGGG
* *
46602347 AATATCAATACCTTAGGAA
1 AATATCGATACCTTAAGAA
46602366 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
46602386 AAGTATCGATACC
1 AA-TATCGATACC
46602399 GGATCGATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:46604245 original size:20 final size:21
Alignment explanation
Indices: 46604220--46604259 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
46604210 TGGAGCAAGA
46604220 ATATCGATACCTT-AGAAAAT
1 ATATCGATACCTTAAGAAAAT
46604240 ATATCGATACCTTAAGAAAA
1 ATATCGATACCTTAAGAAAA
46604260 GTATCAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (21 bp):
ATATCGATACCTTAAGAAAAT
Found at i:46609326 original size:15 final size:15
Alignment explanation
Indices: 46609290--46609336 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
46609280 ATTTAATAAG
*
46609290 TTGAAAAATTAAGTG
1 TTGAAAAATTAAGTA
* *
46609305 TTAAAAAAATAAGTA
1 TTGAAAAATTAAGTA
*
46609320 TTGAAAATTTAAGTA
1 TTGAAAAATTAAGTA
46609335 TT
1 TT
46609337 AAACTTAAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (15 bp):
TTGAAAAATTAAGTA
Found at i:46611095 original size:17 final size:18
Alignment explanation
Indices: 46611065--46611098 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
46611055 TCAATTGAAA
46611065 ATTTAATATTTTCAATTG
1 ATTTAATATTTTCAATTG
46611083 ATTTAAT-TTTTCAATT
1 ATTTAATATTTTCAATT
46611099 TCTTTGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTTAATATTTTCAATTG
Found at i:46611185 original size:29 final size:28
Alignment explanation
Indices: 46611109--46611185 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
46611099 TCTTTGATAG
46611109 ATTAAAAAATTAAGTGTTGAAAAAATTAAA
1 ATTAAAAAATTAAGTGTTG--AAAATTAAA
*
46611139 A--AATAAA-TAAGTGTTGAAAATTAAA
1 ATTAAAAAATTAAGTGTTGAAAATTAAA
46611164 TATTAAAAAATTAAGTGTTGAA
1 -ATTAAAAAATTAAGTGTTGAA
46611186 TATAAGTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
25 9 0.22
26 1 0.02
27 9 0.22
28 10 0.24
29 11 0.27
30 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (28 bp):
ATTAAAAAATTAAGTGTTGAAAATTAAA
Found at i:46614707 original size:27 final size:27
Alignment explanation
Indices: 46614666--46614718 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
46614656 CTGTACATGT
* *
46614666 ATGCTCATACGAGCTATGAAAATGGGC
1 ATGCTCACACAAGCTATGAAAATGGGC
*
46614693 ATGCTCACACAAGCTGTGAAAATGGG
1 ATGCTCACACAAGCTATGAAAATGGG
46614719 TCTACTTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (27 bp):
ATGCTCACACAAGCTATGAAAATGGGC
Found at i:46615470 original size:27 final size:27
Alignment explanation
Indices: 46615412--46615464 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
46615402 TTGTACATGT
46615412 ATGCTCACACGATGTGTGAAAATGGGC
1 ATGCTCACACGATGTGTGAAAATGGGC
*
46615439 ATGCTCACATGA-GTTGTGAAAATGGG
1 ATGCTCACACGATG-TGTGAAAATGGG
46615465 TCTGCTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (27 bp):
ATGCTCACACGATGTGTGAAAATGGGC
Found at i:46615483 original size:27 final size:27
Alignment explanation
Indices: 46615412--46615483 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
46615402 TTGTACATGT
*
46615412 ATGCTCACACGATG-TGTGAAAATGGGC
1 ATGCTCACAC-AAGCTGTGAAAATGGGC
** *
46615439 ATGCTCACATGAGTTGTGAAAATGGGTC
1 ATGCTCACACAAGCTGTGAAAATGGG-C
*
46615467 -TGCTTACACAAGCTGTG
1 ATGCTCACACAAGCTGTG
46615484 GGTCGAAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 1 0.03
27 34 0.94
28 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (27 bp):
ATGCTCACACAAGCTGTGAAAATGGGC
Found at i:46619423 original size:27 final size:27
Alignment explanation
Indices: 46619359--46619429 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
46619349 CGATTATTGT
*
46619359 TCGCCAAGCCTACTGGCAAACACCAAC
1 TCGCCAAACCTACTGGCAAACACCAAC
* * * * *
46619386 TTGTCAGACCTACTGGCACACACCAGC
1 TCGCCAAACCTACTGGCAAACACCAAC
*
46619413 TCGCCAAACCTATTGGC
1 TCGCCAAACCTACTGGC
46619430 GATCACATTT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.38, G:0.17, T:0.17
Consensus pattern (27 bp):
TCGCCAAACCTACTGGCAAACACCAAC
Found at i:46620438 original size:17 final size:16
Alignment explanation
Indices: 46620400--46620442 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
46620390 TGTTATAAGT
*
46620400 TAATAATTAAAATAAA
1 TAATAAATAAAATAAA
*
46620416 TGAATAAATAAAACTTAA
1 T-AATAAATAAAA-TAAA
46620434 TAATAAATA
1 TAATAAATA
46620443 TGATAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 18 0.78
18 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
TAATAAATAAAATAAA
Found at i:46626228 original size:23 final size:23
Alignment explanation
Indices: 46626201--46626247 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
46626191 CTTGATCTAA
46626201 ACATTTTCAAATTTAGCCTTTTT
1 ACATTTTCAAATTTAGCCTTTTT
46626224 ACATTTTCAAATTTAGCCTTTTT
1 ACATTTTCAAATTTAGCCTTTTT
46626247 A
1 A
46626248 TTCATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.04, T:0.51
Consensus pattern (23 bp):
ACATTTTCAAATTTAGCCTTTTT
Found at i:46626255 original size:22 final size:22
Alignment explanation
Indices: 46626207--46626257 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
46626197 CTAAACATTT
*
46626207 TCAAATTTAGCCTTTTTACATTT
1 TCAAATTTAGCCTTTTTA-ATTA
46626230 TCAAATTTAGCCTTTTT-ATTCA
1 TCAAATTTAGCCTTTTTAATT-A
46626252 TCAAAT
1 TCAAAT
46626258 CATTCAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 3 0.12
22 6 0.23
23 17 0.65
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (22 bp):
TCAAATTTAGCCTTTTTAATTA
Found at i:46638386 original size:32 final size:28
Alignment explanation
Indices: 46638321--46638387 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
46638311 TGATGTGTAG
*
46638321 GGTTGGTTGGGCATTGAATGCCCTTAAC
1 GGTTGGTTGGGCATTGAACGCCCTTAAC
*
46638349 GGTTGGTTGGGCATTGAACGCCTTTAAC
1 GGTTGGTTGGGCATTGAACGCCCTTAAC
46638377 GG-TGTGTTGGG
1 GGTTG-GTTGGG
46638388 ATGGCCGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 2 0.06
28 34 0.94
ACGTcount: A:0.15, C:0.15, G:0.37, T:0.33
Consensus pattern (28 bp):
GGTTGGTTGGGCATTGAACGCCCTTAAC
Found at i:46638538 original size:103 final size:103
Alignment explanation
Indices: 46638359--46638564 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
46638349 GGTTGGTTGG
* *
46638359 GCATTGAACGCCTTTAACGGTGTGTTGGGATGGCCGAAGACGGTGTGTAGCGAATAGGGGTAGGA
1 GCATTGAACGCCCTTAACGGTGTGTTGGGATGGCCGAAGACGGTGTGCAGCGAATAGGGGTAGGA
46638424 ATATCTGCATCTGAATCTGACATGTTCTGTATATGAAA
66 ATATCTGCATCTGAATCTGACATGTTCTGTATATGAAA
46638462 GCATTGAACGCCCTTAACGGTGTGTTGGGATGGCCGAAGACGGTGTGCAGCGAATAGGGGTAGGA
1 GCATTGAACGCCCTTAACGGTGTGTTGGGATGGCCGAAGACGGTGTGCAGCGAATAGGGGTAGGA
*
46638527 ATATTTGCATCTGAATCTGACATGTTCTGTATATGAAA
66 ATATCTGCATCTGAATCTGACATGTTCTGTATATGAAA
46638565 CTGAAATTGC
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (103 bp):
GCATTGAACGCCCTTAACGGTGTGTTGGGATGGCCGAAGACGGTGTGCAGCGAATAGGGGTAGGA
ATATCTGCATCTGAATCTGACATGTTCTGTATATGAAA
Found at i:46640091 original size:20 final size:19
Alignment explanation
Indices: 46640045--46640084 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
46640035 TAGCGTGACT
46640045 TTTAATAATTTTTATCAAC
1 TTTAATAATTTTTATCAAC
46640064 TTTAATAAGTTTTTAT-AAC
1 TTTAATAA-TTTTTATCAAC
46640083 TT
1 TT
46640085 ATTATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTAATAATTTTTATCAAC
Found at i:46640289 original size:78 final size:78
Alignment explanation
Indices: 46640134--46640288 Score: 269
Period size: 78 Copynumber: 2.0 Consensus size: 78
46640124 TTTTCCATAC
46640134 GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
1 GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
46640199 ATTTTTTAAAAAA
66 ATTTTTTAAAAAA
* *
46640212 GTTTTATTTTGTTTAAGTTCATTCTAGATGTGATTTTTT-AAAATAATTA-TTTTTATGATTTTT
1 GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
46640275 ATTTTTTTAAAAAA
66 A-TTTTTTAAAAAA
46640289 ATATTTGTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
76 14 0.19
77 22 0.30
78 38 0.51
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.57
Consensus pattern (78 bp):
GTTTTATTTTGTTCAAGTTCATTCTAGATGTGATTTTTTAAAAATAATTATTTTTTATAATTTTT
ATTTTTTAAAAAA
Found at i:46647574 original size:38 final size:38
Alignment explanation
Indices: 46647532--46647748 Score: 247
Period size: 38 Copynumber: 5.7 Consensus size: 38
46647522 ATTGTAATGT
* * **
46647532 TATTCGAGCTATGTGCCTAGCGGGCTTTGTGCTAGTGA
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * *
46647570 TATTC-AGGCTCTGCGCCTTGTAGGCTTTGTGCAGGTGA
1 TATTCGA-GCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * *
46647608 TATTCGAGCTCTGTGCCTAGCAAGCTATGTGCTGGTGA
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * *
46647646 TATTCGAGCTCTATGCCTAGCAAGCTTTGTGCCGGTGT
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * *
46647684 TATTCGGGTTTTGTGCCTAGCAGGCTTTGTGCCGGTGT
1 TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
*
46647722 TATTCGAGCTCCGTGCCTAGCAGGCTT
1 TATTCGAGCTCTGTGCCTAGCAGGCTT
46647749 CATGTCGATG
Statistics
Matches: 151, Mismatches: 26, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
37 1 0.01
38 149 0.99
39 1 0.01
ACGTcount: A:0.14, C:0.22, G:0.30, T:0.34
Consensus pattern (38 bp):
TATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
Found at i:46647732 original size:114 final size:114
Alignment explanation
Indices: 46647532--46647743 Score: 280
Period size: 114 Copynumber: 1.9 Consensus size: 114
46647522 ATTGTAATGT
* ** * * *
46647532 TATTCGAGCTATGTGCCTAGCGGGCTTTGTGCTAGTGATATTCAGGCTCTGCGCCTTGTAGGCTT
1 TATTCGAGCTATATGCCTAGCAAGCTTTGTGCCAGTGATATTCAGGCTCTGCGCCTAGCAGGCTT
*
46647597 TGTGCAGGTGATATTCGAGCTCTGTGCCTAGCAAGCTATGTGCTGGTGA
66 TGTGCAGGTGATATTCGAGCTCCGTGCCTAGCAAGCTATGTGCTGGTGA
* * * * * * *
46647646 TATTCGAGCTCTATGCCTAGCAAGCTTTGTGCCGGTGTTATTCGGGTTTTGTGCCTAGCAGGCTT
1 TATTCGAGCTATATGCCTAGCAAGCTTTGTGCCAGTGATATTCAGGCTCTGCGCCTAGCAGGCTT
* *
46647711 TGTGCCGGTGTTATTCGAGCTCCGTGCCTAGCA
66 TGTGCAGGTGATATTCGAGCTCCGTGCCTAGCA
46647744 GGCTTCATGT
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
114 82 1.00
ACGTcount: A:0.15, C:0.22, G:0.30, T:0.34
Consensus pattern (114 bp):
TATTCGAGCTATATGCCTAGCAAGCTTTGTGCCAGTGATATTCAGGCTCTGCGCCTAGCAGGCTT
TGTGCAGGTGATATTCGAGCTCCGTGCCTAGCAAGCTATGTGCTGGTGA
Found at i:46652106 original size:23 final size:22
Alignment explanation
Indices: 46652054--46652106 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
46652044 TCCACGTCTT
*
46652054 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
46652076 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
46652099 TTTCTTTT
1 TTTCTTTT
46652107 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:46657003 original size:16 final size:17
Alignment explanation
Indices: 46656973--46657005 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
46656963 TACTGGCCAA
*
46656973 TCTTCATGGTGTTATGG
1 TCTTCATGGTCTTATGG
46656990 TCTT-ATGGTCTTATGG
1 TCTTCATGGTCTTATGG
46657006 AAATGAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.12, C:0.12, G:0.27, T:0.48
Consensus pattern (17 bp):
TCTTCATGGTCTTATGG
Found at i:46659272 original size:27 final size:27
Alignment explanation
Indices: 46659242--46659295 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
46659232 GTACATATAT
46659242 AAACATCCATATCAAAGCAAACTTTGA
1 AAACATCCATATCAAAGCAAACTTTGA
46659269 AAACATCCATATCAAAGCAAACTTTGA
1 AAACATCCATATCAAAGCAAACTTTGA
46659296 GAGATGATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (27 bp):
AAACATCCATATCAAAGCAAACTTTGA
Found at i:46660242 original size:43 final size:43
Alignment explanation
Indices: 46660181--46660268 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
46660171 AAAACATATA
46660181 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
1 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
46660224 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
1 TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
46660267 TA
1 TA
46660269 CAAAAAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.10, C:0.27, G:0.02, T:0.60
Consensus pattern (43 bp):
TATATATTTGCTTTTCTCTTTTCTTCCCTTCTTCCTCTTATTC
Found at i:46661483 original size:24 final size:24
Alignment explanation
Indices: 46661456--46661502 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
46661446 AATAATAAAG
* *
46661456 AAAAAATTTTAAAAATGACACTGC
1 AAAAAAGTTTAAAAAAGACACTGC
*
46661480 AAAAAGGTTTAAAAAAGACACTG
1 AAAAAAGTTTAAAAAAGACACTG
46661503 ACGCAACATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (24 bp):
AAAAAAGTTTAAAAAAGACACTGC
Found at i:46663113 original size:36 final size:36
Alignment explanation
Indices: 46663073--46663148 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
46663063 AGGATGATGA
46663073 TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
1 TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
* *
46663109 TTTCTCTTCATCTTTCCTCCTTTCTTGTACTATTAT
1 TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
46663145 TTTC
1 TTTC
46663149 GTAATAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.13, C:0.28, G:0.01, T:0.58
Consensus pattern (36 bp):
TTTCTCTTCATCTTTCCTCCTTTCTTATACTAATAT
Found at i:46663166 original size:11 final size:11
Alignment explanation
Indices: 46663150--46663188 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
46663140 ATTATTTTCG
46663150 TAATAAAATAT
1 TAATAAAATAT
46663161 TAATAAAA-AT
1 TAATAAAATAT
46663171 CTAATTAAAATAT
1 -TAA-TAAAATAT
46663184 TAATA
1 TAATA
46663189 TTATAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.08
11 13 0.52
12 8 0.32
13 2 0.08
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:46665584 original size:19 final size:19
Alignment explanation
Indices: 46665557--46665595 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46665547 ATTTAAATTG
46665557 TTTTATATTTGATTTG-TAA
1 TTTTATATTTG-TTTGATAA
*
46665576 TTTTGTATTTGTTTGATAA
1 TTTTATATTTGTTTGATAA
46665595 T
1 T
46665596 AGTTTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (19 bp):
TTTTATATTTGTTTGATAA
Found at i:46666341 original size:451 final size:447
Alignment explanation
Indices: 46665254--46666161 Score: 1548
Period size: 451 Copynumber: 2.0 Consensus size: 447
46665244 AGTACTTAAT
* * *
46665254 TGAAATTGGAATGAAAAACAAAGTTCAATTTCAAAAGTTATAATAGTTTTGGTTTTAGGGACTAA
1 TGAAATTGGAATGAAAAACAAAGTTCAATTTCAAAAGGTATAATAGTATTCGTTTTAGGGACTAA
* * * *
46665319 ATTGAATAAAATACAAAAGTTTAGGGGGATTCGAATAGTAAAATTAAACTGATATATAATTATAA
66 ATTGAATAAAATA-AAAAGGTTAGGGGGATTTGAATAGTAAAATAAAACTGATATATAATTAGAA
*
46665384 CAAGATGTTTGGAATTGATGAATTGAATTGAATTAAATTAATGAATAGTTTGAAAATTGGACCAA
130 AAAGATGTTTGGAATTGAT-AATTGAATTGAATTAAATT-ATGAATAG-TTGAAAATTGGACCAA
*
46665449 ATTGAAGAAAATCGAGGAAATGATAAAAATTACTGATTAGTCCTTAAAGAGTTGTCTTGTTGTTG
192 ATTGAAGAAAATCGAGGAAATGACAAAAATTACTGATTAGTCCTTAAAGAGTTGTCTTGTTGTTG
46665514 TTTTAACCAGGTAAGTTCACATAGTCTGATTGTATTTAAATTGTTTTATATTTGATTTGTAATTT
257 TTTTAACCAGGTAAGTTCACATAGTCTGATTGTATTTAAATTGTTTTATATTTGATTTGTAATTT
46665579 TGTATTTGTTTGATAATAGTTTGAATTGTTTACAATTTGGTACAACAGGTGAGTTATAAACTAAA
322 TGTATTTGTTTGATAATAGTTTGAATTGTTTACAATTTGGTACAACAGGTGAGTTATAAACTAAA
* * *
46665644 ACATAGAAAAGTGATAAGCTAATGGATAAAACTTAAAACGGTGAATTGAAATCTACTTAAT
387 ACATAGAAAAGTGATAAGCTAATGGATAAAACTTAAAACGGTGAATTGAAATCTAATAAAA
* *
46665705 TGAAATTGGAATGAAAAACAAAGTTCAATTTCAAAAGTTATAATAGTTTTCGTTTTAGGGACTAA
1 TGAAATTGGAATGAAAAACAAAGTTCAATTTCAAAAGGTATAATAGTATTCGTTTTAGGGACTAA
* * *
46665770 ATTGAATAAAATACAAAAGTTTAGGGGGATTTGAATAGTAAAATTAAACTGATATATAATTATAA
66 ATTGAATAAAATA-AAAAGGTTAGGGGGATTTGAATAGTAAAATAAAACTGATATATAATTAGAA
*
46665835 CAAGATGTTTGGAATTGATGAATTGAATTGAATTAAATTAATGAATAGTTTGAAAATTGGACCAA
130 AAAGATGTTTGGAATTGAT-AATTGAATTGAATTAAATT-ATGAATAG-TTGAAAATTGGACCAA
46665900 ATTGAAGAAAATCGAGGAAATGACAAAAATTACTGATTAGTCCTTAAAGAGTTGTCTTGTTGTTG
192 ATTGAAGAAAATCGAGGAAATGACAAAAATTACTGATTAGTCCTTAAAGAGTTGTCTTGTTGTTG
46665965 TTTTAACCAGGTAAGTTCACATAGTCTGATTGTATTTAAATTGTTTTATATTTGATTTGTAA-TT
257 TTTTAACCAGGTAAGTTCACATAGTCTGATTGTATTTAAATTGTTTTATATTTGATTTGTAATTT
46666029 TGTATTTGTTTGATAATAGTTTGAATTGTTTACAATTTGGTACAACAGGTGAGTTATAAACTAAA
322 TGTATTTGTTTGATAATAGTTTGAATTGTTTACAATTTGGTACAACAGGTGAGTTATAAACTAAA
46666094 ACATAGAAAAGTGATAAGCTAATGGATAAAACTTAAAACGGTGAATTGAAATCTGAAATAAAAA
387 ACATAGAAAAGTGATAAGCTAATGGATAAAACTTAAAACGGTGAATTGAAATCT--AAT-AAAA
46666158 TGAA
1 TGAA
46666162 TTGATAATTT
Statistics
Matches: 448, Mismatches: 6, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
450 121 0.27
451 319 0.71
452 2 0.00
453 6 0.01
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (447 bp):
TGAAATTGGAATGAAAAACAAAGTTCAATTTCAAAAGGTATAATAGTATTCGTTTTAGGGACTAA
ATTGAATAAAATAAAAAGGTTAGGGGGATTTGAATAGTAAAATAAAACTGATATATAATTAGAAA
AAGATGTTTGGAATTGATAATTGAATTGAATTAAATTATGAATAGTTGAAAATTGGACCAAATTG
AAGAAAATCGAGGAAATGACAAAAATTACTGATTAGTCCTTAAAGAGTTGTCTTGTTGTTGTTTT
AACCAGGTAAGTTCACATAGTCTGATTGTATTTAAATTGTTTTATATTTGATTTGTAATTTTGTA
TTTGTTTGATAATAGTTTGAATTGTTTACAATTTGGTACAACAGGTGAGTTATAAACTAAAACAT
AGAAAAGTGATAAGCTAATGGATAAAACTTAAAACGGTGAATTGAAATCTAATAAAA
Found at i:46670561 original size:11 final size:11
Alignment explanation
Indices: 46670545--46670586 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
46670535 ATAATGCAAG
*
46670545 ATTTTTCTGTA
1 ATTTTTCTGTT
*
46670556 ATTTTTCTTTT
1 ATTTTTCTGTT
46670567 ATTTTTCTGTT
1 ATTTTTCTGTT
*
46670578 GTTTTTCTG
1 ATTTTTCTG
46670587 CCATATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (11 bp):
ATTTTTCTGTT
Found at i:46672975 original size:111 final size:114
Alignment explanation
Indices: 46672815--46673027 Score: 278
Period size: 111 Copynumber: 1.9 Consensus size: 114
46672805 GGAAGGATAT
* *
46672815 TTTTTTGTTGTGTTATTTTAGTTTTAGATTTATATTAAAGGTCTGATTAATTTGTTTTATT-AAT
1 TTTTTTGTTGTGTTATTTTAGTTTAAGATTTATATTAAAGGTCTGATTAATTTGTTTGATTAAAT
*
46672879 GCTTTTAT-G-GTATCTTATATC-AGTTTTTCGTATTTACTTGAAATGTTA
66 -CTTTTATGGAGAATCTTATATCGA-TTTTTCGTATTTACTTGAAATGTTA
* *
46672927 TTTTTTGTTGTGTT-TTATTAGCTTTAAG-TTTGTA-TAAAGGTTTGATTAATTTGTTTGATTAA
1 TTTTTTGTTGTGTTATT-TTAG-TTTAAGATTTATATTAAAGGTCTGATTAATTTGTTTGATTAA
* *
46672989 ATTTTTTTTGGAGAATCTTATATCGATTTTTCGTATTTA
64 ATCTTTTATGGAGAATCTTATATCGATTTTTCGTATTTA
46673028 AGGTATGAGC
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
111 31 0.35
112 27 0.31
113 29 0.33
114 1 0.01
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.57
Consensus pattern (114 bp):
TTTTTTGTTGTGTTATTTTAGTTTAAGATTTATATTAAAGGTCTGATTAATTTGTTTGATTAAAT
CTTTTATGGAGAATCTTATATCGATTTTTCGTATTTACTTGAAATGTTA
Found at i:46675854 original size:21 final size:21
Alignment explanation
Indices: 46675808--46675900 Score: 71
Period size: 21 Copynumber: 4.4 Consensus size: 21
46675798 TGATCAGTAG
* *
46675808 ACGACACA-TAAGTGCCTGAA
1 ACGACACACGAAGTGCCTGAT
* *
46675828 ATGACACACGAAGTGTCTGAT
1 ACGACACACGAAGTGCCTGAT
* *
46675849 ACGACACCCGAGGTGCCTGAT
1 ACGACACACGAAGTGCCTGAT
* ** *
46675870 ACGGCACATAAAGTGTCTGATAT
1 ACGACACACGAAGTGCCTG--AT
46675893 ACGACACA
1 ACGACACA
46675901 TAAAGTTCCT
Statistics
Matches: 55, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 7 0.13
21 39 0.71
23 9 0.16
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (21 bp):
ACGACACACGAAGTGCCTGAT
Found at i:46677316 original size:22 final size:20
Alignment explanation
Indices: 46677291--46677330 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
46677281 ACATAATATA
46677291 ATAATATAATATAATATATTTT
1 ATAATA-AA-ATAATATATTTT
*
46677313 ATAATAAAATAATGTATT
1 ATAATAAAATAATATATT
46677331 AATATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
ATAATAAAATAATATATTTT
Found at i:46677324 original size:30 final size:28
Alignment explanation
Indices: 46677283--46677339 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
46677273 TTTATTTTAC
*
46677283 ATAATATAATAATATAATATAATATATTTT
1 ATAATAAAATAATAT-AT-TAATATATTTT
*
46677313 ATAATAAAATAATGTATTAATATATTT
1 ATAATAAAATAATATATTAATATATTT
46677340 AAAACATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.40
29 2 0.08
30 13 0.52
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
ATAATAAAATAATATATTAATATATTTT
Found at i:46684684 original size:32 final size:32
Alignment explanation
Indices: 46684643--46684718 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
46684633 CCACAGAGAA
* * * * *
46684643 AGGCAGCACACCATTGGTCATGCCCATTTCAC
1 AGGCGGCACACCACTAGTCAAGCCCATTCCAC
*
46684675 AGGCGGCACACCGCTAGTCAAGCCCATTCCAC
1 AGGCGGCACACCACTAGTCAAGCCCATTCCAC
*
46684707 AGGTGGCACACC
1 AGGCGGCACACC
46684719 TCTGGCTTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.25, C:0.37, G:0.22, T:0.16
Consensus pattern (32 bp):
AGGCGGCACACCACTAGTCAAGCCCATTCCAC
Found at i:46684842 original size:3 final size:3
Alignment explanation
Indices: 46684836--46684916 Score: 144
Period size: 3 Copynumber: 27.0 Consensus size: 3
46684826 ATTGAAAAAG
* *
46684836 AGA AGA AGA AGA AGA TGA AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
46684884 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
46684917 GAGAGCGGGA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:46687020 original size:14 final size:14
Alignment explanation
Indices: 46687001--46687035 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
46686991 GACATTGTTT
*
46687001 TTCTAATGATACTA
1 TTCTAACGATACTA
46687015 TTCTAACGATACTA
1 TTCTAACGATACTA
46687029 TTCTAAC
1 TTCTAAC
46687036 ATGTAATTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:46687716 original size:6 final size:6
Alignment explanation
Indices: 46687705--46687756 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
46687695 GCTCAAGTCA
*
46687705 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCC
1 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT
46687753 GAGC
1 GAGC
46687757 AGTCGCATAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (6 bp):
GAGCCT
Found at i:46688424 original size:48 final size:48
Alignment explanation
Indices: 46688234--46688415 Score: 337
Period size: 48 Copynumber: 3.8 Consensus size: 48
46688224 AAATTAATTG
*
46688234 CAACATTAAAACTTAGAACAAACTTTGTAATATAAATTGAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
46688282 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
*
46688330 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
*
46688378 CAACATTAAAGCTTGGAACAAACTTTGTAATATAAATT
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
46688416 AGGTACATTG
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 131 1.00
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (48 bp):
CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
Found at i:46691876 original size:20 final size:21
Alignment explanation
Indices: 46691853--46691893 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
46691843 TCCTGTATGT
46691853 ATTTATATAT-ATTATATTAA
1 ATTTATATATGATTATATTAA
* *
46691873 ATTTGTATATGATTATTTTAA
1 ATTTATATATGATTATATTAA
46691894 CTTGCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTATATATGATTATATTAA
Found at i:46691926 original size:25 final size:26
Alignment explanation
Indices: 46691884--46691971 Score: 85
Period size: 25 Copynumber: 3.4 Consensus size: 26
46691874 TTTGTATATG
* *
46691884 ATTATTTTAACTTGCTTTCTA-G-ATT
1 ATTATTTTAAGTTACTTT-TACGTATT
*
46691909 ATTATTTTAAGTTACTTTATATGTCATT
1 ATTATTTTAAGTTACTTT-TACGT-ATT
46691937 -TTATTTTAAGTTA-TTTTACGTATT
1 ATTATTTTAAGTTACTTTTACGTATT
46691961 ATTTATTTTAA
1 A-TTATTTTAA
46691972 AATTAACCTA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.06
25 22 0.41
26 13 0.24
27 13 0.24
28 3 0.06
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (26 bp):
ATTATTTTAAGTTACTTTTACGTATT
Found at i:46691964 original size:27 final size:26
Alignment explanation
Indices: 46691910--46691971 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
46691900 TTCTAGATTA
46691910 TTATTTTAAGTTACTTTATATGTCATT
1 TTATTTTAAGTTACTTTATATGTCA-T
*
46691937 TTATTTTAAGTTATTTTACGTAT-T-AT
1 TTATTTTAAGTTACTTTA--TATGTCAT
46691963 TTATTTTAA
1 TTATTTTAA
46691972 AATTAACCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 10 0.31
27 18 0.56
28 1 0.03
29 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.61
Consensus pattern (26 bp):
TTATTTTAAGTTACTTTATATGTCAT
Found at i:46699226 original size:88 final size:87
Alignment explanation
Indices: 46699070--46699394 Score: 463
Period size: 88 Copynumber: 3.7 Consensus size: 87
46699060 ATCAGTAAAA
* * *
46699070 ATAGTAGATCTTGCCTTCCTGCATCGATAGTGAAGAAGATCGAAAACACAAGCCTTGCCTCCCTC
1 ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCT-CCTC
46699135 GGTTGTAGTGGAGCAGGTTGAAG
65 GGTTGTAGTGGAGCAGGTTGAAG
* * * *
46699158 ATAGCATATCTTACCTTCTTGCATAGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTCCGTC
1 ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTCC-TC
*
46699223 GGTTGTAGTGGAGTAGGTTGAAG
65 GGTTGTAGTGGAGCAGGTTGAAG
* * *
46699246 ATAGCAGATCTTGCCTTCTTGCATCGACGA-CGAAGCAGATCGAAGACACAAGCCTTGCCTGCCT
1 ATAGCAGATCTTGCCTTCCTGCATCGA-GAGTGAAGCAGATCGAAAACACAAGCCTTGCCT-CCT
*
46699310 CGATTGTAGTGGAGCAGGTTGAAG
64 CGGTTGTAGTGGAGCAGGTTGAAG
* * * *
46699334 ATAGCAGATCTTGCCTTCCTGCATCGACAATGAAACAGATCGAAACCACAAGCCTTGCCTC
1 ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTC
46699395 TCTAAGTGGT
Statistics
Matches: 212, Mismatches: 21, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
87 4 0.02
88 204 0.96
89 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (87 bp):
ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTCCTCG
GTTGTAGTGGAGCAGGTTGAAG
Found at i:46699638 original size:131 final size:128
Alignment explanation
Indices: 46699409--46699676 Score: 403
Period size: 131 Copynumber: 2.1 Consensus size: 128
46699399 AGTGGTAGTA
* *
46699409 GAGCAGATCGAAGACGGCGAATCTTATCTTCAGGAGTAGGGAAGCAGATTTAAGCCGCAAGTCCT
1 GAGCAGATCGAAGACAGCGAATCTTATCTTCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCT
* *
46699474 ATCTCACTGGTCAGCGGTGGAATAGGTTAGAAATTAC-AGATCTTATCCCCCTAAGCAGTAGCG
66 ATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACGA-ATCTTATCCCCCTAAGCAGTAGCG
46699537 GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
1 GAGCAGATCGAAGACAGCGAATCTTATCTT---CAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
* * * * * *
46699602 CCTATCTCCCTGGTCAGCAGTGGAGTAGTTTGGAAATAACGAATCTTATCTCCCTAAGCAGTAGT
63 CCTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACGAATCTTATCCCCCTAAGCAGTAGC
46699667 G
128 G
46699668 GAGCAGATC
1 GAGCAGATC
46699677 AAGGATGACA
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
128 29 0.23
131 96 0.76
132 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.23
Consensus pattern (128 bp):
GAGCAGATCGAAGACAGCGAATCTTATCTTCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCT
ATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACGAATCTTATCCCCCTAAGCAGTAGCG
Found at i:46699727 original size:131 final size:130
Alignment explanation
Indices: 46699409--46699709 Score: 364
Period size: 131 Copynumber: 2.3 Consensus size: 130
46699399 AGTGGTAGTA
* * *
46699409 GAGCAGATCGAAGACGGCGAATCTTATCTT--C-AGGAGTAGGGAAGCAGATTTAAGCCGCAAGT
1 GAGCAGATCGAAGAC-ACGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAGT
* *
46699471 CCTATCTCACTGGTCAGCGGTGGAATAGGTTAGAAATTACAGATCTTATCCCCCTAAGCAGTAGC
65 CCTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACAGATCTTATCCCCCTAAGCAGTAGC
46699536 G
130 G
* *
46699537 GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
1 GAGCAGATCGAAGACA-CGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAGT
* * * * *
46699602 CCTATCTCCCTGGTCAGCAGTGGAGTAGTTTGGAAATAAC-GAATCTTATCTCCCTAAGCAGTAG
65 CCTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACAG-ATCTTATCCCCCTAAGCAGTAG
*
46699666 TG
129 CG
*
46699668 GAGCAGATC-AAGGATGAC-AGATCTTATC-TCCCTAAGCAGTAG
1 GAGCAGATCGAA-GA-CACGA-ATCTTATCTTCCC-AAGCAGTAG
46699710 TGGAGCATAT
Statistics
Matches: 151, Mismatches: 13, Indels: 15
0.84 0.07 0.08
Matches are distributed among these distances:
128 28 0.19
130 9 0.06
131 113 0.75
132 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (130 bp):
GAGCAGATCGAAGACACGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAGTC
CTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACAGATCTTATCCCCCTAAGCAGTAGCG
Found at i:46700093 original size:44 final size:44
Alignment explanation
Indices: 46700034--46700127 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
46700024 AATCCTATTT
46700034 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
1 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
* *
46700078 CCCTGATATTGCAGTGGAGTGGATCAAAGCATCAATTCCTATAC
1 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
46700122 CCCTGA
1 CCCTGA
46700128 AGATGCAGTG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
Found at i:46700135 original size:44 final size:44
Alignment explanation
Indices: 46700034--46700138 Score: 158
Period size: 44 Copynumber: 2.4 Consensus size: 44
46700024 AATCCTATTT
* *
46700034 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
1 CCCTGATAATGCAGTGGAGTGGATCAAAGCACCAATTCCTATAC
* *
46700078 CCCTGATATTGCAGTGGAGTGGATCAAAGCATCAATTCCTATAC
1 CCCTGATAATGCAGTGGAGTGGATCAAAGCACCAATTCCTATAC
46700122 CCCTGA-AGATGCAGTGG
1 CCCTGATA-ATGCAGTGG
46700139 GTTAGAATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 1 0.02
44 56 0.98
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (44 bp):
CCCTGATAATGCAGTGGAGTGGATCAAAGCACCAATTCCTATAC
Found at i:46701575 original size:20 final size:21
Alignment explanation
Indices: 46701552--46701592 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
46701542 TCCTGTATGT
46701552 ATTTATATAT-ATTATATTAA
1 ATTTATATATGATTATATTAA
* *
46701572 ATTTGTATATGATTATTTTAA
1 ATTTATATATGATTATATTAA
46701593 CTTGCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTATATATGATTATATTAA
Found at i:46701625 original size:25 final size:26
Alignment explanation
Indices: 46701583--46701670 Score: 85
Period size: 25 Copynumber: 3.4 Consensus size: 26
46701573 TTTGTATATG
* *
46701583 ATTATTTTAACTTGCTTTCTA-G-ATT
1 ATTATTTTAAGTTACTTT-TACGTATT
*
46701608 ATTATTTTAAGTTACTTTATATGTCATT
1 ATTATTTTAAGTTACTTT-TACGT-ATT
46701636 -TTATTTTAAGTTA-TTTTACGTATT
1 ATTATTTTAAGTTACTTTTACGTATT
46701660 ATTTATTTTAA
1 A-TTATTTTAA
46701671 AATTAACCTA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.06
25 22 0.41
26 13 0.24
27 13 0.24
28 3 0.06
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (26 bp):
ATTATTTTAAGTTACTTTTACGTATT
Found at i:46701663 original size:27 final size:26
Alignment explanation
Indices: 46701609--46701670 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
46701599 TTCTAGATTA
46701609 TTATTTTAAGTTACTTTATATGTCATT
1 TTATTTTAAGTTACTTTATATGTCA-T
*
46701636 TTATTTTAAGTTATTTTACGTAT-T-AT
1 TTATTTTAAGTTACTTTA--TATGTCAT
46701662 TTATTTTAA
1 TTATTTTAA
46701671 AATTAACCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 10 0.31
27 18 0.56
28 1 0.03
29 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.61
Consensus pattern (26 bp):
TTATTTTAAGTTACTTTATATGTCAT
Found at i:46706159 original size:31 final size:31
Alignment explanation
Indices: 46706080--46706167 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
46706070 AAGGGCCTAT
* * *
46706080 CATTTACATAAAGTGCTC-AATGAGGGCCAAA
1 CATTTTCA-AAAGTGCTCAAATAAGGGCAAAA
* * * *
46706111 CCTTTTCGAAAGCGCTCAAATAAGGGTAAAA
1 CATTTTCAAAAGTGCTCAAATAAGGGCAAAA
46706142 CATTTTCAAAAGTGCTCAAATAAGGG
1 CATTTTCAAAAGTGCTCAAATAAGGG
46706168 ATTTTTGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 8 0.17
31 38 0.83
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (31 bp):
CATTTTCAAAAGTGCTCAAATAAGGGCAAAA
Found at i:46707754 original size:30 final size:31
Alignment explanation
Indices: 46707715--46707774 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
46707705 GGAGGTGGGA
*
46707715 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
46707746 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
46707775 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:46710695 original size:22 final size:22
Alignment explanation
Indices: 46710667--46710788 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
46710657 TTCCACATCC
46710667 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
46710689 ATCACATATATACACTTTC-TCATT
1 ATCACAT-T-GGC-CATTCGGCCTT
46710713 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
46710736 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
46710760 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
46710783 ATCACA
1 ATCACA
46710789 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:46710702 original size:47 final size:47
Alignment explanation
Indices: 46710639--46710942 Score: 398
Period size: 47 Copynumber: 6.4 Consensus size: 47
46710629 CCCTTCGGGA
* * *
46710639 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
46710686 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
46710733 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
46710780 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCAATCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
46710827 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
46710874 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
46710923 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
46710943 GTACATCAAT
Statistics
Matches: 233, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.00
47 192 0.82
49 39 0.17
50 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:46724128 original size:21 final size:20
Alignment explanation
Indices: 46724103--46724141 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46724093 GAAATAGTTG
46724103 AAAAAGATCAAAACTTTTTTA
1 AAAAAGATC-AAACTTTTTTA
**
46724124 AAAAATTTCAAACTTTTT
1 AAAAAGATCAAACTTTTT
46724142 CTTTAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAAAGATCAAACTTTTTTA
Found at i:46724270 original size:72 final size:73
Alignment explanation
Indices: 46724061--46724270 Score: 156
Period size: 72 Copynumber: 2.9 Consensus size: 73
46724051 AAAAAAGATC
* *
46724061 ACTACTTTTCTTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTT--TTTA
1 ACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTGCTTTA
46724124 AAAAATTTCAA
66 AAAAA--T-AA
* * * ** * **
46724135 AC--TTTTTCTTTAAAATGACCAAAAAAC-ATATTT----TTA-TTTTAAAA-ATCTAAACGTCC
1 ACTATTTTTC-TTAAAA--ATC--AAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAAC-TTT
46724191 GCTTTTAAAAAA-AA
60 GC-TTTAAAAAATAA
46724205 ACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTGCTTTA
1 ACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTGCTTTA
46724270 A
66 A
46724271 GAATTTAAAC
Statistics
Matches: 100, Mismatches: 18, Indels: 38
0.64 0.12 0.24
Matches are distributed among these distances:
67 5 0.05
68 5 0.05
69 2 0.02
70 11 0.11
71 13 0.13
72 20 0.20
73 15 0.15
74 18 0.18
75 2 0.02
76 5 0.05
77 4 0.04
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (73 bp):
ACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTGCTTTA
AAAAATAA
Found at i:46724281 original size:144 final size:145
Alignment explanation
Indices: 46724046--46724329 Score: 441
Period size: 144 Copynumber: 2.0 Consensus size: 145
46724036 TCAAAGTTTT
* *
46724046 CTTTTAAAAAAGATCACTACTTTTCTTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAAGAT
1 CTTTTAAAAAAGATAACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGAT
* *
46724111 CAAAACTTTTTTAAAAAATTTCAAACTTTTTCTTTAAAATGACCAAAAAACATATTTTTATTTTA
66 CAAAACTTTTTTAAAAAATTTCAAACTTTTCCTTTAAAATGA-CAAAAAACAGATTTTTATTTTA
46724176 AAAATCTAAACGTCCG
130 AAAATCTAAACGTCCG
*
46724192 CTTTTAAAAAA-A-AACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGAT
1 CTTTTAAAAAAGATAACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGAT
* * *
46724255 CAAAACTTTGCTTT-AAGAATTT-AAACTTTTCCTTTAATATGACTAAAAACAGATTTTTATTTT
66 CAAAACTTT--TTTAAAAAATTTCAAACTTTTCCTTTAAAATGACAAAAAACAGATTTTTATTTT
46724318 AAAAATCTAAAC
129 AAAAATCTAAAC
46724330 TTTCTCTTTT
Statistics
Matches: 128, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
143 31 0.24
144 75 0.59
145 8 0.06
146 14 0.11
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (145 bp):
CTTTTAAAAAAGATAACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGAT
CAAAACTTTTTTAAAAAATTTCAAACTTTTCCTTTAAAATGACAAAAAACAGATTTTTATTTTAA
AAATCTAAACGTCCG
Found at i:46726938 original size:22 final size:22
Alignment explanation
Indices: 46726913--46726969 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
46726903 AAAATAGTTG
46726913 AAAAAGATTAAAACTTTAT-TTT
1 AAAAAGATTAAAA-TTTATCTTT
*
46726935 AAAAA-ATTTAAAATTTTTCTTT
1 AAAAAGA-TTAAAATTTATCTTT
* *
46726957 AAAATGACTAAAA
1 AAAAAGATTAAAA
46726970 AACATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 5 0.17
22 23 0.79
23 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.39
Consensus pattern (22 bp):
AAAAAGATTAAAATTTATCTTT
Found at i:46728433 original size:12 final size:12
Alignment explanation
Indices: 46728416--46728449 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
46728406 CGACCCACCC
46728416 ATATTAATTTTT
1 ATATTAATTTTT
*
46728428 ATATTATTTTTT
1 ATATTAATTTTT
46728440 ATA-TAATTTT
1 ATATTAATTTT
46728450 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:46731611 original size:13 final size:13
Alignment explanation
Indices: 46731593--46731623 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
46731583 TTTGAGAGTG
46731593 GATTTTATTTCTC
1 GATTTTATTTCTC
46731606 GATTTTATTTCTC
1 GATTTTATTTCTC
46731619 GATTT
1 GATTT
46731624 CATATAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.13, G:0.10, T:0.61
Consensus pattern (13 bp):
GATTTTATTTCTC
Found at i:46733034 original size:42 final size:42
Alignment explanation
Indices: 46732987--46733457 Score: 658
Period size: 42 Copynumber: 11.3 Consensus size: 42
46732977 CTTCATATAC
* *
46732987 AATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
46733029 AATGCAATGAAAAGTAAACGGACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
46733071 GATGTAAGGAAAAGTCAATGGACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
46733113 AATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCCTATA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
46733155 AATGCAATGAAAAG-AAATGGAACTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
46733196 AATGCAATAAAAAGTAAATGGACCTCCACACCTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
46733238 AATGCAATGAAAAGTAAATGAACCTCCATACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
46733280 AGTGTAAT-AAAAGTAAATGGACCTCTACGCCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
46733321 AATGCAATGAAAAGTAAATAGACTTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * **
46733363 AATGTAATAAAAAGTAAATGAACTTCCACTTCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
46733405 AATGTAATGAAAAGTAAATGAACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
46733447 AATGCAATGAA
1 AATGCAATGAA
46733458 TGTTTTCCTT
Statistics
Matches: 377, Mismatches: 50, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
41 71 0.19
42 306 0.81
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:46733222 original size:167 final size:168
Alignment explanation
Indices: 46732982--46733457 Score: 688
Period size: 167 Copynumber: 2.8 Consensus size: 168
46732972 TGTGCCTTCA
* *
46732982 TATACAATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTTTAAATGCAATGAAAAGTAAA
1 TATA-AATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAA
* * * * *
46733047 CGGACCTCCACACCTGGGCCTCTAGATGTAAGGAAAAGTCAATGGACCTCCACACCTGGGCCTCT
65 TGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCT
46733112 AAATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCC
130 AAATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCC
*
46733151 TATAAATGCAATGAAAAG-AAATGGA-ACTCCACACCTAGGCCTCTAAATGCAATAAAAAGTAAA
1 TATAAATGCAATGAAAAGTAAATGGACA-TCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAA
* * *
46733214 TGGACCTCCACACCTGGGCCTTTAAATGCAATGAAAAGTAAATGAACCTCCATACCTGGGCCTCT
65 TGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCT
* * * * *
46733279 AAGTGTAAT-AAAAGTAAATGGACCTCTACGCCTGGGCC
130 AAATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCC
* * * *
46733317 TCTAAATGCAATGAAAAGTAAATAGACTTCCACACCTGGGCCTCTAAATGTAATAAAAAGTAAAT
1 TATAAATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAAT
* * ** *
46733382 GAACTTCCACTTCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTAGGCCTCTA
66 GGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTA
46733447 AATGCAATGAA
131 AATGCAATGAA
46733458 TGTTTTCCTT
Statistics
Matches: 272, Mismatches: 31, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
166 44 0.16
167 208 0.76
168 16 0.06
169 4 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (168 bp):
TATAAATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAAT
GGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTA
AATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCC
Found at i:46733241 original size:125 final size:126
Alignment explanation
Indices: 46732987--46733457 Score: 642
Period size: 125 Copynumber: 3.8 Consensus size: 126
46732977 CTTCATATAC
* * * * *
46732987 AATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTTTAAATGCAATGAAAAGTAAACGGAC
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
* * * * *
46733052 CTCCACACCTGGGCCTCTAGATGTAAGGAAAAGTCAATGGACCTCCACACCTGGGCCTCTA
66 CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
46733113 AATGCAATGAAAAGTAAATGGACCTCCACACCCGGGCCTATAAATGCAATGAAAAG-AAATGGAA
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
* *
46733177 CTCCACACCTAGGCCTCTAAATGCAATAAAAAGTAAATGGACCTCCACACCTGGGCCTTTA
66 CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
46733238 AATGCAATGAAAAGTAAATGAACCTCCATACCTGGGCCTCTAAGTGTAAT-AAAAGTAAATGGAC
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
* * * * *
46733302 CTCTACGCCTGGGCCTCTAAATGCAATGAAAAGTAAATAGACTTCCACACCTGGGCCTCTA
66 CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * ** *
46733363 AATGTAATAAAAAGTAAATGAACTTCCACTTCTGGGCCTCTAAATGTAATGAAAAGTAAAT-GAA
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
46733427 CCTCCACACCTAGGCCTCTAAATGCAATGAA
66 -CTCCACACCTAGGCCTCTAAATGCAATGAA
46733458 TGTTTTCCTT
Statistics
Matches: 305, Mismatches: 37, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
124 5 0.02
125 210 0.69
126 90 0.30
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (126 bp):
AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:46738435 original size:4 final size:4
Alignment explanation
Indices: 46738428--46738454 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
46738418 AATGGATGAA
46738428 TGAT TGAT TGAT TGAT TGAT TGAT TGA
1 TGAT TGAT TGAT TGAT TGAT TGAT TGA
46738455 AATTAGGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
TGAT
Found at i:46740777 original size:18 final size:18
Alignment explanation
Indices: 46740754--46740794 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
46740744 CTATATGCAT
*
46740754 CTTAACTATGGAGTAGTC
1 CTTAACCATGGAGTAGTC
*
46740772 CTTAACCATGGAGTATTC
1 CTTAACCATGGAGTAGTC
46740790 CTTAA
1 CTTAA
46740795 ACTTATGCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (18 bp):
CTTAACCATGGAGTAGTC
Found at i:46742206 original size:26 final size:26
Alignment explanation
Indices: 46742177--46742241 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
46742167 CTAACCTAAA
46742177 TTTAAATGGT-AAAACCTTATAGTTTC
1 TTTAAAT-GTAAAAACCTTATAGTTTC
*
46742203 TTTAAAATGTAAAAACCTTATGGTTTC
1 TTT-AAATGTAAAAACCTTATAGTTTC
*
46742230 ATTAAAATGTAA
1 -TTTAAATGTAA
46742242 CATCTACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 5 0.15
27 27 0.79
28 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (26 bp):
TTTAAATGTAAAAACCTTATAGTTTC
Found at i:46742218 original size:27 final size:27
Alignment explanation
Indices: 46742187--46742241 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
46742177 TTTAAATGGT
*
46742187 AAAACCTTATAGTTTCTTTAAAATGTA
1 AAAACCTTATAGTTTCATTAAAATGTA
*
46742214 AAAACCTTATGGTTTCATTAAAATGTA
1 AAAACCTTATAGTTTCATTAAAATGTA
46742241 A
1 A
46742242 CATCTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (27 bp):
AAAACCTTATAGTTTCATTAAAATGTA
Found at i:46743450 original size:146 final size:146
Alignment explanation
Indices: 46743131--46743430 Score: 464
Period size: 146 Copynumber: 2.1 Consensus size: 146
46743121 TTTTTTGTAC
* * * *
46743131 AAAATC-AAA-GTTTTC-TTTTAAAAAAGATCACTACTTTTCTTAAAAATCAAAACTTTGTTTCG
1 AAAATCTAAACGTTTGCTTTTTAAAAAA-AT-AGTATTTTTCTTAAAAATCAAAACTTTATTTCG
* * * *
46743193 GAATAGTTGAAAAAGATCAAAATTTTGTTTTAAAAATTTTAAACTTTTTCTTTAAAATGACTAAA
64 AAATAGTTGAAAAAGATCAAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAA
46743258 AAACATATTTTTATTTTA
129 AAACATATTTTTATTTTA
46743276 AAAATCTAAACGTTTGCTTTTTAAAAAAATAGTATTTTTCTTAAAAATCAAAACTTTATTTCGAA
1 AAAATCTAAACGTTTGCTTTTTAAAAAAATAGTATTTTTCTTAAAAATCAAAACTTTATTTCGAA
* *
46743341 ATAGTTGAAAAAGATCAAAACTTTGCTTTAAGAA-TTTAAACTTTTCCTTTAATATGACTAAAAA
66 ATAGTTGAAAAAGATCAAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAA
46743405 ACATATTTTTATTTTA
131 ACATATTTTTATTTTA
46743421 AAAATCTAAA
1 AAAATCTAAA
46743431 TTTTCTCTTT
Statistics
Matches: 142, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
145 60 0.42
146 65 0.46
147 7 0.05
148 10 0.07
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (146 bp):
AAAATCTAAACGTTTGCTTTTTAAAAAAATAGTATTTTTCTTAAAAATCAAAACTTTATTTCGAA
ATAGTTGAAAAAGATCAAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAA
ACATATTTTTATTTTA
Found at i:46750920 original size:46 final size:46
Alignment explanation
Indices: 46750902--46751156 Score: 223
Period size: 46 Copynumber: 5.3 Consensus size: 46
46750892 TGACAAGTGG
* * *
46750902 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
46750948 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
46750994 AAGTGGAAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
46751046 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
46751092 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
46751144 AAAGTGATAAGTG
1 AAAGTGATAAGTG
46751157 GCTACACTTA
Statistics
Matches: 189, Mismatches: 8, Indels: 24
0.86 0.04 0.11
Matches are distributed among these distances:
46 101 0.53
52 88 0.47
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:46750921 original size:52 final size:51
Alignment explanation
Indices: 46750850--46751156 Score: 418
Period size: 52 Copynumber: 6.1 Consensus size: 51
46750840 ATCAAGTGAC
* **
46750850 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
46750902 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
46750948 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
46751000 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
46751046 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
46751097 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
46751150 ATAAGTG
1 A-AAGTG
46751157 GCTACACTTA
Statistics
Matches: 228, Mismatches: 13, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
46 88 0.39
52 130 0.57
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:46750956 original size:98 final size:98
Alignment explanation
Indices: 46750836--46751156 Score: 588
Period size: 98 Copynumber: 3.3 Consensus size: 98
46750826 TTTGAGTACT
* **
46750836 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
46750901 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
46750934 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
46750999 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
46751032 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
46751097 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
46751130 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
46751157 GCTACACTTA
Statistics
Matches: 217, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 217 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:46751166 original size:37 final size:37
Alignment explanation
Indices: 46751119--46751265 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
46751109 TGATAGCTTC
* *
46751119 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
46751156 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
46751193 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
46751230 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
46751265 G
1 G
46751266 ATCATACGTA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:46752596 original size:58 final size:58
Alignment explanation
Indices: 46752519--46752686 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
46752509 CATGTGAACA
46752519 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
46752578 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
46752634 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
46752685 TG
1 TG
46752687 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:46752628 original size:28 final size:28
Alignment explanation
Indices: 46752538--46752628 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
46752528 GTGATTCCGT
46752538 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
46752566 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
46752595 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
46752624 GTAAG
1 GTAAG
46752629 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:46752651 original size:49 final size:49
Alignment explanation
Indices: 46752579--46752721 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
46752569 AGTGATATGT
* *
46752579 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
46752628 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
46752677 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
46752722 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:46755776 original size:46 final size:46
Alignment explanation
Indices: 46755758--46756012 Score: 223
Period size: 46 Copynumber: 5.3 Consensus size: 46
46755748 TGACAAGTGG
* * *
46755758 AAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
46755804 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
46755850 AAGTGGAAAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
*
46755902 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
46755948 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
46756000 AAAGTGATAAGTG
1 AAAGTGATAAGTG
46756013 GCTACACTTA
Statistics
Matches: 189, Mismatches: 8, Indels: 24
0.86 0.04 0.11
Matches are distributed among these distances:
46 101 0.53
52 88 0.47
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:46755777 original size:52 final size:51
Alignment explanation
Indices: 46755706--46756012 Score: 418
Period size: 52 Copynumber: 6.1 Consensus size: 51
46755696 ATCAAGTGAC
* **
46755706 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
46755758 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
46755804 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
46755856 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
46755902 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
46755953 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
46756006 ATAAGTG
1 A-AAGTG
46756013 GCTACACTTA
Statistics
Matches: 228, Mismatches: 13, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
46 88 0.39
52 130 0.57
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:46755812 original size:98 final size:98
Alignment explanation
Indices: 46755692--46756012 Score: 588
Period size: 98 Copynumber: 3.3 Consensus size: 98
46755682 TTTGAGTACT
* **
46755692 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
46755757 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
46755790 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
46755855 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
46755888 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
46755953 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
46755986 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
46756013 GCTACACTTA
Statistics
Matches: 217, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 217 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:46756022 original size:37 final size:37
Alignment explanation
Indices: 46755975--46756121 Score: 235
Period size: 37 Copynumber: 4.0 Consensus size: 37
46755965 TGATAGCTTC
* *
46755975 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
46756012 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
*
46756049 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
46756086 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
46756121 G
1 G
46756122 ATCATACGTA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:46760603 original size:23 final size:21
Alignment explanation
Indices: 46760561--46760603 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
46760551 CTAACCTTGT
46760561 CTTTCTTCTTTCTTCCTTTCC
1 CTTTCTTCTTTCTTCCTTTCC
*
46760582 CTTTTTTCTTTTCTTTCCTTTC
1 CTTTCTTC-TTTC-TTCCTTTC
46760604 TGTTTCGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
CTTTCTTCTTTCTTCCTTTCC
Found at i:46774965 original size:18 final size:19
Alignment explanation
Indices: 46774939--46774987 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
46774929 TATTTCAAAA
*
46774939 AATTATTTTTATTTTT-AC
1 AATTTTTTTTATTTTTAAC
* *
46774957 AATTTTTTTAATTTTTAAAT
1 AATTTTTTTTATTTTT-AAC
46774977 AATTTTTTTTA
1 AATTTTTTTTA
46774988 CATCCGGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 14 0.56
20 11 0.44
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTTTTTATTTTTAAC
Found at i:46789809 original size:22 final size:24
Alignment explanation
Indices: 46789783--46789829 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
46789773 TTAATGTAAT
*
46789783 ACAATA-AATTATAATT-TTTTAA
1 ACAATATAATTAAAATTATTTTAA
46789805 ACAATATAATTAAAATTATTTTAA
1 ACAATATAATTAAAATTATTTTAA
46789829 A
1 A
46789830 ATAACCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.27
23 9 0.41
24 7 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
ACAATATAATTAAAATTATTTTAA
Found at i:46799261 original size:26 final size:26
Alignment explanation
Indices: 46799232--46799281 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
46799222 TCCCATCCCT
*
46799232 ATTTTACCATTCGTAAAATTTTGATG
1 ATTTTACCATTAGTAAAATTTTGATG
*
46799258 ATTTTACCCTTAGTAAAATTTTGA
1 ATTTTACCATTAGTAAAATTTTGA
46799282 GAAAATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTTTACCATTAGTAAAATTTTGATG
Found at i:46801116 original size:23 final size:23
Alignment explanation
Indices: 46801098--46801171 Score: 130
Period size: 23 Copynumber: 3.2 Consensus size: 23
46801088 ATGACACACG
46801098 AAGTGCCTAAAATACGACACATA
1 AAGTGCCTAAAATACGACACATA
* *
46801121 AAGTGCCTGAAATACCACACATA
1 AAGTGCCTAAAATACGACACATA
46801144 AAGTGCCTAAAATACGACACATA
1 AAGTGCCTAAAATACGACACATA
46801167 AAGTG
1 AAGTG
46801172 TCTGATTGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.18
Consensus pattern (23 bp):
AAGTGCCTAAAATACGACACATA
Found at i:46801120 original size:45 final size:44
Alignment explanation
Indices: 46801064--46801176 Score: 131
Period size: 46 Copynumber: 2.5 Consensus size: 44
46801054 CCTGATCAGT
* *
46801064 ATACAACACATAAGTGCCCCTGAAATGA-CACAC-GAAGTGCCTAAA
1 ATACGACACATAAGTG--CCTGAAAT-ACCACACAAAAGTGCCTAAA
46801109 ATACGACACATAAAGTGCCTGAAATACCACACATAAAGTGCCTAAA
1 ATACGACACAT-AAGTGCCTGAAATACCACACA-AAAGTGCCTAAA
*
46801155 ATACGACACATAAAGTGTCTGA
1 ATACGACACAT-AAGTGCCTGA
46801177 TTGGCAAAGC
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 13 0.21
45 10 0.16
46 37 0.61
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.18
Consensus pattern (44 bp):
ATACGACACATAAGTGCCTGAAATACCACACAAAAGTGCCTAAA
Found at i:46801528 original size:26 final size:25
Alignment explanation
Indices: 46801497--46801546 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
46801487 TAGTTCAATA
46801497 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
46801523 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
46801547 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:46803857 original size:20 final size:20
Alignment explanation
Indices: 46803834--46803877 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
46803824 TTAATGTAAA
*
46803834 CAATGGATTATTTTATTGAC
1 CAATGGATTATTTTATTAAC
46803854 CAATGGATTATTTTATTAAC
1 CAATGGATTATTTTATTAAC
46803874 CAAT
1 CAAT
46803878 TTGTTCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (20 bp):
CAATGGATTATTTTATTAAC
Found at i:46806996 original size:21 final size:20
Alignment explanation
Indices: 46806958--46806996 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
46806948 GTTTAGAATC
*
46806958 ATTTTATTTTTTAGATTTCA
1 ATTTTATTTTTTAAATTTCA
*
46806978 ATTTTTTTTTGTTAAATTT
1 ATTTTATTTT-TTAAATTT
46806997 GTTGTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (20 bp):
ATTTTATTTTTTAAATTTCA
Found at i:46814438 original size:16 final size:16
Alignment explanation
Indices: 46814389--46814456 Score: 82
Period size: 16 Copynumber: 4.2 Consensus size: 16
46814379 TTTGGTTCAC
*
46814389 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
* *
46814405 TCTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
46814421 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
46814437 TGCAATGGAATAGAGG
1 TGTATTGGATTAGAGG
46814453 TGTA
1 TGTA
46814457 ATAGCAAATC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.28, C:0.03, G:0.35, T:0.34
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:46814542 original size:39 final size:43
Alignment explanation
Indices: 46814440--46814546 Score: 125
Period size: 45 Copynumber: 2.5 Consensus size: 43
46814430 TTAGAGGTGC
46814440 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATGT
1 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--ATGT
* * *
46814485 AATGGAATAGAGGCGTAATAG-TAATCTTA-TGTTTGG-T-TG-
1 AATGGAATAGAGGTGTAATAGCAAATC-AACTGTTTGGTTATGT
46814524 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
46814547 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 21 0.38
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (43 bp):
AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTATGT
Found at i:46814709 original size:16 final size:16
Alignment explanation
Indices: 46814672--46814713 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46814662 TTAATCATAT
*
46814672 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
46814688 TT-AAATATATTATAA
1 TTAAAATATATTATAA
46814703 TTAAAATATAT
1 TTAAAATATAT
46814714 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:46814720 original size:14 final size:15
Alignment explanation
Indices: 46814681--46814722 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46814671 TTTAAACATA
*
46814681 ATTATTATTAAATAT
1 ATTATAATTAAATAT
46814696 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
46814710 A-TATAATTTAATA
1 ATTATAATTAAATA
46814723 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:46815591 original size:13 final size:13
Alignment explanation
Indices: 46815573--46815599 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46815563 TGAATAAAAG
46815573 TATATGGTTGGAT
1 TATATGGTTGGAT
46815586 TATATGGTTGGAT
1 TATATGGTTGGAT
46815599 T
1 T
46815600 TCTAATGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TATATGGTTGGAT
Found at i:46825347 original size:19 final size:19
Alignment explanation
Indices: 46825323--46825359 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46825313 AATATCATAT
46825323 TAATTTTAATTGATTTGAC
1 TAATTTTAATTGATTTGAC
* *
46825342 TAATTTTATTTTATTTGA
1 TAATTTTAATTGATTTGA
46825360 TCAAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (19 bp):
TAATTTTAATTGATTTGAC
Found at i:46827633 original size:6 final size:6
Alignment explanation
Indices: 46827622--46827705 Score: 77
Period size: 6 Copynumber: 14.7 Consensus size: 6
46827612 CTAGAATAGT
* * * **
46827622 AGTAGC AGTAGC AGTAGT AGTAAC A--A-C AGTAGT AGTAGC AACAG-
1 AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC
* *
46827666 AGTAGC AGTAGC AGCAGC AGCAGC AGTAGC AGTAGC AGTA
1 AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AGTA
46827706 TTAGTAGTAG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
3 2 0.03
4 1 0.02
5 4 0.06
6 56 0.89
ACGTcount: A:0.38, C:0.17, G:0.30, T:0.15
Consensus pattern (6 bp):
AGTAGC
Found at i:46827639 original size:15 final size:15
Alignment explanation
Indices: 46827619--46827703 Score: 64
Period size: 15 Copynumber: 5.7 Consensus size: 15
46827609 TAACTAGAAT
*
46827619 AGTAGTAGCAGTAGC
1 AGTAGTAGCAGCAGC
* * *
46827634 AGTAGTAGTAACAAC
1 AGTAGTAGCAGCAGC
* *
46827649 AGTAGTAGTAGCAAC
1 AGTAGTAGCAGCAGC
*
46827664 AG-AGTAGCAGTAGC
1 AGTAGTAGCAGCAGC
* * *
46827678 AGCAGCAGCAGCAGT
1 AGTAGTAGCAGCAGC
*
46827693 AGCAGTAGCAG
1 AGTAGTAGCAG
46827704 TATTAGTAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
14 11 0.19
15 46 0.81
ACGTcount: A:0.38, C:0.16, G:0.31, T:0.15
Consensus pattern (15 bp):
AGTAGTAGCAGCAGC
Done.