Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 182 of 344
Found at i:60854294 original size:33 final size:33
Alignment explanation
Indices: 60854222--60854322 Score: 107
Period size: 33 Copynumber: 3.0 Consensus size: 33
60854212 GGCCCACACT
* * * *
60854222 ATTACTGTATAGGGCTAAAGCCTAGACTAT-TTT
1 ATTACTGTATAGGGCT-AAGCCCAGACTGTACTG
60854255 ATTACTGTATAGGGCTAAGGCCCAGACTGTACTG
1 ATTACTGTATAGGGCTAA-GCCCAGACTGTACTG
*
60854289 A-TACTGGATAGGGCTCAAGCCCAGACTGTTACTG
1 ATTACTGTATAGGGCT-AAGCCCAGACTG-TACTG
60854323 CATGCATTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
32 2 0.03
33 48 0.81
34 9 0.15
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (33 bp):
ATTACTGTATAGGGCTAAGCCCAGACTGTACTG
Found at i:60856146 original size:24 final size:24
Alignment explanation
Indices: 60856119--60856174 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
60856109 TGGCTATCCG
* * *
60856119 GAGCTTTCCGATATGGTTCTTTGT
1 GAGCTTCCCGACAAGGTTCTTTGT
*
60856143 GAGCTTCCCGACAAGGTTCTTTTT
1 GAGCTTCCCGACAAGGTTCTTTGT
*
60856167 GAACTTCC
1 GAGCTTCC
60856175 TGATTATGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.39
Consensus pattern (24 bp):
GAGCTTCCCGACAAGGTTCTTTGT
Found at i:60858744 original size:22 final size:22
Alignment explanation
Indices: 60858716--60858837 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
60858706 TTCCACATCC
60858716 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
60858738 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
60858762 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
60858785 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
60858809 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
60858832 ATCACA
1 ATCACA
60858838 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:60858751 original size:47 final size:47
Alignment explanation
Indices: 60858688--60858944 Score: 365
Period size: 47 Copynumber: 5.4 Consensus size: 47
60858678 CCCTTCGGGA
* * *
60858688 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
60858735 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
60858782 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
60858829 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
60858876 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
60858925 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
60858945 GTACATCAAT
Statistics
Matches: 192, Mismatches: 14, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 150 0.78
49 40 0.21
50 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:60862428 original size:35 final size:36
Alignment explanation
Indices: 60862382--60862451 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
60862372 CATTATAATC
* *
60862382 ACTGTCACATGGTATGAA-AACGTACCCACATATTT
1 ACTGTCACATGGCATGAATAACATACCCACATATTT
*
60862417 ACTGTCACATGGCATGAATAACATACCCATATATT
1 ACTGTCACATGGCATGAATAACATACCCACATATT
60862452 CTCTTTTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.29
Consensus pattern (36 bp):
ACTGTCACATGGCATGAATAACATACCCACATATTT
Found at i:60865800 original size:54 final size:54
Alignment explanation
Indices: 60865737--60865852 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
60865727 CTTTGGCTTG
* * *
60865737 AGTCTCACAGGCGTGTGCT-AGGCTGTGTGCCAAAGCATGTAACTCTCTAACTTA
1 AGTCACACAGGCGTGTG-TGAGGCCGTGTGCCAAACCATGTAACTCTCTAACTTA
* * * * *
60865791 AGTCACACAGGTGTGTGTGAGGCCGTGTGTCTAACCGTGTAACTTTCTAACTTA
1 AGTCACACAGGCGTGTGTGAGGCCGTGTGCCAAACCATGTAACTCTCTAACTTA
60865845 AGTCACAC
1 AGTCACAC
60865853 GGTTCTGTGA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 52 0.98
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (54 bp):
AGTCACACAGGCGTGTGTGAGGCCGTGTGCCAAACCATGTAACTCTCTAACTTA
Found at i:60866089 original size:15 final size:16
Alignment explanation
Indices: 60866071--60866100 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
60866061 TATTTGATGT
60866071 TTTGTTAT-TGTACAA
1 TTTGTTATATGTACAA
60866086 TTTGTTATATGTACA
1 TTTGTTATATGTACA
60866101 TATATATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (16 bp):
TTTGTTATATGTACAA
Found at i:60873683 original size:43 final size:42
Alignment explanation
Indices: 60873599--60873752 Score: 127
Period size: 42 Copynumber: 3.6 Consensus size: 42
60873589 CAAGGCCATG
* ** *
60873599 TATGGTCTTACATGGGATCTCATATCGATGCCA-ATTGCCCAGC
1 TATGGTCTTACACGAAATCTCATAACGATGCCAGA-T-CCCAGC
* * *
60873642 TATGGTCTTACACG-ATTCTCATATATCGATGCTAGGTCCCAGAC
1 TATGGTCTTACACGAAATCTCATA-A-CGATGCCAGATCCCAG-C
* * * *
60873686 T-TGGTCTTATAGGAAATCTCATAACGATGCCATATCCCAGA
1 TATGGTCTTACACGAAATCTCATAACGATGCCAGATCCCAGC
60873727 TATGGTCTTACACGTAAA-CTCATAAC
1 TATGGTCTTACACG-AAATCTCATAAC
60873753 CCTAATGTCA
Statistics
Matches: 89, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
41 1 0.01
42 38 0.43
43 32 0.36
44 18 0.20
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (42 bp):
TATGGTCTTACACGAAATCTCATAACGATGCCAGATCCCAGC
Found at i:60876549 original size:19 final size:20
Alignment explanation
Indices: 60876511--60876550 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
60876501 GAACTTCTAA
60876511 AAATTTTACAACACTTAGAG
1 AAATTTTACAACACTTAGAG
* *
60876531 AAATTTT-CCACATTTAGAG
1 AAATTTTACAACACTTAGAG
60876550 A
1 A
60876551 GTCACACGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (20 bp):
AAATTTTACAACACTTAGAG
Found at i:60882204 original size:54 final size:54
Alignment explanation
Indices: 60882022--60882218 Score: 220
Period size: 55 Copynumber: 3.6 Consensus size: 54
60882012 AATTTACCAT
* * * * * *
60882022 TGCCATGTCTT-GACATGGTCTTACGTGGTATCCTTGGCTTAT-GAACTCATAAA
1 TGCCATGCCTTCG-CATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
* **
60882075 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAA
1 TGCCATGCCTTCGCATGGTCTTACATGATATCC-TTGCCTTATAG-AACTTATCAA
* ** *
60882130 TGCCATGTCTTTACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTCGCATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
*
60882184 TGCCATGCCTTCGCAAGGTCTTACATGATATCCTT
1 TGCCATGCCTTCGCATGGTCTTACATGATATCCTT
60882219 ATCTTACCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
52 2 0.02
53 33 0.27
54 42 0.34
55 43 0.35
56 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (54 bp):
TGCCATGCCTTCGCATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
Found at i:60882253 original size:47 final size:47
Alignment explanation
Indices: 60882200--60882296 Score: 149
Period size: 47 Copynumber: 2.1 Consensus size: 47
60882190 GCCTTCGCAA
* *
60882200 GGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAAGAT
1 GGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACAT
* * *
60882247 GGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCGAACAT
1 GGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACAT
60882294 GGT
1 GGT
60882297 ATCCTTGTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (47 bp):
GGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACAT
Found at i:60886567 original size:47 final size:43
Alignment explanation
Indices: 60886413--60886587 Score: 129
Period size: 44 Copynumber: 3.8 Consensus size: 43
60886403 GGAATGAATT
* *
60886413 GCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGCTT-
1 GCCGATG-CATGTCCCA-ACAT-GTCTTACACTGG--CTCA-A-CT-CTTG
* *
60886463 GCTGATGCATGTCCCAATCATGTCTTACACTAGCTCAACTCTTG
1 GCCGATGCATGTCCCAA-CATGTCTTACACTGGCTCAACTCTTG
* * *
60886507 GCCGATGCGTGTCCCATACACGTCTTACACTGGCT-ATCTCTGTCGAG
1 GCCGATGCATGTCCCA-ACATGTCTTACACTGGCTCAACTCT-T---G
*
60886554 GCCGATGCATGTCCCAGACATGTCTTACTCTGGC
1 GCCGATGCATGTCCCA-ACATGTCTTACACTGGC
60886588 ACTCATAATA
Statistics
Matches: 105, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
43 8 0.08
44 31 0.30
45 2 0.02
46 4 0.04
47 31 0.30
48 11 0.10
49 12 0.11
50 6 0.06
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (43 bp):
GCCGATGCATGTCCCAACATGTCTTACACTGGCTCAACTCTTG
Found at i:60894218 original size:13 final size:13
Alignment explanation
Indices: 60894200--60894225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60894190 GTAGTGTTGC
60894200 TCGGTCTTGCATT
1 TCGGTCTTGCATT
60894213 TCGGTCTTGCATT
1 TCGGTCTTGCATT
60894226 CTGAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.23, T:0.46
Consensus pattern (13 bp):
TCGGTCTTGCATT
Found at i:60899268 original size:27 final size:27
Alignment explanation
Indices: 60899238--60899326 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
60899228 TAAAACAGTC
* *
60899238 ATTTTACCCTACAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTCGATA
*
60899265 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
* **
60899292 ATTTTACA-AACTGGGGGTATTTCGATA
1 ATTTTACACTAC-AAGGGTATTTCGATA
60899319 ATTTTACA
1 ATTTTACA
60899327 AATCGGGGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 52 0.96
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:60899327 original size:27 final size:27
Alignment explanation
Indices: 60899252--60899355 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 27
60899242 TACCCTACAA
* * **
60899252 GGGTATTTTGATAATTTTACACTAC-AA
1 GGGTATTTCGATAATTTTACA-AACTGG
*
60899279 GGGTATTTCGGTAATTTTACAAACTGG
1 GGGTATTTCGATAATTTTACAAACTGG
60899306 GGGTATTTCGATAATTTTACAAA-TCGG
1 GGGTATTTCGATAATTTTACAAACT-GG
* *
60899333 GGGAATTTTGATAATTTTACAAA
1 GGGTATTTCGATAATTTTACAAA
60899356 TCGAGGTCTT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.04
27 64 0.96
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAACTGG
Found at i:60907611 original size:52 final size:51
Alignment explanation
Indices: 60907529--60907627 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 51
60907519 CCCTAGTAGT
*
60907529 CAAAGCTACCTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTGAC
1 CAAAGCTACCTTATTCACAAAGTGGCCTTCACATAGTACCACACTTGTGAC
*
60907580 CAAAGCTATCTTTATTCACAAAGTGGCCTTCACATAGTACCACACTTG
1 CAAAGCTA-CCTTATTCACAAAGTGGCCTTCACATAGTACCACACTTG
60907628 AGTCACTAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 8 0.18
52 37 0.82
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.27
Consensus pattern (51 bp):
CAAAGCTACCTTATTCACAAAGTGGCCTTCACATAGTACCACACTTGTGAC
Found at i:60915641 original size:47 final size:47
Alignment explanation
Indices: 60915580--60916064 Score: 789
Period size: 47 Copynumber: 10.4 Consensus size: 47
60915570 CAGCCAAGAC
60915580 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
60915627 AGTGTATATGTGTGAT-AGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
60915673 AGTGTATATATGTGTTAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60915720 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
60915767 AGTG--TATATGTGATAAGGCCTAAT-GCCGATGTGATGACTGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
60915811 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
60915858 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60915905 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
60915952 AGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
60915999 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
60916046 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
60916065 CCCCGAAGGG
Statistics
Matches: 412, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
44 23 0.06
45 20 0.05
46 63 0.15
47 306 0.74
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:60915898 original size:185 final size:187
Alignment explanation
Indices: 60915580--60916064 Score: 805
Period size: 185 Copynumber: 2.6 Consensus size: 187
60915570 CAGCCAAGAC
*
60915580 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGAT-A
1 AGTG-ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
60915644 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGTTAAGGCCTAATAGCCGATGTG
65 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
60915709 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
130 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
60915767 AGTG-TATATGTGATAAGGCCTAAT-GCCGATGTGATGACTGTGAAAGTGTATATATGTGATAAG
1 AGTGATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60915830 GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
66 GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
60915895 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
131 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
60915952 AGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 AGTG-ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * * * *
60916017 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
65 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60916065 CCCCGAAGGG
Statistics
Matches: 279, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
184 34 0.12
185 147 0.53
187 23 0.08
188 75 0.27
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (187 bp):
AGTGATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:60916239 original size:37 final size:37
Alignment explanation
Indices: 60916183--60916261 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
60916173 CCGAGCTCTA
*
60916183 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAG-ATTATGTCCGGGT
*
60916220 AAGACCCGAT-ATCTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGA-CTACGTGTGGAGATTATGTCCGGGT
60916257 AAGAC
1 AAGAC
60916262 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 1 0.03
37 36 0.95
38 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:60918172 original size:43 final size:43
Alignment explanation
Indices: 60918124--60918226 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
60918114 TTGGTTTTCA
60918124 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
60918167 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
60918210 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
60918227 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:60918243 original size:29 final size:29
Alignment explanation
Indices: 60918208--60918281 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
60918198 GTTGTGAGAT
* *
60918208 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
60918237 TGGCACTAAGTATGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
60918266 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
60918282 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:60918722 original size:40 final size:40
Alignment explanation
Indices: 60918678--60918794 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 40
60918668 GAGTTACTAA
*
60918678 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
60918718 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * *
60918758 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
60918795 CGTGTATTCG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:60918735 original size:80 final size:80
Alignment explanation
Indices: 60918637--60918794 Score: 194
Period size: 80 Copynumber: 2.0 Consensus size: 80
60918627 TAAGTGACCA
* * *
60918637 TATCCGGACTAAGATCCGAAG-GCATTGGT-ATGAGTTACTAAATCCGGGCTAAGTCCCGAAGAG
1 TATCCGGACTAAGATCCGAAGAGCATTCGTGAT-AGTGA-TAAATCCGGGCTAAATCCCGAAGAG
*
60918700 CATTCATGCTAGTGATG
64 CAATCATGCTAGTGATG
* * * * *
60918717 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCA
1 TATCCGGACTAAGATCCGAAGAGCATTCGTGATAGTGATAAATCCGGGCTAAATCCCGAAGAGCA
*
60918782 ATCATGCTGGTGA
66 ATCATGCTAGTGA
60918795 CGTGTATTCG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
80 54 0.82
81 11 0.17
82 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGACTAAGATCCGAAGAGCATTCGTGATAGTGATAAATCCGGGCTAAATCCCGAAGAGCA
ATCATGCTAGTGATG
Found at i:60922246 original size:47 final size:47
Alignment explanation
Indices: 60922159--60922645 Score: 490
Period size: 47 Copynumber: 10.4 Consensus size: 47
60922149 CAGCCAAGAC
*
60922159 AGTGTATATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
60922205 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
60922252 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
60922299 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
60922346 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
60922393 AGTGTATATATGTGATGAATG--TGAA-A---G-TGT-AT-ATATGTGATA
1 AGTGTATATATGTGAT-AAGGCCT-AATAGCCGATGTGATGA-ATGTGA-A
* * * **
60922435 AG-GCCTAATAGCCGATGTGATGAA--TCTGAA-AG-TGTATATATGTGAT-AA-G-GCC
1 AGTG--T-ATA---TATGTGAT-AAGGCCT-AATAGCCG-----ATGTGATGAATGTGAA
60922487 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
60922534 AGTGTATATATGTAATAAGGCCT-ATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
60922580 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
60922627 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
60922646 TCCCGAAGGG
Statistics
Matches: 380, Mismatches: 30, Indels: 61
0.81 0.06 0.13
Matches are distributed among these distances:
40 1 0.00
41 9 0.02
42 6 0.02
43 2 0.01
44 10 0.03
45 2 0.01
46 65 0.17
47 260 0.68
48 7 0.02
49 2 0.01
50 3 0.01
51 1 0.00
52 2 0.01
53 2 0.01
54 1 0.00
55 4 0.01
56 3 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:60922408 original size:72 final size:72
Alignment explanation
Indices: 60922330--60922546 Score: 377
Period size: 72 Copynumber: 3.1 Consensus size: 72
60922320 CTAATGGCCG
*
60922330 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
60922395 TGTATAT
66 TGTATAT
*
60922402 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATCTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
60922467 TGTATAT
66 TGTATAT
**
60922474 ATGTGAT-AA-G-GCCAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
60922536 TGTATAT
66 TGTATAT
60922543 ATGT
1 ATGT
60922547 AATAAGGCCT
Statistics
Matches: 140, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
69 60 0.43
70 1 0.01
71 2 0.01
72 77 0.55
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (72 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
TGTATAT
Found at i:60922411 original size:25 final size:25
Alignment explanation
Indices: 60922377--60922433 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
60922367 CTAATAGCCG
60922377 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
60922402 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
60922427 ATGTGAT
1 ATGTGAT
60922434 AAGGCCTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.37
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:60922413 original size:119 final size:117
Alignment explanation
Indices: 60922283--60922642 Score: 425
Period size: 119 Copynumber: 3.1 Consensus size: 117
60922273 CTAATAGCCG
60922283 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
60922348 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
66 TGTATATATGTGATAAGGCC--ATAGCCGATGTGATGAATGTGAAAGTGTATAA
* *
60922402 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATCTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
60922467 TGTATATATGTGATAAGGCC--A---G-TGT-AT-ATATGTGATAAG-GCCTAATAGCCG
66 TGTATATATGTGATAAGGCCATAGCCGATGTGATGA-ATGTGA-AAGTG--T-ATA---A
*
60922518 ATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCT-ATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * *
60922582 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAA
66 TGTATATATGTGATAAGGCC-A-TAGCCGATGTGATGAATGTGAAAGTGTATAA
60922636 ATGTGAT
1 ATGTGAT
60922643 AAGTCCCGAA
Statistics
Matches: 207, Mismatches: 15, Indels: 39
0.79 0.06 0.15
Matches are distributed among these distances:
109 1 0.00
110 9 0.04
111 6 0.03
112 2 0.01
113 3 0.01
115 42 0.20
116 38 0.18
118 7 0.03
119 82 0.40
121 3 0.01
123 5 0.02
124 9 0.04
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (117 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCATAGCCGATGTGATGAATGTGAAAGTGTATAA
Found at i:60922493 original size:22 final size:22
Alignment explanation
Indices: 60922465--60922508 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
60922455 TGAATCTGAA
60922465 AGTGTATATATGTGATAAGGCC
1 AGTGTATATATGTGATAAGGCC
60922487 AGTGTATATATGTGATAAGGCC
1 AGTGTATATATGTGATAAGGCC
60922509 TAATAGCCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (22 bp):
AGTGTATATATGTGATAAGGCC
Found at i:60922534 original size:69 final size:69
Alignment explanation
Indices: 60922346--60922555 Score: 348
Period size: 69 Copynumber: 3.0 Consensus size: 69
60922336 TGAATGTGAA
*
60922346 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-A
**
60922411 ATGTGAA
65 A-G-GCC
*
60922418 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATCTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
60922483 GGCC
66 GGCC
*
60922487 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
60922552 GGCC
66 GGCC
60922556 TATGGCCGAT
Statistics
Matches: 132, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
69 68 0.52
70 1 0.01
71 2 0.02
72 61 0.46
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (69 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCC
Found at i:60922819 original size:37 final size:37
Alignment explanation
Indices: 60922763--60922841 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
60922753 CCGAGCTCTA
* *
60922763 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* * *
60922800 AAGACCCGATAATTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60922837 AAGAC
1 AAGAC
60922842 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60928400 original size:22 final size:22
Alignment explanation
Indices: 60928358--60928401 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
60928348 AGGATGTTAC
* *
60928358 AAACCAAATCATAAAATAAATA
1 AAACCAAATCAGAAAAAAAATA
60928380 AAACCAAAT-AGAAACAAAAATA
1 AAACCAAATCAGAAA-AAAAATA
60928402 GTAATCAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.70, C:0.14, G:0.02, T:0.14
Consensus pattern (22 bp):
AAACCAAATCAGAAAAAAAATA
Found at i:60930361 original size:37 final size:37
Alignment explanation
Indices: 60930302--60930374 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
60930292 ATTACGAAGT
* * *
60930302 CTTACCCGGACATAATCTCCACACGAAGTTATCGGGC
1 CTTACCCGGACAAAATCCCCACACGAAGTCATCGGGC
*
60930339 CTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 CTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
60930375 TCTTTAGAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.19
Consensus pattern (37 bp):
CTTACCCGGACAAAATCCCCACACGAAGTCATCGGGC
Found at i:60930583 original size:22 final size:23
Alignment explanation
Indices: 60930553--60930633 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
60930543 TACACTTTCA
60930553 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** ***
60930576 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
60930600 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
60930623 CATT-ATCACAT
1 CATTCATCACAT
60930634 ATATACACTT
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (23 bp):
CATTCATCACATCGGCCATTAGG
Found at i:60930609 original size:25 final size:24
Alignment explanation
Indices: 60930576--60930658 Score: 71
Period size: 25 Copynumber: 3.5 Consensus size: 24
60930566 GGCCATTAGG
60930576 CATTATCACATATATACACTTTCA
1 CATTATCACATATATACACTTTCA
**** ***
60930600 CATTCATCACAT-CGGCCA-TTAGG
1 CATT-ATCACATATATACACTTTCA
60930623 CATTATCACATATATACACTTTCA
1 CATTATCACATATATACACTTTCA
60930647 CATTCATCACAT
1 CATT-ATCACAT
60930659 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 7 0.17
23 8 0.20
24 12 0.29
25 14 0.34
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.34
Consensus pattern (24 bp):
CATTATCACATATATACACTTTCA
Found at i:60930718 original size:47 final size:47
Alignment explanation
Indices: 60930496--60930718 Score: 383
Period size: 47 Copynumber: 4.7 Consensus size: 47
60930486 GCCCTTCGAG
*
60930496 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
60930546 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
60930593 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
60930640 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATCTATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
60930687 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
60930719 ATACTATCAT
Statistics
Matches: 169, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
47 132 0.78
49 33 0.20
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:60934463 original size:119 final size:120
Alignment explanation
Indices: 60934244--60934500 Score: 365
Period size: 119 Copynumber: 2.1 Consensus size: 120
60934234 TGATTACTCT
* * ** *
60934244 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGAGGTTTAGCACGGATATATCAC
1 TCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTAGAGACTTAGCACGGATACATCAC
60934309 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
66 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
* * * *
60934364 TC-GGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCAGA-ACTTAGCCCGGATACATCA
1 TCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTT-AGAGACTTAGCACGGATACATCA
* * * * *
60934427 CTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCT
65 CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
60934483 TCGGGACTTAGCCCGGAT
1 TCGGGACTTAGCCCGGAT
60934501 TTAGTAACTC
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
119 102 0.84
120 19 0.16
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
TCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTAGAGACTTAGCACGGATACATCAC
TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
Found at i:60934525 original size:40 final size:40
Alignment explanation
Indices: 60934240--60934579 Score: 350
Period size: 40 Copynumber: 8.5 Consensus size: 40
60934230 AGCATGATTA
* * * *
60934240 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * * *
60934280 CTCTTTGAGG-TTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAATG
*
60934320 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * *
60934360 CTCCTC-GGACTTAGCCCGGATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * *
60934399 CTCTTCAGAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
60934439 CTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
** * * *
60934479 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATG
* ** *
60934520 C-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATG
*
60934560 C-CTTAGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
60934580 CATCATTCGA
Statistics
Matches: 255, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
39 39 0.15
40 195 0.76
41 21 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:60934569 original size:120 final size:119
Alignment explanation
Indices: 60934247--60934579 Score: 318
Period size: 119 Copynumber: 2.8 Consensus size: 119
60934237 TTACTCTTCG
* * * * ** * *
60934247 GGACCTAGCCCGGATATA-ACACCAGCACGAATGCTCTT-TGAGGTTTAGCACGGATATATCACT
1 GGACTTAGCCCGGATATATA-ACTAGCACCAATGCTCTTCAGA-ACTTAGCCCGGATACATCACT
* * *
60934310 AGCA-CGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCCTC
64 AGCATC-AAAGCTCTTAGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCCTC
* **
60934366 GGACTTAGCCCGGATATATCACTAGCATGAATGCTCTTCAGAACTTAGCCCGGATACATCACTAG
1 GGACTTAGCCCGGATATATAACTAGCACCAATGCTCTTCAGAACTTAGCCCGGATACATCACTAG
* * * * * *
60934431 CATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTC
66 CATCAAAGCTCTTAGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCCTC
* * * * * **
60934485 GGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGATCTTAGTCCGGATATGGTCAC
1 -GGACTTAGCCCGGATATA-TAACTAGCACCAATGCTCTTCAGAACTTAGCCCGGATA-CATCAC
60934549 TTAGCA-CAAAGC-CTTAGGGACTTAGCCCGGA
63 -TAGCATCAAAGCTCTTAGGGACTTAGCCCGGA
60934580 CATCATTCGA
Statistics
Matches: 180, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
119 100 0.56
120 55 0.31
121 20 0.11
122 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (119 bp):
GGACTTAGCCCGGATATATAACTAGCACCAATGCTCTTCAGAACTTAGCCCGGATACATCACTAG
CATCAAAGCTCTTAGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCCTC
Found at i:60934932 original size:29 final size:29
Alignment explanation
Indices: 60934889--60934967 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
60934879 CTTAATAATC
*
60934889 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
60934919 AACTCGCCCACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
60934948 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
60934968 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:60935010 original size:43 final size:43
Alignment explanation
Indices: 60934949--60935094 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
60934939 TGCATTTCAA
*
60934949 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTCTT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
60934992 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
60935035 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
60935078 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
60935095 TGAAAACCAA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:60937021 original size:37 final size:37
Alignment explanation
Indices: 60936962--60937034 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
60936952 ATTACGAAGT
* * *
60936962 CTTACCCGGACATAATCTCCACACGAAGTTATCGGGC
1 CTTACCCGGACAAAATCCCCACACGAAGTCATCGGGC
*
60936999 CTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 CTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
60937035 TCTTTAGAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.19
Consensus pattern (37 bp):
CTTACCCGGACAAAATCCCCACACGAAGTCATCGGGC
Found at i:60937243 original size:22 final size:23
Alignment explanation
Indices: 60937213--60937293 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
60937203 TACACTTTCA
60937213 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
**** ***
60937236 CATT-ATCACATATATACACTTTCA
1 CATTCATCACAT-CGGCCA-TTAGG
60937260 CATTCATCACATCGGCCATTAGG
1 CATTCATCACATCGGCCATTAGG
60937283 CATT-ATCACAT
1 CATTCATCACAT
60937294 ATATACACTT
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (23 bp):
CATTCATCACATCGGCCATTAGG
Found at i:60937267 original size:47 final size:47
Alignment explanation
Indices: 60937156--60937330 Score: 305
Period size: 47 Copynumber: 3.7 Consensus size: 47
60937146 GCCCTTCGGG
**
60937156 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCATTATCAC--ATATATAC
60937206 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
60937253 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
60937300 ACTTTCACATTCATCACATCGGCCATTAGGC
1 ACTTTCACATTCATCACATCGGCCATTAGGC
60937331 CATACTATCA
Statistics
Matches: 123, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
47 86 0.70
49 33 0.27
50 4 0.03
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
Found at i:60937269 original size:25 final size:24
Alignment explanation
Indices: 60937236--60937318 Score: 71
Period size: 25 Copynumber: 3.5 Consensus size: 24
60937226 GGCCATTAGG
60937236 CATTATCACATATATACACTTTCA
1 CATTATCACATATATACACTTTCA
**** ***
60937260 CATTCATCACAT-CGGCCA-TTAGG
1 CATT-ATCACATATATACACTTTCA
60937283 CATTATCACATATATACACTTTCA
1 CATTATCACATATATACACTTTCA
60937307 CATTCATCACAT
1 CATT-ATCACAT
60937319 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 7 0.17
23 8 0.20
24 12 0.29
25 14 0.34
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.34
Consensus pattern (24 bp):
CATTATCACATATATACACTTTCA
Found at i:60940728 original size:8 final size:8
Alignment explanation
Indices: 60940715--60940749 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
60940705 TTGTGTATTC
60940715 TTTTTATA
1 TTTTTATA
60940723 TTTTTATA
1 TTTTTATA
60940731 TTTTTAT-
1 TTTTTATA
60940738 TTTTATATA
1 TTTT-TATA
60940747 TTT
1 TTT
60940750 ATTTTATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.16
8 18 0.72
9 3 0.12
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:60940740 original size:14 final size:14
Alignment explanation
Indices: 60940716--60940754 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
60940706 TGTGTATTCT
60940716 TTTTATATTTTTATA
1 TTTT-TATTTTTATA
60940731 TTTTTATTTTTATA
1 TTTTTATTTTTATA
*
60940745 TATTTATTTT
1 TTTTTATTTT
60940755 ATTGTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATTTTTATA
Found at i:60940841 original size:3 final size:3
Alignment explanation
Indices: 60940829--60940890 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
60940819 TTTAAAAAAC
* * *
60940829 TAT TATT TAT TAT TATT TAT TAT TGT TAT TAT TAG TAT TAT TAT TGT
1 TAT TA-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
60940876 TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT
60940891 GGTCATTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 43 0.88
4 6 0.12
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:60940859 original size:9 final size:9
Alignment explanation
Indices: 60940835--60940908 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 9
60940825 AAACTATTAT
*
60940835 TTATTATTAT
1 TTATTATT-G
60940845 TTATTATTG
1 TTATTATTG
60940854 TTATTATTAG
1 TTATTATT-G
60940864 TATTATTATTG
1 --TTATTATTG
*
60940875 TTATTATTA
1 TTATTATTG
* *
60940884 CTATTATGG
1 TTATTATTG
* *
60940893 TCATTTTTG
1 TTATTATTG
60940902 TTATTAT
1 TTATTAT
60940909 CATTGTTCCA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
9 32 0.64
10 9 0.18
11 1 0.02
12 8 0.16
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (9 bp):
TTATTATTG
Found at i:60947601 original size:14 final size:14
Alignment explanation
Indices: 60947582--60947609 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60947572 TAGAAGGGGA
60947582 TTGTATAAATTACG
1 TTGTATAAATTACG
60947596 TTGTATAAATTACG
1 TTGTATAAATTACG
60947610 CCAAGAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TTGTATAAATTACG
Found at i:60949674 original size:50 final size:48
Alignment explanation
Indices: 60949620--60949771 Score: 134
Period size: 50 Copynumber: 3.2 Consensus size: 48
60949610 CAGTAGAACG
60949620 GATTGAAGTTATCATGGTGAATCTTATCTCCCCGAAGTGGCAGTGGAGCA
1 GATTGAAGTTATCAT-G-GAATCTTATCTCCCCGAAGTGGCAGTGGAGCA
** ** * * * *
60949670 GATTGAAGCCA-CA---AATCCCATAC-CCCTGAAGTTGTAGTGGAACA
1 GATTGAAGTTATCATGGAATCTTAT-CTCCCCGAAGTGGCAGTGGAGCA
* *
60949714 GATTGAAGTTATTATGGCAAATCTTATCTCCCCGAAGTGGCAGTGGAGTA
1 GATTGAAGTTATCATGG--AATCTTATCTCCCCGAAGTGGCAGTGGAGCA
60949764 GATTGAAG
1 GATTGAAG
60949772 CCACAAATTC
Statistics
Matches: 76, Mismatches: 18, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
44 32 0.42
45 2 0.03
49 3 0.04
50 39 0.51
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (48 bp):
GATTGAAGTTATCATGGAATCTTATCTCCCCGAAGTGGCAGTGGAGCA
Found at i:60949725 original size:94 final size:94
Alignment explanation
Indices: 60949594--60950318 Score: 740
Period size: 94 Copynumber: 7.8 Consensus size: 94
60949584 TTACACATCT
* * * * *
60949594 CATACCCCTAAAGTTGCAGTAGAACGGATTGAAGTTATCATGGTGAATCTTATCTCCCCGAAGTG
1 CATACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGGCGAATCTTATCTCCCCGAAGTT
*
60949659 GCAGTGGAGCAGATTGAAGCCACAAATCC
66 GCAGTGGAGCAAATTGAAGCCACAAATCC
* * * *
60949688 CATACCCCTGAAGTTGTAGTGGAACAGATTGAAGTTATTATGGCAAATCTTATCTCCCCGAAGTG
1 CATACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGGCGAATCTTATCTCCCCGAAGTT
* * *
60949753 GCAGTGGAGTAGATTGAAGCCACAAATTC
66 GCAGTGGAGCAAATTGAAGCCACAAATCC
* * * **
60949782 CATACCCCTGAAGTTGCAGTGGAACGGATTAAAGTTATCATGGCGAACCTTATCTCCTTGAAGTT
1 CATACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGGCGAATCTTATCTCCCCGAAGTT
* ** * * *
60949847 GCGGTAAAGCAAATTGAAACCATAAATCT
66 GCAGTGGAGCAAATTGAAGCCACAAATCC
* * * * * *
60949876 CATGCCCCTGAAGTTGCAGTGGAACGGATTAAAGCTATCATGGCAAATCTTATCTCCCTGAAGTT
1 CATACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGGCGAATCTTATCTCCCCGAAGTT
* *
60949941 GCAGTGGAGCAAATTAAAGCCACAAATCT
66 GCAGTGGAGCAAATTGAAGCCACAAATCC
** * * *
60949970 CATACCCCTGAAGTTATAGTAGAACAGATTGAAGTTATCATGGCGAATCCTATCTCCCTGAAGTT
1 CATACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGGCGAATCTTATCTCCCCGAAGTT
* *
60950035 GC-GATGAAGCAGATTGAAGCCACAAATCC
66 GCAG-TGGAGCAAATTGAAGCCACAAATCC
* **
60950064 CATACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGGTGAATCATT-T-TTTCC---G-
1 CATACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGGCGAATC-TTATCTCCCCGAAGT
* *
60950123 -G-AGT-TA-CAAATTAAAGCCACAAATCC
65 TGCAGTGGAGCAAATTGAAGCCACAAATCC
* * * * * *
60950149 CATACCTCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGGAGAATCCTATCTCTCCAAAGTT
1 CATACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGGCGAATCTTATCTCCCCGAAGTT
*** * *
60950214 ATGGTAGAGTAAATTGAAGCCACAAATCC
66 GCAGTGGAGCAAATTGAAGCCACAAATCC
* ** * * * * *
60950243 CATACCCTTGAAGTTATAGTAGGGTA-A-ATTAAAGTTATTATGGC-AGACCTTATCTCCCTGAA
1 CATACCCCTGAAGTTGCAGT--GGAACAGATTGAAGTTATCATGGCGA-ATCTTATCTCCCCGAA
60950305 GTTGCAGTGGAGCA
63 GTTGCAGTGGAGCA
60950319 GGTCAAAAGT
Statistics
Matches: 524, Mismatches: 91, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
84 1 0.00
85 65 0.12
86 5 0.01
87 1 0.00
88 2 0.00
89 1 0.00
90 1 0.00
92 2 0.00
93 5 0.01
94 437 0.83
95 1 0.00
96 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (94 bp):
CATACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGGCGAATCTTATCTCCCCGAAGTT
GCAGTGGAGCAAATTGAAGCCACAAATCC
Found at i:60949935 original size:50 final size:50
Alignment explanation
Indices: 60949449--60950106 Score: 234
Period size: 44 Copynumber: 14.0 Consensus size: 50
60949439 TACCATGGTG
* * *
60949449 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGC---CAT---T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGGCA
* * * ** * * *
60949493 AACCTTATCTCTCTGAAGTTGTAGTGGAGTAGGTTGAAG--AT-A--GCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGGCA
* * * **
60949538 AATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCTA-CAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATC-A-TGGCA
* * * * * * * **
60949589 CATCTCATAC-CCCTAAAGTTGCAGTAGAACGGATTGAAGTTATCATGGTG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGGCA
* * * *
60949639 AATCTTATCTCCCCGAAGTGGCAGTGGAGCAGATTGAAGC---CA---CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGGCA
** * * * *
60949683 AATCCCATAC-CCCTGAAGTTGTAGTGGAACAGATTGAAGTTATTATGGCA
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGGCA
* * ** *
60949733 AATCTTATCTCCCCGAAGTGGCAGTGGAGTAGATTGAAGC---CA---CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGGCA
* * * *
60949777 AAT-TCCATAC-CCCTGAAGTTGCAGTGGAACGGATTAAAGTTATCATGGCG
1 AATCT-TAT-CTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGGCA
* * * * *
60949827 AACCTTATCTCCTTGAAGTTGCGGT-AAAGCAAATTGAAA-C---CAT---A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATT-AAAGCTATCATGGCA
* *
60949871 AATCTCATGC-CCCTGAAGTTGCAGTGGAACGGATTAAAGCTATCATGGCA
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGGCA
* *
60949921 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGC---CA---CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGGCA
* ** * * * *
60949965 AATCTCATAC-CCCTGAAGTTATAGTAGAACAGATTGAAGTTATCATGGCG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGGCA
* *
60950015 AATCCTATCTCCCTGAAGTTGC-GAT-GAAGCAGATTGAAGC---CA---CA
1 AATCTTATCTCCCTGAAGTTGCAG-TGGAA-CAGATTAAAGCTATCATGGCA
** * *
60950059 AATCCCATAC-CCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGG
60950107 TGAATCATTT
Statistics
Matches: 447, Mismatches: 104, Indels: 120
0.67 0.15 0.18
Matches are distributed among these distances:
43 4 0.01
44 181 0.40
45 43 0.10
47 21 0.05
48 1 0.00
49 11 0.02
50 147 0.33
51 38 0.09
52 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (50 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATCATGGCA
Found at i:60949963 original size:282 final size:271
Alignment explanation
Indices: 60949590--60950319 Score: 867
Period size: 282 Copynumber: 2.6 Consensus size: 271
60949580 CAAGTTACAC
* * *
60949590 ATCTCATACCCCTAAAGTTGCAGTAGAACGGATTGAAGTTATCATGGTGAATCTTATCTCCCCGA
1 ATCTCATACCCCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGG-AAATCTTATCT-CCCGA
* * *
60949655 AGTGGCAGTGGAGCAGATTGAAGCCACAAATCCCATACCCCTGAAGTTGTAGTGGAACAGATTGA
64 AGTTGCAGTGGAGCAAATTGAAGCCACAAATCCCATACCCCTGAAGTTATAGTGGAACAGATTGA
* * * *
60949720 AGTTATTATGGCAAATCTTATCTCCCCGAAGTGGCAGTGGAGTAGATTGAAGCCACAAATTCCAT
129 AGTTATTATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCAT
* *
60949785 ACCCCTGAAGTTGCAGTGGAACGGATTAAAGTTATCATGGCGAA-CCTTATCTCCTTGAAGTTGC
194 ACCCCTGAAGTTGCAGTGGAACAGATTAAAGTTATCATGGCGAATCATTATCTCC--GAAG-T--
*
60949849 GGTAAAGCAAATTGAAA-CCATAA
254 --T--A-CAAATT-AAAGCCACAA
* * *
60949872 ATCTCATGCCCCTGAAGTTGCAGTGGAACGGATTAAAGCTATCATGGCAAATCTTATCTCCCTGA
1 ATCTCATACCCCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGG-AAATCTTATCTCCC-GA
* * *
60949937 AGTTGCAGTGGAGCAAATTAAAGCCACAAATCTCATACCCCTGAAGTTATAGTAGAACAGATTGA
64 AGTTGCAGTGGAGCAAATTGAAGCCACAAATCCCATACCCCTGAAGTTATAGTGGAACAGATTGA
* * * *
60950002 AGTTATCATGGCGAATCCTATCTCCCTGAAGTTGC-GATGAAGCAGATTGAAGCCACAAATCCCA
129 AGTTATTATGGCAAATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATTGAAGCCACAAATCCCA
* * * * *
60950066 TACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGGTGAATCATTTTTTCCGGAGTTACA
193 TACCCCTGAAGTTGCAGTGGAACAGATTAAAGTTATCATGGCGAATCATTATCTCCGAAGTTACA
60950131 AATTAAAGCCACAA
258 AATTAAAGCCACAA
* * * *
60950145 ATCCCATACCTCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGGAGAATCCTATCTCTCCAA
1 ATCTCATACCCCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGGA-AATCTTATCTC-CCGA
*** * * * *
60950210 AGTTATGGTAGAGTAAATTGAAGCCACAAATCCCATACCCTTGAAGTTATAGTAGGGTA-A-ATT
64 AGTTGCAGTGGAGCAAATTGAAGCCACAAATCCCATACCCCTGAAGTTATAGT--GGAACAGATT
* * *
60950273 AAAGTTATTATGGCAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAG
127 GAAGTTATTATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
60950320 GTCAAAAGTT
Statistics
Matches: 386, Mismatches: 53, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
272 4 0.01
273 150 0.39
274 5 0.01
275 2 0.01
276 1 0.00
280 1 0.00
281 7 0.02
282 209 0.54
283 7 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (271 bp):
ATCTCATACCCCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGGAAATCTTATCTCCCGAAG
TTGCAGTGGAGCAAATTGAAGCCACAAATCCCATACCCCTGAAGTTATAGTGGAACAGATTGAAG
TTATTATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCATAC
CCCTGAAGTTGCAGTGGAACAGATTAAAGTTATCATGGCGAATCATTATCTCCGAAGTTACAAAT
TAAAGCCACAA
Found at i:60950359 original size:45 final size:44
Alignment explanation
Indices: 60950291--60950381 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 44
60950281 TATGGCAGAC
*
60950291 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTCAAAAGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACA-GTCAAAAGTTACAAAT
* *
60950336 CTTATCTCCCTGAAGTTGTAGTGGAATAGTCAAAAGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGTCAAAAGTTACAAAT
60950380 CT
1 CT
60950382 CAATCCCCGA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGTCAAAAGTTACAAAT
Found at i:60952346 original size:14 final size:14
Alignment explanation
Indices: 60952329--60952372 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
60952319 TTGTGTATTC
60952329 TTTTTATATTTTTA
1 TTTTTATATTTTTA
*
60952343 TTTTTATATATTTA
1 TTTTTATATTTTTA
*
60952357 -TTTTAT-TTTATA
1 TTTTTATATTTTTA
60952369 TTTT
1 TTTT
60952373 GTATGTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 4 0.15
13 9 0.35
14 13 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATATTTTTA
Found at i:60952352 original size:16 final size:14
Alignment explanation
Indices: 60952329--60952372 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
60952319 TTGTGTATTC
60952329 TTTTTATATTTTTAT
1 TTTTTATATTTTT-T
60952344 TTTTATATATTTATTT
1 TTTT-TATATTT-TTT
60952360 TATTTTATATTTT
1 T-TTTTATATTTT
60952373 GTATGTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.19
16 16 0.62
17 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATATTTTTT
Found at i:60952455 original size:13 final size:13
Alignment explanation
Indices: 60952437--60952468 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
60952427 TAAAAAATTT
60952437 GTTATTTATTATC
1 GTTATTTATTATC
*
60952450 GTTATTTATTATT
1 GTTATTTATTATC
60952463 GTTATT
1 GTTATT
60952469 GTTATTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.09, T:0.66
Consensus pattern (13 bp):
GTTATTTATTATC
Found at i:60952461 original size:3 final size:3
Alignment explanation
Indices: 60952455--60952503 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
60952445 TTATCGTTAT
* * * * *
60952455 TTA TTA TTG TTA TTG TTA TTA GTA TTA TTA TTG TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60952503 T
1 T
60952504 GGTCATTTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:60955753 original size:26 final size:26
Alignment explanation
Indices: 60955723--60955787 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
60955713 TTAGAATTCT
60955723 ATGTATATAATTATATA-AAATTAAA
1 ATGTATATAATTATATATAAATTAAA
60955748 ATTGTATA-ATATTATATATTAAATTAAA
1 A-TGTATATA-ATTATATA-TAAATTAAA
*
60955776 ATGTATGTAATT
1 ATGTATATAATT
60955788 TTAAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 2 0.06
26 14 0.41
27 8 0.24
28 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (26 bp):
ATGTATATAATTATATATAAATTAAA
Found at i:60956528 original size:2 final size:2
Alignment explanation
Indices: 60956521--60956546 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60956511 AGATGGATGG
60956521 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
60956547 TGAAAGCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:60962121 original size:22 final size:22
Alignment explanation
Indices: 60962093--60962138 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
60962083 TAATATAGAC
60962093 TTAATAAATGCAAA-AAAATCTT
1 TTAATAAATGCAAAGAAAAT-TT
*
60962115 TTAATAAATGGAAAGAAAATTT
1 TTAATAAATGCAAAGAAAATTT
60962137 TT
1 TT
60962139 GAAGTGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (22 bp):
TTAATAAATGCAAAGAAAATTT
Found at i:60962188 original size:20 final size:20
Alignment explanation
Indices: 60962163--60962202 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
60962153 TTAACAAAAC
60962163 CCCATTCAATACTATTTATA
1 CCCATTCAATACTATTTATA
60962183 CCCATTCAATACTATTTATA
1 CCCATTCAATACTATTTATA
60962203 TCAAATAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (20 bp):
CCCATTCAATACTATTTATA
Found at i:60964152 original size:41 final size:41
Alignment explanation
Indices: 60964107--60964227 Score: 154
Period size: 41 Copynumber: 2.9 Consensus size: 41
60964097 CTAGTATAAC
*
60964107 ACACCGGCACAAAGCCTACTAGGCAATAAGCCTGAT-TTAAT
1 ACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATT-AT
* * *
60964148 ACACCGGCATAAAGCTTGCTAGGCAATAAGCTTGATATTAT
1 ACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATTAT
* * *
60964189 ACACCGGTATCAAATCCTGCTAGGCAATAAGACTGATAT
1 ACACCGGCA-CAAAGCCTGCTAGGCAATAAGCCTGATAT
60964228 ATCACAGTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 42 0.62
42 26 0.38
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
ACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATTAT
Found at i:60970855 original size:31 final size:30
Alignment explanation
Indices: 60970820--60970877 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
60970810 TCTGCATATC
60970820 TGAAACTGAATCTGTTATCTGGATCTGAATT
1 TGAAACTGAATCTG-TATCTGGATCTGAATT
* *
60970851 TGAAATTGAATCTGTATCTGTATCTGA
1 TGAAACTGAATCTGTATCTGGATCTGA
60970878 CTGTGCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (30 bp):
TGAAACTGAATCTGTATCTGGATCTGAATT
Found at i:60974541 original size:14 final size:14
Alignment explanation
Indices: 60974522--60974550 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60974512 GAGTTTTAAA
60974522 TATATATATATAGT
1 TATATATATATAGT
60974536 TATATATATATAGT
1 TATATATATATAGT
60974550 T
1 T
60974551 TCAAATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TATATATATATAGT
Found at i:60976080 original size:18 final size:19
Alignment explanation
Indices: 60976054--60976091 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
60976044 TTACTGTTTG
* *
60976054 AATGCCTAATTCA-GTAAA
1 AATGACTAAATCACGTAAA
60976072 AATGACTAAATCACGTAAA
1 AATGACTAAATCACGTAAA
60976091 A
1 A
60976092 TATAAAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.24
Consensus pattern (19 bp):
AATGACTAAATCACGTAAA
Found at i:60977241 original size:23 final size:24
Alignment explanation
Indices: 60977179--60977244 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
60977169 TACCAATATA
* * *
60977179 TCAGCTTATAAGAGCTTACTGTTT
1 TCAGCTCATCAGAGCTTACCGTTT
* *
60977203 TCAGCTCGTCAAAGCTTACCGTTT
1 TCAGCTCATCAGAGCTTACCGTTT
60977227 T-AGCTCAAT-AGAGCTTAC
1 TCAGCTC-ATCAGAGCTTAC
60977245 TGTCCATCAG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 13 0.38
24 21 0.62
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (24 bp):
TCAGCTCATCAGAGCTTACCGTTT
Found at i:60977443 original size:19 final size:19
Alignment explanation
Indices: 60977415--60977478 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
60977405 AAAAATTATG
*
60977415 TGTTACATGGATGAATTAC
1 TGTTATATGGATGAATTAC
* *
60977434 TGTTATATGGATGAAGTAT
1 TGTTATATGGATGAATTAC
***
60977453 TGTTTATACAAATGAATTAC
1 TG-TTATATGGATGAATTAC
60977473 TGTTAT
1 TGTTAT
60977479 CAAATGAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
19 22 0.61
20 14 0.39
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (19 bp):
TGTTATATGGATGAATTAC
Found at i:60977467 original size:20 final size:20
Alignment explanation
Indices: 60977444--60977499 Score: 80
Period size: 18 Copynumber: 2.9 Consensus size: 20
60977434 TGTTATATGG
*
60977444 ATGAAGTATTGTTTATACAA
1 ATGAATTATTGTTTATACAA
*
60977464 ATGAATTACTG-TTAT-CAA
1 ATGAATTATTGTTTATACAA
60977482 ATGAATTATTGTTTATAC
1 ATGAATTATTGTTTATAC
60977500 GATTGAGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 13 0.42
19 8 0.26
20 10 0.32
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGAATTATTGTTTATACAA
Found at i:60977484 original size:18 final size:18
Alignment explanation
Indices: 60977425--60977494 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
60977415 TGTTACATGG
*
60977425 ATGAATTACTGTTAT-ATGG
1 ATGAATTACTGTTATCA--A
* *
60977444 ATGAAGTATTGTTTATACAA
1 ATGAATTACTG-TTAT-CAA
60977464 ATGAATTACTGTTATCAA
1 ATGAATTACTGTTATCAA
*
60977482 ATGAATTATTGTT
1 ATGAATTACTGTT
60977495 TATACGATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 15 0.36
19 13 0.31
20 13 0.31
22 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.43
Consensus pattern (18 bp):
ATGAATTACTGTTATCAA
Found at i:60977495 original size:38 final size:38
Alignment explanation
Indices: 60977425--60977499 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 38
60977415 TGTTACATGG
*
60977425 ATGAATTACTGTTATATGGATGAAGTATTGTTTATACAA
1 ATGAATTACTGTTATA-GAATGAAGTATTGTTTATACAA
*
60977464 ATGAATTACTGTTATCA-AATGAATTATTGTTTATAC
1 ATGAATTACTGTTAT-AGAATGAAGTATTGTTTATAC
60977500 GATTGAGAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 17 0.52
39 15 0.45
40 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.43
Consensus pattern (38 bp):
ATGAATTACTGTTATAGAATGAAGTATTGTTTATACAA
Found at i:60978701 original size:13 final size:13
Alignment explanation
Indices: 60978683--60978707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60978673 TAATGGTATA
60978683 TTGAATCCATGAT
1 TTGAATCCATGAT
60978696 TTGAATCCATGA
1 TTGAATCCATGA
60978708 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:60980725 original size:47 final size:47
Alignment explanation
Indices: 60980671--60980940 Score: 405
Period size: 47 Copynumber: 5.7 Consensus size: 47
60980661 TTAGAATTTT
* *
60980671 ATGTGATGAATGTGAATGTGCATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
*
60980718 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAACCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
60980765 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
* *
60980812 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
* * * * * *
60980859 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
* * * *
60980906 ACGTGATGGATGTGAAAGTGTATAAATATGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60980941 TCCCGAAGGG
Statistics
Matches: 205, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 205 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
Found at i:60982792 original size:40 final size:40
Alignment explanation
Indices: 60982400--60982780 Score: 550
Period size: 40 Copynumber: 9.6 Consensus size: 40
60982390 GAGTGAAATG
* *
60982400 TCCGGGCTAAATCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
60982440 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
60982480 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
60982520 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
60982560 TTCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
60982600 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
60982640 TCCGGGCTAAGTCTCGAAGAGCATTCGCGCTA--GATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
60982678 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* ** * * * *
60982718 TCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
60982758 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
60982781 ATCATGCTGG
Statistics
Matches: 306, Mismatches: 33, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
38 34 0.11
40 272 0.89
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:60984993 original size:13 final size:13
Alignment explanation
Indices: 60984975--60984999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60984965 TAATGGTATA
60984975 TTGAATCCATGAT
1 TTGAATCCATGAT
60984988 TTGAATCCATGA
1 TTGAATCCATGA
60985000 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:60987017 original size:47 final size:47
Alignment explanation
Indices: 60986963--60987232 Score: 423
Period size: 47 Copynumber: 5.7 Consensus size: 47
60986953 TTAGGATTTT
* *
60986963 ATGTGATGAATGTGAATGTGCATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
*
60987010 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAACCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
60987057 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
*
60987104 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
* * * * * *
60987151 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
* * *
60987198 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60987233 TCCCGAAGGG
Statistics
Matches: 208, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 208 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
Found at i:60991422 original size:46 final size:43
Alignment explanation
Indices: 60991302--60991518 Score: 167
Period size: 46 Copynumber: 4.8 Consensus size: 43
60991292 GGTTATCGTG
* *
60991302 AGCTAGTGTAAGA-CATGTCTGGGACATCCATCGGCCACATT-ATGAG
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGG---C-TTGA-GAA
*
60991348 AGCT-GATGTAAGACCATGTTTGGGACATGACATCGGCATTGAGACAA
1 AGCTAG-TGTAAGACCATGTCTGGGACATG-CATCGGC-TTGAG--AA
** *
60991395 GAGCTAGT-TAAGA-CATGTCTGGGACATGCATCAACCTCGAGATGTA
1 -AGCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCTTGAGA---A
*
60991441 AGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCTATGAGAT
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCT-TGAGAA
*
60991484 AGTTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATCG
60991519 ACTTTCTATC
Statistics
Matches: 143, Mismatches: 12, Indels: 33
0.76 0.06 0.18
Matches are distributed among these distances:
43 13 0.09
44 14 0.10
45 29 0.20
46 56 0.39
47 19 0.13
48 11 0.08
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (43 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGAGAA
Found at i:60993040 original size:10 final size:10
Alignment explanation
Indices: 60993020--60993092 Score: 78
Period size: 10 Copynumber: 7.2 Consensus size: 10
60993010 TCTCAACAAA
60993020 AATTACAAAAT
1 AATT-CAAAAT
60993031 AATTCAAAAT
1 AATTCAAAAT
*
60993041 AATTTCCAAA-
1 AA-TTCAAAAT
60993051 AATTCAAAAT
1 AATTCAAAAT
60993061 AATTCAAAAT
1 AATTCAAAAT
*
60993071 AATTTCCAAA-
1 AA-TTCAAAAT
*
60993081 GATTCAAAAT
1 AATTCAAAAT
60993091 AA
1 AA
60993093 ATTTTAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
9 12 0.23
10 24 0.46
11 16 0.31
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.29
Consensus pattern (10 bp):
AATTCAAAAT
Found at i:60993061 original size:30 final size:30
Alignment explanation
Indices: 60993016--60993092 Score: 136
Period size: 30 Copynumber: 2.5 Consensus size: 30
60993006 TCTCTCTCAA
60993016 CAAAAATTACAAAATAATTCAAAATAATTTC
1 CAAAAATT-CAAAATAATTCAAAATAATTTC
60993047 CAAAAATTCAAAATAATTCAAAATAATTTC
1 CAAAAATTCAAAATAATTCAAAATAATTTC
*
60993077 CAAAGATTCAAAATAA
1 CAAAAATTCAAAATAA
60993093 ATTTTAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 37 0.82
31 8 0.18
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.27
Consensus pattern (30 bp):
CAAAAATTCAAAATAATTCAAAATAATTTC
Found at i:60993106 original size:19 final size:20
Alignment explanation
Indices: 60993061--60993110 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
60993051 AATTCAAAAT
60993061 AATTCAAAAT-AATTTCCAA
1 AATTCAAAATAAATTTCCAA
*
60993080 AGATTCAAAATAAATTT-TAA
1 A-ATTCAAAATAAATTTCCAA
60993100 AATTCAAAATA
1 AATTCAAAATA
60993111 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.39
20 12 0.43
21 5 0.18
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (20 bp):
AATTCAAAATAAATTTCCAA
Found at i:60993120 original size:19 final size:19
Alignment explanation
Indices: 60993061--60993127 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
60993051 AATTCAAAAT
*
60993061 AATTCAAAATAATTTCCAAA
1 AATTCAAAATAATTT-TAAA
*
60993081 GATTCAAAATAAATTTT-AA
1 AATTCAAAAT-AATTTTAAA
60993100 AATTCAAAAT-ATTTATAAAA
1 AATTCAAAATAATTT-T-AAA
60993120 AATTCAAA
1 AATTCAAA
60993128 TTTTATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 4 0.10
18 1 0.03
19 11 0.28
20 19 0.47
21 5 0.12
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:60995955 original size:40 final size:40
Alignment explanation
Indices: 60995872--60996174 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
60995862 TTGAATGCTG
* * * * * *
60995872 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
60995912 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
60995952 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
60995992 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
60996032 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
60996072 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
60996112 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
60996151 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
60996175 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
39 35 0.15
40 196 0.82
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:61013520 original size:40 final size:40
Alignment explanation
Indices: 61013422--61013684 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
61013412 TCCTCGTTCA
* * * * *
61013422 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
61013461 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61013501 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61013541 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61013581 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
61013621 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61013661 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61013685 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61021461 original size:40 final size:40
Alignment explanation
Indices: 61021363--61021625 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
61021353 TCCTCGTTCA
* * * * *
61021363 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
61021402 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61021442 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61021482 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61021522 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
61021562 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61021602 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61021626 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61024913 original size:24 final size:24
Alignment explanation
Indices: 61024886--61024958 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
61024876 GAGTTTGTAA
61024886 TGTATATAGCCATATGATTTGGCT
1 TGTATATAGCCATATGATTTGGCT
* *** * *
61024910 TGTAAAT-GATGTATGTTTTGGTT
1 TGTATATAGCCATATGATTTGGCT
* *
61024933 ATGTGTATAACCATATGATTTGGCT
1 -TGTATATAGCCATATGATTTGGCT
61024958 T
1 T
61024959 ATTTTGGTTT
Statistics
Matches: 33, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
23 11 0.33
24 12 0.36
25 10 0.30
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (24 bp):
TGTATATAGCCATATGATTTGGCT
Found at i:61030267 original size:17 final size:18
Alignment explanation
Indices: 61030227--61030278 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
61030217 TCAAATATTA
61030227 AAAAAATATTAAAAATTGG
1 AAAAAATA-TAAAAATTGG
*
61030246 AAAAAATATAAACA-TGG
1 AAAAAATATAAAAATTGG
61030263 TAAAAATATATAAAAA
1 -AAAAA-ATATAAAAA
61030279 AATTGTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.10
18 10 0.34
19 16 0.55
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (18 bp):
AAAAAATATAAAAATTGG
Found at i:61030574 original size:18 final size:18
Alignment explanation
Indices: 61030553--61030587 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61030543 TTTTATAAAA
61030553 TTTTACAATTTTTTTATT
1 TTTTACAATTTTTTTATT
**
61030571 TTTTACGCTTTTTTTAT
1 TTTTACAATTTTTTTAT
61030588 AAAAAAATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTACAATTTTTTTATT
Found at i:61030614 original size:10 final size:10
Alignment explanation
Indices: 61030599--61030651 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 10
61030589 AAAAAATTCC
61030599 AATTTTTAAT
1 AATTTTTAAT
61030609 AATTTTT-A-
1 AATTTTTAAT
61030617 AATTTTTAA-
1 AATTTTTAAT
*
61030626 AA-TTTTATT
1 AATTTTTAAT
**
61030635 AAAATTTAAT
1 AATTTTTAAT
61030645 AATTTTT
1 AATTTTT
61030652 CTAAAATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 12 0.34
9 6 0.17
10 17 0.49
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:61030656 original size:19 final size:18
Alignment explanation
Indices: 61030603--61030671 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 18
61030593 AATTCCAATT
*
61030603 TTTAATAA-TTTTTAAATT
1 TTTAATAATTTTTTAAA-A
61030621 TTTAA-AATTTTATTAAAA
1 TTTAATAATTTT-TTAAAA
61030639 TTTAATAATTTTTCTAAAA
1 TTTAATAATTTTT-TAAAA
*
61030658 TTT-ATTATTTTTTA
1 TTTAATAATTTTTTA
61030672 TTTTTTATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.09
18 22 0.49
19 19 0.42
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAATAATTTTTTAAAA
Found at i:61030669 original size:18 final size:19
Alignment explanation
Indices: 61030603--61030661 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
61030593 AATTCCAATT
*
61030603 TTTAATAA-TTTT-TAAATT
1 TTTAATAATTTTTCTAAA-A
61030621 TTTAA-AATTTTAT-TAAAA
1 TTTAATAATTTT-TCTAAAA
61030639 TTTAATAATTTTTCTAAAA
1 TTTAATAATTTTTCTAAAA
61030658 TTTA
1 TTTA
61030662 TTATTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 2 0.06
18 14 0.39
19 20 0.56
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAATAATTTTTCTAAAA
Found at i:61030700 original size:18 final size:17
Alignment explanation
Indices: 61030599--61030701 Score: 71
Period size: 18 Copynumber: 5.6 Consensus size: 17
61030589 AAAAAATTCC
*
61030599 AATTTTTAATAATTTTTA
1 AATTTTTAAT-ATTTTTT
*
61030617 AATTTTTAAAATTTTATT
1 AATTTTTAATATTTT-TT
**
61030635 AAAATTTAATAATTTTTCT
1 AATTTTTAAT-ATTTTT-T
** *
61030654 AAAATTTATTATTTTTT
1 AATTTTTAATATTTTTT
*
61030671 ATTTTTTATAATATTTTTCT
1 A-ATTTT-TAATATTTTT-T
61030691 AATTTTTAATA
1 AATTTTTAATA
61030702 AGAGTAGGAG
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
17 7 0.10
18 31 0.46
19 28 0.41
20 2 0.03
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTTTTAATATTTTTT
Found at i:61030854 original size:63 final size:64
Alignment explanation
Indices: 61030760--61030880 Score: 138
Period size: 63 Copynumber: 1.9 Consensus size: 64
61030750 TTATACATTT
* * * *
61030760 TGAAAATTCAAGTACCCAATTGAACGAAAAAA-AAGGAGGGGCTTAATT-GTTTTTTTTAAGAAG
1 TGAAAATTCAAGTACACAATTGAACGAAAAAAGAA-AAAGGGCTTAATTACTTTTTTTTAAGAAG
* * ** *
61030823 TGAAAGTTCAAGTGCACAATTGAGTGCAAAAAGAAAAAGGGCTTAATTACTTTTTTTT
1 TGAAAATTCAAGTACACAATTGAACGAAAAAAGAAAAAGGGCTTAATTACTTTTTTTT
61030881 TTTTTAAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
63 37 0.79
64 10 0.21
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.31
Consensus pattern (64 bp):
TGAAAATTCAAGTACACAATTGAACGAAAAAAGAAAAAGGGCTTAATTACTTTTTTTTAAGAAG
Found at i:61034057 original size:16 final size:18
Alignment explanation
Indices: 61034038--61034075 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
61034028 TATGTTTTAT
61034038 TATTAATATAA-TTAA-A
1 TATTAATATAACTTAATA
*
61034054 TATTATTATAACTTAATA
1 TATTAATATAACTTAATA
61034072 TATT
1 TATT
61034076 TGTCACATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTAATATAACTTAATA
Found at i:61039901 original size:27 final size:27
Alignment explanation
Indices: 61039864--61039974 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
61039854 AGCATGGCTG
* *
61039864 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
61039890 CCAGATACAGATA-TTGTGGCAAAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
61039917 CCAGAACAGATATTTATGGCAGAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
61039944 CCAGAAATAGATATTTGTGGCAGAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
61039972 CCA
1 CCA
61039975 AAACTTTTCC
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 12 0.16
27 39 0.52
28 24 0.32
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:61040114 original size:26 final size:27
Alignment explanation
Indices: 61040078--61040141 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
61040068 GAAAATCAAC
*
61040078 CCTAAGGGTATAATGGTAATTTT-ACA
1 CCTAGGGGTATAATGGTAATTTTCACA
*
61040104 CCTAGGGGTATAATGGTAATTTTCATA
1 CCTAGGGGTATAATGGTAATTTTCACA
*
61040131 CTTAGGGGTAT
1 CCTAGGGGTAT
61040142 TTTAGTGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 22 0.65
27 12 0.35
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATGGTAATTTTCACA
Found at i:61042395 original size:17 final size:17
Alignment explanation
Indices: 61042375--61042408 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
61042365 ACTTTTAAAA
61042375 GACATAAAAGATTAATT
1 GACATAAAAGATTAATT
61042392 GACATAAAAGATTAATT
1 GACATAAAAGATTAATT
61042409 CTTACCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
GACATAAAAGATTAATT
Found at i:61043001 original size:96 final size:96
Alignment explanation
Indices: 61042869--61043058 Score: 292
Period size: 96 Copynumber: 2.0 Consensus size: 96
61042859 ATGAAAGGAG
***
61042869 GAATACAATTGAGCTATCACCTTTTGTGTAGAGTTATTGGTGTAGTTCAAAAGATCATAAGGGTT
1 GAATACAATTGAGCTATCACCTTTTGCACAGAGTTATTGGTGTAGTTCAAAAGATCATAAGGGTT
*
61042934 TCAAATGTGCAATTAAATATCTAAATAGAGA
66 TCAAATGTCCAATTAAATATCTAAATAGAGA
* *
61042965 GAATATAATTGAGCTATGACCTTTTGCACA-ATGTTATTGGTGTAGTTCAAAAGATCATAAGGGT
1 GAATACAATTGAGCTATCACCTTTTGCACAGA-GTTATTGGTGTAGTTCAAAAGATCATAAGGGT
* *
61043029 TTCCAATGTCCAATTAAATATCTAAGTAGA
65 TTCAAATGTCCAATTAAATATCTAAATAGA
61043059 AAAGAAAGTA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
95 1 0.01
96 84 0.99
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.34
Consensus pattern (96 bp):
GAATACAATTGAGCTATCACCTTTTGCACAGAGTTATTGGTGTAGTTCAAAAGATCATAAGGGTT
TCAAATGTCCAATTAAATATCTAAATAGAGA
Found at i:61050480 original size:28 final size:27
Alignment explanation
Indices: 61050417--61050596 Score: 288
Period size: 28 Copynumber: 6.6 Consensus size: 27
61050407 ATATTAAGTC
* * *
61050417 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
61050444 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
61050472 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
61050499 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
61050527 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
61050555 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
61050582 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61050597 GCACAATTTA
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:61050501 original size:55 final size:55
Alignment explanation
Indices: 61050417--61050596 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
61050407 ATATTAAGTC
* * * *
61050417 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
61050472 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
61050527 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
61050582 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61050597 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:61050555 original size:83 final size:82
Alignment explanation
Indices: 61050417--61050596 Score: 306
Period size: 83 Copynumber: 2.2 Consensus size: 82
61050407 ATATTAAGTC
* *
61050417 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
61050482 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* *
61050499 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
61050564 AGTGCTACATAGTCAATT
65 AGTGCTACATAGTCAACT
61050582 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61050597 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 20 0.22
83 72 0.78
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:61058578 original size:29 final size:28
Alignment explanation
Indices: 61058546--61058682 Score: 113
Period size: 28 Copynumber: 5.0 Consensus size: 28
61058536 TGATTCAAGA
* *
61058546 ATATATATTAAGTCCGCACACTCAGTGCT
1 ATATATATCAACT-CGCACACTCAGTGCT
*
61058575 ATATA-ATCAACTCGCACACTTAGTGC-
1 ATATATATCAACTCGCACACTCAGTGCT
* *
61058601 -TACATATCAACTCGCACACTTAGTGCT
1 ATATATATCAACTCGCACACTCAGTGCT
* * *
61058628 ACATA-GTCAAACTCGCACACTTAGTGCT
1 ATATATATC-AACTCGCACACTCAGTGCT
* * * *
61058656 ACATA-GTCAATTCGCACACTTAGTGCT
1 ATATATATCAACTCGCACACTCAGTGCT
61058683 GCACAATTTA
Statistics
Matches: 96, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
25 3 0.03
26 21 0.22
27 33 0.34
28 34 0.35
29 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.28
Consensus pattern (28 bp):
ATATATATCAACTCGCACACTCAGTGCT
Found at i:61058649 original size:28 final size:27
Alignment explanation
Indices: 61058560--61058682 Score: 194
Period size: 27 Copynumber: 4.6 Consensus size: 27
61058550 ATATTAAGTC
* * *
61058560 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
61058587 CGCACACTTAGTGCTACATA-TCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
61058613 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
61058641 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
61058668 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61058683 GCACAATTTA
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
26 26 0.29
27 38 0.42
28 27 0.30
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:61062625 original size:40 final size:40
Alignment explanation
Indices: 61062442--61062625 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
61062432 TACTCGTTCG
* *
61062442 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
61062482 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
61062522 AATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * * *
61062562 AATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATATAGT-AACTCGCACA
61062603 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
61062626 CATCATTCAA
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:61069531 original size:37 final size:37
Alignment explanation
Indices: 61069475--61069553 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
61069465 CCGAGCTCTA
* * * *
61069475 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAAATACGTGTGGAGATTATGTCCGGGT
*
61069512 AAGACCCGATAAATTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAAATACGTGTGGAGATTATGTCCGGGT
61069549 AAGAC
1 AAGAC
61069554 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAAATACGTGTGGAGATTATGTCCGGGT
Found at i:61077980 original size:39 final size:40
Alignment explanation
Indices: 61077885--61078146 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
61077875 TTGAATGATG
*
61077885 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
61077923 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
61077964 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
61078003 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
61078042 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
61078081 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
61078120 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
61078147 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:61103820 original size:21 final size:21
Alignment explanation
Indices: 61103796--61103845 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
61103786 TCAAATGGAG
*
61103796 TAAAGAAATCTTGTA-ATGAAA
1 TAAA-AAATCTTGAACATGAAA
*
61103817 TAAAAAAAACTTGAACATGAAA
1 T-AAAAAATCTTGAACATGAAA
61103839 -AAAAAAT
1 TAAAAAAT
61103846 GAAAATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 6 0.25
21 9 0.38
22 9 0.38
ACGTcount: A:0.62, C:0.06, G:0.10, T:0.22
Consensus pattern (21 bp):
TAAAAAATCTTGAACATGAAA
Found at i:61106213 original size:40 final size:40
Alignment explanation
Indices: 61106168--61106280 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
61106158 CTAAGATCTG
*
61106168 AAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCA
1 AAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCA
* *
61106208 AAGGCATTTGTACGAGTTGCTATATCCGGGCTAAGACCCG
1 AAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCA
*
61106248 AAGGCATTTGTGCGAGTTGTTATATCC-GGCTAA
1 AAGGCATTTGTGCGAGTTGCTATATCCGGGCTAA
61106281 ATCCTGAAGA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 6 0.09
40 62 0.91
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCA
Found at i:61114157 original size:40 final size:40
Alignment explanation
Indices: 61114083--61114245 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
61114073 GATAACCAGA
* * *
61114083 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
* * * *
61114123 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGG
* *
61114163 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCAGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
61114203 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
61114242 CTAA
1 CTAA
61114246 ATCCTGAAGA
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 8 0.07
40 97 0.91
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGG
Found at i:61127616 original size:18 final size:16
Alignment explanation
Indices: 61127580--61127612 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
61127570 TCAAATTGGG
61127580 ATTAAGTGTTTCTAAA
1 ATTAAGTGTTTCTAAA
*
61127596 ATTAAGTTTTTCTAAA
1 ATTAAGTGTTTCTAAA
61127612 A
1 A
61127613 AATTGTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (16 bp):
ATTAAGTGTTTCTAAA
Found at i:61129038 original size:27 final size:27
Alignment explanation
Indices: 61129008--61129185 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61128998 ATATTGAGTC
* * * *
61129008 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61129035 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61129062 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61129090 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61129117 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61129144 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61129171 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61129186 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61129147 original size:82 final size:81
Alignment explanation
Indices: 61129029--61129184 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61129019 TGCTATATAA
* *
61129029 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61129094 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61129111 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61129175 CACTTAGTGC
65 CACTTAGTGC
61129185 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61131313 original size:19 final size:19
Alignment explanation
Indices: 61131291--61131327 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61131281 ACCATTGTCA
61131291 CCCACCGTAATCAAATTTT
1 CCCACCGTAATCAAATTTT
**
61131310 CCCATTGTAATCAAATTT
1 CCCACCGTAATCAAATTT
61131328 GTTATTAATT
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:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (19 bp):
CCCACCGTAATCAAATTTT
Found at i:61133108 original size:46 final size:46
Alignment explanation
Indices: 61133011--61133100 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
61133001 CGTATGTCAT
61133011 GACATTAGGATTTCCGAGGTGTGATTTCATGTAAGACCAATGTCTC
1 GACATTAGGATTTCCGAGGTGTGATTTCATGTAAGACCAATGTCTC
61133057 GACATTAGGATTTCCGAGGTGTGATTTCATGTAAGACC-ATGTCT
1 GACATTAGGATTTCCGAGGTGTGATTTCATGTAAGACCAATGTCT
61133101 GGGACATTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 6 0.14
46 38 0.86
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (46 bp):
GACATTAGGATTTCCGAGGTGTGATTTCATGTAAGACCAATGTCTC
Found at i:61133186 original size:41 final size:43
Alignment explanation
Indices: 61133088--61133190 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
61133078 TGATTTCATG
* *
61133088 TAAGACCATGTCTGGGACATTGGCATCAATATGAGATTACGTA
1 TAAGACCATATTTGGGACATTGGCATCAATATGAGATTACGTA
* *
61133131 TAAGACCATGTTTGGGACATTGGCATC-GTAT-ACGATT-CGTA
1 TAAGACCATATTTGGGACATTGGCATCAATATGA-GATTACGTA
*
61133172 TAAGACCCTATTTGGGACA
1 TAAGACCATATTTGGGACA
61133191 GTGGTTGTGA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
41 22 0.40
42 7 0.13
43 26 0.47
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (43 bp):
TAAGACCATATTTGGGACATTGGCATCAATATGAGATTACGTA
Found at i:61135852 original size:47 final size:47
Alignment explanation
Indices: 61135798--61136176 Score: 598
Period size: 47 Copynumber: 8.1 Consensus size: 47
61135788 TTAGGATTTT
** * *
61135798 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61135845 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61135892 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61135939 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61135986 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61136033 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61136080 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
61136127 ATGTGATGAACGTGGGA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
61136174 ATG
1 ATG
61136177 CGAAATGTGT
Statistics
Matches: 314, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 312 0.99
48 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:61136133 original size:22 final size:22
Alignment explanation
Indices: 61136058--61136133 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
61136048 ACATGCATAT
*
61136058 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
61136080 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
61136104 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
61136127 ATGTGAT
1 ATGTGAT
61136134 GAACGTGGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:61136206 original size:46 final size:46
Alignment explanation
Indices: 61136150--61136332 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
61136140 GGGAGTGTAT
* * **
61136150 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
*
61136196 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
*
61136242 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * * *
61136288 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
61136333 TGTATATATA
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:61141254 original size:39 final size:39
Alignment explanation
Indices: 61141169--61141255 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
61141159 CCGGCAATTA
* * **
61141169 GCCTGCTAGGTATAAACCTGAACTTATCACCGGTATGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCAGCACAAG
* *
61141208 GCTTGCTAGGTATAAACTTGAACTTATCACCAGCACAAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCAGCACAAG
61141247 GCCTGCTAG
1 GCCTGCTAG
61141256 ACATTAAGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCACCAGCACAAG
Found at i:61160303 original size:49 final size:47
Alignment explanation
Indices: 61160082--61160338 Score: 379
Period size: 47 Copynumber: 5.4 Consensus size: 47
61160072 CCCTTCGGGA
* *
61160082 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61160129 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61160176 CTTATCTCATATATACACTTTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61160223 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
61160270 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
61160319 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
61160339 GTACATCAAT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 148 0.77
49 45 0.23
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:61165869 original size:47 final size:47
Alignment explanation
Indices: 61165806--61166109 Score: 419
Period size: 47 Copynumber: 6.4 Consensus size: 47
61165796 CCCTTCGGGA
* * * *
61165806 CTTATCACATTTATACACTTTCACATCCATCACATTGGCTATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
61165853 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
61165900 CTTATCTCATATATACACTTTCACATTCGTCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
61165947 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
61165994 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
61166041 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
61166090 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
61166110 GTACATCAAT
Statistics
Matches: 235, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
47 190 0.81
49 45 0.19
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Done.