Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 106 of 325
Found at i:31310921 original size:13 final size:13
Alignment explanation
Indices: 31310903--31310927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31310893 TCAGAACACA
31310903 TGCCCGTGTGTGT
1 TGCCCGTGTGTGT
31310916 TGCCCGTGTGTG
1 TGCCCGTGTGTG
31310928 ACATTGTAAC
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:0.00, C:0.24, G:0.40, T:0.36
Consensus pattern (13 bp):
TGCCCGTGTGTGT
Found at i:31312756 original size:68 final size:65
Alignment explanation
Indices: 31312550--31312771 Score: 209
Period size: 67 Copynumber: 3.4 Consensus size: 65
31312540 CATAATTTTG
* * *
31312550 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCA-CTTTA-TCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
** * * * * * * * *
31312613 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATCTA-TCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTC
31312677 GTA
63 GTA
* *
31312680 GCTCTCTTGT-CTACATGGTGTACACATTGTATCACCCATACGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTC-T-AT-TCT
31312744 CGTA
62 CGTA
*
31312748 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
31312772 TCCCGTATTA
Statistics
Matches: 125, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
63 18 0.14
64 26 0.21
65 1 0.01
66 23 0.18
67 28 0.22
68 28 0.22
69 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCTATTCTCGTA
Found at i:31312793 original size:68 final size:68
Alignment explanation
Indices: 31312673--31312799 Score: 159
Period size: 68 Copynumber: 1.9 Consensus size: 68
31312663 GCTACATCTA
* ** *
31312673 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATTGTATCACCCATACGACCTAGCTACCTCATA
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACCGTATCACACATACGACCTAGCTACCTCATA
31312738 ATG
66 ATG
* **
31312741 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTAC
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACCGTATCACACATACGACCTAGCTAC
31312800 ATACCATCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
68 48 0.96
69 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACCGTATCACACATACGACCTAGCTACCTCATA
ATG
Found at i:31316014 original size:49 final size:50
Alignment explanation
Indices: 31315831--31316005 Score: 217
Period size: 50 Copynumber: 3.5 Consensus size: 50
31315821 AGAACACATA
* * *** * * * *
31315831 TGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGCTCCCGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTCGCATG
* *
31315883 TGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATAGTTAGGTCGCATT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATG
*
31315933 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT-GGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATG
31315982 TGTAGTACTAAGTGCAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
31316006 TGCTTACCAA
Statistics
Matches: 109, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
49 32 0.29
50 46 0.42
52 31 0.28
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATG
Found at i:31317547 original size:29 final size:29
Alignment explanation
Indices: 31317510--31317568 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
31317500 GTGAAGTATG
31317510 TTAAATCATTAAAATGATGCAATGATGTA
1 TTAAATCATTAAAATGATGCAATGATGTA
31317539 TTAAATCATTAAAATGATGCAATGATGTA
1 TTAAATCATTAAAATGATGCAATGATGTA
31317568 T
1 T
31317569 ATCTTTGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.36
Consensus pattern (29 bp):
TTAAATCATTAAAATGATGCAATGATGTA
Found at i:31322486 original size:40 final size:40
Alignment explanation
Indices: 31322420--31322586 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
31322410 AAATTGAATG
* * *
31322420 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
31322459 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
31322499 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
31322539 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
31322579 ATATCCGG
1 ATATCCGG
31322587 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:31330482 original size:40 final size:40
Alignment explanation
Indices: 31330416--31330582 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
31330406 AAATTGAATG
* * *
31330416 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
31330455 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
31330495 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
31330535 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
31330575 ATATCCGG
1 ATATCCGG
31330583 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:31338046 original size:17 final size:18
Alignment explanation
Indices: 31338004--31338052 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
31337994 AGTTGAAAAG
31338004 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
31338023 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
31338040 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
31338053 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:31338940 original size:40 final size:40
Alignment explanation
Indices: 31338874--31339040 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
31338864 AAATTGAATG
* * *
31338874 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
31338913 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
31338953 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
31338993 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
31339033 ATATCCGG
1 ATATCCGG
31339041 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:31341146 original size:21 final size:21
Alignment explanation
Indices: 31341122--31341186 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
31341112 CATTCATGTA
31341122 TACTTTATACATCTCGTCCCT
1 TACTTTATACATCTCGTCCCT
** * * * *
31341143 TACTCAATTCAT-TCAT-ACA
1 TACTTTATACATCTCGTCCCT
31341162 TACTTTATACATCTCGTCCCT
1 TACTTTATACATCTCGTCCCT
31341183 TACT
1 TACT
31341187 CAAGTACTAT
Statistics
Matches: 30, Mismatches: 12, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
19 10 0.33
20 6 0.20
21 14 0.47
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.42
Consensus pattern (21 bp):
TACTTTATACATCTCGTCCCT
Found at i:31341156 original size:40 final size:40
Alignment explanation
Indices: 31341110--31341189 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
31341100 TACTCTTCCT
**
31341110 TTCATTCATGTATACTTTATACATCTCGTCCCTTACTCAA
1 TTCATTCATACATACTTTATACATCTCGTCCCTTACTCAA
31341150 TTCATTCATACATACTTTATACATCTCGTCCCTTACTCAA
1 TTCATTCATACATACTTTATACATCTCGTCCCTTACTCAA
31341190 GTACTATCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.26, C:0.29, G:0.04, T:0.41
Consensus pattern (40 bp):
TTCATTCATACATACTTTATACATCTCGTCCCTTACTCAA
Found at i:31350481 original size:41 final size:41
Alignment explanation
Indices: 31350432--31350534 Score: 154
Period size: 41 Copynumber: 2.5 Consensus size: 41
31350422 TGTAAATAGT
* *
31350432 GCATGTATGTGCTATTCAGGGGTACCAAAGTACAAATAGGG
1 GCATGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGG
* *
31350473 GCATGTATGTGCAATTCGGGGGTACCGAAGTACAAACAGGG
1 GCATGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGG
31350514 GCACT-TATGTGCAATTCAGGG
1 GCA-TGTATGTGCAATTCAGGG
31350535 TATAATTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 55 0.98
42 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (41 bp):
GCATGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGG
Found at i:31353074 original size:31 final size:31
Alignment explanation
Indices: 31352996--31353074 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
31352986 TTTCAGAAAA
* * * *
31352996 ATGGGCCCACACGCCCATGTGGCTTGCCTAT
1 ATGGGCCCACACGCCCTTGTGACCTGCCCAT
* *
31353027 GTGGGCCCACACGCCCTTGTGACCTGCCCGT
1 ATGGGCCCACACGCCCTTGTGACCTGCCCAT
31353058 ATGGGCCCACACGCCCT
1 ATGGGCCCACACGCCCT
31353075 GGTCCAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.14, C:0.41, G:0.27, T:0.19
Consensus pattern (31 bp):
ATGGGCCCACACGCCCTTGTGACCTGCCCAT
Found at i:31356345 original size:43 final size:43
Alignment explanation
Indices: 31356293--31356378 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
31356283 CTAGCATTAG
31356293 AACACCTCTAATCAACCTCAAGATGAATGAGCATGCAAATTGT
1 AACACCTCTAATCAACCTCAAGATGAATGAGCATGCAAATTGT
31356336 AACACCTCTAATCAACCTCAAGATGAATGAGCATGCAAATTGT
1 AACACCTCTAATCAACCTCAAGATGAATGAGCATGCAAATTGT
31356379 TCTTTTTCGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (43 bp):
AACACCTCTAATCAACCTCAAGATGAATGAGCATGCAAATTGT
Found at i:31357052 original size:28 final size:28
Alignment explanation
Indices: 31357021--31357092 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
31357011 CGAAAATTCG
31357021 AAATTGAAAATTT-AAATTTGAAGATTGA
1 AAATTGAAAATTTGAAA-TTGAAGATTGA
*
31357049 AAATAT-AAAATTTGAAATTGGAGATTGA
1 AAAT-TGAAAATTTGAAATTGAAGATTGA
* *
31357077 AGATTGAAGA-TTGAAA
1 AAATTGAAAATTTGAAA
31357093 GATCGAGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 7 0.18
28 27 0.71
29 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (28 bp):
AAATTGAAAATTTGAAATTGAAGATTGA
Found at i:31357059 original size:42 final size:42
Alignment explanation
Indices: 31357013--31357092 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
31357003 TTGAGGATCG
*
31357013 AAAATTCGAAATTGAAAATTTAA-ATTTGAAGATTGAAAATAT
1 AAAATTCGAAATTGAAAATTGAAGA-TTGAAGATTGAAAATAT
* * *
31357055 AAAATTTGAAATTGGAGATTGAAGATTGAAGATTGAAA
1 AAAATTCGAAATTGAAAATTGAAGATTGAAGATTGAAA
31357093 GATCGAGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.50, C:0.01, G:0.17, T:0.31
Consensus pattern (42 bp):
AAAATTCGAAATTGAAAATTGAAGATTGAAGATTGAAAATAT
Found at i:31357082 original size:14 final size:13
Alignment explanation
Indices: 31357020--31357092 Score: 58
Period size: 14 Copynumber: 5.3 Consensus size: 13
31357010 TCGAAAATTC
*
31357020 GAAATTGAAAATT
1 GAAATTGAAGATT
*
31357033 TAAATTTGAAGATT
1 GAAA-TTGAAGATT
*
31357047 GAAAATAT-AAAATTT
1 G-AAAT-TGAAGA-TT
*
31357062 GAAATTGGAGATT
1 GAAATTGAAGATT
31357075 GAAGATTGAAGATT
1 GAA-ATTGAAGATT
31357089 GAAA
1 GAAA
31357093 GATCGAGAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
13 10 0.21
14 30 0.64
15 7 0.15
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.32
Consensus pattern (13 bp):
GAAATTGAAGATT
Found at i:31357594 original size:10 final size:10
Alignment explanation
Indices: 31357579--31357603 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31357569 GAACAATACT
31357579 ATTATTTTTA
1 ATTATTTTTA
31357589 ATTATTTTTA
1 ATTATTTTTA
31357599 ATTAT
1 ATTAT
31357604 CAACTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTATTTTTA
Found at i:31358701 original size:37 final size:38
Alignment explanation
Indices: 31358652--31358742 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 38
31358642 TATCTTTCAT
* *
31358652 CTCCGAAA-GGTTGAGCAAATC-TCCCATCATCT-TGATG
1 CTCC-AAAGGGTTGAGCAAATCTTCCCACCAT-TGGGATG
*
31358689 CTCCACAGGGTTGAGCAAATCTTCCCACCATTGGGATG
1 CTCCAAAGGGTTGAGCAAATCTTCCCACCATTGGGATG
*
31358727 CTTCAAAGGGTTGAGC
1 CTCCAAAGGGTTGAGC
31358743 TATCCTCTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 2 0.04
37 18 0.39
38 26 0.57
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (38 bp):
CTCCAAAGGGTTGAGCAAATCTTCCCACCATTGGGATG
Found at i:31366746 original size:29 final size:30
Alignment explanation
Indices: 31366713--31366770 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
31366703 CAAATAGCCG
31366713 AAGCTAG-TTAAATCGCACACTTAGTGCCC
1 AAGCTAGTTTAAATCGCACACTTAGTGCCC
31366742 AAGCTAGTTTAAATCGCACACTTAGTGCC
1 AAGCTAGTTTAAATCGCACACTTAGTGCC
31366771 AAAACTTCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCC
Found at i:31370538 original size:35 final size:35
Alignment explanation
Indices: 31370473--31370652 Score: 164
Period size: 35 Copynumber: 5.1 Consensus size: 35
31370463 TACTTACTTG
* *
31370473 TATGGCCGAATACT-CAAGGTTCATTATATCATCACA
1 TATGGCCAAATA-TACAA-GTTCAATATATCATCACA
* *
31370509 TATGGCCAAATATACAAGTACAATATATCATCATA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * *
31370544 TATGACCGAATATACAAGCTCAATAAAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * * * * *
31370579 TGTAGTCAAATGTTCAAGTTTAATATAACATGACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* *
31370614 TGTAGCCAAATATACAAGTTCAATATATCATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
31370649 TATG
1 TATG
31370653 TACATACCTA
Statistics
Matches: 113, Mismatches: 30, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
35 99 0.88
36 14 0.12
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:31375690 original size:25 final size:25
Alignment explanation
Indices: 31375660--31375710 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
31375650 AGAAATAATT
*
31375660 ATTTAAAACTTCATATTTTATCATA
1 ATTTAAAACTTCATATTCTATCATA
31375685 ATTTAAAACTTCATATTCTATCATA
1 ATTTAAAACTTCATATTCTATCATA
31375710 A
1 A
31375711 AACACCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTTAAAACTTCATATTCTATCATA
Found at i:31377478 original size:15 final size:15
Alignment explanation
Indices: 31377410--31377489 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
31377400 CAAAGATAAT
*
31377410 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
31377424 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
31377439 GAGAAACCCGGAATA
1 AAGAAATCCAGAATA
31377454 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
31377469 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
*
31377484 CAGAAA
1 AAGAAA
31377490 CCCAAGATAC
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.56, C:0.15, G:0.19, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31380477 original size:47 final size:47
Alignment explanation
Indices: 31380396--31380527 Score: 142
Period size: 46 Copynumber: 2.8 Consensus size: 47
31380386 TAACTCGCCT
* * * *
31380396 ATAAGTGAGCTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TTAC
1 ATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATAC
** * * *
31380442 ATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCGCATCC
1 ATAACT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATAC
* *
31380489 ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCC
1 ATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
31380528 CAAATATCCT
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
46 35 0.51
47 34 0.49
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (47 bp):
ATAACTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGCATAC
Found at i:31385485 original size:35 final size:35
Alignment explanation
Indices: 31385429--31385590 Score: 164
Period size: 35 Copynumber: 4.6 Consensus size: 35
31385419 AATACTCAAG
* * *
31385429 GTTCATTATATCATCAGATATGGCCAACTATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * *
31385464 GTACAATATATCATCATATAT-GACAGAATATACAA
1 GTTCAATATATCATCACATATGGCCA-AATATACAA
* * * * * * *
31385499 GCTCAATAAAACATCACATGTAGTCAAATATTCAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * *
31385534 GTTTAATATAACATCACATGTGGCCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
31385569 GTTCAATATATCATCACATATG
1 GTTCAATATATCATCACATATG
31385591 TACATACCTA
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
34 3 0.03
35 97 0.94
36 3 0.03
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.30
Consensus pattern (35 bp):
GTTCAATATATCATCACATATGGCCAAATATACAA
Found at i:31390231 original size:21 final size:22
Alignment explanation
Indices: 31390207--31390250 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
31390197 AACTCGTACA
*
31390207 CATT-GGCAGACGAAAACCTTG
1 CATTAGGCAAACGAAAACCTTG
*
31390228 CATTGAGGCAAACGAAAATCTTG
1 CATT-AGGCAAACGAAAACCTTG
31390251 TACTGTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
23 15 0.79
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (22 bp):
CATTAGGCAAACGAAAACCTTG
Found at i:31394550 original size:20 final size:21
Alignment explanation
Indices: 31394512--31394551 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
31394502 ATGTCATATC
31394512 AGTATTCTTATTCTGAATTTT
1 AGTATTCTTATTCTGAATTTT
31394533 AGTATT-TTAATT-TGAATTT
1 AGTATTCTT-ATTCTGAATTT
31394552 AATTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (21 bp):
AGTATTCTTATTCTGAATTTT
Found at i:31394655 original size:269 final size:269
Alignment explanation
Indices: 31394176--31394661 Score: 753
Period size: 269 Copynumber: 1.8 Consensus size: 269
31394166 ATTAAGAGGG
*
31394176 GAAAGGATTGTATGAAACAGTGACGCCACGTCATCTGTATCCCTTTTCAATAGTTTTATGTCATA
1 GAAAGGATTGTATGAAACAGTGACGCCACGTCATCTGTATCCCTTTCCAATAGTTTTATGTCATA
31394241 TCAATATTCTTATCCAGAATTTCAAGATTTTATCCTGAAAAAAATCAAATTCAAATTAAAATCCT
66 TCAATATTCTTATCCAGAATTTCAAGATTTTATCCTGAAAAAAATCAAATTCAAATTAAAATCCT
*
31394306 GAAATTCAGGATAAGAATACTGATGTGGTATAAAACTATTGGAAAGGGATACAGATGACGTGGCG
131 GAAATTCAGGATAAGAATACTGATGTGGCATAAAACTATTGGAAAGGGATACAGATGACGTGGCG
31394371 TCACTGTTTCATACAATCCTTTTTCCAATTAAGAGATTGTTGAGGCGTGAATAAACTATATATAT
196 TCACTGTTTCATACAATCCTTTTTCCAATTAAGAGATTGTTGAGGCGTGAATAAACTATATATAT
31394436 ATCAGGGGA
261 ATCAGGGGA
* *
31394445 GAAAGGATTGTGTGAAATAGTGACGCCACGTCATCTGTATCCCTTTCCAATAGTTTTATGTCATA
1 GAAAGGATTGTATGAAACAGTGACGCCACGTCATCTGTATCCCTTTCCAATAGTTTTATGTCATA
* * * * * *** **** *
31394510 TCAGTATTCTTATTCTGAATTT-TAGTATTTTAAT-TTGAATTTAATTTTTTTCAGGA-TAAAAT
66 TCAATATTCTTATCCAGAATTTCAAG-ATTTT-ATCCTGAAAAAAATCAAATTCA-AATTAAAAT
*
31394572 TCTGAAATTCAGGATAAGAATACTGATGTGGCATAAAACTATTGGAAAGGGATACAGATGACGTG
128 CCTGAAATTCAGGATAAGAATACTGATGTGGCATAAAACTATTGGAAAGGGATACAGATGACGTG
*
31394637 GTGTCACTGTTTCATACAATCCTTT
193 GCGTCACTGTTTCATACAATCCTTT
31394662 CCTTATATCA
Statistics
Matches: 195, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
268 2 0.01
269 190 0.97
270 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (269 bp):
GAAAGGATTGTATGAAACAGTGACGCCACGTCATCTGTATCCCTTTCCAATAGTTTTATGTCATA
TCAATATTCTTATCCAGAATTTCAAGATTTTATCCTGAAAAAAATCAAATTCAAATTAAAATCCT
GAAATTCAGGATAAGAATACTGATGTGGCATAAAACTATTGGAAAGGGATACAGATGACGTGGCG
TCACTGTTTCATACAATCCTTTTTCCAATTAAGAGATTGTTGAGGCGTGAATAAACTATATATAT
ATCAGGGGA
Found at i:31399397 original size:27 final size:27
Alignment explanation
Indices: 31399359--31399412 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
31399349 TATTTTTATT
31399359 ATTTGAGTAAGGTGAGCAGTAAAACCC
1 ATTTGAGTAAGGTGAGCAGTAAAACCC
31399386 ATTTGAGTAAGGTGAGCAGTAAAACCC
1 ATTTGAGTAAGGTGAGCAGTAAAACCC
31399413 CGTAAACATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (27 bp):
ATTTGAGTAAGGTGAGCAGTAAAACCC
Found at i:31400625 original size:12 final size:12
Alignment explanation
Indices: 31400608--31400632 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31400598 GTTAGGGTGA
31400608 GAATTTGATGTT
1 GAATTTGATGTT
31400620 GAATTTGATGTT
1 GAATTTGATGTT
31400632 G
1 G
31400633 TTATAGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
GAATTTGATGTT
Found at i:31401394 original size:48 final size:48
Alignment explanation
Indices: 31401306--31401662 Score: 249
Period size: 48 Copynumber: 7.9 Consensus size: 48
31401296 TACCATCGTT
* * * * ** *
31401306 ATACGTGTAATGTGGTGGTAAGTGAATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACACATATTG
* * *
31401354 ATACATGTAACGTGGTGTTAAGTGGATATGTTACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACACATATTG
* * *
31401402 ATTCAT-TAAAGTGGTGCTAAGTGG--A--T-A----TAC-CATCGTT-
1 ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACACAT-ATTG
* * ** * *
31401439 ATACGTGTAATGTGGTGCTAAGTGGATATACCATGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACACATATTG
* * *
31401487 ATACATGTAACGTCGTGCTAGGTGGATATGTCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACACATATTG
* **
31401535 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGG-T-----TA---
1 ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACACATATTG
* *
31401573 A-ACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATCG
1 ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACACATATTG
* * ** *
31401620 ATTCAT-TAACGTGGTGCTAAGTGGGTATACCACGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACACAT
31401663 GCAACGCGGT
Statistics
Matches: 243, Mismatches: 42, Indels: 49
0.73 0.13 0.15
Matches are distributed among these distances:
37 9 0.04
38 50 0.21
39 1 0.00
40 1 0.00
41 2 0.01
42 1 0.00
43 2 0.01
44 2 0.01
45 1 0.00
46 1 0.00
47 79 0.33
48 94 0.39
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACACATATTG
Found at i:31401479 original size:85 final size:86
Alignment explanation
Indices: 31401354--31401515 Score: 200
Period size: 85 Copynumber: 1.9 Consensus size: 86
31401344 ACACATATTG
* *** * * * *
31401354 ATACATGTAACGTGGTGTTAAGTGGATATGTTACGGTTACATATATTGATTCAT-TAAAGTGGTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAAGTCGTG
31401418 CTAAGTGGATATACCATCGTT
66 CTAAGTGGATATACCATCGTT
* * * *
31401439 ATACGTGTAATGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGTAACGTCGTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAAGTCGTG
*
31401504 CTAGGTGGATAT
66 CTAAGTGGATAT
31401516 GTCACGGTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
85 44 0.70
86 19 0.30
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.35
Consensus pattern (86 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAAGTCGTG
CTAAGTGGATATACCATCGTT
Found at i:31401517 original size:133 final size:133
Alignment explanation
Indices: 31401279--31401657 Score: 546
Period size: 133 Copynumber: 2.9 Consensus size: 133
31401269 TGAAAAAAAT
* *
31401279 GTGGTGCTAAGTGGATATACCATCGTTATACGTGTAATGTGGTGGTAAGTGAATATACCACGATT
1 GTGGTGCTAAGTGGATATACCATCGTTATACGTGTAATGTGGTGCTAAGTGGATATACCACGATT
* * *
31401344 ACACATATTGATACATGTAACGTGGTGTTAAGTGGATATGTTACGGTTACATATATTGATTCATT
66 ACACATATTGATACATGTAACGTCGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCATT
31401409 AAA
131 AAA
*
31401412 GTGGTGCTAAGTGGATATACCATCGTTATACGTGTAATGTGGTGCTAAGTGGATATACCATGATT
1 GTGGTGCTAAGTGGATATACCATCGTTATACGTGTAATGTGGTGCTAAGTGGATATACCACGATT
*
31401477 ACACATATTGATACATGTAACGTCGTGCTAGGTGGATATGTCACGGTTACATATATTGATTCATT
66 ACACATATTGATACATGTAACGTCGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCATT
*
31401542 AAC
131 AAA
* * * ** *
31401545 GTGGTGCTAAGTGGATATACCA-CGGTTAAACATGTAACGTGGTGCTAAGTGGATATGTCACGGT
1 GTGGTGCTAAGTGGATATACCATC-GTTATACGTGTAATGTGGTGCTAAGTGGATATACCACGAT
* * * * * **
31401609 TACATATATCGATTCAT-TAACGTGGTGCTAAGTGGGTATACCACGGTTA
65 TACACATATTGATACATGTAACGTCGTGCTAAGTGGATATGTCACGGTTA
31401658 AACATGCAAC
Statistics
Matches: 222, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
132 28 0.13
133 194 0.87
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (133 bp):
GTGGTGCTAAGTGGATATACCATCGTTATACGTGTAATGTGGTGCTAAGTGGATATACCACGATT
ACACATATTGATACATGTAACGTCGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCATT
AAA
Found at i:31401591 original size:85 final size:85
Alignment explanation
Indices: 31401489--31401686 Score: 342
Period size: 85 Copynumber: 2.3 Consensus size: 85
31401479 ACATATTGAT
* * *
31401489 ACATGTAACGTCGTGCTAGGTGGATATGTCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATCGATTCATTAACGTGGTGCTA
31401554 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
31401574 ACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATCGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATCGATTCATTAACGTGGTGCTA
*
31401639 AGTGGGTATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* *
31401659 ACATGCAACGCGGTGCTAAGTGGATATG
1 ACATGTAACGTGGTGCTAAGTGGATATG
31401687 CCATAGTTAT
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 107 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATCGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:31401592 original size:38 final size:38
Alignment explanation
Indices: 31401541--31401685 Score: 155
Period size: 38 Copynumber: 3.6 Consensus size: 38
31401531 ATTGATTCAT
31401541 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
** *
31401579 TAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATCGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTT--A-A-A-C-A-T--G
*
31401626 TAACGTGGTGCTAAGTGGGTATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
31401664 CAACGCGGTGCTAAGTGGATAT
1 TAACGTGGTGCTAAGTGGATAT
31401686 GCCATAGTTA
Statistics
Matches: 88, Mismatches: 10, Indels: 18
0.76 0.09 0.16
Matches are distributed among these distances:
38 48 0.55
40 2 0.02
41 2 0.02
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
47 28 0.32
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:31401701 original size:38 final size:38
Alignment explanation
Indices: 31401627--31401701 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 38
31401617 TCGATTCATT
* * *
31401627 AACGTGGTGCTAAGTGGGTATACCACGGTTAAACATGC
1 AACGCGGTGCTAAGTGGATATACCACAGTTAAACATGC
* * *
31401665 AACGCGGTGCTAAGTGGATATGCCATAGTTATACATG
1 AACGCGGTGCTAAGTGGATATACCACAGTTAAACATG
31401702 TTAATTTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (38 bp):
AACGCGGTGCTAAGTGGATATACCACAGTTAAACATGC
Found at i:31404118 original size:15 final size:15
Alignment explanation
Indices: 31404098--31404139 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
31404088 GCTGTAAATG
31404098 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
31404113 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
31404128 GGATTTCCTTAT
1 GGATTTCCTTAT
31404140 TCTGGGCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:31406870 original size:38 final size:38
Alignment explanation
Indices: 31406819--31407112 Score: 167
Period size: 38 Copynumber: 7.0 Consensus size: 38
31406809 AATGAAAAAA
*
31406819 AACGTGGTGCTAAGTGGATATACCACCGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACCGTTATACATGT
*
31406857 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATA-C-C----AC-C--GTT-ATACATGT
* ** * *
31406905 AACGTGGTGCTAAGTGAATATGTCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACCGTT--ATACA-TG------T
** *
31406952 AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACCGTTATACATGT
* * *
31406990 AACATGGTGCTAAGTGGATATGCCA-CGATTACATATATCGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACCG--T---TATA-C-A-T--GT
* *
31407037 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACCGTTATACATGT
* *
31407075 AACGTGGTGCTAAGTGGATATGCCACAGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACCGTTATACATGT
31407113 TAATTTGAAA
Statistics
Matches: 199, Mismatches: 28, Indels: 58
0.70 0.10 0.20
Matches are distributed among these distances:
37 1 0.01
38 82 0.41
39 4 0.02
40 6 0.03
41 3 0.02
42 6 0.03
43 4 0.02
44 5 0.03
45 5 0.03
46 2 0.01
47 53 0.27
48 28 0.14
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACCGTTATACATGT
Found at i:31406982 original size:47 final size:47
Alignment explanation
Indices: 31406856--31407067 Score: 244
Period size: 47 Copynumber: 4.7 Consensus size: 47
31406846 GTTATACGTG
* * *
31406856 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* **
31406903 GTAACGTGGTGCTAAGTGAATATGTCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
31406951 TAACGTGGTGCTAAGTGGATATACCATGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * * *
31406989 TAACATGGTGCTAAGTGGATATGCCACGATTACATATATCGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
31407036 TAACGTGGTGCTAAGTGGATATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
31407068 AACATGTAAC
Statistics
Matches: 135, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
38 28 0.21
39 1 0.01
40 2 0.01
41 1 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 57 0.42
48 41 0.30
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:31407000 original size:85 final size:85
Alignment explanation
Indices: 31406899--31407105 Score: 351
Period size: 85 Copynumber: 2.4 Consensus size: 85
31406889 ACATATTGAT
* * *
31406899 ACATGTAACGTGGTGCTAAGTGAATATGTCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
*
31406964 AGTGGATATACCATGGTTAA
66 AGTGGATATACCACGGTTAA
* *
31406984 ACATGTAACATGGTGCTAAGTGGATATGCCACGATTACATATATCGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
31407049 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
*
31407069 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
31407106 TACATGTTAA
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 113 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:31424217 original size:29 final size:29
Alignment explanation
Indices: 31424184--31424248 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
31424174 GTGACGAGAT
31424184 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
31424213 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
31424242 CGGCACT
1 TGGCACT
31424249 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:31427267 original size:19 final size:19
Alignment explanation
Indices: 31427243--31427279 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31427233 TCTTTAATTT
* *
31427243 AATCTCAACTCTCTCTCAC
1 AATCTCAAATATCTCTCAC
31427262 AATCTCAAATATCTCTCA
1 AATCTCAAATATCTCTCA
31427280 ATTCCCTCAT
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:0.35, G:0.00, T:0.32
Consensus pattern (19 bp):
AATCTCAAATATCTCTCAC
Found at i:31428592 original size:99 final size:99
Alignment explanation
Indices: 31428421--31428618 Score: 324
Period size: 99 Copynumber: 2.0 Consensus size: 99
31428411 GGTAATTAAA
* * *
31428421 AACAAAAACAAAAGAAAACAAGTTACCATTTTCTTCATTCAAACATTTCCCTATCAAAAACACCA
1 AACAAAAACAAAAGAAAACAAGTTACCATCTTCTTCATTCAAACATTGCCCAATCAAAAACACCA
31428486 TTTTTGTACAAGGAAGACTCAACCAAGCTTTGTT
66 TTTTTGTACAAGGAAGACTCAACCAAGCTTTGTT
* *
31428520 AACAAAAACAAAAGAAAACAAGTTACCATCTTCTTCATTCAAACATTGCCCAATCGAAAATACCA
1 AACAAAAACAAAAGAAAACAAGTTACCATCTTCTTCATTCAAACATTGCCCAATCAAAAACACCA
** *
31428585 TTTTTGTACAAGGAAGGTTCGACCAAGCTTTGTT
66 TTTTTGTACAAGGAAGACTCAACCAAGCTTTGTT
31428619 CTCAATGCAT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (99 bp):
AACAAAAACAAAAGAAAACAAGTTACCATCTTCTTCATTCAAACATTGCCCAATCAAAAACACCA
TTTTTGTACAAGGAAGACTCAACCAAGCTTTGTT
Found at i:31432072 original size:40 final size:40
Alignment explanation
Indices: 31432039--31432189 Score: 194
Period size: 40 Copynumber: 3.8 Consensus size: 40
31432029 CGACGAAAAA
* *
31432039 TCAACTATATGTGGCACTTAGTGTGCGATTCGACATAGCT
1 TCAACTATATATGGCACTTAGTGTGCGATTCGACATAACT
* * * * *
31432079 TCAGCTATATATGGCACTCAATGTGCGATTCAACATAGCT
1 TCAACTATATATGGCACTTAGTGTGCGATTCGACATAACT
* *
31432119 TCAACTATATATGGCACTTAGTGTGCGAGATCGAGATAACT
1 TCAACTATATATGGCACTTAGTGTGCGA-TTCGACATAACT
**
31432160 TCTGCTATATATGGCACTTAGTGTGCGATT
1 TCAACTATATATGGCACTTAGTGTGCGATT
31432190 TGAGATAGCT
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 61 0.64
41 34 0.36
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (40 bp):
TCAACTATATATGGCACTTAGTGTGCGATTCGACATAACT
Found at i:31432198 original size:81 final size:81
Alignment explanation
Indices: 31432039--31432230 Score: 233
Period size: 81 Copynumber: 2.4 Consensus size: 81
31432029 CGACGAAAAA
* * *
31432039 TCAACTATATGTGGCACTTAGTGTGCGA-TTCGACATAGCTTCAGCTATATATGGCACTCAATGT
1 TCAACTATATATGGCACTTAGTGTGCGAGATCGACATAACTTCAGCTATATATGGCACTCAATGT
31432103 GCGATTCAACATAGCT
66 GCGATTCAACATAGCT
* * * *
31432119 TCAACTATATATGGCACTTAGTGTGCGAGATCGAGATAACTTCTGCTATATATGGCACTTAGTGT
1 TCAACTATATATGGCACTTAGTGTGCGAGATCGACATAACTTCAGCTATATATGGCACTCAATGT
** *
31432184 GCGATTTGAGATAGCT
66 GCGATTCAACATAGCT
*** * * *
31432200 TCGGTTATGTACGACACTTAGTGTGCGAGAT
1 TCAACTATATATGGCACTTAGTGTGCGAGAT
31432231 ATCGAGAATT
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 27 0.28
81 68 0.72
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (81 bp):
TCAACTATATATGGCACTTAGTGTGCGAGATCGACATAACTTCAGCTATATATGGCACTCAATGT
GCGATTCAACATAGCT
Found at i:31432218 original size:40 final size:41
Alignment explanation
Indices: 31432053--31432230 Score: 119
Period size: 40 Copynumber: 4.4 Consensus size: 41
31432043 CTATATGTGG
* * * * * *
31432053 CACTTAGTGTGCGA-TTCGACATAGCTTCAGCTATATATGG
1 CACTTAGTGTGCGAGATCGAGATAACTTCGGCTATATACGA
* * * * * * ** * *
31432093 CACTCAATGTGCGA-TTCAACATAGCTTCAACTATATATGG
1 CACTTAGTGTGCGAGATCGAGATAACTTCGGCTATATACGA
* * *
31432133 CACTTAGTGTGCGAGATCGAGATAACTTCTGCTATATATGG
1 CACTTAGTGTGCGAGATCGAGATAACTTCGGCTATATACGA
* * * * *
31432174 CACTTAGTGTGCGA-TTTGAGATAGCTTCGGTTATGTACGA
1 CACTTAGTGTGCGAGATCGAGATAACTTCGGCTATATACGA
31432214 CACTTAGTGTGCGAGAT
1 CACTTAGTGTGCGAGAT
31432231 ATCGAGAATT
Statistics
Matches: 115, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 80 0.70
41 35 0.30
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (41 bp):
CACTTAGTGTGCGAGATCGAGATAACTTCGGCTATATACGA
Found at i:31434584 original size:40 final size:40
Alignment explanation
Indices: 31434527--31434722 Score: 276
Period size: 40 Copynumber: 5.0 Consensus size: 40
31434517 TCGAATGATG
* * *
31434527 TCCGGGCTAAG-TCCCGAAGGC-TCTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
31434567 TCCGGACTAAGATCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
31434607 TCCGGACTAAGATCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
31434647 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
31434687 TCCGGA-T-AG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
31434723 TAACCGGGCT
Statistics
Matches: 145, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.01
38 26 0.18
39 1 0.01
40 111 0.77
41 6 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31434750 original size:40 final size:39
Alignment explanation
Indices: 31434527--31434750 Score: 226
Period size: 40 Copynumber: 5.6 Consensus size: 39
31434517 TCGAATGATG
* *
31434527 TCCGGGCTAAGTCCCGAAGGC-TCTGTGCTAAGTTACTAAA
1 TCCGGGCT-AGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
31434567 TCCGGACTAAGAT-CCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGCT-AG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31434607 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCT-AG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31434647 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCT-AG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31434687 TCC-GGATAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31434726 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTA-GTCCCGAAGGCATTTG
31434751 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
37 1 0.01
38 28 0.17
39 8 0.05
40 123 0.74
41 6 0.04
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31443876 original size:47 final size:47
Alignment explanation
Indices: 31443762--31443931 Score: 169
Period size: 45 Copynumber: 3.7 Consensus size: 47
31443752 GCCCCTAAGT
* * * *
31443762 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCC--AAGC
31443808 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATC-CAAGC
* *
31443855 GAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA-AGC
31443900 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
31443932 TCAACCATCC
Statistics
Matches: 105, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 29 0.28
46 27 0.26
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCAAGC
Found at i:31443931 original size:92 final size:93
Alignment explanation
Indices: 31443762--31443931 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
31443752 GCCCCTAAGT
* *
31443762 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31443827 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
31443855 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31443919 CGAGTTCGGATGC
66 CGAGTTCGGATGC
31443932 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 35 0.47
93 39 0.53
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31444384 original size:30 final size:30
Alignment explanation
Indices: 31444350--31444409 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31444340 ATTTAATACG
31444350 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
31444380 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
31444410 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:31445340 original size:54 final size:54
Alignment explanation
Indices: 31445222--31445325 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
31445212 GGATATTACA
** * *
31445222 CTAGCACACAGCCTGACACACAGGCGTGTGTGGCAACTCAGAGAGTTACACTAC
1 CTAGCACATGGCCTGACACACGGGCGTGTGTGGCAACTCAGAGAGCTACACTAC
* *
31445276 CTAGCACATGGCCTGACACACGGGTGTGTGTGGCAACTCAGTGAGCTACA
1 CTAGCACATGGCCTGACACACGGGCGTGTGTGGCAACTCAGAGAGCTACA
31445326 TGGGTAAGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (54 bp):
CTAGCACATGGCCTGACACACGGGCGTGTGTGGCAACTCAGAGAGCTACACTAC
Found at i:31446182 original size:17 final size:18
Alignment explanation
Indices: 31446160--31446193 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31446150 CACATTGAAG
31446160 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
31446177 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
31446194 CTTCTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:31447490 original size:28 final size:28
Alignment explanation
Indices: 31447422--31447523 Score: 170
Period size: 28 Copynumber: 3.7 Consensus size: 28
31447412 TGGCCCCTTT
31447422 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
31447450 -GGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
**
31447477 AGGCCCAATCACATTCATATGGCCTGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
31447505 AGGCCTAATCACATTCATA
1 AGGCCCAATCACATTCATA
31447524 GTCATGCAAT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
27 27 0.39
28 43 0.61
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:31452027 original size:50 final size:50
Alignment explanation
Indices: 31451911--31452339 Score: 351
Period size: 50 Copynumber: 8.5 Consensus size: 50
31451901 CTGGTAAGCA
* * * * *
31451911 TAGTAGCCTGCACTTAGTACTACACATGCGAAC-AACAATC-CAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACTATCTGA-TACACG
* * * *
31451960 TAGTAGCATGCACTTAGTACTACACACATGACCAAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACTATCTGATACACG
* ** ** * * * * *
31452010 TAGTAGCCTGCACTTAGTACTACACATGTGATTGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAAACTATCTGATACACG
* * * *
31452061 TAGTAGCCTGCACTCAGTACTACACATGTGACCTAACTATCTGGTACA-G
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACTATCTGATACACG
* * * *
31452110 TTAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACA
1 -TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACTATCTGATACACG
* ** ** * * * ** *
31452161 TAGTAGCCTGTACTTAGTACTACACACGTGATTGAAGTTGTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAAACTATCTGATACACG
* * * * *
31452212 TAGTATCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACTATCTGATACACG
* * * *
31452262 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC--AAACTATCTGATACACG
*
31452314 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
31452340 TGTGTTTTCA
Statistics
Matches: 297, Mismatches: 75, Indels: 13
0.77 0.19 0.03
Matches are distributed among these distances:
49 28 0.09
50 159 0.54
51 74 0.25
52 36 0.12
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACTATCTGATACACG
Found at i:31452115 original size:101 final size:100
Alignment explanation
Indices: 31451911--31452343 Score: 419
Period size: 101 Copynumber: 4.3 Consensus size: 100
31451901 CTGGTAAGCA
* * * ** * *
31451911 TAGTAGCCTGCACTTAGTACTACACATGCGAAC-AACAATCCAGTACACGTAGTAGCATGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACACATAGTAGCCTGCACTT
*
31451975 AGTACTACACACATGACC-AAACCATCTGATACAT
66 AGTACTACACACGTGACCTAAACCATCTGATACAT
* * * * *
31452009 GTAGTAGCCTGCACTTAGTACTACACATGTGA-TTGAAGTTGTCGGGTACGCATAGTAGCCTGCA
1 -TAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CTATCTGGTACACATAGTAGCCTGCA
* * * *
31452073 CTCAGTACTACACATGTGACCT-AACTATCTGGTACAGT
63 CTTAGTACTACACACGTGACCTAAACCATCTGATACA-T
* * * * *
31452111 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGTACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACACATAGTAGCCTGCACTT
* **** * *
31452176 AGTACTACACACGTGA-TTGAAGTTGTCGGGTATGCA-
66 AGTACTACACACGTGACCT-AAACCATC-TG-ATACAT
* * *
31452212 TAGTATCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACACATAGTAGCCTGCACTT
* * *
31452277 AGTACTACACACGTGACCTAAAACCATCTTAAACACA
66 AGTACTACACACGTGACCT-AAACCATCTGATACA-T
*
31452314 TAGTAGCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
31452344 TTTTCACAAT
Statistics
Matches: 266, Mismatches: 55, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
99 31 0.12
100 41 0.15
101 156 0.59
102 35 0.13
103 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACACATAGTAGCCTGCACTT
AGTACTACACACGTGACCTAAACCATCTGATACAT
Found at i:31452143 original size:151 final size:151
Alignment explanation
Indices: 31451903--31452343 Score: 661
Period size: 151 Copynumber: 2.9 Consensus size: 151
31451893 GAAGCTATCT
* * **
31451903 GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGAAC-AACAATCCAGTACACGTAGTAGC
1 GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* **
31451967 ATGCACTTAGTACTACACACATGACCAAACCATCTGATACATGTAGTAGCCTGCACTTAGTACTA
66 ATGCACTTAGTACTACACACGTGACCAAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
31452032 CACATGTGATTGAAGTTGTCG
131 CACATGTGATTGAAGTTGTCG
* * *
31452053 GGTACGCATAGTAGCCTGCACTCAGTACTACACATGTGACCTAACTATCTGGTACA-GTTAGTAG
1 GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACG-TAGTAG
* * *
31452117 CTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGTACTTAGTACT
65 CATGCACTTAGTACTACACACGTGACCAAACCATCTGATACACATAGTAGCCTGCACTTAGTACT
*
31452182 ACACACGTGATTGAAGTTGTCG
130 ACACATGTGATTGAAGTTGTCG
* *
31452204 GGTATGCATAGTATCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
1 GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* * * *
31452269 CTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACATAGTAGCCTGCACATAGTAC
66 ATGCACTTAGTACTACACACGTGACC--AAACCATCTGATACACATAGTAGCCTGCACTTAGTAC
31452334 TACACATGTG
129 TACACATGTG
31452344 TTTTCACAAT
Statistics
Matches: 261, Mismatches: 25, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
150 38 0.15
151 181 0.69
152 1 0.00
153 41 0.16
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (151 bp):
GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
ATGCACTTAGTACTACACACGTGACCAAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
CACATGTGATTGAAGTTGTCG
Found at i:31453811 original size:2 final size:2
Alignment explanation
Indices: 31453804--31453843 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
31453794 CGTTCATAGA
31453804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31453844 GCATATCATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31458726 original size:16 final size:15
Alignment explanation
Indices: 31458702--31458731 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
31458692 AACTATTTTA
31458702 TTACAAATTTCACTC
1 TTACAAATTTCACTC
31458717 TTACATAATTTCACT
1 TTACA-AATTTCACT
31458732 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:31459046 original size:50 final size:50
Alignment explanation
Indices: 31458929--31459375 Score: 416
Period size: 50 Copynumber: 8.9 Consensus size: 50
31458919 GTAACTGAAG
* * * *
31458929 CTATCTGGTA-AGCATAGTAGCCTGTACTTAGTACTACACATGCGAAC-AG
1 CTATCTGGTACA-CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * ** *
31458978 CAATCTGGTACACGTAGTAGTGTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * *
31459028 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * * * *
31459078 GTTGTCGGGTACGCATAGTAGCCTGCACTTCGTACTACACATGTGACCTAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
** * *
31459129 CTATCTGGTACAGGTAGTAGCTTGCACTTATTACTACACATGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * *
31459179 CCATCTGATACACGTAGTAGCCTGCATTTAGTACTACACATGTGA-TTGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * * ** * * *
31459229 GTTGTCGGGTATGCATTGTAGCCTACACTTAGTACTACACATGCGACCTAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* *
31459280 CTATCTGGTACACATAGTTGCCTGCACTTAGTACTACACACGTGACCTAAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AA
* *** *
31459332 CCATCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTG
31459376 TTTTCACAAT
Statistics
Matches: 318, Mismatches: 70, Indels: 17
0.79 0.17 0.04
Matches are distributed among these distances:
49 39 0.12
50 165 0.52
51 73 0.23
52 41 0.13
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
Found at i:31459174 original size:151 final size:151
Alignment explanation
Indices: 31458935--31459371 Score: 635
Period size: 151 Copynumber: 2.9 Consensus size: 151
31458925 GAAGCTATCT
* * * *
31458935 GGTAAGCATAGTAGCCTGTACTTAGTACTACACATGCGAAC-AGCAATCTGGTACACGTAGTAG-
1 GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
31458998 TGTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACT
66 T-TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACT
31459063 ACACACGTGATTGAAGTTGTCG
130 ACACACGTGATTGAAGTTGTCG
* * * *
31459085 GGTACGCATAGTAGCCTGCACTTCGTACTACACATGTGACCTAACTATCTGGTACAGGTAGTAGC
1 GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* * *
31459150 TTGCACTTATTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCATTTAGTACTA
66 TTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
*
31459215 CACATGTGATTGAAGTTGTCG
131 CACACGTGATTGAAGTTGTCG
* * * * *
31459236 GGTATGCATTGTAGCCTACACTTAGTACTACACATGCGACCTAACTATCTGGTACACATAGTTGC
1 GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* * * * *
31459301 CTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACATAGTAGCCTGCACATAGTAC
66 TTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
31459366 TACACA
129 TACACA
31459372 TGTGTTTTCA
Statistics
Matches: 255, Mismatches: 28, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
150 36 0.14
151 181 0.71
152 1 0.00
153 37 0.15
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (151 bp):
GGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
TTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATTGAAGTTGTCG
Found at i:31461886 original size:80 final size:80
Alignment explanation
Indices: 31461754--31461944 Score: 271
Period size: 80 Copynumber: 2.4 Consensus size: 80
31461744 ATGTCTGGGC
* * * *
31461754 TAAGTCCCGAAGGC-TCTGTGCTAAGTTACTAAATTCGGACTAAGATCCGAAGGCAATTGTGTGA
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTGTCTGA
31461818 GTTACTAAATCC-GGA
65 GTTACTAAATCCGGGA
*
31461833 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTCTG
1 -TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTGTCTG
31461897 AGTTACTAAATCCGGGA
64 AGTTACTAAATCCGGGA
* *
31461914 TGAGTCCCGAAGGCATTTGTGCGAGCTACTA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA
31461945 TAACCGGGCT
Statistics
Matches: 100, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
79 1 0.01
80 89 0.89
81 10 0.10
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCAATTGTCTGAG
TTACTAAATCCGGGA
Found at i:31461963 original size:40 final size:40
Alignment explanation
Indices: 31461760--31461944 Score: 243
Period size: 40 Copynumber: 4.6 Consensus size: 40
31461750 GGGCTAAGTC
* * *
31461760 CCGAAGGC-TCTGTGCTAAGTTACTAAATTCGGACTAAGAT
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGAT
* *
31461800 CCGAAGGCAATTGTGTGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
31461840 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
*
31461880 CCGAAGGCATTTGT-CTGAGTTACTAAATCCGGGA-TGAG-T
1 CCGAAGGCATTTGTGC-GAGTTACTAAATCC-GGACTAAGAT
*
31461919 CCCGAAGGCATTTGTGCGAGCTACTA
1 -CCGAAGGCATTTGTGCGAGTTACTA
31461945 TAACCGGGCT
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
39 2 0.02
40 121 0.92
41 8 0.06
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
Found at i:31469401 original size:40 final size:40
Alignment explanation
Indices: 31469295--31469478 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
31469285 TGCTGGAAAT
* * * * * **
31469295 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
31469335 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
31469375 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
31469413 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
31469454 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
31469479 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:31480152 original size:39 final size:39
Alignment explanation
Indices: 31480056--31480197 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 39
31480046 TGCTCACTCG
*
31480056 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA-A
*
31480096 ATTGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAA
*
31480135 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGC-A
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCAA
31480175 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
31480198 TTATCATCCA
Statistics
Matches: 95, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
38 1 0.01
39 31 0.33
40 60 0.63
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAA
Found at i:31483788 original size:39 final size:39
Alignment explanation
Indices: 31483707--31483820 Score: 183
Period size: 39 Copynumber: 2.9 Consensus size: 39
31483697 TATGGTAACC
* *
31483707 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
31483747 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
31483786 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
31483821 TCGAACATGC
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 52 0.75
40 17 0.25
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:31490955 original size:39 final size:39
Alignment explanation
Indices: 31490874--31490987 Score: 183
Period size: 39 Copynumber: 2.9 Consensus size: 39
31490864 TATGGTAACC
* *
31490874 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
31490914 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATATCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
31490953 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
31490988 TCGAACATAC
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 52 0.75
40 17 0.25
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:31500978 original size:14 final size:14
Alignment explanation
Indices: 31500959--31500988 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
31500949 GGTACATGCC
31500959 AATTTTGGGTGGCA
1 AATTTTGGGTGGCA
31500973 AATTTTGGGTGGCA
1 AATTTTGGGTGGCA
31500987 AA
1 AA
31500989 ATGACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.33, T:0.33
Consensus pattern (14 bp):
AATTTTGGGTGGCA
Found at i:31504261 original size:40 final size:39
Alignment explanation
Indices: 31504096--31504279 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
31504086 AAATTGAATG
* * *
31504096 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
31504136 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
31504176 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
31504216 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
31504255 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
31504280 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:31504304 original size:80 final size:81
Alignment explanation
Indices: 31504136--31504324 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
31504126 GCTGGAAATT
* * * *
31504136 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
31504201 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
31504217 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
31504280 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
31504296 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
31504325 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:31512355 original size:40 final size:39
Alignment explanation
Indices: 31512190--31512373 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
31512180 AAATTGAATG
* * *
31512190 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
31512230 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
31512270 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
31512310 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
31512349 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
31512374 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:31512398 original size:80 final size:81
Alignment explanation
Indices: 31512230--31512418 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
31512220 GCTGGAAATT
* * * *
31512230 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
31512295 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
31512311 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
31512374 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
31512390 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
31512419 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:31520517 original size:40 final size:40
Alignment explanation
Indices: 31520420--31520669 Score: 296
Period size: 40 Copynumber: 6.3 Consensus size: 40
31520410 ACCCAAGTAT
*
31520420 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
31520459 CTT-GGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
31520498 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
31520538 CTTCGGGACATAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
31520577 CTTCGGGTCTTAGCCCGAATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
31520617 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
31520657 GTTCGGATCTTAG
1 CTTCGGGTCTTAG
31520670 TTCGGTTATC
Statistics
Matches: 177, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
37 1 0.01
38 9 0.05
39 64 0.36
40 99 0.56
41 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:31520555 original size:79 final size:80
Alignment explanation
Indices: 31520420--31520669 Score: 375
Period size: 79 Copynumber: 3.2 Consensus size: 80
31520410 ACCCAAGTAT
* * * *
31520420 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCTT-GGGTCTTAGCCCGGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
31520481 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
31520498 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAG-CCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
31520562 AACTCGCACAAATGC
66 AACTCGCACAAATGC
*
31520577 CTTCGGGTCTTAGCCCGAATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
*
31520642 AACTCGCACGAATGC
66 AACTCGCACAAATGC
* *
31520657 GTTCGGATCTTAG
1 CTTCGGGTCTTAG
31520670 TTCGGTTATC
Statistics
Matches: 159, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
77 1 0.01
78 11 0.07
79 103 0.65
80 44 0.28
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:31525811 original size:41 final size:42
Alignment explanation
Indices: 31525766--31525847 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
31525756 TGGTGTCTCA
* *
31525766 TATCGATGCCATGT-CCAGACATGGTCTTACACGAAATCACG
1 TATCGATGCCATATCCCAGACATGGTCCTACACGAAATCACG
*
31525807 TATCGATGCCATATCCCAGATATGGTCCTACACGAAATCAC
1 TATCGATGCCATATCCCAGACATGGTCCTACACGAAATCAC
31525848 ACATAACCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 13 0.35
42 24 0.65
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
TATCGATGCCATATCCCAGACATGGTCCTACACGAAATCACG
Found at i:31528035 original size:40 final size:41
Alignment explanation
Indices: 31527936--31528035 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 41
31527926 GGTAGCAAAG
*
31527936 TTCCCATAAACGCCGCATAAGGTAAGGCAGTAACGACGTTT
1 TTCCCATAAACGCCGCAAAAGGTAAGGCAGTAACGACGTTT
* *
31527977 TTCCCATAAACACCGCAAAAGGTAAGGCTA-TAACGGCGTTT
1 TTCCCATAAACGCCGCAAAAGGTAAGGC-AGTAACGACGTTT
*
31528018 TT-CCATAAATGCCGCAAA
1 TTCCCATAAACGCCGCAAA
31528036 TTTATTTACT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 14 0.26
41 38 0.72
42 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (41 bp):
TTCCCATAAACGCCGCAAAAGGTAAGGCAGTAACGACGTTT
Found at i:31532996 original size:30 final size:30
Alignment explanation
Indices: 31532962--31533022 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31532952 TCCTTAACTC
31532962 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
31532992 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
31533022 A
1 A
31533023 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:31534594 original size:19 final size:19
Alignment explanation
Indices: 31534568--31534610 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
31534558 TATTGATATC
*
31534568 TTTA-TATTTAATCTATTT
1 TTTATTATTTAATCTAGTT
* *
31534586 TTTATTATTTATTTTAGTT
1 TTTATTATTTAATCTAGTT
31534605 TTTATT
1 TTTATT
31534611 TTAAATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTATTATTTAATCTAGTT
Found at i:31534634 original size:14 final size:15
Alignment explanation
Indices: 31534603--31534634 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
31534593 TTTATTTTAG
31534603 TTTTTATTTTAAATA
1 TTTTTATTTTAAATA
31534618 TTTTTATTTTAAA-A
1 TTTTTATTTTAAATA
31534632 TTT
1 TTT
31534635 AAGATAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTATTTTAAATA
Found at i:31534966 original size:25 final size:26
Alignment explanation
Indices: 31534938--31534991 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
31534928 TCATAAATAT
31534938 TATCAT-AAGAATAAATA-TATTTAAC
1 TATCATAAAG-ATAAATATTATTTAAC
*
31534963 TATCATAAAGATAAATATTATTTATC
1 TATCATAAAGATAAATATTATTTAAC
31534989 TAT
1 TAT
31534992 ATATTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (26 bp):
TATCATAAAGATAAATATTATTTAAC
Found at i:31538535 original size:27 final size:28
Alignment explanation
Indices: 31538504--31538573 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
31538494 ATAGTGAGTC
*
31538504 CGCACAGTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
31538531 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
31538559 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31538574 GTACAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31544139 original size:66 final size:66
Alignment explanation
Indices: 31544041--31544174 Score: 164
Period size: 66 Copynumber: 2.0 Consensus size: 66
31544031 ACAAATTACT
* * * * *
31544041 CAACTTAAAGCGAAGGCAACATCGAGAGAAGCAGAGGC-TCAAAGCAAATATGATGAACTCCAGC
1 CAACTTAAAGCGAAAGCAACAACGAGAGAAGCAGAGGCAAC-AAGAAAATATGAAGAACTCCAGC
31544105 TA
65 TA
* * *
31544107 CAACTTAAAGTGAAAGCAGCAACGAG-GAAAGCAGAGGCAACAAGAAAATATGAAGAACTCTAGC
1 CAACTTAAAGCGAAAGCAACAACGAGAG-AAGCAGAGGCAACAAGAAAATATGAAGAACTCCAGC
31544171 TA
65 TA
31544173 CA
1 CA
31544175 GCTTCAAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 1 0.02
66 56 0.97
67 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (66 bp):
CAACTTAAAGCGAAAGCAACAACGAGAGAAGCAGAGGCAACAAGAAAATATGAAGAACTCCAGCT
A
Found at i:31544546 original size:43 final size:43
Alignment explanation
Indices: 31544461--31544574 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
31544451 GTTTTCCAAC
* * * *
31544461 AAACGCCGCTAAATAACATCACCTTTAGTGCCACTTCTCATAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGCCACTTCCCATAA
* * * *
31544504 AAATGCCGTTGAAA-AACATGACCTTTAGCGGCGCTTCCCATAA
1 AAACGCCGCT-AAAGAACATGACCTTTAGCGCCACTTCCCATAA
31544547 AAACGCCGCTAAAGAACATGACCTTTAG
1 AAACGCCGCTAAAGAACATGACCTTTAG
31544575 TGGTGCTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 3 0.05
43 54 0.90
44 3 0.05
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGCCACTTCCCATAA
Found at i:31544591 original size:43 final size:42
Alignment explanation
Indices: 31544461--31544593 Score: 133
Period size: 43 Copynumber: 3.1 Consensus size: 42
31544451 GTTTTCCAAC
* * * *
31544461 AAACGCCGCTAAATAACATCACCTTTAGTGCCACTTCTCATAA
1 AAACGCCGCTAAA-AACATGACCTTTAGTGGCGCTTTTCATAA
* * * **
31544504 AAATGCCGTTGAAAAACATGACCTTTAGCGGCGCTTCCCATAA
1 AAACGCCGCT-AAAAACATGACCTTTAGTGGCGCTTTTCATAA
*
31544547 AAACGCCGCTAAAGAACATGACCTTTAGTGGTGCTTTT-ACTAA
1 AAACGCCGCTAAA-AACATGACCTTTAGTGGCGCTTTTCA-TAA
31544590 AAAC
1 AAAC
31544594 ACAACTAAAG
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 4 0.05
43 67 0.91
44 3 0.04
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTAAAAACATGACCTTTAGTGGCGCTTTTCATAA
Found at i:31544687 original size:43 final size:43
Alignment explanation
Indices: 31544638--31544740 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
31544628 GGGAAAAACG
** * *
31544638 CCGCTAAAGGTCATGTTCTTTAGCAATGTTTTTATGGGAAGTA
1 CCGCTAAAGGTCATGTTCTTTAGCAACATTTTTATGAGAAGCA
* ** *
31544681 CTGCTAAAGGTCATGTTCTTTAGCGGCATTTTTATGAGAAGCG
1 CCGCTAAAGGTCATGTTCTTTAGCAACATTTTTATGAGAAGCA
31544724 CCGCTAAAGGTCATGTT
1 CCGCTAAAGGTCATGTT
31544741 TTATAGTGGC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (43 bp):
CCGCTAAAGGTCATGTTCTTTAGCAACATTTTTATGAGAAGCA
Found at i:31548913 original size:51 final size:51
Alignment explanation
Indices: 31548858--31548961 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
31548848 GGAAAATATG
31548858 ATAGTGGTAATGGGTTTATATAGTAGTAGATTAGGGAAAATGTTTAGCAAA
1 ATAGTGGTAATGGGTTTATATAGTAGTAGATTAGGGAAAATGTTTAGCAAA
31548909 ATAGTGGTAATGGGTTTATATAGTAGTAGATTAGGGAAAATGTTTAGCAAA
1 ATAGTGGTAATGGGTTTATATAGTAGTAGATTAGGGAAAATGTTTAGCAAA
31548960 AT
1 AT
31548962 TTGAGCTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.34
Consensus pattern (51 bp):
ATAGTGGTAATGGGTTTATATAGTAGTAGATTAGGGAAAATGTTTAGCAAA
Found at i:31553678 original size:25 final size:25
Alignment explanation
Indices: 31553650--31553728 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
31553640 ACTCGGCCCT
31553650 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
31553675 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
31553697 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
31553722 ATCACAT
1 ATCACAT
31553729 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:31553774 original size:49 final size:49
Alignment explanation
Indices: 31553600--31553998 Score: 666
Period size: 49 Copynumber: 8.3 Consensus size: 49
31553590 CCCTTCGGGA
* * * * *
31553600 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31553647 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31553694 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31553741 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31553790 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31553839 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31553888 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31553937 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31553986 CTTATCACATATA
1 CTTATCACATATA
31553999 CTATCATGTA
Statistics
Matches: 337, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 92 0.27
49 244 0.72
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31560439 original size:27 final size:28
Alignment explanation
Indices: 31560386--31560451 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 28
31560376 TTGTACAGCG
*
31560386 CTAAGTGTGCGAGTTTGATCATGTAGCA
1 CTAAGTGTGCGAGTTTGATCATATAGCA
*
31560414 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATCATATAGCA
31560441 CTAAGTGTGCG
1 CTAAGTGTGCG
31560452 GACACACTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 23 0.64
28 13 0.36
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATCATATAGCA
Found at i:31563644 original size:13 final size:13
Alignment explanation
Indices: 31563626--31563665 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
31563616 TAAACAATTG
*
31563626 AAACTAAAATTAA
1 AAACTAAAAATAA
31563639 AAACTAAAAAT-A
1 AAACTAAAAATAA
31563651 AAA-TAAAAATAA
1 AAACTAAAAATAA
31563663 AAA
1 AAA
31563666 AATTCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 7 0.28
12 8 0.32
13 10 0.40
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (13 bp):
AAACTAAAAATAA
Found at i:31563659 original size:11 final size:12
Alignment explanation
Indices: 31563626--31563664 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
31563616 TAAACAATTG
*
31563626 AAACTAAAATTAA
1 AAACTAAAAAT-A
31563639 AAACTAAAAATA
1 AAACTAAAAATA
31563651 AAA-TAAAAATA
1 AAACTAAAAATA
31563662 AAA
1 AAA
31563665 AAATTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 11 0.44
12 4 0.16
13 10 0.40
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (12 bp):
AAACTAAAAATA
Found at i:31566925 original size:40 final size:40
Alignment explanation
Indices: 31566866--31567034 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
31566856 CGGGACTTTA
* * *
31566866 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
31566906 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
31566946 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
31566986 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
31567026 CCCGGATAT
1 CCCGGATAT
31567035 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:31574937 original size:40 final size:40
Alignment explanation
Indices: 31574878--31575046 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
31574868 CGGGACTTTA
* * *
31574878 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
31574918 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
31574958 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
31574998 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
31575038 CCCGGATAT
1 CCCGGATAT
31575047 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:31578164 original size:45 final size:45
Alignment explanation
Indices: 31578063--31578189 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
31578053 TTTTCTCAAA
* *
31578063 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
31578105 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
* ** * *
31578149 CTCACCGGTATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
31578190 ATCAAGTCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 39 0.53
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:31578566 original size:43 final size:43
Alignment explanation
Indices: 31578518--31578714 Score: 342
Period size: 43 Copynumber: 4.6 Consensus size: 43
31578508 CCGGCATTAC
*
31578518 GCCTGCCAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
31578561 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
31578604 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
31578647 GCCTGCTAGGCAC-AAGGCCCTAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
31578689 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
31578715 TAATACCAGC
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
42 40 0.27
43 107 0.73
ACGTcount: A:0.30, C:0.35, G:0.24, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:31578650 original size:86 final size:85
Alignment explanation
Indices: 31578518--31578714 Score: 340
Period size: 85 Copynumber: 2.3 Consensus size: 85
31578508 CCGGCATTAC
*
31578518 GCCTGCCAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCAC-AAGGCCCG
31578583 AATACACATCACCGGCACGAA
65 AATACACATCACCGGCACGAA
* * *
31578604 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAAGCCTGCTAGGCACAAGGCCCTA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACAAGGCCCGA
*
31578669 ATACACATCACCGGCACTAA
66 ATACACATCACCGGCACGAA
31578689 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
31578715 TAATACCAGC
Statistics
Matches: 106, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
85 53 0.50
86 53 0.50
ACGTcount: A:0.30, C:0.35, G:0.24, T:0.11
Consensus pattern (85 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACAAGGCCCGA
ATACACATCACCGGCACGAA
Found at i:31578761 original size:38 final size:38
Alignment explanation
Indices: 31578707--31578790 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
31578697 GGCACGAAGG
* * * *
31578707 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
*
31578745 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
31578783 CCCGAATA
1 CCCGAATA
31578791 CACATCAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:31584943 original size:13 final size:13
Alignment explanation
Indices: 31584925--31584949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31584915 AACGAAGCTA
31584925 GACACGGTCGTGC
1 GACACGGTCGTGC
31584938 GACACGGTCGTG
1 GACACGGTCGTG
31584950 TGCACCCACA
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:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
GACACGGTCGTGC
Found at i:31605827 original size:32 final size:32
Alignment explanation
Indices: 31605791--31605855 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
31605781 TAACTTATAT
* *
31605791 AGTTAAATTTTATTAAAACGTAAGAGTTTTGC
1 AGTTAAATTTTATTAAAACATAAGAATTTTGC
31605823 AGTTAAATTTTATTAAAACATAAGAATTTTGC
1 AGTTAAATTTTATTAAAACATAAGAATTTTGC
31605855 A
1 A
31605856 TTTTGTGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (32 bp):
AGTTAAATTTTATTAAAACATAAGAATTTTGC
Found at i:31608996 original size:50 final size:49
Alignment explanation
Indices: 31608880--31609053 Score: 208
Period size: 50 Copynumber: 3.5 Consensus size: 49
31608870 AGGTCGCATC
* * * * *
31608880 TGTAGTACTAAGTGCAAGCTACTATGCGTACCTGAAAACTGT-GATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACC---AGACTGTAGGTCACGTG
**
31608931 TGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACGTG
* *
31608981 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCACATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACGTG
31609030 TGTAGTACTAAGTGCAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
31609054 TACGTACCAG
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 32 0.30
50 43 0.40
51 28 0.26
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACGTG
Found at i:31609061 original size:49 final size:49
Alignment explanation
Indices: 31608871--31609064 Score: 194
Period size: 50 Copynumber: 3.9 Consensus size: 49
31608861 TCTATTGTGA
* * * * *
31608871 GGTCGCATCTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC---AGACTGTT
* * * ** *
31608922 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
* *
31608972 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
**
31609021 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
31609065 TAGCTTCGGC
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 40 0.33
50 43 0.36
51 33 0.28
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:31619634 original size:25 final size:25
Alignment explanation
Indices: 31619587--31619634 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
31619577 TTATACCATG
* * * *
31619587 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
31619612 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
31619635 CTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:31619737 original size:20 final size:20
Alignment explanation
Indices: 31619677--31619737 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
31619667 ATAAATATGG
*
31619677 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
31619697 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
31619717 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
31619737 T
1 T
31619738 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:31619814 original size:24 final size:24
Alignment explanation
Indices: 31619787--31619929 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
31619777 GAGGAAGTGA
31619787 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
31619811 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
31619835 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
31619858 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
31619882 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
31619906 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
31619930 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:31619880 original size:47 final size:47
Alignment explanation
Indices: 31619787--31619929 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
31619777 GAGGAAGTGA
31619787 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
31619835 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
31619882 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
31619930 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:31619903 original size:71 final size:72
Alignment explanation
Indices: 31619787--31619930 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
31619777 GAGGAAGTGA
*
31619787 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
31619850 CCAGTTAT
65 CCAGTTAT
** * *
31619858 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
31619923 CAGTTAT
66 CAGTTAT
31619930 A
1 A
31619931 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:31623101 original size:93 final size:93
Alignment explanation
Indices: 31622989--31623159 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
31622979 GCCCATAAGT
* *
31622989 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31623054 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
31623082 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31623147 CGAGTTCGGATGC
66 CGAGTTCGGATGC
31623160 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31623175 original size:46 final size:46
Alignment explanation
Indices: 31622981--31623161 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
31622971 TGTAACCCGC
* * *
31622981 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
31623027 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
31623077 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
31623120 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
31623162 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:31625581 original size:30 final size:30
Alignment explanation
Indices: 31625537--31625625 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
31625527 CAAAGATAAC
31625537 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
31625566 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
31625596 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
31625626 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:31625585 original size:15 final size:15
Alignment explanation
Indices: 31625537--31625616 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
31625527 CAAAGATAAC
*
31625537 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
31625551 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
31625566 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
31625581 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
31625596 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
31625611 AAGAAA
1 AAGAAA
31625617 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31625625 original size:15 final size:15
Alignment explanation
Indices: 31625548--31625625 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
31625538 AGAAAACCGA
31625548 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
31625563 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
31625577 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
31625592 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
31625608 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31625623 ATA
1 ATA
31625626 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31628684 original size:93 final size:93
Alignment explanation
Indices: 31628572--31628742 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
31628562 GCCCATAAGT
* *
31628572 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31628637 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
31628665 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31628730 CGAGTTCGGATGC
66 CGAGTTCGGATGC
31628743 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31628758 original size:46 final size:46
Alignment explanation
Indices: 31628564--31628744 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
31628554 TGTAACCCGC
* * *
31628564 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
31628610 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
31628660 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
31628703 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
31628745 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:31631428 original size:27 final size:27
Alignment explanation
Indices: 31631352--31631458 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 27
31631342 TTTAGTTTAC
* *
31631352 TAAAATTACCGAAATACCCT-TAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
*
31631379 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
31631406 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
31631433 TAAAATTAC-CAAAGTACCCTCGATTT
1 TAAAATTACTGAAA-TACCCTCGATTT
31631459 ACAGAATTAT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.04
27 65 0.94
28 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:31631477 original size:27 final size:26
Alignment explanation
Indices: 31631447--31631656 Score: 244
Period size: 27 Copynumber: 7.8 Consensus size: 26
31631437 ATTACCAAAG
31631447 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
*
31631474 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
* **
31631500 TACCC-CTAATTTACATCATTATCGTTT
1 TACCCTC-GATTTACAGAATTA-CGTTT
*
31631527 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
31631554 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* *
31631581 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* *
31631608 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
31631635 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
31631657 TAAAATACCC
Statistics
Matches: 162, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
26 26 0.16
27 135 0.83
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.40
Consensus pattern (26 bp):
TACCCTCGATTTACAGAATTACGTTT
Found at i:31631665 original size:27 final size:27
Alignment explanation
Indices: 31631554--31631858 Score: 113
Period size: 27 Copynumber: 11.2 Consensus size: 27
31631544 ATTACCGTTT
* ***
31631554 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-AAA
* * ***
31631581 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
31631608 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
31631635 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
31631662 TACCCTTTG-TTTGTAAAATTACCAAAA
1 TACCC-TCGATTTACAAAATTACTAAAA
* **
31631689 TACCC-CTAGTTTGTAAAATTA-TCAAAA
1 TACCCTCGA-TTTACAAAATTACT-AAAA
* * * *** **
31631716 TACCTTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
31631743 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
31631770 TACCACT-GATTTACAAAGTTAC-AGAAA
1 TACC-CTCGATTTACAAAATTACTA-AAA
*
31631797 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
31631826 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
31631853 TACCCT
1 TACCCT
31631859 TGGTTTGTAG
Statistics
Matches: 225, Mismatches: 37, Indels: 32
0.77 0.13 0.11
Matches are distributed among these distances:
26 3 0.01
27 191 0.85
28 12 0.05
29 19 0.08
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:31631683 original size:81 final size:81
Alignment explanation
Indices: 31631393--31631667 Score: 207
Period size: 81 Copynumber: 3.4 Consensus size: 81
31631383 AATACTGAAA
** * * * * * *** *
31631393 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCTCGATT
1 TACCCTCGATTTACAAAATTACAGAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGACT
* *
31631458 TACAGAATTATCGTTT
66 TACAGAATTACCATTT
* * *** * * ** *
31631474 TACCC-CGATTTACATAATTACCGTTTTACCC-CTAATTTACATCATTA-TCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTACAGAAATACCCTC-GATTTATAAAATTACT-ATTTTACCCTCGA
*
31631536 CTTACAGAATTACCGTTT
64 CTTACAGAATTACCATTT
* *** * * *
31631554 TACCCTCGATTTACAGAATTACAGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACAGAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGACT
*
31631619 TACAGAATTACTATTT
66 TACAGAATTACCATTT
31631635 TACCCTCGATTTACAAAATTACTA-AAATACCCT
1 TACCCTCGATTTACAAAATTAC-AGAAATACCCT
31631668 TTGTTTGTAA
Statistics
Matches: 152, Mismatches: 36, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
79 1 0.01
80 56 0.37
81 92 0.61
82 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACAGAAATACCCTCGATTTATAAAATTACTATTTTACCCTCGACT
TACAGAATTACCATTT
Found at i:31631693 original size:54 final size:55
Alignment explanation
Indices: 31631635--31631773 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 55
31631625 ATTACTATTT
* **
31631635 TACCCTCGATTTACAAAATTACTAAAATACCCTTT-GTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACTAAAATACCCTTTGGTTTGTAAAATTACCAAAA
* * *
31631689 TACCC-CTAGTTTGTAAAATTA-TCAAAATA-CCTTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACT-AAAATACCCTTTGGTTTGTAAAATTACCAAAA
*
31631743 TACCCTCAATTTGTAAAATTACCAAAATACC
1 TACCCTCAATTTGTAAAATTACTAAAATACC
31631774 ACTGATTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
53 7 0.10
54 62 0.87
55 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (55 bp):
TACCCTCAATTTGTAAAATTACTAAAATACCCTTTGGTTTGTAAAATTACCAAAA
Found at i:31631797 original size:54 final size:52
Alignment explanation
Indices: 31631635--31631858 Score: 157
Period size: 54 Copynumber: 4.1 Consensus size: 52
31631625 ATTACTATTT
* ** * *
31631635 TACCCTCGATTTACAAAATTACTAAAATACCCTTTGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTAC-AAAATA-CCATTGGTT-TACAAATTA-CAGAAA
* * ** *
31631689 TACCC-CTAGTTTGTAAAATTATCAAAATACCTTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTA-CAAAATACCATTGGTTT-ACAAATTACAGAAA
* *
31631743 TACCCTCAATTTGTAAAATTACCAAAATACCACTGATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTA-CAAAATACCATTGGTTTACAAA-TTACAGAAA
* * * * *
31631797 TACCCTTGACTTTCTAAAAATTATAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCAATTTGT-AAAATTACA-AAATACCATTGGTTTAC-AAATTACAGAAA
31631853 TACCCT
1 TACCCT
31631859 TGGTTTGTAG
Statistics
Matches: 137, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
52 1 0.01
53 13 0.09
54 75 0.55
55 10 0.07
56 35 0.26
57 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (52 bp):
TACCCTCAATTTGTAAAATTACAAAATACCATTGGTTTACAAATTACAGAAA
Found at i:31631861 original size:27 final size:27
Alignment explanation
Indices: 31631608--31631864 Score: 128
Period size: 27 Copynumber: 9.4 Consensus size: 27
31631598 ATTACTATTT
* * ***
31631608 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
31631635 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* ** *
31631662 TACCCTTTGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* * **
31631689 TACCCCTAGTTTGTAAAATTA-TCAAAA
1 TACCCTTGGTTTACAAAATTACT-AAAA
* *** **
31631716 TACCTTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*** ** *
31631743 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
31631770 TACCAC-TGATTTACAAAGTTAC-AGAAA
1 TACC-CTTGGTTTACAAAATTACTA-AAA
*
31631797 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACTA-AAA
* *
31631826 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
31631853 TACCCTTGGTTT
1 TACCCTTGGTTT
31631865 GTAGATTTAC
Statistics
Matches: 182, Mismatches: 37, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
26 2 0.01
27 153 0.84
28 8 0.04
29 19 0.10
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Done.