Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 166 of 292
Found at i:49255666 original size:43 final size:43
Alignment explanation
Indices: 49255618--49255703 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
49255608 TTAATGTAGG
* * *
49255618 ATTAAAGATAACATTTTAGTAAAAATAATGAAGAAATTGACAC
1 ATTAAAAATAACATTTTAATAAAAATAATGAAGAAAATGACAC
* *
49255661 ATTAAAAATAACTTTTTAATAAAAATAATGAATAAAATGACAC
1 ATTAAAAATAACATTTTAATAAAAATAATGAAGAAAATGACAC
49255704 TTTTATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (43 bp):
ATTAAAAATAACATTTTAATAAAAATAATGAAGAAAATGACAC
Found at i:49255788 original size:21 final size:21
Alignment explanation
Indices: 49255763--49255814 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
49255753 AATTAAAAAT
* *
49255763 AATTTCACTAATACAGTATCA
1 AATTTCACTAATAAAGTAACA
* * *
49255784 AATTTCATTGATAAAGTAACC
1 AATTTCACTAATAAAGTAACA
49255805 AATTTCACTA
1 AATTTCACTA
49255815 CCAACTTCAC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (21 bp):
AATTTCACTAATAAAGTAACA
Found at i:49255823 original size:12 final size:12
Alignment explanation
Indices: 49255802--49255831 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49255792 TGATAAAGTA
*
49255802 ACCAATTTCACT
1 ACCAACTTCACT
49255814 ACCAACTTCACT
1 ACCAACTTCACT
49255826 ACCAAC
1 ACCAAC
49255832 CATAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (12 bp):
ACCAACTTCACT
Found at i:49265796 original size:93 final size:93
Alignment explanation
Indices: 49265684--49265855 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
49265674 GCCCATAAGT
*
49265684 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
49265748 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGAATGCCTAGTTACATCTCTC
*
49265777 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
49265842 CGAGTTCGAATGCC
66 CGAGCTCGAATGCC
49265856 CAAATATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCTC
Found at i:49265849 original size:46 final size:45
Alignment explanation
Indices: 49265676--49265845 Score: 209
Period size: 46 Copynumber: 3.7 Consensus size: 45
49265666 TGTAACCCGC
*
49265676 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
49265722 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
49265768 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
49265815 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
49265846 TTCGAATGCC
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 62 0.59
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:49265870 original size:46 final size:44
Alignment explanation
Indices: 49265727--49265870 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
49265717 CGCATCCATA
* * *
49265727 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCA---A-ATC-CT
* * *
49265776 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGCCCAAATCC-T
49265819 AAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCC-AA-ATCCT
49265866 AGTGA
1 AGTGA
49265871 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
45 2 0.03
46 31 0.41
47 26 0.34
48 5 0.07
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCCAAATCCT
Found at i:49271556 original size:15 final size:15
Alignment explanation
Indices: 49271536--49271564 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49271526 GAAACGCTTG
49271536 ATAAATTTAAAGTTT
1 ATAAATTTAAAGTTT
49271551 ATAAATTTAAAGTT
1 ATAAATTTAAAGTT
49271565 GAACTTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (15 bp):
ATAAATTTAAAGTTT
Found at i:49274742 original size:27 final size:27
Alignment explanation
Indices: 49274694--49274852 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
49274684 GCGAGGCTGC
*** *
49274694 CAGATATTGTGATGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
49274721 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
49274747 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
49274774 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
49274801 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
49274828 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
49274853 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 9 0.08
27 101 0.89
28 4 0.04
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:49274853 original size:54 final size:54
Alignment explanation
Indices: 49274712--49274855 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
49274702 GTGATGGAGT
* * *
49274712 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
49274766 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
49274820 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
49274856 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 4 0.05
54 82 0.95
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:49276500 original size:26 final size:26
Alignment explanation
Indices: 49276469--49276575 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
49276459 TGAAATGCCC
49276469 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
49276495 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
49276521 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
49276547 ATCATGGAACATTTACCT-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
49276572 ATCA
1 ATCA
49276576 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 10 0.13
26 66 0.87
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:49281851 original size:27 final size:26
Alignment explanation
Indices: 49281803--49281961 Score: 210
Period size: 27 Copynumber: 5.9 Consensus size: 26
49281793 GCGAGGTTGC
* * *
49281803 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
49281830 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
49281856 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* *
49281883 CAGATAATTGTGGCATAGCCACCAGGA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
49281910 CAGATATATGTGGCAGAGCCACCAGAA
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
49281937 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
49281962 GACGCTTCCT
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
26 10 0.08
27 104 0.88
28 4 0.03
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:49281962 original size:54 final size:54
Alignment explanation
Indices: 49281803--49281964 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
49281793 GCGAGGTTGC
* * * * *
49281803 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGA-ACAGATAATTGTGGCATAGCCACCAGGA
*
49281856 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGAACAGATAATTGTGGCATAGCCACCAGGA
49281910 CAGATATATGTGGCAGAGCCACCAGAACAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGAACAGATAATTGTGGCATAGCCACCAGGA
49281964 C
1 C
49281965 GCTTCCTCCA
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 12 0.12
54 88 0.88
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGAACAGATAATTGTGGCATAGCCACCAGGA
Found at i:49283603 original size:26 final size:26
Alignment explanation
Indices: 49283573--49283654 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
49283563 TGAAATGCCC
49283573 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
49283599 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
49283625 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
49283651 ATCA
1 ATCA
49283655 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:49284481 original size:47 final size:47
Alignment explanation
Indices: 49284412--49284505 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
49284402 GTTGAAATCA
49284412 TTGTATTAGATGTGTTCGGTTAATCAAATAGAATAGTCGGTTCAAAG
1 TTGTATTAGATGTGTTCGGTTAATCAAATAGAATAGTCGGTTCAAAG
49284459 TTGTATTAGATGTGTTCGGTTAATCAAATAGAATAGTCGGTTCAAAG
1 TTGTATTAGATGTGTTCGGTTAATCAAATAGAATAGTCGGTTCAAAG
49284506 CTTAGTCTAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (47 bp):
TTGTATTAGATGTGTTCGGTTAATCAAATAGAATAGTCGGTTCAAAG
Found at i:49290005 original size:23 final size:22
Alignment explanation
Indices: 49289945--49290009 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 22
49289935 TTACCTTAAT
*
49289945 ATAAAGTTTAAAAGCATACCTTA
1 ATAAAGTTTAAAA-CATACCCTA
* *
49289968 ATAAAGTCCTAAAACATGCCCTA
1 ATAAAGT-TTAAAACATACCCTA
49289991 ATAAAGTTTATAAACATAC
1 ATAAAGTTTA-AAACATAC
49290010 ATTTAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 2 0.06
23 28 0.80
24 5 0.14
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.28
Consensus pattern (22 bp):
ATAAAGTTTAAAACATACCCTA
Found at i:49295330 original size:3 final size:3
Alignment explanation
Indices: 49295322--49295368 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
49295312 ATACTTTACA
*
49295322 AAG AAG AAG AAG AAG AAG AAG AAG AAT AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
49295369 AGCATCGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:49295976 original size:30 final size:31
Alignment explanation
Indices: 49295907--49295977 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
49295897 AAATTGTTAA
* *
49295907 TTAGTGACTGTTTTGTCACTTTTTTATAATG
1 TTAGTGACTGTTTTGTCACTTTCTTATAAAG
*
49295938 TTAGTGACTGTTTTGTTA-TTTCTTA-AAAG
1 TTAGTGACTGTTTTGTCACTTTCTTATAAAG
49295967 TTGAGTGACTG
1 TT-AGTGACTG
49295978 AAATGAAACC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.14
30 14 0.39
31 17 0.47
ACGTcount: A:0.21, C:0.08, G:0.20, T:0.51
Consensus pattern (31 bp):
TTAGTGACTGTTTTGTCACTTTCTTATAAAG
Found at i:49298176 original size:76 final size:76
Alignment explanation
Indices: 49298050--49298210 Score: 225
Period size: 76 Copynumber: 2.1 Consensus size: 76
49298040 AGTTATATAT
* *
49298050 ATGTGTGCAAGTGAAAGACCATAGCTAAGCTATGACAATGTGATAAAGTGTGCGATTATGGCAAA
1 ATGTGTGCAAGTGAAAGACCATAGCTAAGCTATGACAATGTGATAAAGTGTGCGATCATGACAAA
*
49298115 GCCATGGTAAA
66 ACCATGGTAAA
* ** * *
49298126 ATGTGTGCAAGTGTAAGGTCATAGCTAGGCTATCG-CAATGTGATAAAGTGTGTGATCATGACAA
1 ATGTGTGCAAGTGAAAGACCATAGCTAAGCTAT-GACAATGTGATAAAGTGTGCGATCATGACAA
*
49298190 AACCATGGTAAG
65 AACCATGGTAAA
49298202 ATGTGTGCA
1 ATGTGTGCA
49298211 CGACCAAAGT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
76 74 0.99
77 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.25
Consensus pattern (76 bp):
ATGTGTGCAAGTGAAAGACCATAGCTAAGCTATGACAATGTGATAAAGTGTGCGATCATGACAAA
ACCATGGTAAA
Found at i:49299292 original size:15 final size:16
Alignment explanation
Indices: 49299272--49299301 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49299262 ATATTGGACC
49299272 TTGAGGTTA-ATATGG
1 TTGAGGTTAGATATGG
49299287 TTGAGGTTAGATATG
1 TTGAGGTTAGATATG
49299302 AATAGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (16 bp):
TTGAGGTTAGATATGG
Found at i:49302663 original size:33 final size:32
Alignment explanation
Indices: 49302610--49302711 Score: 111
Period size: 33 Copynumber: 3.2 Consensus size: 32
49302600 ACTTGAGGTG
49302610 TACATTCCTTTCCAAGTGGTACACACAAAGTA
1 TACATTCCTTTCCAAGTGGTACACACAAAGTA
* *
49302642 TACATTTCCTTTTCATA-TGGTATACACAAAGTA
1 TACA-TTCCTTTCCA-AGTGGTACACACAAAGTA
* *
49302675 TACCTAAT-CTTTCCAAGT-GTACACACAAAGTG
1 TA-C-ATTCCTTTCCAAGTGGTACACACAAAGTA
49302707 TACAT
1 TACAT
49302712 AACCTTCTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
30 1 0.02
31 1 0.02
32 19 0.33
33 33 0.57
34 3 0.05
35 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (32 bp):
TACATTCCTTTCCAAGTGGTACACACAAAGTA
Found at i:49302724 original size:32 final size:32
Alignment explanation
Indices: 49302616--49302729 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 32
49302606 GGTGTACATT
**
49302616 CCTTTCCAAGTGGTACACACAAAGTATACATTT
1 CCTTT-CAAGTGGTACACACAAAGTATACATAA
* *
49302649 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CC-TTTCA-AGTGGTACACACAAAGTATACATAA
* *
49302682 TCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTT-CAAGTGGTACACACAAAGTATACATAA
*
49302714 CCTTCTCAAGTTGTAC
1 CCTT-TCAAGTGGTAC
49302730 CATTTGGGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
32 30 0.45
33 32 0.48
34 4 0.06
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (32 bp):
CCTTTCAAGTGGTACACACAAAGTATACATAA
Found at i:49306064 original size:19 final size:19
Alignment explanation
Indices: 49306022--49306064 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
49306012 TGAATTAATC
* * *
49306022 TTTTATTCATTTTTTTGTT
1 TTTTTTTCATATTTTTATT
*
49306041 ATTTTTTCATATTTTTATT
1 TTTTTTTCATATTTTTATT
49306060 TTTTT
1 TTTTT
49306065 CCTTTTTTTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTTCATATTTTTATT
Found at i:49308865 original size:14 final size:14
Alignment explanation
Indices: 49308836--49308893 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
49308826 ATTATATCAC
*
49308836 ATATATGTATGCAT
1 ATATATGTATGTAT
*
49308850 ATATATGTGTGTAT
1 ATATATGTATGTAT
* *
49308864 ATATATATATATAT
1 ATATATGTATGTAT
* *
49308878 ATATATATATATAT
1 ATATATGTATGTAT
49308892 AT
1 AT
49308894 TACAAGCTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (14 bp):
ATATATGTATGTAT
Found at i:49308866 original size:2 final size:2
Alignment explanation
Indices: 49308861--49308893 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
49308851 TATATGTGTG
49308861 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49308894 TACAAGCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49309627 original size:38 final size:38
Alignment explanation
Indices: 49309580--49309659 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
49309570 TTTTTTCTAA
*
49309580 TTAAGTCCATCTATTTTTATTGTATTTCAAATAAATCT
1 TTAAGTCCATCTATTTTTATTGTATTTCAAATAAACCT
*
49309618 TTAATTCCATCTATTTTTATTGTATTTCAAATAAACCT
1 TTAAGTCCATCTATTTTTATTGTATTTCAAATAAACCT
49309656 TTAA
1 TTAA
49309660 CTAGCAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.50
Consensus pattern (38 bp):
TTAAGTCCATCTATTTTTATTGTATTTCAAATAAACCT
Found at i:49314507 original size:275 final size:276
Alignment explanation
Indices: 49313988--49314527 Score: 833
Period size: 272 Copynumber: 2.0 Consensus size: 276
49313978 ACAACACCAT
* * * *
49313988 TGTCGAAACCATTTTTTATTTGAAATAAAAAACAGAAATCGACTTTTAAAAAATATGTGGAGTCG
1 TGTCGAAACCATCTTTCATTTGAAAGAAAAAACAGAAATCGACTTTT--AAAACATGTGGAGTCG
* *
49314053 CCACCAATCTCTTTGTTTAGGTGTGATTGGGTCACCTACTAAAACGTTTTGCTTTACTTAAAACC
64 CCACCAATCTCTTTGTTTAGGTGTGATTGGGTCACCTACTAAAACGTTTTGCTTCACTTAAAACA
** *
49314118 ATTTTAGTTCACGTAAAATTAAAAAATGGGTTCGGGGTCGGTTACGCATGAGGAAGGGTCGACAC
129 ATTTTAGTTCACGTAAAATTAAAAAATGGGTTCGGGGTCAATTACGCATGAGGAAGGGTAGACAC
* *
49314183 CCTCATTACGCCCAAAAATTGGTACCATATTTATTCAATGCTATCC-T-TAT-AAAGATTTTAAA
194 CCTCATTACGCCCAAAAATTGGTACCAGATTGATTCAATGCTATCCTTATATCAAAGATTTTAAA
49314245 AAAGGATCCATACAAAAC
259 AAAGGATCCATACAAAAC
*
49314263 TGTCGAAACCATCTTTCATTTGAAAGAAAAAATAGAAATCGACTTTT-AAACATGTGGAGTCGCC
1 TGTCGAAACCATCTTTCATTTGAAAGAAAAAACAGAAATCGACTTTTAAAACATGTGGAGTCGCC
49314327 ACCAATCTCTTTGTTTAGGTGTGATTGGGTCACCTACTAAAACGTTTTG-TTCCACTTAAAACAA
66 ACCAATCTCTTTGTTTAGGTGTGATTGGGTCACCTACTAAAACGTTTTGCTT-CACTTAAAACAA
* *
49314391 TTTTGGTTCATGTAAAATTAAAAAAAAAATGGGTTCGGGAGTCAATTACGCATGAGGAA-GGTAG
130 TTTTAGTTCACGTAAAATT----AAAAAATGGGTTCGGG-GTCAATTACGCATGAGGAAGGGTAG
49314455 -CACCCTCATTACGCCCAAAAATTGGTACCAGATTGATTCAATGCTATCCTTATATCAAAGATTT
190 ACACCCTCATTACGCCCAAAAATTGGTACCAGATTGATTCAATGCTATCCTTATATCAAAGATTT
49314519 TAAAAAAGG
255 TAAAAAAGG
49314528 CCTTCCGAAG
Statistics
Matches: 242, Mismatches: 14, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
271 2 0.01
272 92 0.38
275 90 0.37
276 21 0.09
277 20 0.08
278 17 0.07
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (276 bp):
TGTCGAAACCATCTTTCATTTGAAAGAAAAAACAGAAATCGACTTTTAAAACATGTGGAGTCGCC
ACCAATCTCTTTGTTTAGGTGTGATTGGGTCACCTACTAAAACGTTTTGCTTCACTTAAAACAAT
TTTAGTTCACGTAAAATTAAAAAATGGGTTCGGGGTCAATTACGCATGAGGAAGGGTAGACACCC
TCATTACGCCCAAAAATTGGTACCAGATTGATTCAATGCTATCCTTATATCAAAGATTTTAAAAA
AGGATCCATACAAAAC
Found at i:49314963 original size:14 final size:16
Alignment explanation
Indices: 49314944--49314975 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49314934 CATAAAGTAC
49314944 AATAAA-CC-ACAATT
1 AATAAATCCAACAATT
49314958 AATAAATCCAACAATT
1 AATAAATCCAACAATT
49314974 AA
1 AA
49314976 GTACAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAATCCAACAATT
Found at i:49315051 original size:21 final size:21
Alignment explanation
Indices: 49315027--49315073 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
49315017 ATGGATGGAG
*
49315027 AACAATTAATATAATAA-ATAA
1 AACAATGAATA-AATAATATAA
*
49315048 AACAATGAATAAATAATATAC
1 AACAATGAATAAATAATATAA
49315069 AACAA
1 AACAA
49315074 CAATAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (21 bp):
AACAATGAATAAATAATATAA
Found at i:49319630 original size:21 final size:21
Alignment explanation
Indices: 49319583--49319631 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
49319573 TGAATTCATC
* *
49319583 TTTTATTCATTTTGTTGTTAT
1 TTTTTTTCATTTTGTTATTAT
*
49319604 TTTTTTTCATTTTTTTATT-T
1 TTTTTTTCATTTTGTTATTAT
*
49319624 TTCTTTTC
1 TTTTTTTC
49319632 CTTAGTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTTTTCATTTTGTTATTAT
Found at i:49322338 original size:154 final size:153
Alignment explanation
Indices: 49321997--49322341 Score: 430
Period size: 154 Copynumber: 2.2 Consensus size: 153
49321987 AATTGAATAA
* * * * *
49321997 ATTGGGTATTAGTGGCGTTTTTACAAAAGCGCCGCTATAGGTCTATCTATAGCGGCGTTTTTATA
1 ATTGAGTATTAGCGGCGTTTTT-CAAAAGCGCCGCTATAGGTCGATCTATAGCGGCGTTTGTACA
*
49322062 AAAACGCCACTAAAGATTAAGCCGAACGACGTCGTTTATTGCGAGCTTTGGTGGCAACAGCGGCG
65 AAAACGCCACTAAAGATTAAGCCGAACGACGTCGTTTATTGCGAGCTTTAGTGGCAACAGCGGCG
*
49322127 CTTCACCAAAAACGCCGCTATAGG
130 CTTCACAAAAAACGCCGCTATAGG
* * *
49322151 TTTGAGTATTAGCGGCGTTTTTTAGGAAGCGCCGCTATAGGTCGA-CTTATAGCGGCGTTTGTAC
1 ATTGAGTATTAGCGGCGTTTTTCA-AAAGCGCCGCTATAGGTCGATC-TATAGCGGCGTTTGTAC
* * * *
49322215 AAAAACGCCGCTAAAAGATTAAGTCGAACGGCGTCGTTTATT-CTGAG-TTTCAGTGGCAATAGC
64 AAAAACGCCACT-AAAGATTAAGCCGAACGACGTCGTTTATTGC-GAGCTTT-AGTGGCAACAGC
* *
49322278 GGTGCTTC-CTAAAAAATGCCGCTATA-G
126 GGCGCTTCAC-AAAAAACGCCGCTATAGG
*
49322305 ATTGAGTATTAGCGGCGCTTTTTCAAAAACGCCGCTA
1 ATTGAGTATTAGCGGCG-TTTTTCAAAAGCGCCGCTA
49322342 AGGATTTGGG
Statistics
Matches: 164, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
153 2 0.01
154 95 0.58
155 67 0.41
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (153 bp):
ATTGAGTATTAGCGGCGTTTTTCAAAAGCGCCGCTATAGGTCGATCTATAGCGGCGTTTGTACAA
AAACGCCACTAAAGATTAAGCCGAACGACGTCGTTTATTGCGAGCTTTAGTGGCAACAGCGGCGC
TTCACAAAAAACGCCGCTATAGG
Found at i:49322363 original size:155 final size:155
Alignment explanation
Indices: 49321997--49322389 Score: 410
Period size: 154 Copynumber: 2.5 Consensus size: 155
49321987 AATTGAATAA
* * * *
49321997 ATTGGGTATTAGTGGCGTTTTTACA-AAAGCGCCGCTATAGGTCTA-TCTATAGCGGCGTTTTTA
1 ATTGAGTATTAGCGGCGTTTTT-CAGAAAACGCCGCTATAGGTCGACT-TATAGCGGCGTTTTTA
* * *
49322060 TAAAAACGCCACT-AAAGATTAAGCCGAACGACGTCGTTTATTGCGAGCTTTGGTGGCAACAGCG
64 AAAAAACGCCGCTAAAAGATTAAGCCGAACGACGTCGTTTATTGCGAGCTTTAGTGGCAACAGCG
*
49322124 GCGCTTCACCAAAAACGCCGCTATAGG
129 GCGCTTCACAAAAAACGCCGCTATAGG
* * * * * *
49322151 TTTGAGTATTAGCGGCGTTTTTTAGGAAGCGCCGCTATAGGTCGACTTATAGCGGCGTTTGTACA
1 ATTGAGTATTAGCGGCGTTTTTCAGAAAACGCCGCTATAGGTCGACTTATAGCGGCGTTTTTAAA
* * *
49322216 AAAACGCCGCTAAAAGATTAAGTCGAACGGCGTCGTTTATT-CTGAG-TTTCAGTGGCAATAGCG
66 AAAACGCCGCTAAAAGATTAAGCCGAACGACGTCGTTTATTGC-GAGCTTT-AGTGGCAACAGCG
* *
49322279 GTGCTTC-CTAAAAAATGCCGCTATA-G
129 GCGCTTCAC-AAAAAACGCCGCTATAGG
* ** * *
49322305 ATTGAGTATTAGCGGCGCTTTTTCA-AAAACGCCGCTA-AGGATTTGGGTTTTAGTGGCGTTTTT
1 ATTGAGTATTAGCGGCG-TTTTTCAGAAAACGCCGCTATAGG--TCGACTTATAGCGGCGTTTTT
*
49322368 ATAAAAAACGCCGC-AATAGATT
63 A-AAAAAACGCCGCTAAAAGATT
49322390 TGAGTTTTAG
Statistics
Matches: 201, Mismatches: 28, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
153 4 0.02
154 95 0.47
155 91 0.45
156 11 0.05
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (155 bp):
ATTGAGTATTAGCGGCGTTTTTCAGAAAACGCCGCTATAGGTCGACTTATAGCGGCGTTTTTAAA
AAAACGCCGCTAAAAGATTAAGCCGAACGACGTCGTTTATTGCGAGCTTTAGTGGCAACAGCGGC
GCTTCACAAAAAACGCCGCTATAGG
Found at i:49322381 original size:42 final size:40
Alignment explanation
Indices: 49322287--49322430 Score: 146
Period size: 42 Copynumber: 3.5 Consensus size: 40
49322277 CGGTGCTTCC
* * *
49322287 TAAAAAATGCCGCTATAGA-TTGAGTATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTA-AGATTTGAGTTTTAGCGGCGTTTTT
* * *
49322327 TCAAAAACGCCGCTAAGGATTTGGGTTTTAGTGGCGTTTTT
1 TAAAAAACGCCGCTAA-GATTTGAGTTTTAGCGGCGTTTTT
*
49322368 ATAAAAAACGCCGCAATAGATTTGAGTTTTAGCGGCGCTTTTT
1 -TAAAAAACGCCGCTA-AGATTTGAGTTTTAGCGGCG-TTTTT
**
49322411 GGAAAAACGCCGCTATAGAT
1 TAAAAAACGCCGCTA-AGAT
49322431 GTAAGCAATT
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 15 0.17
41 17 0.20
42 47 0.55
43 6 0.07
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (40 bp):
TAAAAAACGCCGCTAAGATTTGAGTTTTAGCGGCGTTTTT
Found at i:49322953 original size:14 final size:14
Alignment explanation
Indices: 49322906--49322956 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
49322896 TTTTAACCCC
49322906 TAAACCCATAAACTA
1 TAAACCC-TAAACTA
* * *
49322921 TAGACCTTAAA-TT
1 TAAACCCTAAACTA
49322934 TGAAACCCTAAACTA
1 T-AAACCCTAAACTA
49322949 TAAACCCT
1 TAAACCCT
49322957 TAATTAATGA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
13 2 0.07
14 19 0.68
15 7 0.25
ACGTcount: A:0.45, C:0.25, G:0.04, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:49323468 original size:7 final size:7
Alignment explanation
Indices: 49323458--49323527 Score: 59
Period size: 7 Copynumber: 9.7 Consensus size: 7
49323448 GTTAAGGGGA
49323458 TAGGGTT
1 TAGGGTT
49323465 TAGGGTT
1 TAGGGTT
*
49323472 TAGTGTT
1 TAGGGTT
**
49323479 TAAAGTT
1 TAGGGTT
49323486 TAGGGATT
1 TAGGG-TT
*
49323494 AAGGGTT
1 TAGGGTT
*
49323501 TATGGTT
1 TAGGGTT
*
49323508 TAAGGTT
1 TAGGGTT
*
49323515 CAAGGGTT
1 -TAGGGTT
49323523 TAGGG
1 TAGGG
49323528 GTTAATGGGA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
7 38 0.78
8 11 0.22
ACGTcount: A:0.23, C:0.01, G:0.36, T:0.40
Consensus pattern (7 bp):
TAGGGTT
Found at i:49323508 original size:22 final size:21
Alignment explanation
Indices: 49323445--49323524 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 21
49323435 TGAGGGTCTA
** *
49323445 AGGGTTAAGGGGATAGGGTTT
1 AGGGTTAAGGGTTTAAGGTTT
* * *
49323466 AGGGTTTAGTGTTTAAAGTTT
1 AGGGTTAAGGGTTTAAGGTTT
*
49323487 AGGGATTAAGGGTTTATGGTTT
1 AGGG-TTAAGGGTTTAAGGTTT
*
49323509 AAGGTTCAAGGGTTTA
1 AGGGTT-AAGGGTTTA
49323525 GGGGTTAATG
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 21 0.46
22 25 0.54
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (21 bp):
AGGGTTAAGGGTTTAAGGTTT
Found at i:49323527 original size:29 final size:28
Alignment explanation
Indices: 49323459--49323527 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
49323449 TTAAGGGGAT
*
49323459 AGGGTTTAGGGTTTAGTGTTTAAAGTTT
1 AGGGTTTAGGGTTTAGTGTTTAAAGTTA
* *
49323487 AGGGATTAAGGGTTTA-TGGTTTAAGGTTCA
1 AGGG-TTTAGGGTTTAGT-GTTTAAAGTT-A
49323517 AGGGTTTAGGG
1 AGGGTTTAGGG
49323528 GTTAATGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 5 0.15
29 25 0.74
30 4 0.12
ACGTcount: A:0.23, C:0.01, G:0.36, T:0.39
Consensus pattern (28 bp):
AGGGTTTAGGGTTTAGTGTTTAAAGTTA
Found at i:49323530 original size:80 final size:80
Alignment explanation
Indices: 49323430--49323617 Score: 245
Period size: 80 Copynumber: 2.4 Consensus size: 80
49323420 TTAACATTTA
* * * *
49323430 AAGGTT-GAGGGTCTAAGGGTTAAGGGGATAGGGTTTAGGGTTTAGTGTTTAAAGTTTAGGGATT
1 AAGGTTAGAGGGTTTAGGGGTTAAGGGGACAGGATTTAGGGTTTAGTGTTTAAAGTTTAGGGATT
*
49323494 AAGGGTTTATGGTTT
66 AAGGGTTAATGGTTT
* * * *
49323509 AAGGTTCA-AGGGTTTAGGGGTTAATGGGACATGATTTTGGGTTTAGTGTTTAAATTTTAGGGAT
1 AAGGTT-AGAGGGTTTAGGGGTTAAGGGGACAGGATTTAGGGTTTAGTGTTTAAAGTTTAGGGAT
49323573 TAAGGGTTAATGGTTT
65 TAAGGGTTAATGGTTT
* *
49323589 AAGGTTATGAGGGGTTAGGGATTAAGGGG
1 AAGGTTA-GAGGGTTTAGGGGTTAAGGGG
49323618 GCATGGGTTA
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
79 7 0.08
80 69 0.74
81 17 0.18
ACGTcount: A:0.25, C:0.02, G:0.37, T:0.36
Consensus pattern (80 bp):
AAGGTTAGAGGGTTTAGGGGTTAAGGGGACAGGATTTAGGGTTTAGTGTTTAAAGTTTAGGGATT
AAGGGTTAATGGTTT
Found at i:49326978 original size:64 final size:64
Alignment explanation
Indices: 49326907--49327208 Score: 541
Period size: 64 Copynumber: 4.7 Consensus size: 64
49326897 TAATATTTCT
* *
49326907 ATATTTCTATCACAATTTTTAATGAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
* *
49326971 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATATAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
*
49327035 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
*
49327099 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAA
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
*
49327163 ATATTTCTATCACGATTTTTAATAAATTTATTTATTAATATAATAT
1 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATAT
49327209 CAATAAAATC
Statistics
Matches: 231, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 231 1.00
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (64 bp):
ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAA
Found at i:49328499 original size:24 final size:24
Alignment explanation
Indices: 49328472--49328539 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
49328462 ATTATTATTG
* *
49328472 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCTGTTTTATCAC
*
49328496 AAATATTATTC-TCTGTTTTATTAC
1 AAATATTA-TCGTCTGTTTTATCAC
49328520 AAATATTATCGTCTGTTTTA
1 AAATATTATCGTCTGTTTTA
49328540 CCATTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 2 0.05
24 35 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (24 bp):
AAATATTATCGTCTGTTTTATCAC
Found at i:49328760 original size:15 final size:15
Alignment explanation
Indices: 49328716--49328771 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
49328706 AACGACAAGT
49328716 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
49328732 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
49328745 ATATTATTTAATTAA
1 ATATTATTTAATTAA
49328760 ATATTATTTAAT
1 ATATTATTTAAT
49328772 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:49328898 original size:18 final size:18
Alignment explanation
Indices: 49328876--49329065 Score: 150
Period size: 18 Copynumber: 10.3 Consensus size: 18
49328866 TATTTGATAT
* *
49328876 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
49328894 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
49328912 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
49328930 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
49328948 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
49328965 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
49328983 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
49329007 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
49329026 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
49329044 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
49329061 CATAA
1 CATAA
49329066 ATATATATCA
Statistics
Matches: 137, Mismatches: 27, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
17 29 0.21
18 82 0.60
19 3 0.02
20 5 0.04
21 4 0.03
22 4 0.03
23 4 0.03
24 3 0.02
25 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:49329065 original size:9 final size:9
Alignment explanation
Indices: 49328876--49329048 Score: 132
Period size: 9 Copynumber: 18.6 Consensus size: 9
49328866 TATTTGATAT
*
49328876 CATAATTTA
1 CATAACTTA
49328885 CATAACTTA
1 CATAACTTA
* *
49328894 TATAACATA
1 CATAACTTA
*
49328903 TATAACTTA
1 CATAACTTA
49328912 CATAACTTA
1 CATAACTTA
* *
49328921 TATAACATA
1 CATAACTTA
49328930 CATAACTTA
1 CATAACTTA
*
49328939 TATAACTTA
1 CATAACTTA
*
49328948 TATAACTTA
1 CATAACTTA
* *
49328957 GATAA-ATA
1 CATAACTTA
*
49328965 TATAACTTA
1 CATAACTTA
49328974 CATAACTTA
1 CATAACTTA
49328983 CATAATACTTA
1 CAT-A-ACTTA
* *
49328994 AATATATTTTATA
1 CATA-A--CT-TA
*
49329007 TCATAATTTA
1 -CATAACTTA
49329017 CATAACTTA
1 CATAACTTA
49329026 CATAACTTA
1 CATAACTTA
*
49329035 TATAACTTA
1 CATAACTTA
*
49329044 GATAA
1 CATAA
49329049 ATATATAATT
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
8 6 0.04
9 108 0.79
10 6 0.04
11 9 0.07
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (9 bp):
CATAACTTA
Found at i:49329459 original size:32 final size:32
Alignment explanation
Indices: 49329423--49329501 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
49329413 AGAATTAATA
* *
49329423 TTTTTGGTTGTATTTTTATGTTAAATTTGCTG
1 TTTTTGGTTGCATTTTTATATTAAATTTGCTG
* * *
49329455 TTTTTGGCTGCA-TTTTATATTATATTTGTTG
1 TTTTTGGTTGCATTTTTATATTAAATTTGCTG
* *
49329486 TATTTGGTTGGATTTT
1 TTTTTGGTTGCATTTT
49329502 AATGCAGGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 25 0.66
32 13 0.34
ACGTcount: A:0.15, C:0.04, G:0.19, T:0.62
Consensus pattern (32 bp):
TTTTTGGTTGCATTTTTATATTAAATTTGCTG
Found at i:49329601 original size:43 final size:42
Alignment explanation
Indices: 49329577--49329691 Score: 194
Period size: 43 Copynumber: 2.7 Consensus size: 42
49329567 GTAAAAAAAG
*
49329577 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCCTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCG-CTTTTCCACAAA
49329620 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CCACAAA
*
49329663 CGCCGCTAAAAGCCTTGAACTTTAGCGGC
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
49329692 ATTTTTTTTC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
42 4 0.06
43 65 0.94
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.22
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAA
Found at i:49332529 original size:80 final size:80
Alignment explanation
Indices: 49332445--49332593 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
49332435 TATGGTAACC
* * * *
49332445 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
49332509 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
49332525 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
49332590 CCGG
66 CCGG
49332594 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:49332535 original size:40 final size:38
Alignment explanation
Indices: 49332486--49332593 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
49332476 ATCACGATTT
*
49332486 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
49332526 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
49332566 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
49332594 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:49335056 original size:4 final size:4
Alignment explanation
Indices: 49335047--49335075 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
49335037 TTTTTGAACT
49335047 TTAA TTAA TTAA TTAA TTAA TTAA -TAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
49335076 TAAAAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:49338084 original size:40 final size:40
Alignment explanation
Indices: 49338039--49338206 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
49338029 CGGAATATAA
49338039 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
49338079 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49338119 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
49338159 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
49338199 CCGGATAT
1 CCGGATAT
49338207 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49338189 original size:80 final size:80
Alignment explanation
Indices: 49338055--49338204 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
49338045 ATAACCACGT
* *
49338055 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
49338120 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
49338135 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
49338198 CCCGGAT
64 CCCGGAT
49338205 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:49345715 original size:18 final size:15
Alignment explanation
Indices: 49345671--49345724 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 15
49345661 AAACTCTAGC
49345671 CCCAAAACCCAACAA
1 CCCAAAACCCAACAA
49345686 CCCACTAAACCCAACAGAA
1 CCCA--AAACCCAAC--AA
49345705 GCCCAAAACCCAACTAA
1 -CCCAAAACCCAAC-AA
49345722 CCC
1 CCC
49345725 TTAACCCCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
15 4 0.12
16 3 0.09
17 11 0.33
18 9 0.27
19 2 0.06
20 4 0.12
ACGTcount: A:0.46, C:0.46, G:0.04, T:0.04
Consensus pattern (15 bp):
CCCAAAACCCAACAA
Found at i:49346980 original size:2 final size:2
Alignment explanation
Indices: 49346973--49346999 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49346963 ACTTAATACT
49346973 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
49347000 GTAGTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49347610 original size:3 final size:3
Alignment explanation
Indices: 49347572--49347636 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
49347562 TAATACTATA
* * * * *
49347572 TAT TA- TAT TCT TAC TAT TAT CAT TAC TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
49347619 TAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT
49347637 CTTTACTTAT
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:49347649 original size:15 final size:15
Alignment explanation
Indices: 49347588--49347660 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
49347578 ATTCTTACTA
*
49347588 TTATCATTAC-TATCA
1 TTATCATTACTTAT-T
*
49347603 TTATTATTA-TTATT
1 TTATCATTACTTATT
*
49347617 ATTATTATTA-TTATTT
1 -TTATCATTACTTA-TT
*
49347633 TTATCTTTACTTATT
1 TTATCATTACTTATT
*
49347648 TTCTCATTACTTA
1 TTATCATTACTTA
49347661 GTTATTTGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
15 43 0.90
16 5 0.10
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATCATTACTTATT
Found at i:49356122 original size:28 final size:28
Alignment explanation
Indices: 49356082--49356155 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
49356072 GTTCAAATTG
*
49356082 TATAGCACTAAGTGTGCAAGTTTGATTA
1 TATAGCACTAAGTGTGCAAGTTTGACTA
*
49356110 TATAGCACTAAGTGTGCGAGTTTGACTA
1 TATAGCACTAAGTGTGCAAGTTTGACTA
49356138 T-TAAGCACTAAGTGTGCA
1 TAT-AGCACTAAGTGTGCA
49356156 GGCTTATTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.98
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCAAGTTTGACTA
Found at i:49359296 original size:40 final size:40
Alignment explanation
Indices: 49359222--49359375 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
49359212 CCGCACCAAG
* * * * * *
49359222 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
49359262 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
** * *
49359302 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * *
49359342 GTCC-TCGGGACTTAGCCCGGATATCACAATTTGC
1 G-CCTTCGGGTCTTAGCCCGGATATAACAACTTGC
49359376 TTATGCACAC
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 91 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:49364553 original size:3 final size:3
Alignment explanation
Indices: 49364545--49364642 Score: 92
Period size: 3 Copynumber: 32.7 Consensus size: 3
49364535 GAATATAAGT
* * * * * * *
49364545 ATA ATA ATA ATA GTA ATA AT- ATA ATA ATG ACA ATA GTG ACA AAA AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
*
49364593 ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATCA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
49364638 ATA AT
1 ATA AT
49364643 GATGATGATG
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
2 4 0.05
3 68 0.89
4 4 0.05
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:49365657 original size:12 final size:12
Alignment explanation
Indices: 49365630--49365683 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
49365620 TCGCGAAGAG
49365630 AAAGAAAA-AAA
1 AAAGAAAATAAA
*
49365641 AAAGAAAATACA
1 AAAGAAAATAAA
49365653 AAAGAAAA-AACTA
1 AAAGAAAATAA--A
49365666 AATA-AAAATAAA
1 AA-AGAAAATAAA
49365678 AAAGAA
1 AAAGAA
49365684 CCAAGAACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
11 10 0.29
12 15 0.43
13 7 0.20
14 3 0.09
ACGTcount: A:0.81, C:0.04, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAGAAAATAAA
Found at i:49365673 original size:25 final size:23
Alignment explanation
Indices: 49365630--49365683 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
49365620 TCGCGAAGAG
*
49365630 AAAGAAAAAAAAAAGAAAATACA
1 AAAGAAAAAAAAAAGAAAATAAA
49365653 AAAGAAAAAACTAAATA-AAAATAAA
1 AAAGAAAAAA--AAA-AGAAAATAAA
49365678 AAAGAA
1 AAAGAA
49365684 CCAAGAACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 10 0.37
25 16 0.59
26 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.07, T:0.07
Consensus pattern (23 bp):
AAAGAAAAAAAAAAGAAAATAAA
Found at i:49366503 original size:43 final size:43
Alignment explanation
Indices: 49366437--49366771 Score: 213
Period size: 43 Copynumber: 7.7 Consensus size: 43
49366427 ATTTGATTTC
* **
49366437 CAGCCTGTTACCCTGCTATTTAGGGGGTTAAGATCTGTAAATT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
* ** **
49366480 CAGCCTGTTACCCTACTGCTTAGGAGGTTAAGGCCCTTCGT-CTTT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATT
* * * *
49366525 GA-TCTGTTTCCCTACTGCTTAGGGCGTTAAGATCTGTAAATT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
** *
49366567 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--CTT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATT
* * * * *
49366611 C-GATCTGTTTCCCTACTACTTAGGGAGATAAGATCTGTAAATT
1 CAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
* * ** *
49366654 AAGCTTGTTACCCTACTGCTTA-GGGGTTAAGGCCCTTCGT--CTT
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATT
* * * *
49366697 CGATCTCT-TT-CCTTACTGCTTAAGGGGCTAAGATCTGTAAATT
1 C-AGC-CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
* *
49366740 CAGCCTGTTACTCTACTGCTTAAGGGGTTAAG
1 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
49366772 GCCCTTCATC
Statistics
Matches: 216, Mismatches: 54, Indels: 44
0.69 0.17 0.14
Matches are distributed among these distances:
41 8 0.04
42 16 0.07
43 113 0.52
44 67 0.31
45 8 0.04
46 4 0.02
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (43 bp):
CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
Found at i:49366558 original size:87 final size:85
Alignment explanation
Indices: 49366460--49366792 Score: 522
Period size: 87 Copynumber: 3.8 Consensus size: 85
49366450 TGCTATTTAG
*
49366460 GGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGAGGTTAAGGCCCTTCGTCTTT
1 GGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGG-GGTTAAGGCCCTTCGTCTTC
49366525 GATCTGTTTCCCTACTGCTTA
65 GATCTGTTTCCCTACTGCTTA
49366546 GGGCGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTT
1 GGG-GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCCCTTCGTCTT
*
49366611 CGATCTGTTTCCCTACTACTTA
64 CGATCTGTTTCCCTACTGCTTA
* * *
49366633 GGGAGATAAGATCTGTAAATTAAGCTTGTTACCCTACTGCTTAGGGGTTAAGGCCCTTCGTCTTC
1 GGG-GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCCCTTCGTCTTC
* *
49366698 GATCTCTTTCCTTACTGCTTAA
65 GATCTGTTTCCCTACTGCTT-A
* * *
49366720 GGGGCTAAGATCTGTAAATTCAGCCTGTTACTCTACTGCTTAAGGGGTTAAGGCCCTTCATCTTC
1 GGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTT-AGGGGTTAAGGCCCTTCGTCTTC
49366785 GATCTGTT
65 GATCTGTT
49366793 ACACCATTCT
Statistics
Matches: 228, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
86 76 0.33
87 150 0.66
88 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (85 bp):
GGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCCCTTCGTCTTCG
ATCTGTTTCCCTACTGCTTA
Found at i:49366758 original size:173 final size:174
Alignment explanation
Indices: 49366441--49366794 Score: 559
Period size: 173 Copynumber: 2.0 Consensus size: 174
49366431 GATTTCCAGC
* * * * *
49366441 CTGTTACCCTGCTATTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGAG
1 CTGTTACCCTACTACTTAGGGAGATAAGATCTGTAAATTAAGCCTGTTACCCTACTGCTTAGGAG
* * *
49366506 GTTAAGGCCCTTCGTCTTTGATCTGTTTCCCTACTGCTTAGGGCGTTAAGATCTGTAAATTCAGC
66 GTTAAGGCCCTTCGTCTTCGATCTCTTTCCCTACTGCTTAGGGCGCTAAGATCTGTAAATTCAGC
* *
49366571 CTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGAT
131 CTGTTACCCTACTGCTTAAGGGGTTAAGGCCCTTCATCTTCGAT
* *
49366615 CTGTTTCCCTACTACTTAGGGAGATAAGATCTGTAAATTAAGCTTGTTACCCTACTGCTTAGG-G
1 CTGTTACCCTACTACTTAGGGAGATAAGATCTGTAAATTAAGCCTGTTACCCTACTGCTTAGGAG
*
49366679 GTTAAGGCCCTTCGTCTTCGATCTCTTTCCTTACTGCTTAAGGG-GCTAAGATCTGTAAATTCAG
66 GTTAAGGCCCTTCGTCTTCGATCTCTTTCCCTACTGCTT-AGGGCGCTAAGATCTGTAAATTCAG
*
49366743 CCTGTTACTCTACTGCTTAAGGGGTTAAGGCCCTTCATCTTCGAT
130 CCTGTTACCCTACTGCTTAAGGGGTTAAGGCCCTTCATCTTCGAT
49366788 CTGTTAC
1 CTGTTAC
49366795 ACCATTCTTT
Statistics
Matches: 164, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
173 104 0.63
174 60 0.37
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (174 bp):
CTGTTACCCTACTACTTAGGGAGATAAGATCTGTAAATTAAGCCTGTTACCCTACTGCTTAGGAG
GTTAAGGCCCTTCGTCTTCGATCTCTTTCCCTACTGCTTAGGGCGCTAAGATCTGTAAATTCAGC
CTGTTACCCTACTGCTTAAGGGGTTAAGGCCCTTCATCTTCGAT
Found at i:49374883 original size:19 final size:19
Alignment explanation
Indices: 49374855--49374891 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49374845 GTCTTTTCGC
* *
49374855 GAAATTTAATGCACATGAT
1 GAAATGTAATGCAAATGAT
49374874 GAAATGTAATGCAAATGA
1 GAAATGTAATGCAAATGA
49374892 ATGATGCAAA
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:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (19 bp):
GAAATGTAATGCAAATGAT
Found at i:49379738 original size:3 final size:3
Alignment explanation
Indices: 49379639--49379718 Score: 56
Period size: 3 Copynumber: 26.7 Consensus size: 3
49379629 GAATATAAGT
* * * * * * *
49379639 ATA ATA ATA ATA ATA GTA ATA AT- ATA ATA ATG ACA ATA GTG ACA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
49379686 AGTA ACA ATA ATA ATA ATA AT- ATCA ATA ATA AT
1 A-TA ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT
49379719 GATGATGATG
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
2 4 0.07
3 50 0.86
4 4 0.07
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:49380745 original size:25 final size:25
Alignment explanation
Indices: 49380705--49380761 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
49380695 TCGTGAAGAG
*
49380705 AAAGAAAAAAAATAAA-AGAAAATACA
1 AAAG-AAAAAAATAAATA-AAAATAAA
*
49380731 AAAGAAAAAACTAAATAAAAATAAA
1 AAAGAAAAAAATAAATAAAAATAAA
49380756 AAAGAA
1 AAAGAA
49380762 CCAAGAACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.81, C:0.04, G:0.07, T:0.09
Consensus pattern (25 bp):
AAAGAAAAAAATAAATAAAAATAAA
Found at i:49380878 original size:19 final size:20
Alignment explanation
Indices: 49380854--49380892 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
49380844 TTTTTGTAAA
49380854 AAAATAAAAACCCCT-TTTC
1 AAAATAAAAACCCCTCTTTC
* *
49380873 AAAATACAATCCCCTCTTTC
1 AAAATAAAAACCCCTCTTTC
49380893 TTTCAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATAAAAACCCCTCTTTC
Found at i:49382278 original size:14 final size:12
Alignment explanation
Indices: 49382259--49382292 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
49382249 GATTTATCTC
49382259 TTAAAATTAAAGTA
1 TTAAAATTAAA--A
49382273 TTAAAATTAAAA
1 TTAAAATTAAAA
49382285 TTAAAATT
1 TTAAAATT
49382293 TCTTGTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
14 11 0.55
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
TTAAAATTAAAA
Found at i:49382281 original size:6 final size:6
Alignment explanation
Indices: 49382259--49382292 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
49382249 GATTTATCTC
49382259 TTAAAA TTAAAGTA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAA--A TTAAAA TTAAAA TTAAAA TT
49382293 TCTTGTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:49390336 original size:40 final size:40
Alignment explanation
Indices: 49390281--49390361 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
49390271 ATATAAATCC
49390281 TTTTCATGTAATAATTGAATCCCACAATTTCAATGGATGG
1 TTTTCATGTAATAATTGAATCCCACAATTTCAATGGATGG
49390321 TTTTCATGTAATAATTGAATCCCACAATTTCAATGGATGG
1 TTTTCATGTAATAATTGAATCCCACAATTTCAATGGATGG
49390361 T
1 T
49390362 CTTTGGTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (40 bp):
TTTTCATGTAATAATTGAATCCCACAATTTCAATGGATGG
Found at i:49390844 original size:73 final size:73
Alignment explanation
Indices: 49390764--49390901 Score: 231
Period size: 73 Copynumber: 1.9 Consensus size: 73
49390754 ATCTCCTATA
*
49390764 TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGCAAAAATCAAAAGTATCGATACC
1 TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGCAAAAATAAAAAGTATCGATACC
49390829 TTGCCTGG
66 TTGCCTGG
* * * *
49390837 TATCGATACCAATTTGAGTTTCGAAGTTTTAGGAAAATTGAGCAAAAATAAAAAGTATCGATACC
1 TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGCAAAAATAAAAAGTATCGATACC
49390902 GTTAATAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (73 bp):
TATCGATACCAATTTGAGCTTAGAAGTTTTAGAAAAATTAAGCAAAAATAAAAAGTATCGATACC
TTGCCTGG
Found at i:49402869 original size:20 final size:19
Alignment explanation
Indices: 49402841--49402878 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
49402831 TTTTAAAGAC
*
49402841 TTTACTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTG
49402860 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
49402879 ACCTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTG
Found at i:49415810 original size:45 final size:45
Alignment explanation
Indices: 49415713--49415811 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
49415703 TCTTTCAATC
* * * *
49415713 ATGGTCTTATTCTTCTGATTCATGATGCCATATCGCCTTTTAGCT
1 ATGGTCTTATTCTTCTGAATCATGATGCCATAACACCTTTCAGCT
** *
49415758 ACAGTCTTATTCTT-TAGAATCATGATGCCATAACATCTTTCAGCT
1 ATGGTCTTATTCTTCT-GAATCATGATGCCATAACACCTTTCAGCT
49415803 ATGGTCTTA
1 ATGGTCTTA
49415812 CTCATTTCCG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 1 0.02
45 43 0.98
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.41
Consensus pattern (45 bp):
ATGGTCTTATTCTTCTGAATCATGATGCCATAACACCTTTCAGCT
Found at i:49424332 original size:16 final size:16
Alignment explanation
Indices: 49424301--49424338 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
49424291 AACATTCATA
49424301 TTTATAAATTATATTC
1 TTTATAAATTATATTC
49424317 TTTATTAAATTA-ATTC
1 TTTA-TAAATTATATTC
*
49424333 TCTATA
1 TTTATA
49424339 CTTTAAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 11 0.55
17 7 0.35
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTATAAATTATATTC
Found at i:49434344 original size:18 final size:18
Alignment explanation
Indices: 49434321--49434359 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49434311 ACCCACAGAA
*
49434321 TTTTTTT-ATTTTTTATT
1 TTTTTTTCATATTTTATT
*
49434338 TTTTTTTCGTATTTTATT
1 TTTTTTTCATATTTTATT
49434356 TTTT
1 TTTT
49434360 GTACTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (18 bp):
TTTTTTTCATATTTTATT
Found at i:49434370 original size:18 final size:18
Alignment explanation
Indices: 49434329--49434372 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
49434319 AATTTTTTTA
* *
49434329 TTTTTTATTTTTTTTTCG
1 TTTTTTATTTTTTGTACG
* *
49434347 TATTTTATTTTTTGTACT
1 TTTTTTATTTTTTGTACG
49434365 TTTTTTAT
1 TTTTTTAT
49434373 CACTTTTTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTTTTATTTTTTGTACG
Found at i:49444004 original size:13 final size:13
Alignment explanation
Indices: 49443986--49444012 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49443976 TTAATTTTGC
49443986 TTATTATTATTTT
1 TTATTATTATTTT
49443999 TTATTATTATTTT
1 TTATTATTATTTT
49444012 T
1 T
49444013 ATGGTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:49447640 original size:13 final size:12
Alignment explanation
Indices: 49447622--49447660 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
49447612 TTAATTTTGC
49447622 TTATTATTATTAT
1 TTATTATTATT-T
49447635 TTATTATTATTT
1 TTATTATTATTT
**
49447647 TTATGGTTATTT
1 TTATTATTATTT
49447659 TT
1 TT
49447661 CTTTTGCACG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:49448244 original size:60 final size:58
Alignment explanation
Indices: 49448151--49448325 Score: 176
Period size: 60 Copynumber: 2.9 Consensus size: 58
49448141 TTTCGGAAAC
* *
49448151 CACACAGCCGTGTGACTGATTTGGGCAATTAGGGCTTCCACATGGGCGTGTGTTATGAGA
1 CACACAGCCGTGTAACTAATTTGGG-AATTAGGG-TTCCACATGGGCGTGTGTTATGAGA
* * *
49448211 CACACAGCCGTGTAACTAATTTGGGAAATTAGGGTTCCCACATGAGCGTGTGCTT-CGGGA
1 CACACAGCCGTGTAACTAATTTGGG-AATTAGGGTT-CCACATGGGCGTGTG-TTATGAGA
* * * *
49448271 TACAC-GACCGTGTAACTAATTTGGG-GTCTAGGGATACCACATGGACGTGTGTTAT
1 CACACAG-CCGTGTAACTAATTTGGGAAT-TAGGG-TTCCACATGGGCGTGTGTTAT
49448326 AGGATACATG
Statistics
Matches: 97, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
58 3 0.03
59 21 0.22
60 71 0.73
61 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (58 bp):
CACACAGCCGTGTAACTAATTTGGGAATTAGGGTTCCACATGGGCGTGTGTTATGAGA
Found at i:49448850 original size:14 final size:14
Alignment explanation
Indices: 49448831--49448866 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
49448821 AGTTGGTGCT
*
49448831 TTTGCATTCATACA
1 TTTGCATACATACA
*
49448845 TTTGCATACATCCA
1 TTTGCATACATACA
49448859 TTTGCATA
1 TTTGCATA
49448867 AACTTTCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (14 bp):
TTTGCATACATACA
Found at i:49456701 original size:20 final size:20
Alignment explanation
Indices: 49456670--49456718 Score: 89
Period size: 20 Copynumber: 2.4 Consensus size: 20
49456660 CCTTTTTCTC
49456670 AAATTGAGCAATTAAACGATA
1 AAATT-AGCAATTAAACGATA
49456691 AAATTAGCAATTAAACGATA
1 AAATTAGCAATTAAACGATA
49456711 AAATTAGC
1 AAATTAGC
49456719 TCATGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.24
Consensus pattern (20 bp):
AAATTAGCAATTAAACGATA
Found at i:49457814 original size:24 final size:24
Alignment explanation
Indices: 49457762--49457927 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
49457752 GCTTTATCAT
*
49457762 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
49457787 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
49457811 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
49457834 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
49457858 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
49457882 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49457905 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49457928 GCACTTCCTC
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 43 0.33
24 74 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:49457838 original size:47 final size:48
Alignment explanation
Indices: 49457761--49457927 Score: 241
Period size: 47 Copynumber: 3.5 Consensus size: 48
49457751 TGCTTTATCA
* *
49457761 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
49457810 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
49457857 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
49457904 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
49457928 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
47 70 0.64
48 26 0.24
49 13 0.12
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:49457862 original size:71 final size:71
Alignment explanation
Indices: 49457762--49457928 Score: 264
Period size: 71 Copynumber: 2.3 Consensus size: 71
49457752 GCTTTATCAT
* * *
49457762 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
49457826 GCCCTTTA
64 GCCCTTTA
* *
49457834 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
49457899 CCTTTA
66 CCTTTA
49457905 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
49457929 CACTTCCTCC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.87
72 12 0.13
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:49458001 original size:20 final size:20
Alignment explanation
Indices: 49457973--49458043 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
49457963 GCATTTATGA
*
49457973 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
49457993 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
49458013 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
49458033 AGATATCATGT
1 ACATATCATGT
49458044 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:49458008 original size:11 final size:11
Alignment explanation
Indices: 49457978--49458032 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
49457968 TATGAACATC
49457978 TCATGTGCATA
1 TCATGTGCATA
*
49457989 TCA--TACATA
1 TCATGTGCATA
49457998 TCATGTGCATA
1 TCATGTGCATA
* *
49458009 TCA--TACATG
1 TCATGTGCATA
49458018 TCATGTGCATA
1 TCATGTGCATA
49458029 TCAT
1 TCAT
49458033 AGATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:49458122 original size:25 final size:24
Alignment explanation
Indices: 49458080--49458127 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
49458070 ATATATAAAC
* * *
49458080 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
49458105 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
49458128 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:49459396 original size:27 final size:27
Alignment explanation
Indices: 49459366--49459705 Score: 382
Period size: 27 Copynumber: 12.6 Consensus size: 27
49459356 AGGGTATTTT
*
49459366 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49459393 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49459420 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
49459447 GGTAATTCTATAAATCGAAGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49459474 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49459501 -GATAATTATGTAAATCG-GGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
49459527 GGTAATTATGTAAATTGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
49459554 GGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49459581 AGTAATTCTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
49459608 GGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
49459635 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49459662 AGTAATTCTAT-AACCTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
49459689 AGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
49459706 GGAGTACTTT
Statistics
Matches: 273, Mismatches: 33, Indels: 14
0.85 0.10 0.04
Matches are distributed among these distances:
26 27 0.10
27 242 0.89
28 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:49462607 original size:36 final size:36
Alignment explanation
Indices: 49462567--49462646 Score: 160
Period size: 36 Copynumber: 2.2 Consensus size: 36
49462557 TTAGAATTGA
49462567 ATGTTAATATTTTAAATTGATTAATTGTTCTATGTG
1 ATGTTAATATTTTAAATTGATTAATTGTTCTATGTG
49462603 ATGTTAATATTTTAAATTGATTAATTGTTCTATGTG
1 ATGTTAATATTTTAAATTGATTAATTGTTCTATGTG
49462639 ATGTTAAT
1 ATGTTAAT
49462647 TGTTTTAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.53
Consensus pattern (36 bp):
ATGTTAATATTTTAAATTGATTAATTGTTCTATGTG
Found at i:49462647 original size:19 final size:19
Alignment explanation
Indices: 49462587--49462650 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
49462577 TTTAAATTGA
49462587 TTAATTGTTCTATGTGATG
1 TTAATTGTTCTATGTGATG
* **
49462606 TTAATATTTTAAAT-TGA--
1 TTAAT-TGTTCTATGTGATG
49462623 TTAATTGTTCTATGTGATG
1 TTAATTGTTCTATGTGATG
49462642 TTAATTGTT
1 TTAATTGTT
49462651 TTAATTTGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.14
17 8 0.23
19 17 0.49
20 5 0.14
ACGTcount: A:0.27, C:0.03, G:0.16, T:0.55
Consensus pattern (19 bp):
TTAATTGTTCTATGTGATG
Found at i:49468381 original size:18 final size:19
Alignment explanation
Indices: 49468352--49468395 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
49468342 CCCCTTTGGA
* *
49468352 ATTTTTTTCTTTTAAA-TT
1 ATTTTTTGCCTTTAAAGTT
49468370 -TTTTTTGCCTTTAAAGTT
1 ATTTTTTGCCTTTAAAGTT
49468388 ATTTTTTG
1 ATTTTTTG
49468396 ACGATCATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 13 0.59
18 2 0.09
19 7 0.32
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.68
Consensus pattern (19 bp):
ATTTTTTGCCTTTAAAGTT
Found at i:49469573 original size:24 final size:24
Alignment explanation
Indices: 49469527--49469573 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
49469517 ATCAGAGGGA
* *
49469527 GCTGGTGGAGCAGGAGTTATTGGG
1 GCTGGTGGAGCAAGAGCTATTGGG
*
49469551 GCTGGTGGAGCAAGAGCTGTTGG
1 GCTGGTGGAGCAAGAGCTATTGG
49469574 AGCTATTCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.49, T:0.23
Consensus pattern (24 bp):
GCTGGTGGAGCAAGAGCTATTGGG
Found at i:49469635 original size:24 final size:24
Alignment explanation
Indices: 49469595--49469641 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
49469585 CTGGTGGAGG
*
49469595 TGTATTCTACAAGTTAAACATGTC
1 TGTATTCTACAAATTAAACATGTC
49469619 TGTAGTTCT-CAAATTAAACATGT
1 TGTA-TTCTACAAATTAAACATGT
49469642 TTTGCATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (24 bp):
TGTATTCTACAAATTAAACATGTC
Found at i:49475164 original size:20 final size:20
Alignment explanation
Indices: 49475095--49475175 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
49475085 AAAGATGCTT
*
49475095 AACAGAGGCATCGAAGTGTA
1 AACAGAGGCATCGAAGTGCA
** * *
49475115 GGCAGAGGCA-CAAATGTACA
1 AACAGAGGCATCGAA-GTGCA
* * *
49475135 ATCAGGGGCACCGAAGTGCA
1 AACAGAGGCATCGAAGTGCA
49475155 AACAGAGGCATCGAAGTGCA
1 AACAGAGGCATCGAAGTGCA
49475175 A
1 A
49475176 TCCTGTACAA
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
19 3 0.07
20 40 0.87
21 3 0.07
ACGTcount: A:0.38, C:0.20, G:0.31, T:0.11
Consensus pattern (20 bp):
AACAGAGGCATCGAAGTGCA
Found at i:49477759 original size:34 final size:35
Alignment explanation
Indices: 49477710--49477777 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
49477700 CACACAGAAG
*
49477710 TTCACCCTTGAATCTTCCCTTCAGAAAACATCCAC
1 TTCACCCTTAAATCTTCCCTTCAGAAAACATCCAC
*
49477745 TTCA-CCTTAAATCTTCCCTTCAGAAAGCATCCA
1 TTCACCCTTAAATCTTCCCTTCAGAAAACATCCA
49477778 TCCAGACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.29, C:0.35, G:0.06, T:0.29
Consensus pattern (35 bp):
TTCACCCTTAAATCTTCCCTTCAGAAAACATCCAC
Found at i:49479276 original size:13 final size:13
Alignment explanation
Indices: 49479258--49479282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49479248 ATAAACTGTA
49479258 ATATACATACATG
1 ATATACATACATG
49479271 ATATACATACAT
1 ATATACATACAT
49479283 ATTTTAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
ATATACATACATG
Found at i:49479323 original size:9 final size:9
Alignment explanation
Indices: 49479305--49479537 Score: 65
Period size: 9 Copynumber: 25.3 Consensus size: 9
49479295 GCTAAAGATG
49479305 ACAT-ACAT
1 ACATAACAT
49479313 ACATAACAT
1 ACATAACAT
*
49479322 ACATAATAT
1 ACATAACAT
49479331 ACAT-ACAT
1 ACATAACAT
*
49479339 AACAATAATAT
1 -AC-ATAACAT
49479350 AC---ACAT
1 ACATAACAT
49479356 A-ATAAACAT
1 ACAT-AACAT
49479365 ACAT-A-AT
1 ACATAACAT
* *
49479372 A-GTAATAT
1 ACATAACAT
49479380 ACATAACAT
1 ACATAACAT
* *
49479389 AAATAATAT
1 ACATAACAT
* *
49479398 ACAATAATAA
1 AC-ATAACAT
* *
49479408 ATAGTAATAT
1 ACA-TAACAT
*
49479418 ACCACATAACAG
1 ---ACATAACAT
49479430 ACAT-ACAT
1 ACATAACAT
*
49479438 AACAATAATAT
1 -AC-ATAACAT
49479449 ACATAACAT
1 ACATAACAT
49479458 ACATAACAT
1 ACATAACAT
* * *
49479467 ACGTAATAA
1 ACATAACAT
*
49479476 ACAGTAATAT
1 ACA-TAACAT
49479486 ATCACGTAACAT
1 A-CA--TAACAT
49479498 ACAT-ACAT
1 ACATAACAT
*
49479506 AACAATAATAT
1 -AC-ATAACAT
*
49479517 ACATAAAAT
1 ACATAACAT
* *
49479526 ATATGACAT
1 ACATAACAT
49479535 ACA
1 ACA
49479538 GTAATAAACA
Statistics
Matches: 168, Mismatches: 31, Indels: 51
0.67 0.12 0.20
Matches are distributed among these distances:
6 5 0.03
7 4 0.02
8 18 0.11
9 83 0.49
10 32 0.19
11 13 0.08
12 11 0.07
13 2 0.01
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (9 bp):
ACATAACAT
Found at i:49479323 original size:13 final size:13
Alignment explanation
Indices: 49479305--49479467 Score: 68
Period size: 13 Copynumber: 12.0 Consensus size: 13
49479295 GCTAAAGATG
49479305 ACATACATACATA
1 ACATACATACATA
49479318 ACATACATA-ATA
1 ACATACATACATA
49479330 TACATACATAACAATA
1 -ACATACAT-AC-ATA
*
49479346 ATATAC--ACATA
1 ACATACATACATA
* *
49479357 ATAAACATACATA
1 ACATACATACATA
* *
49479370 ATAGTAATATACATA
1 ACA-T-ACATACATA
*
49479385 ACATAAATA-ATA
1 ACATACATACATA
*
49479397 TACAATA-ATAAATA
1 -AC-ATACATACATA
* *
49479411 GTA-ATATACCACATA
1 --ACATACA-TACATA
*
49479426 ACAGACATACATA
1 ACATACATACATA
*
49479439 ACAATAATATACATA
1 AC-AT-ACATACATA
49479454 ACATACATAACATA
1 ACATACAT-ACATA
49479468 CGTAATAAAC
Statistics
Matches: 118, Mismatches: 14, Indels: 35
0.71 0.08 0.21
Matches are distributed among these distances:
11 8 0.07
12 8 0.07
13 48 0.41
14 20 0.17
15 31 0.26
16 3 0.03
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (13 bp):
ACATACATACATA
Found at i:49479390 original size:20 final size:20
Alignment explanation
Indices: 49479355--49479419 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 20
49479345 AATATACACA
*
49479355 TAATAAACAT-ACATAATAG
1 TAATATACATAACATAATAG
49479374 TAATATACATAACATAA-A-
1 TAATATACATAACATAATAG
*
49479392 TAATATACAATAATA-AATAG
1 TAATATAC-ATAACATAATAG
49479412 TAATATAC
1 TAATATAC
49479420 CACATAACAG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.25
19 16 0.40
20 14 0.35
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.29
Consensus pattern (20 bp):
TAATATACATAACATAATAG
Found at i:49479443 original size:41 final size:38
Alignment explanation
Indices: 49479369--49479465 Score: 99
Period size: 41 Copynumber: 2.5 Consensus size: 38
49479359 AAACATACAT
*
49479369 AATAGTAATATACATAACATAAATAATATACAATAATA
1 AATAGTAATATACATAACAGAAATAATATACAATAATA
*
49479407 AATAGTAATATACCACATAACAGACATACATA-ACAATAATA
1 AATAGTAATAT---ACATAACAGAAATA-ATATACAATAATA
* * *
49479448 TACA-TAACATACATAACA
1 AATAGTAATATACATAACA
49479466 TACGTAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
37 8 0.16
38 11 0.22
40 5 0.10
41 23 0.46
42 3 0.06
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (38 bp):
AATAGTAATATACATAACAGAAATAATATACAATAATA
Found at i:49479447 original size:69 final size:68
Alignment explanation
Indices: 49479311--49479609 Score: 345
Period size: 69 Copynumber: 4.4 Consensus size: 68
49479301 GATGACATAC
* * * * * *
49479311 ATACATAACATACATAATATACATACAT-AACAATAATATA-CACATAATAAACATACATAATAG
1 ATACATAACATAAATAATATACATA-ATAAACAGTAATATACCACATAACATACATACATAACAA
49479374 TAAT
65 TAAT
* *
49479378 ATACATAACATAAATAATATACAATAATAAATAGTAATATACCACATAACAGACATACATAACAA
1 ATACATAACATAAATAATATAC-ATAATAAACAGTAATATACCACATAACATACATACATAACAA
49479443 TAAT
65 TAAT
* * * * *
49479447 ATACATAACATACATAACATACGTAATAAACAGTAATATATCACGTAACATACATACATAACAAT
1 ATACATAACATAAATAATATACATAATAAACAGTAATATACCACATAACATACATACATAACAAT
49479512 AAT
66 AAT
* * * * * * *
49479515 ATACATAAAATATATGACATACAGTAATAAACAATAATATACCAAATTACATACATACATAACAA
1 ATACATAACATAAATAATATACA-TAATAAACAGTAATATACCACATAACATACATACATAACAA
*
49479580 TCAT
65 TAAT
*
49479584 ATACATAA-AT-AATAATATACTTAATA
1 ATACATAACATAAATAATATACATAATA
49479610 GTAATATACC
Statistics
Matches: 200, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
66 5 0.03
67 30 0.15
68 75 0.38
69 90 0.45
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (68 bp):
ATACATAACATAAATAATATACATAATAAACAGTAATATACCACATAACATACATACATAACAAT
AAT
Found at i:49479534 original size:14 final size:15
Alignment explanation
Indices: 49479333--49479618 Score: 74
Period size: 15 Copynumber: 19.3 Consensus size: 15
49479323 CATAATATAC
49479333 ATACATAACAATAAT
1 ATACATAACAATAAT
* * *
49479348 ATACA-CATAATAAAC
1 ATACATAACAAT-AAT
* *
49479363 ATACATAATAGTAAT
1 ATACATAACAATAAT
49479378 ATACATAAC-ATAA-
1 ATACATAACAATAAT
49479391 ATA-ATATACAATAAT
1 ATACATA-ACAATAAT
**
49479406 A-A-ATAGTAAT-AT
1 ATACATAACAATAAT
* * *
49479418 ACCACATAAC-A-GAC
1 A-TACATAACAATAAT
49479432 ATACATAACAATAAT
1 ATACATAACAATAAT
*
49479447 ATACATAACATACATAAC
1 ATACATAAC--A-ATAAT
*
49479465 ATACGTAATAAACAGTAAT
1 ATAC---AT-AACAATAAT
*
49479484 ATATCACGTAAC-AT-AC
1 ATA-CA--TAACAATAAT
49479500 ATACATAACAATAAT
1 ATACATAACAATAAT
49479515 ATACATAA-AAT-AT
1 ATACATAACAATAAT
*
49479528 ATGACAT-ACAGT-A-
1 AT-ACATAACAATAAT
49479541 AT--A-AACAATAAT
1 ATACATAACAATAAT
* *
49479553 ATACCA-AATTACAT-AC
1 ATA-CATAA-CA-ATAAT
*
49479569 ATACATAACAATCAT
1 ATACATAACAATAAT
*
49479584 ATACATAAATAATAAT
1 ATACAT-AACAATAAT
* * *
49479600 ATACTTAATAGTAAT
1 ATACATAACAATAAT
49479615 ATAC
1 ATAC
49479619 CTTTTCTTAA
Statistics
Matches: 203, Mismatches: 32, Indels: 72
0.66 0.10 0.23
Matches are distributed among these distances:
10 5 0.02
11 1 0.00
12 8 0.04
13 26 0.13
14 34 0.17
15 72 0.35
16 27 0.13
17 5 0.02
18 11 0.05
19 7 0.03
20 2 0.01
21 2 0.01
22 3 0.01
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.27
Consensus pattern (15 bp):
ATACATAACAATAAT
Found at i:49479537 original size:137 final size:136
Alignment explanation
Indices: 49479311--49479609 Score: 379
Period size: 137 Copynumber: 2.2 Consensus size: 136
49479301 GATGACATAC
* * *
49479311 ATACATAACATACATAATATACATACAT-AACAATAATATACACATAATAAACATACATAATAGT
1 ATACATAACATACATAATATACATA-ATAAACAATAATATACACATAACAAACATACATAACAAT
* * * * *
49479375 AATATACATAACATAAATAATATACAATAATAAATAGTAATATACCACATAACAGACATACATAA
65 AATATACATAAAATAAATAACATACAATAATAAACAATAATATACCAAATAACAGACATACATAA
49479440 CAATAAT
130 CAATAAT
* * * * *
49479447 ATACATAACATACATAACATACGTAATAAACAGTAATATATCACGTAACATACATACATAACAAT
1 ATACATAACATACATAATATACATAATAAACAATAATATA-CACATAACAAACATACATAACAAT
* * * * *
49479512 AATATACATAAAATATATGACATACAGTAATAAACAATAATATACCAAATTACATACATACATAA
65 AATATACATAAAATAAATAACATACAATAATAAACAATAATATACCAAATAACAGACATACATAA
*
49479577 CAATCAT
130 CAATAAT
*
49479584 ATACATAA-ATA-ATAATATACTTAATA
1 ATACATAACATACATAATATACATAATA
49479610 GTAATATACC
Statistics
Matches: 140, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
135 15 0.11
136 37 0.26
137 88 0.63
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (136 bp):
ATACATAACATACATAATATACATAATAAACAATAATATACACATAACAAACATACATAACAATA
ATATACATAAAATAAATAACATACAATAATAAACAATAATATACCAAATAACAGACATACATAAC
AATAAT
Found at i:49479749 original size:13 final size:13
Alignment explanation
Indices: 49479651--49479809 Score: 82
Period size: 13 Copynumber: 12.4 Consensus size: 13
49479641 TAATATTCAC
*
49479651 AACATACATACAT
1 AACAGACATACAT
*
49479664 AATAGACATA-AT
1 AACAGACATACAT
49479676 -AC--ACATACAT
1 AACAGACATACAT
* *
49479686 AACACAGATACAT
1 AACAGACATACAT
49479699 ATCCACA-ACATACAT
1 A---ACAGACATACAT
*
49479714 -ACATAACATACAT
1 AACA-GACATACAT
*
49479727 AATAGACATACAT
1 AACAGACATACAT
*
49479740 AACAGGCATACAT
1 AACAGACATACAT
* * **
49479753 ATTCATAACATATGT
1 A-ACA-GACATACAT
49479768 AACAGACATACAT
1 AACAGACATACAT
* *
49479781 AGCAAACATA-AT
1 AACAGACATACAT
*
49479793 AACA-ACATGCAT
1 AACAGACATACAT
49479805 AACAG
1 AACAG
49479810 TAATACACAT
Statistics
Matches: 110, Mismatches: 22, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 10 0.09
12 13 0.12
13 58 0.53
14 6 0.05
15 13 0.12
16 3 0.03
ACGTcount: A:0.52, C:0.21, G:0.06, T:0.21
Consensus pattern (13 bp):
AACAGACATACAT
Found at i:49479751 original size:54 final size:54
Alignment explanation
Indices: 49479643--49479764 Score: 174
Period size: 54 Copynumber: 2.3 Consensus size: 54
49479633 ACATGCAGTA
*
49479643 ATATTCACAACATACATACATAATAGACATAATACACATACATAACACAGATAC
1 ATATTCACAACATACATACATAACAGACATAATACACATACATAACACAGATAC
* * * *
49479697 ATATCCACAACATACATACATAACATACATAATAGACATACATAACA-GGCATAC
1 ATATTCACAACATACATACATAACAGACATAATACACATACATAACACAG-ATAC
*
49479751 ATATTCATAACATA
1 ATATTCACAACATA
49479765 TGTAACAGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.51, C:0.22, G:0.04, T:0.23
Consensus pattern (54 bp):
ATATTCACAACATACATACATAACAGACATAATACACATACATAACACAGATAC
Found at i:49484702 original size:39 final size:39
Alignment explanation
Indices: 49484655--49484876 Score: 291
Period size: 39 Copynumber: 5.6 Consensus size: 39
49484645 AATGTTCGAG
*
49484655 TGATATCCGGGCTATGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
49484694 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
49484733 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * * * *
49484772 TGATATCCAGGCTAAGCCCGAAGGAAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
49484811 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
49484851 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
49484877 GTTTGAACGA
Statistics
Matches: 160, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 123 0.77
40 37 0.23
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:49494707 original size:24 final size:24
Alignment explanation
Indices: 49494675--49494723 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
49494665 TGTTGAAGGT
49494675 AAGTTTTCAAACGCTTTAGTACAA
1 AAGTTTTCAAACGCTTTAGTACAA
49494699 AAGTTTTCAAACGCTTTAGTACAA
1 AAGTTTTCAAACGCTTTAGTACAA
49494723 A
1 A
49494724 TTTTCTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (24 bp):
AAGTTTTCAAACGCTTTAGTACAA
Found at i:49505677 original size:46 final size:47
Alignment explanation
Indices: 49505575--49505843 Score: 302
Period size: 46 Copynumber: 5.8 Consensus size: 47
49505565 ACATTATGGG
** * *
49505575 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATGAT
* *
49505623 AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTTGAGATG-T
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGATGAT
* * *
49505668 AAGCCAGTGTAAGA-CATGTCTCGGACAT-GCATCAGCTACGAGATGAT
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGATGAT
* **
49505715 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGAT-AT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGAT
*
49505761 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTATGAGATGAT
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGATGAT
*
49505808 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
49505844 TACCTTAACC
Statistics
Matches: 191, Mismatches: 19, Indels: 22
0.82 0.08 0.09
Matches are distributed among these distances:
45 8 0.04
46 95 0.50
47 61 0.32
48 27 0.14
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGAT
Found at i:49505755 original size:93 final size:94
Alignment explanation
Indices: 49505575--49505842 Score: 357
Period size: 93 Copynumber: 2.9 Consensus size: 94
49505565 ACATTATGGG
* * *
49505575 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-ATTGAGACGAGAG-CTAGTGTAAGA-C
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-TGAGATGATAGTC-AGTGTAAGACC
* ** *
49505637 ATGTCTAGGACAT-GCATCGGCCTTGAGATGTA
62 ATGTCTGGGACATGGCATCGAACTTGAGATATA
* *
49505669 AGCCAGTGTAAGACATGTCTCGGACATGCATCAGCTACGAGATGATAGTCAGTGTAAGACCATGT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTATGAGATGATAGTCAGTGTAAGACCATGT
*
49505734 CTGGGACATGGCATC-AACTTGAGATATG
66 CTGGGACATGGCATCGAACTTGAGATATA
* *
49505762 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGTTATGAGATGATAGTCAGTGTAAGACCATGT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTATGAGATGATAGTCAGTGTAAGACCATGT
49505827 CTGGGACATGGCATCG
66 CTGGGACATGGCATCG
49505843 GTACCTTAAC
Statistics
Matches: 155, Mismatches: 14, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
92 24 0.15
93 113 0.73
94 18 0.12
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTATGAGATGATAGTCAGTGTAAGACCATGT
CTGGGACATGGCATCGAACTTGAGATATA
Found at i:49505819 original size:139 final size:142
Alignment explanation
Indices: 49505578--49505841 Score: 405
Period size: 139 Copynumber: 1.9 Consensus size: 142
49505568 TTATGGGAGC
*
49505578 CAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGAGCCAGTGTAAGACATGTCT
49505643 AGGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGA-CATGTCTCGGACAT-GCATCAGCTA
66 AGGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGACCATGTCTCGGACATGGCATCAGCTA
49505706 CGAGATGATAGT
131 CGAGATGATAGT
*
49505718 CAGTGTAAGACCATGTCTGGGACATGGCATCAAC-TTGAGA-TATGAGCCAGTGTAAGACATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGA-GAGCCAGTGTAAGACATGTC
* * * *
49505781 TGGGACATGCATCGG-TTATGAGATG-ATAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
65 TAGGACATGCATCGGCCT-TGAGATGTA-AGCCAGTGTAAGACCATGTCTCGGACATGGCATC
49505842 GGTACCTTAA
Statistics
Matches: 113, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
138 3 0.03
139 58 0.51
140 47 0.42
141 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (142 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGAGCCAGTGTAAGACATGTCT
AGGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGACCATGTCTCGGACATGGCATCAGCTA
CGAGATGATAGT
Found at i:49507571 original size:22 final size:22
Alignment explanation
Indices: 49507543--49507587 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
49507533 GGGTTTAAGA
49507543 GAGAAAGGAGAATATGGTGGGT
1 GAGAAAGGAGAATATGGTGGGT
49507565 GAGAAAGGAGAATATGGTGGGT
1 GAGAAAGGAGAATATGGTGGGT
49507587 G
1 G
49507588 TTCTCTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.47, T:0.18
Consensus pattern (22 bp):
GAGAAAGGAGAATATGGTGGGT
Found at i:49520631 original size:49 final size:49
Alignment explanation
Indices: 49520561--49520980 Score: 677
Period size: 49 Copynumber: 8.7 Consensus size: 49
49520551 TGAATGTGAA
*
49520561 ATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
49520610 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
* *
49520659 ATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
*
49520708 ATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
*
49520757 ATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
49520806 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
* * *
49520855 ATGAATGAGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * *
49520904 ATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAAAGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
* *
49520951 ATGGATGTGGAAGTGTATA-A-ATGTGATAAG
1 ATGAATGTGAAAGTGTATATATATGTGATAAG
49520981 TCCCGAAGGG
Statistics
Matches: 348, Mismatches: 21, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
47 50 0.14
48 1 0.00
49 297 0.85
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:49526241 original size:40 final size:40
Alignment explanation
Indices: 49526196--49526362 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
49526186 CGGAATATAA
49526196 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49526236 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
49526276 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
49526316 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
49526355 CCGGATAT
1 CCGGATAT
49526363 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49527851 original size:17 final size:17
Alignment explanation
Indices: 49527819--49527861 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
49527809 TAAAAATACA
49527819 CCTATCACATTTTCAAGT
1 CCTA-CACATTTTCAAGT
49527837 CCTAGCACA-TTTCAAGT
1 CCTA-CACATTTTCAAGT
49527854 CCTACACA
1 CCTACACA
49527862 GTCCTTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.17
17 12 0.50
18 8 0.33
ACGTcount: A:0.30, C:0.33, G:0.07, T:0.30
Consensus pattern (17 bp):
CCTACACATTTTCAAGT
Found at i:49534233 original size:40 final size:40
Alignment explanation
Indices: 49534188--49534355 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
49534178 CGGAATATAA
49534188 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49534228 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
49534268 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
49534308 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
49534348 CCGGATAT
1 CCGGATAT
49534356 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49536308 original size:40 final size:40
Alignment explanation
Indices: 49536238--49536415 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
49536228 AAGCCAAGTA
* * *
49536238 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
* *
49536277 CCTTCGGGACATAGCCCAGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
49536317 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
49536357 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
49536397 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49536416 TTATCATCCA
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 13 0.10
40 112 0.90
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:49544383 original size:40 final size:40
Alignment explanation
Indices: 49544321--49544538 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
49544311 AAGCCAAGTA
* * *
49544321 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
49544360 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
49544400 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
49544440 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * *
49544480 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACGAATG
49544520 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49544539 TTATCATCCA
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.08
40 154 0.92
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:49559633 original size:58 final size:58
Alignment explanation
Indices: 49559543--49559654 Score: 197
Period size: 58 Copynumber: 1.9 Consensus size: 58
49559533 TATTTTAGTA
* *
49559543 TTGTCAGCTCAGAAATGTGTCCAAAAAGGTTACGAGGCATATTTGGCTTACATCAGCT
1 TTGTCAGCTCAAAAATGTGTCCAAAAAGGTTACAAGGCATATTTGGCTTACATCAGCT
*
49559601 TTGTCAGCTCAAAAATGTGTCTAAAAAGGTTACAAGGCATATTTGGCTTACATC
1 TTGTCAGCTCAAAAATGTGTCCAAAAAGGTTACAAGGCATATTTGGCTTACATC
49559655 TTAGATACCA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (58 bp):
TTGTCAGCTCAAAAATGTGTCCAAAAAGGTTACAAGGCATATTTGGCTTACATCAGCT
Found at i:49567410 original size:64 final size:64
Alignment explanation
Indices: 49567342--49567547 Score: 148
Period size: 64 Copynumber: 3.1 Consensus size: 64
49567332 CTTTACAGAT
49567342 TACATTAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAA
1 TACATTAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAA
* * *** * ** * * *
49567406 TACATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGTACTGGGCCAGA-GC
1 TACAT-TAA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GTA-TGGCCCATAGGC
* * *
49567468 CCTTTTCAGAT
54 CCATTTCAAAA
*
49567479 TACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAA
1 TACATTAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAA
49567543 TACAT
1 TACAT
49567548 GCAACATCAG
Statistics
Matches: 97, Mismatches: 30, Indels: 30
0.62 0.19 0.19
Matches are distributed among these distances:
63 7 0.07
64 22 0.23
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 17 0.18
74 7 0.07
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (64 bp):
TACATTAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAA
Found at i:49567503 original size:137 final size:137
Alignment explanation
Indices: 49567295--49567581 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
49567285 TTATTGGCCT
* *
49567295 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTACAGATTACATTAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTACAGATTACAATAAACTGGGCCTT
49567360 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
49567425 CATATGC
131 CATATGC
*
49567432 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTACAGATTACAATAAACTGGGCCTT
49567497 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
49567562 CATATGC
131 CATATGC
49567569 AAGCCCATTTGGG
1 AAGCCCATTTGGG
49567582 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTACAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:49567866 original size:25 final size:27
Alignment explanation
Indices: 49567829--49567882 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
49567819 TCAAACATGC
49567829 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
49567855 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
49567881 AT
1 AT
49567883 ACAGTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:49569404 original size:26 final size:26
Alignment explanation
Indices: 49569368--49569607 Score: 408
Period size: 26 Copynumber: 9.2 Consensus size: 26
49569358 CATGATATTC
*
49569368 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
49569394 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
49569420 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
49569446 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
49569472 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
49569498 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
49569524 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
* *
49569550 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGGAACATTTACCTAACCCA
*
49569576 TTGTCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
49569602 TTATCA
1 TTATCA
49569608 ATTTGTATCA
Statistics
Matches: 201, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 201 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Done.