Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 187 of 318
Found at i:58637106 original size:27 final size:27
Alignment explanation
Indices: 58637053--58637117 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
58637043 TTGTAGCGAG
*
58637053 GCTACCAGATATTGTGACGAAGTCACCA
1 GCTA-CAGATATTGTGACGAAGCCACCA
* * *
58637081 GCTACAGATATTGTGGCTAGGCCACCA
1 GCTACAGATATTGTGACGAAGCCACCA
*
58637108 G-AACAGATAT
1 GCTACAGATAT
58637118 ATATATGTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 8 0.25
27 20 0.62
28 4 0.12
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (27 bp):
GCTACAGATATTGTGACGAAGCCACCA
Found at i:58637418 original size:27 final size:27
Alignment explanation
Indices: 58637386--58637742 Score: 457
Period size: 27 Copynumber: 13.3 Consensus size: 27
58637376 GGGGCAAAAT
* * * *
58637386 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58637413 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58637440 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58637467 GGTAA-TCTACGCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58637493 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58637520 GATAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
58637547 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58637574 GGTAATTCTACCCTATAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
58637600 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* * *
58637628 GGTAATTCTACCATATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58637655 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
58637682 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
58637709 GGTATTTCTACCCAACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58637736 AGTAATT
1 GGTAATT
58637743 TTGTAAATCG
Statistics
Matches: 287, Mismatches: 40, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 26 0.09
27 258 0.90
28 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:58637811 original size:27 final size:27
Alignment explanation
Indices: 58637792--58637896 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
58637782 GGTACTTCGG
58637792 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * *
58637819 TAATTTTACAGGTAGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * **
58637846 TAATTTCACAAATC-AGGGGTATTTTGA
1 TAATTTTACAAGTCGA-GGGTATTTCAA
*
58637873 TAATTTTACAA-TCCAGGGGTATTT
1 TAATTTTACAAGTCGA-GGGTATTT
58637897 TGGTAATTAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.05
27 62 0.95
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:58637893 original size:54 final size:54
Alignment explanation
Indices: 58637778--58638011 Score: 242
Period size: 54 Copynumber: 4.4 Consensus size: 54
58637768 TTCTGTATAT
* * ** ** **
58637778 CAGGGGTACTTCGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTAC-AGG
1 CAGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGATAATTTTACAAAC
* ** * * *
58637831 TAGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGATAATTTTACAATC
1 CAG-GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAAC
*
58637886 CAGGGGTATTTTGGTAA--TTACAAACCAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAAC
** * *
58637938 CAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAAC
*
58637992 TAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
58638012 GGTAAACTAA
Statistics
Matches: 156, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
52 48 0.31
53 2 0.01
54 102 0.65
55 4 0.03
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAAC
Found at i:58637946 original size:79 final size:80
Alignment explanation
Indices: 58637835--58638011 Score: 248
Period size: 79 Copynumber: 2.2 Consensus size: 80
58637825 TACAGGTAGA
** * * *
58637835 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGATAATTTTACAATCCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
58637900 TAA-TTACAAACCAG
66 TAATTTACAAACCAG
* * **
58637914 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
*
58637979 TAATTTTACAAACTAG
66 TAA-TTTACAAACCAG
58637995 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
58638012 GGTAAACTAA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 59 0.69
81 27 0.31
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTCACAAACCAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
TAATTTACAAACCAG
Found at i:58638020 original size:27 final size:27
Alignment explanation
Indices: 58637835--58638011 Score: 250
Period size: 27 Copynumber: 6.6 Consensus size: 27
58637825 TACAGGTAGA
** * *
58637835 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
58637862 GGGTATTTTGATAATTTTACAATCCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
58637889 GGGTATTTTGGTAA--TTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
58637914 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
58637941 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
58637968 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
58637995 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
58638012 GGTAAACTAA
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
25 24 0.18
27 109 0.82
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:58644105 original size:32 final size:32
Alignment explanation
Indices: 58644069--58644133 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
58644059 ATCAATCACA
58644069 ATCGAGTTTTCAGGAGTAATCTTCGACGATCT
1 ATCGAGTTTTCAGGAGTAATCTTCGACGATCT
58644101 ATCGAGTTTTCAGGAGTAATCTTCGACGATCT
1 ATCGAGTTTTCAGGAGTAATCTTCGACGATCT
58644133 A
1 A
58644134 GTTCTTTTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (32 bp):
ATCGAGTTTTCAGGAGTAATCTTCGACGATCT
Found at i:58645779 original size:27 final size:27
Alignment explanation
Indices: 58645749--58645803 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
58645739 ACCCACTTGG
58645749 ACACATAATCCACAGCAACTAAGATGT
1 ACACATAATCCACAGCAACTAAGATGT
58645776 ACACATAATCCACAGCAACTAAGATGT
1 ACACATAATCCACAGCAACTAAGATGT
58645803 A
1 A
58645804 TTTGTTCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.25, G:0.11, T:0.18
Consensus pattern (27 bp):
ACACATAATCCACAGCAACTAAGATGT
Found at i:58652982 original size:44 final size:43
Alignment explanation
Indices: 58652843--58652999 Score: 151
Period size: 42 Copynumber: 3.7 Consensus size: 43
58652833 AATGGGTATA
* * * *
58652843 ATGCCAATGTCTCGGACGTGGTCTTACATGT-AATTCAGTATTG
1 ATGCCTATGTCCCAGACATGGTCTTACATGTAAATTCAG-ATTG
* * * * *
58652886 ATGCCTCTGTCCCAGATAGGGTCTTATACG-AAA-TCAGATATG
1 ATGCCTATGTCCCAGACATGGTCTTACATGTAAATTCAGAT-TG
* *
58652928 ATGCCGATGTCCCGGACATGGTCTTACATGTAAATTTCA-ATTCG
1 ATGCCTATGTCCCAGACATGGTCTTACATGTAAA-TTCAGATT-G
58652972 ATGCCTATGTCCCAGACATGGTCTTACA
1 ATGCCTATGTCCCAGACATGGTCTTACA
58653000 CGATAATTTA
Statistics
Matches: 90, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 27 0.30
44 29 0.32
45 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (43 bp):
ATGCCTATGTCCCAGACATGGTCTTACATGTAAATTCAGATTG
Found at i:58653008 original size:44 final size:42
Alignment explanation
Indices: 58652843--58653013 Score: 148
Period size: 44 Copynumber: 4.0 Consensus size: 42
58652833 AATGGGTATA
* * * * *
58652843 ATGCCAATGTCTCGGACGTGGTCTTACATGTAATTCAGTATTG
1 ATGCCTATGTCCCAGACATGGTCTTACACGTAATTCAG-ATTG
* * * * *
58652886 ATGCCTCTGTCCCAGATAGGGTCTTATACG-AAATCAGATATG
1 ATGCCTATGTCCCAGACATGGTCTTACACGTAATTCAGAT-TG
* * *
58652928 ATGCCGATGTCCCGGACATGGTCTTACATGTAAATTTCA-ATTCG
1 ATGCCTATGTCCCAGACATGGTCTTACACGT-AA-TTCAGATT-G
*
58652972 ATGCCTATGTCCCAGACATGGTCTTACACGATAATTTAGATT
1 ATGCCTATGTCCCAGACATGGTCTTACACG-TAATTCAGATT
58653014 AATACCAACA
Statistics
Matches: 99, Mismatches: 22, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
41 2 0.02
42 31 0.31
43 25 0.25
44 37 0.37
45 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (42 bp):
ATGCCTATGTCCCAGACATGGTCTTACACGTAATTCAGATTG
Found at i:58656806 original size:40 final size:40
Alignment explanation
Indices: 58656725--58656946 Score: 288
Period size: 40 Copynumber: 5.6 Consensus size: 40
58656715 CAACCAAGTA
** * *
58656725 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
58656764 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
58656804 CCTTCGGGACTTAGCCCGGTTATTGTAACTCCCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
58656844 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * * * *
58656884 CCTTTGGGGCTTAGCCCGG-AATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
58656924 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
58656947 CATCCGAATA
Statistics
Matches: 160, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 14 0.09
40 145 0.91
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:58664892 original size:40 final size:40
Alignment explanation
Indices: 58664805--58665032 Score: 291
Period size: 40 Copynumber: 5.7 Consensus size: 40
58664795 CATTCCCAAC
* ** * *
58664805 CAAATACCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCA
*
58664844 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTACCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
58664884 CAATTGCCTTCGGGACTTAGCCCGGTTATTGTAACTCCCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
58664924 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
58664964 CAAATGCCTTTGGGACTTAGCCCGG-AATTAGTCATTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
58665004 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
58665033 CATCTGAATA
Statistics
Matches: 165, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 19 0.12
40 145 0.88
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:58678830 original size:27 final size:27
Alignment explanation
Indices: 58678791--58678909 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
58678781 TGGATAAGTT
58678791 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
58678818 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
58678845 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
58678872 GTAGAATTACCGAGATACCCTTATGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
58678899 GTAAAATTACC
1 GTAGAATTACC
58678910 ATTTTGCCCC
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:58679606 original size:27 final size:26
Alignment explanation
Indices: 58679562--58679613 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
58679552 CTCGTTGCAA
*
58679562 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
58679589 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
58679614 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:58679690 original size:27 final size:26
Alignment explanation
Indices: 58679652--58679711 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
58679642 CCACATATAT
* *
58679652 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
58679678 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
58679705 ATATCTG
1 ATATCTG
58679712 GCAACCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:58683376 original size:40 final size:40
Alignment explanation
Indices: 58683278--58683447 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
58683268 TCCTCGTTCA
* * * *
58683278 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
58683317 AATGCCTTCGGGACATAACCCGAATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
58683357 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * * * *
58683397 AATGCCTTCGGGACTTATCCCGGATCTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
58683437 AAGGCCTTCGG
1 AATGCCTTCGG
58683448 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 33 0.29
40 82 0.71
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:58683444 original size:80 final size:79
Alignment explanation
Indices: 58683276--58683500 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 79
58683266 GCTCCTCGTT
* * * * * *
58683276 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGAA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
*
58683341 TTTAACAACTCGCA
66 TCTAACAACTCGCA
* * *
58683355 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTATCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
58683420 ATCTAGTATCTCGCA
65 ATCTAACAACTCGCA
* * * * * * * *
58683435 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
58683499 GA
64 GA
58683501 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 38 0.32
80 77 0.64
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TCTAACAACTCGCA
Found at i:58683460 original size:40 final size:39
Alignment explanation
Indices: 58683278--58683493 Score: 150
Period size: 40 Copynumber: 5.4 Consensus size: 39
58683268 TCCTCGTTCA
* * * * * *
58683278 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTA-TCCGGATCTAATAACTCGCACG
* * * * *
58683317 AATGCCTTCGGGACATAACCCGAATTTAACAACTCGCACG
1 AATGCCTTCGGGAC-TTATCCGGATCTAATAACTCGCACG
* *
58683357 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTT-ATCCGGATCTAATAACTCGCACG
* * *
58683397 AATGCCTTCGGGACTTATCCCGGATCTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAT-CCGGATCTAATAACTCGCACG
* * * * *
58683437 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTA-TCCGGATCTAATAAC-TCGCACG
*
58683477 AAAGCCTTCGGGACTTA
1 AATGCCTTCGGGACTTA
58683494 GCCCGGACAG
Statistics
Matches: 147, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.24
40 103 0.70
41 9 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTATCCGGATCTAATAACTCGCACG
Found at i:58683509 original size:41 final size:41
Alignment explanation
Indices: 58683432--58683509 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
58683422 CTAGTATCTC
* * *
58683432 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
58683473 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
58683510 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:58691255 original size:40 final size:40
Alignment explanation
Indices: 58691157--58691326 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
58691147 TCCTCGTTCA
* * * *
58691157 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
58691196 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
58691236 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * * * *
58691276 AATGCCTTCGGGACTTATCCCGGATCTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
58691316 AAGGCCTTCGG
1 AATGCCTTCGG
58691327 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 34 0.29
40 83 0.71
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:58691312 original size:80 final size:79
Alignment explanation
Indices: 58691155--58691379 Score: 236
Period size: 80 Copynumber: 2.8 Consensus size: 79
58691145 GCTCCTCGTT
* * * * *
58691155 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
*
58691220 TTTAACAACTCGCA
66 TCTAACAACTCGCA
* * *
58691234 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTATCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
58691299 ATCTAGTATCTCGCA
65 ATCTAACAACTCGCA
* * * * * * * *
58691314 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
58691378 GA
64 GA
58691380 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 38 0.31
80 78 0.64
81 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TCTAACAACTCGCA
Found at i:58691339 original size:40 final size:39
Alignment explanation
Indices: 58691157--58691372 Score: 159
Period size: 40 Copynumber: 5.4 Consensus size: 39
58691147 TCCTCGTTCA
* * * * * *
58691157 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTA-TCCGGATCTAATAACTCGCACG
* * * *
58691196 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGAC-TTATCCGGATCTAATAACTCGCACG
* *
58691236 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTT-ATCCGGATCTAATAACTCGCACG
* * *
58691276 AATGCCTTCGGGACTTATCCCGGATCTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAT-CCGGATCTAATAACTCGCACG
* * * * *
58691316 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTA-TCCGGATCTAATAAC-TCGCACG
*
58691356 AAAGCCTTCGGGACTTA
1 AATGCCTTCGGGACTTA
58691373 GCCCGGACAG
Statistics
Matches: 149, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.24
40 104 0.70
41 9 0.06
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTATCCGGATCTAATAACTCGCACG
Found at i:58691388 original size:41 final size:41
Alignment explanation
Indices: 58691311--58691388 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
58691301 CTAGTATCTC
* * *
58691311 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
58691352 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
58691389 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:58694763 original size:37 final size:37
Alignment explanation
Indices: 58694713--58694791 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
58694703 TTATTACGAA
* * *
58694713 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
58694750 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
58694787 GTCTT
1 GTCTT
58694792 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:58694996 original size:49 final size:47
Alignment explanation
Indices: 58694909--58695017 Score: 173
Period size: 49 Copynumber: 2.3 Consensus size: 47
58694899 GCCCTTCGGG
58694909 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
* *
58694959 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
58695006 ACTTTCACATTC
1 ACTTTCACATTC
58695018 TCAAAGTAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
47 20 0.35
49 33 0.58
50 4 0.07
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
Found at i:58695336 original size:24 final size:23
Alignment explanation
Indices: 58695288--58695345 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
58695278 TAATCAAACA
58695288 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
58695312 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
58695336 TTATT-TTATA
1 TTATTATTATA
58695346 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:58702212 original size:54 final size:54
Alignment explanation
Indices: 58702091--58702221 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
58702081 GTGGGCAATT
* * * * *
58702091 CTGTGAAATTAACACGGGCGTACGACACGCCCGTGTCTATAATCGTGGTCAAAA
1 CTGTCAAATTAACACGGGCGTGCGACACGCCCGTGTCTACAACCATGGTCAAAA
* * * * *
58702145 CTGCCAAATTAACACGGGCGTGCGACACGCCCGTGTC-ACCACCTATTGTCGAGA
1 CTGTCAAATTAACACGGGCGTGCGACACGCCCGTGTCTACAACC-ATGGTCAAAA
*
58702199 CTGTCAAAATAACACGGGCGTGC
1 CTGTCAAATTAACACGGGCGTGC
58702222 ACATACATAC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 3 0.05
54 61 0.95
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (54 bp):
CTGTCAAATTAACACGGGCGTGCGACACGCCCGTGTCTACAACCATGGTCAAAA
Found at i:58713877 original size:46 final size:46
Alignment explanation
Indices: 58713824--58713999 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
58713814 CGATTGAGCA
* *
58713824 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
58713870 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
58713915 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* **
58713963 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58714000 GCGAGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 58 0.54
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58713980 original size:93 final size:93
Alignment explanation
Indices: 58713821--58713990 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
58713811 GGACGATTGA
* *
58713821 GCATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
58713886 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
58713914 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
58713978 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
58713991 TGCTTATGGG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58727264 original size:39 final size:40
Alignment explanation
Indices: 58727202--58727418 Score: 313
Period size: 39 Copynumber: 5.6 Consensus size: 40
58727192 AAACCAAGTA
** * *
58727202 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
58727241 CCTTC-GGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
58727280 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
58727320 CCTTCGGGACTT-GCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
58727359 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
58727398 CCTTC-GG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
58727419 CAATCCAAAT
Statistics
Matches: 165, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
37 5 0.03
38 16 0.10
39 97 0.59
40 47 0.28
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:58727336 original size:79 final size:78
Alignment explanation
Indices: 58727202--58727418 Score: 332
Period size: 79 Copynumber: 2.8 Consensus size: 78
58727192 AAACCAAGTA
** *
58727202 CCTTCGGGGTTTAGCCGGATATAGCT-ACTCGCTCAAATGCCTTCGGACTTAGCCCGGTTATAGT
1 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGT
*
58727266 AACTCGCACAATTG
65 AACTCGCACAAATG
* *
58727280 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTT-GCCCGGTTATAG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATAG
58727344 TAACTCGCACAAATG
64 TAACTCGCACAAATG
58727359 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATGCCTTCGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTAT
58727419 CAATCCAAAT
Statistics
Matches: 127, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
76 3 0.02
77 12 0.09
78 41 0.32
79 65 0.51
80 6 0.05
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTA
ACTCGCACAAATG
Found at i:58735353 original size:40 final size:40
Alignment explanation
Indices: 58735272--58735492 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
58735262 AAACCAAGTA
** * *
58735272 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
58735311 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
58735351 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
58735391 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
58735431 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
58735471 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
58735493 CAATCCGAAT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 26 0.15
40 144 0.85
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:58750947 original size:40 final size:40
Alignment explanation
Indices: 58750853--58750997 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
58750843 TACTCGAATG
*
58750853 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
58750894 ACATCTGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
58750934 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
58750974 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
58750998 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:58754367 original size:30 final size:29
Alignment explanation
Indices: 58754309--58754368 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
58754299 TTCCCGAGCC
*
58754309 TAGGGGAAAAAGTGTAATTATGCAAAGTT
1 TAGGGGAAAAAGTGTAATTATCCAAAGTT
* *
58754338 TAGGGGCAAAAGTGTAATTTTTCCAAAGTT
1 TAGGGGAAAAAGTGTAA-TTATCCAAAGTT
58754368 T
1 T
58754369 GTATTAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (29 bp):
TAGGGGAAAAAGTGTAATTATCCAAAGTT
Found at i:58754844 original size:46 final size:46
Alignment explanation
Indices: 58754794--58754966 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
58754784 TGGTTGAGCA
*
58754794 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
58754840 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
58754887 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
58754933 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
58754967 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 5 0.05
45 7 0.07
46 58 0.55
47 29 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58754950 original size:93 final size:93
Alignment explanation
Indices: 58754791--58754961 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
58754781 GGATGGTTGA
* *
58754791 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
58754856 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
58754884 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
58754948 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
58754962 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:58756445 original size:31 final size:31
Alignment explanation
Indices: 58756407--58756466 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
58756397 TTCATATTTC
58756407 ATATTTCATAACACTGGGCCGAAGCCTTTTT
1 ATATTTCATAACACTGGGCCGAAGCCTTTTT
**
58756438 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTGGGCCGAAGCCTTT
58756467 ATTGTAAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (31 bp):
ATATTTCATAACACTGGGCCGAAGCCTTTTT
Found at i:58756732 original size:26 final size:26
Alignment explanation
Indices: 58756687--58756758 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
58756677 CTCTTTTAAT
58756687 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
58756712 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
58756738 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
58756759 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 10 0.22
26 35 0.78
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:58757682 original size:27 final size:27
Alignment explanation
Indices: 58757652--58757849 Score: 159
Period size: 27 Copynumber: 7.3 Consensus size: 27
58757642 GTAAATCTAC
*
58757652 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
* *
58757679 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACTAAGGGTATTT-TAGTAATTTTGT
* * *
58757705 AGAAAGTCAAGGGTATTTTTGTAACTTTGT
1 --AAACT-AAGGGTATTTTAGTAATTTTGT
* * *
58757735 AAA-TCAGGGGTATTTTGGTAATTTTAT
1 AAACT-AAGGGTATTTTAGTAATTTTGT
* **
58757762 AAACAAAGGGTATTTTAGTAATTTTAC
1 AAACTAAGGGTATTTTAGTAATTTTGT
*** *
58757789 AAACCGGGGGTATTTTGGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
* * *
58757816 AAACCAAGGGTATTTTGGTAATTTGGT
1 AAACTAAGGGTATTTTAGTAATTTTGT
58757843 AAACTAA
1 AAACTAA
58757850 AGTATTCTAA
Statistics
Matches: 138, Mismatches: 26, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
26 1 0.01
27 113 0.82
28 8 0.06
29 15 0.11
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AAACTAAGGGTATTTTAGTAATTTTGT
Found at i:58757799 original size:54 final size:54
Alignment explanation
Indices: 58757632--58757839 Score: 177
Period size: 54 Copynumber: 3.8 Consensus size: 54
58757622 CATTCTACAA
* * * * * * ** *
58757632 GGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* * * * * ** *
58757686 TGGTATTTCT-ATAATTTTTAGAAAGTC-AAGGGTATTTTTGTAACTTTGTAAATCAG
1 GGGTATTT-TGGTAA-TTTTATAAA--CAAAGGGTATTTTAGTAATTTTACAAACCAG
*
58757742 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCGG
1 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
58757796 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTT
58757840 GGTAAACTAA
Statistics
Matches: 125, Mismatches: 23, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
53 1 0.01
54 73 0.58
55 16 0.13
56 34 0.27
57 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:58757846 original size:81 final size:83
Alignment explanation
Indices: 58757629--58757851 Score: 227
Period size: 83 Copynumber: 2.7 Consensus size: 83
58757619 TTTCATTCTA
* * * ** * ** * *
58757629 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAACTTTGTAAACCAAGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTT
* *
58757694 CTATAATTTTTAGAAAGT
66 CTATAATTTTTACAAAGC
* * * *
58757712 CAAGGGTATTTTTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAAGGGTATTTTGGTAACTTTGTAAACCAAGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTT
58757777 -TAGTAA-TTTTACAAA-C
66 CTA-TAATTTTTACAAAGC
** * *
58757793 CGGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTGGTAAACTAAAG
1 CAAGGGTATTTTGGTAACTTTGTAAACCAAGGGTATTTTGGTAATTTTGTAAAC-AAAG
58757852 TATTCTAAAC
Statistics
Matches: 114, Mismatches: 24, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
81 46 0.40
82 14 0.12
83 54 0.47
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (83 bp):
CAAGGGTATTTTGGTAACTTTGTAAACCAAGGGTATTTTGGTAATTTTGTAAACAAAGGGTATTT
CTATAATTTTTACAAAGC
Found at i:58758933 original size:28 final size:26
Alignment explanation
Indices: 58758866--58758951 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
58758856 GTGTTACAGA
*
58758866 TCTGGTGGCTCTGCCACATATTTCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGT
58758893 TCTGGTGGCTCTGCCACGATTATCTGT
1 TCTGGTGGCTCTGCCAC-ATTATCTGT
* *
58758920 ATCTGGTGACTCTGTCACATTATCTGT
1 -TCTGGTGGCTCTGCCACATTATCTGT
58758947 TCTGG
1 TCTGG
58758952 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.09
27 32 0.59
28 17 0.31
ACGTcount: A:0.13, C:0.24, G:0.23, T:0.40
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGT
Found at i:58760755 original size:45 final size:45
Alignment explanation
Indices: 58760689--58760862 Score: 205
Period size: 45 Copynumber: 3.9 Consensus size: 45
58760679 TATTGTACGG
* *
58760689 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
58760734 TACTATTCGGGCCTTTAAGCCTAGCAGGTTATAATGTCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
58760779 TACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
58760824 TGA--AATCGGG-CTTTGACCCTAGCAGG-TGA-AATGCCGGTG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCT-ATAATGCCGGTG
58760863 GATGAATTCG
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
42 11 0.10
43 14 0.12
44 6 0.05
45 80 0.71
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:58763913 original size:40 final size:39
Alignment explanation
Indices: 58763839--58764103 Score: 334
Period size: 40 Copynumber: 6.6 Consensus size: 39
58763829 AACCCAAGTA
* *
58763839 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
* *
58763878 CCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
*
58763918 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
*
58763961 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* *
58764001 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
* * *
58764041 CCTTCGGGACTTAGCCCGGATGTAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
*
58764081 CCTTCAGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
58764104 CATCCGAATA
Statistics
Matches: 203, Mismatches: 15, Indels: 15
0.87 0.06 0.06
Matches are distributed among these distances:
39 13 0.06
40 151 0.74
41 2 0.01
43 36 0.18
44 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:58770624 original size:79 final size:81
Alignment explanation
Indices: 58770488--58770672 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
58770478 TTGAATGATG
* *
58770488 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
*
58770552 TGTGGGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
58770567 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
58770629 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
58770647 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58770673 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:58770679 original size:40 final size:40
Alignment explanation
Indices: 58770488--58770672 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
58770478 TTGAATGATG
* * * *
58770488 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
58770528 TCCGGACTAAGAT-CCGAAGGCATTTGTGGGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
58770568 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58770607 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
58770648 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58770673 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 80 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58770694 original size:79 final size:79
Alignment explanation
Indices: 58770541--58770705 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
58770531 GGACTAAGAT
* * * **
58770541 CCGAAGGCATTTGTGGGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
58770606 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
58770620 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
58770683 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
58770699 CCGAAGG
1 CCGAAGG
58770706 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:58778705 original size:40 final size:40
Alignment explanation
Indices: 58778511--58778691 Score: 192
Period size: 40 Copynumber: 4.5 Consensus size: 40
58778501 ATGATGTCCA
* * * *
58778511 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCG
* * * *
58778551 GACTCAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACCG
58778591 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
* *
58778630 GGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
58778670 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
58778692 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 15, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
39 35 0.29
40 74 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:58778713 original size:79 final size:79
Alignment explanation
Indices: 58778560--58778714 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
58778550 GGACTCAGAT
* * **
58778560 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
58778625 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
58778639 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
58778702 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
58778715 ATTCCAAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:58784808 original size:14 final size:15
Alignment explanation
Indices: 58784784--58784812 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58784774 AGATATAACT
58784784 AAATAAATAATAAAA
1 AAATAAATAATAAAA
58784799 AAAT-AATAATAAAA
1 AAATAAATAATAAAA
58784813 GTGAGGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAATAATAAAA
Found at i:58792631 original size:23 final size:24
Alignment explanation
Indices: 58792601--58792655 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
58792591 ATAGCCCAGA
* *
58792601 TAAGCTTCCCGATA-GGCTCTTTG
1 TAAGCTTCCCGAAATGGCTCTGTG
58792624 TAAGCTTCCCGAAATGGCTCTGTG
1 TAAGCTTCCCGAAATGGCTCTGTG
*
58792648 TGAGCTTC
1 TAAGCTTC
58792656 TTATGATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (24 bp):
TAAGCTTCCCGAAATGGCTCTGTG
Found at i:58795907 original size:39 final size:39
Alignment explanation
Indices: 58795863--58796128 Score: 397
Period size: 39 Copynumber: 6.8 Consensus size: 39
58795853 TACCAACACA
* * *
58795863 AAGCCTGCGGGACTTTAGCTCGGATAAATTTCCAGCATG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
58795902 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGTACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* * *
58795941 AAGCCTGTGGGACTTTAGCCCGGATACATTTCCAACAGG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
58795980 AAGCCTGTGAGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* * *
58796019 AAGCTTGCAGGAGTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
58796058 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAACACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
58796097 AAGCCTGCGGGACTTTAGCCCGGCTGCATTTC
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTC
58796129 TAGTGTCTTG
Statistics
Matches: 205, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 205 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.23
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:58801832 original size:40 final size:40
Alignment explanation
Indices: 58801637--58801818 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
58801627 AATGATGTCT
* * * *
58801637 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* *
58801677 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
*
58801717 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
*
58801756 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
58801796 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
58801819 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:58801840 original size:79 final size:79
Alignment explanation
Indices: 58801687--58801841 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
58801677 GGACTAAGAT
* **
58801687 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
58801752 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
58801766 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
58801829 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
58801842 ATTCTGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:58807344 original size:21 final size:20
Alignment explanation
Indices: 58807312--58807351 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
58807302 TTTTTCATTT
58807312 ATTTCACAATTTAACAATTA
1 ATTTCACAATTTAACAATTA
* *
58807332 ATTTTACACATTTCACAATT
1 ATTTCACA-ATTTAACAATT
58807352 TAATCCCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTCACAATTTAACAATTA
Found at i:58809241 original size:12 final size:12
Alignment explanation
Indices: 58809224--58809262 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
58809214 AACAACCTCC
*
58809224 ACCCCCTATTGT
1 ACCCCCTGTTGT
*
58809236 ACCCCCTGTTAT
1 ACCCCCTGTTGT
*
58809248 ACCACCTGTTGT
1 ACCCCCTGTTGT
58809260 ACC
1 ACC
58809263 TCTAGTTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.41, G:0.10, T:0.31
Consensus pattern (12 bp):
ACCCCCTGTTGT
Found at i:58811024 original size:27 final size:27
Alignment explanation
Indices: 58810992--58811442 Score: 162
Period size: 27 Copynumber: 16.7 Consensus size: 27
58810982 TTAGTTTACG
* * *
58810992 AAATTACCAAAGTACCCCCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* **** *
58811019 GAATTACCGTTCTACCCTCGATTTATG
1 AAATTACCAAAATACCCTCGATTTATA
* *** *
58811046 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
58811073 AAATTACTAAAATACTCCT-GGTTTGTA
1 AAATTACCAAAATAC-CCTCGATTTATA
* * *
58811100 AAATTACTAAAATACCCCCTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
**
58811128 AAATTACTGAAATACCCTCGACTTGTA-A
1 AAATTACCAAAATACCCTCGA-TT-TATA
*
58811156 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ****** * *
58811183 GAATTATTGTTTTACCCTAGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ***** *
58811210 GAATTACTGTTTTACCCTTGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
**** * *
58811237 AAATTACCGTTTTACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTCGATTTATA
** * ***
58811263 AAATTACTGAAATACCC-CTATAGGGTA
1 AAATTACCAAAATACCCTCGAT-TTATA
* * * *
58811290 GAATTACCAAAACACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
58811317 AAATTACCAAAATACCACTAG-TTTGTG
1 AAATTACCAAAATACC-CTCGATTTATA
* *
58811344 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
58811371 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
58811398 AAATTA-TAGAAATACCCTTGATTTGTA
1 AAATTACCA-AAATACCCTCGATTTATA
* * *
58811425 GATTTACCAAAACACCCT
1 AAATTACCAAAATACCCT
58811443 TGTAGGATGA
Statistics
Matches: 330, Mismatches: 78, Indels: 32
0.75 0.18 0.07
Matches are distributed among these distances:
25 2 0.01
26 24 0.07
27 252 0.76
28 51 0.15
29 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:58811129 original size:28 final size:28
Alignment explanation
Indices: 58811072--58811172 Score: 116
Period size: 28 Copynumber: 3.6 Consensus size: 28
58811062 CTCGATTTAC
* *
58811072 AAAATTACTAAAATA-CTCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
58811099 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
* * *
58811127 AAAATTACTGAAATACCCTC-GACTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
* *
58811154 AAAAATTACCAAAGTACCC
1 -AAAATTACTAAAATACCC
58811173 TCGATTTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 21 0.33
28 43 0.67
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGATTTGT
Found at i:58811443 original size:27 final size:27
Alignment explanation
Indices: 58811058--58811444 Score: 165
Period size: 27 Copynumber: 14.3 Consensus size: 27
58811048 ATTACCATTT
* ** *
58811058 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* *
58811085 TACTCC-TGGTTTGTAAAATTACTAAAA
1 TAC-CCTTGATTTGTAAAATTACCAAAA
* **
58811112 TACCCCCTGATTTGTAAAATTACTGAAA
1 TA-CCCTTGATTTGTAAAATTACCAAAA
* * *
58811140 TACCCTCGACTTGTAAAAATTACCAAAG
1 TACCCTTGATTTGT-AAAATTACCAAAA
* * * ******
58811168 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTTGATTTGTAAAATTACCAAAA
* ** * *****
58811195 TACCCTAGATTTACAGAATTACTGTTT
1 TACCCTTGATTTGTAAAATTACCAAAA
* ****
58811222 TACCCTTGATTTATAAAATTACCGTTT
1 TACCCTTGATTTGTAAAATTACCAAAA
* * **
58811249 TACCCTCGA-TTGTGAAATTACTGAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* ** *
58811275 TACCCCT-ATAGGGTAGAATTACCAAAA
1 TACCCTTGAT-TTGTAAAATTACCAAAA
* *
58811302 CACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTGTAAAATTACCAAAA
* *
58811329 TACCACTAG-TTTGTGAAATTACCAAAA
1 TACC-CTTGATTTGTAAAATTACCAAAA
**
58811356 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* ** *
58811383 TACCCCTGATTTACAAAATTA-TAGAAA
1 TACCCTTGATTTGTAAAATTACCA-AAA
* *
58811410 TACCCTTGATTTGTAGATTTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
*
58811437 CACCCTTG
1 TACCCTTG
58811445 TAGGATGAAA
Statistics
Matches: 281, Mismatches: 67, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
25 1 0.00
26 19 0.07
27 212 0.75
28 49 0.17
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTGTAAAATTACCAAAA
Found at i:58811539 original size:27 final size:27
Alignment explanation
Indices: 58811475--58811539 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
58811465 ACCCCTAATA
* *
58811475 GGTAAAAAGACCGTAAAGCCTTTGTAG
1 GGTAAAATGACCGTAAAGCCCTTGTAG
* *
58811502 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCTTGTAG
58811529 GGTAAAATGAC
1 GGTAAAATGAC
58811540 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCTTGTAG
Found at i:58811893 original size:20 final size:21
Alignment explanation
Indices: 58811855--58811893 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58811845 CACGATGGTA
*
58811855 AGTTGGGCCTCAATGGGCTAG
1 AGTTGGGCCTCAATAGGCTAG
58811876 AGTTGGGCC-CAATAGGCT
1 AGTTGGGCCTCAATAGGCT
58811894 TTCGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.23
Consensus pattern (21 bp):
AGTTGGGCCTCAATAGGCTAG
Found at i:58812272 original size:20 final size:20
Alignment explanation
Indices: 58812247--58812330 Score: 134
Period size: 20 Copynumber: 4.2 Consensus size: 20
58812237 GTTATGATAT
*
58812247 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
58812267 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
58812287 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
58812307 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
58812327 ACAT
1 ACAT
58812331 AATGTATTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:58812462 original size:52 final size:51
Alignment explanation
Indices: 58812383--58812517 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 51
58812373 GAGGAAGTGA
*
58812383 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
58812435 GAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
*
58812486 AAAAAGGCTT-TG-CCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
58812518 AGGCTTCCAG
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
47 5 0.06
48 9 0.12
49 5 0.06
50 2 0.03
51 23 0.29
52 34 0.44
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:58812474 original size:25 final size:26
Alignment explanation
Indices: 58812383--58812517 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
58812373 GAGGAAGTGA
*
58812383 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
58812409 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
58812435 GAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
58812461 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
58812486 AAAAAGGCTT-TG-CCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
58812508 AAAAGAGGCT
1 AAAAG-GGCT
58812518 AGGCTTCCAG
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
22 4 0.04
23 7 0.07
24 5 0.05
25 24 0.25
26 55 0.58
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:58813368 original size:37 final size:37
Alignment explanation
Indices: 58813318--58813396 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
58813308 TTATTACGAA
* * *
58813318 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
58813355 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
58813392 GTCTT
1 GTCTT
58813397 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:58813593 original size:47 final size:47
Alignment explanation
Indices: 58813515--58813980 Score: 736
Period size: 47 Copynumber: 9.7 Consensus size: 47
58813505 CCCTTCGGGA
* * * * * *
58813515 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58813562 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58813609 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58813656 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58813705 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58813754 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58813801 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58813850 CTTATCACATATATACACTTTAACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58813897 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58813946 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
58813981 AGAATCCTAA
Statistics
Matches: 396, Mismatches: 16, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 207 0.52
49 188 0.47
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58813689 original size:49 final size:49
Alignment explanation
Indices: 58813515--58813959 Score: 739
Period size: 49 Copynumber: 9.3 Consensus size: 49
58813505 CCCTTCGGGA
* * * * *
58813515 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58813562 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58813609 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58813656 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58813705 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58813754 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58813801 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58813850 CTTATCAC--ATATATACACTTTAACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58813897 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58813946 CTTATCACATATAT
1 CTTATCACATATAT
58813960 GCATGTTCAC
Statistics
Matches: 377, Mismatches: 13, Indels: 14
0.93 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 182 0.48
49 194 0.51
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58813712 original size:96 final size:95
Alignment explanation
Indices: 58813515--58813980 Score: 749
Period size: 96 Copynumber: 4.9 Consensus size: 95
58813505 CCCTTCGGGA
* * * * * * * *
58813515 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
58813579 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
58813609 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
58813673 CACTTTCACATTCATCACATCGGCCATTAGGC
64 CACTTTCACATTCATCACATCGGCCATTAGGC
*
58813705 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58813770 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
58813801 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
58813866 ACTTTAACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
58813897 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
58813962 A-TGTTCACATCCATCACAT
65 ACT-TTCACATTCATCACAT
58813981 AGAATCCTAA
Statistics
Matches: 353, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
94 47 0.13
95 1 0.00
96 259 0.73
98 46 0.13
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (95 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58813787 original size:145 final size:143
Alignment explanation
Indices: 58813515--58813959 Score: 759
Period size: 145 Copynumber: 3.1 Consensus size: 143
58813505 CCCTTCGGGA
* * * * * * *
58813515 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58813578 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
58813643 TCGGCCATTAGGC
131 TCGGCCATTAGGC
58813656 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
58813721 ACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
58813786 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
58813801 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
58813866 ACTTTAACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
58813931 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
58813946 CTTATCACATATAT
1 CTTATCACATATAT
58813960 GCATGTTCAC
Statistics
Matches: 288, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 82 0.28
145 195 0.68
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:58816707 original size:31 final size:31
Alignment explanation
Indices: 58816654--58816736 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
58816644 TGCTTACAGT
58816654 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
58816684 AAAGGCTTCGGCCCAGTGGTATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
58816715 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
58816737 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.30
31 35 0.70
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:58820361 original size:40 final size:40
Alignment explanation
Indices: 58820306--58820447 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
58820296 TATTCGAATG
*
58820306 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
58820346 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
58820386 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
58820426 ATATCC-GACTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
58820448 TACTTGGGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.14
40 80 0.84
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:58823220 original size:31 final size:31
Alignment explanation
Indices: 58823182--58823241 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
58823172 TTCATATTTC
*
58823182 ATATTTCATAACACTCGGTCGAAGCCTTTTT
1 ATATTTCATAACACTCGGCCGAAGCCTTTTT
** *
58823213 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTCGGCCGAAGCCTTT
58823242 ACTGTAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (31 bp):
ATATTTCATAACACTCGGCCGAAGCCTTTTT
Found at i:58823486 original size:24 final size:24
Alignment explanation
Indices: 58823449--58823529 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
58823439 CTAGAGGCCT
*
58823449 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
58823474 AGCCCTTTTAATAACCGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
58823498 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
58823521 AGCCCTTTT
1 AGCCCTTTT
58823530 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 22 0.42
24 26 0.50
25 4 0.08
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:58823510 original size:23 final size:23
Alignment explanation
Indices: 58823456--58823528 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
58823446 CCTAGCCTCT
*
58823456 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
58823479 TTTTAATAACCGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
58823503 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
58823526 TTT
1 TTT
58823529 TGCACTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 25 0.54
24 21 0.46
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:58823605 original size:20 final size:20
Alignment explanation
Indices: 58823580--58823618 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
58823570 TATGAATACA
58823580 TCATGTGCATAGCATACATG
1 TCATGTGCATAGCATACATG
*
58823600 TCATGTGCATATCATACAT
1 TCATGTGCATAGCATACAT
58823619 ACCATGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (20 bp):
TCATGTGCATAGCATACATG
Found at i:58823624 original size:20 final size:20
Alignment explanation
Indices: 58823581--58823625 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
58823571 ATGAATACAT
**
58823581 CATGTGCATAGCATACATGT
1 CATGTGCATAGCATACATAC
*
58823601 CATGTGCATATCATACATAC
1 CATGTGCATAGCATACATAC
58823621 CATGT
1 CATGT
58823626 TTACTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (20 bp):
CATGTGCATAGCATACATAC
Found at i:58825809 original size:29 final size:29
Alignment explanation
Indices: 58825775--58825848 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
58825765 TAATCAACCG
*
58825775 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
58825804 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
58825833 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
58825849 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:58828304 original size:79 final size:80
Alignment explanation
Indices: 58828144--58828368 Score: 255
Period size: 79 Copynumber: 2.8 Consensus size: 80
58828134 TTGAATGATG
* * * * * *
58828144 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCAAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCAAAGGCAT
58828207 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
*
58828224 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCAAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCAAAGGCA
*
58828285 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** * *
58828303 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCAAAGGCATTT
58828368 G
66 G
58828369 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
78 2 0.02
79 68 0.54
80 45 0.36
81 9 0.07
82 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCAAAGGCATTT
GTGCGAGATACTAAA
Found at i:58828333 original size:40 final size:40
Alignment explanation
Indices: 58828144--58828368 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
58828134 TTGAATGATG
* * * *
58828144 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
58828184 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
58828224 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
58828264 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58828303 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
58828344 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58828369 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58828390 original size:79 final size:79
Alignment explanation
Indices: 58828197--58828401 Score: 197
Period size: 79 Copynumber: 2.6 Consensus size: 79
58828187 GGACTAAGAT
** **
58828197 CCAAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC
1 CCAAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATAC
*
58828260 TAATTCCGGGCTAAGC
64 TAATACCGGGCTAAGC
** * *
58828276 CCAAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCAAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
58828340 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
58828356 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCAAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
58828402 TACATGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
78 5 0.05
79 79 0.73
80 24 0.22
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (79 bp):
CCAAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:58846377 original size:15 final size:15
Alignment explanation
Indices: 58846304--58846378 Score: 87
Period size: 15 Copynumber: 5.0 Consensus size: 15
58846294 TATGGTGTTG
* * *
58846304 TATCTAGGACTTCTG
1 TATCTTGGATTTCTT
58846319 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
58846334 TATCTTGGATTTCTC
1 TATCTTGGATTTCTT
* *
58846349 TATTTTGGACTTCTT
1 TATCTTGGATTTCTT
*
58846364 TATCTTGGTTTTCTT
1 TATCTTGGATTTCTT
58846379 GTTATCTATA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 50 1.00
ACGTcount: A:0.13, C:0.16, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:58852741 original size:14 final size:14
Alignment explanation
Indices: 58852722--58852752 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58852712 ATGATTGTTT
*
58852722 TAATCTAAATTTAC
1 TAATCTAAATTAAC
58852736 TAATCTAAATTAAC
1 TAATCTAAATTAAC
58852750 TAA
1 TAA
58852753 GAATGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:58857504 original size:6 final size:6
Alignment explanation
Indices: 58857474--58857542 Score: 61
Period size: 6 Copynumber: 11.3 Consensus size: 6
58857464 AAGAAACATT
* * *
58857474 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGGCG AT-AGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
58857523 ATCAGA ATCATA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
58857543 TAGGTGGCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 3 0.06
6 42 0.84
7 3 0.06
8 2 0.04
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:58857532 original size:31 final size:31
Alignment explanation
Indices: 58857488--58857570 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 31
58857478 GAACTAGAAT
*
58857488 CAAAATGAGAATCAGAATCAGAATCAGGCGA
1 CAAAATCAGAATCAGAATCAGAATCAGGCGA
* * * * * *
58857519 TAGAATCAGAATCATAATCAGAATTAGGTGG
1 CAAAATCAGAATCAGAATCAGAATCAGGCGA
*
58857550 CAAAATCAGAATCAGTATCAG
1 CAAAATCAGAATCAGAATCAG
58857571 GTAACAGAAT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.19
Consensus pattern (31 bp):
CAAAATCAGAATCAGAATCAGAATCAGGCGA
Found at i:58857752 original size:27 final size:26
Alignment explanation
Indices: 58857710--58857817 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 26
58857700 AGCATGGCTG
* * *
58857710 CCAGAACAGATCTTGTGACAGAGTCA
1 CCAGAATAGATATTGTGACAGAGCCA
* *
58857736 CCAGATATAGATATTGTGGCAGAGCCT
1 CCAGA-ATAGATATTGTGACAGAGCCA
* * *
58857763 CCAGAATAGATATTTATGGCATAGCCA
1 CCAGAATAGATA-TTGTGACAGAGCCA
* * *
58857790 CCAGAAATAGATAATGTGGCAAAGCCA
1 CCAG-AATAGATATTGTGACAGAGCCA
58857817 C
1 C
58857818 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 12 0.18
27 48 0.71
28 8 0.12
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (26 bp):
CCAGAATAGATATTGTGACAGAGCCA
Found at i:58858004 original size:22 final size:22
Alignment explanation
Indices: 58857976--58858040 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
58857966 GCAAATACGT
*
58857976 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
58857998 TTGGCACAGAGTCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
58858020 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
58858041 AATAATTGGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:58858458 original size:27 final size:27
Alignment explanation
Indices: 58858428--58858569 Score: 203
Period size: 27 Copynumber: 5.3 Consensus size: 27
58858418 GGGGCAAAAT
* * *
58858428 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58858455 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
58858482 GATATTTCTACCCTACAAGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58858509 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58858536 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
58858563 GGTAATT
1 GGTAATT
58858570 TTGTAAATCG
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:58858636 original size:26 final size:26
Alignment explanation
Indices: 58858617--58858857 Score: 145
Period size: 27 Copynumber: 9.0 Consensus size: 26
58858607 GGGTGCTTTG
* *
58858617 GTAATTTTAAAAGTCAGGGTAATTCA
1 GTAATTTTAAAAGTCAGGGTATTTTA
*
58858643 GTAATTTTACAAGTCGAGGGTATTTTA
1 GTAATTTTAAAAGTC-AGGGTATTTTA
* *
58858670 GTAATTTCACAAA-TCAGGGGTATTTTG
1 GTAATTTTA-AAAGTCA-GGGTATTTTA
* *
58858697 GTAATTTTACAAACT-AGGGTTATTTTTG
1 GTAATTTTA-AAAGTCAGGG-TA-TTTTA
* * *
58858725 GTAATTTTCAAACT-AGGGGTATTTTG
1 GTAATTTTAAAAGTCA-GGGTATTTTA
*
58858751 GTAATTTTATAAA-CCAAGGGTATTTTA
1 GTAATTTTA-AAAGTC-AGGGTATTTTA
* *
58858778 GTAATTTTACAAA-CCAAGGGTATTTTG
1 GTAATTTTA-AAAGTC-AGGGTATTTTA
* * *
58858805 GTAATTTTGTAAA-CCAAGGGTATTTTG
1 GTAATTTT-AAAAGTC-AGGGTATTTTA
*
58858832 GTAATTTTACAAA-CCAGGGGTATTTT
1 GTAATTTTA-AAAGTCA-GGGTATTTT
58858858 GGTGATTTGG
Statistics
Matches: 187, Mismatches: 15, Indels: 25
0.82 0.07 0.11
Matches are distributed among these distances:
26 32 0.17
27 135 0.72
28 20 0.11
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
GTAATTTTAAAAGTCAGGGTATTTTA
Found at i:58858672 original size:27 final size:27
Alignment explanation
Indices: 58858643--58858865 Score: 270
Period size: 27 Copynumber: 8.3 Consensus size: 27
58858633 GGGTAATTCA
** * *
58858643 GTAATTTTACAAGTCGAGGGTATTTTA
1 GTAATTTTACAAACCAAGGGTATTTTG
* * *
58858670 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
*
58858697 GTAATTTTACAAA-CTAGGGTTATTTTTG
1 GTAATTTTACAAACCAAGGG-TA-TTTTG
* *
58858725 GTAATTTT-CAAACTAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
* *
58858751 GTAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAACCAAGGGTATTTTG
58858778 GTAATTTTACAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
**
58858805 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
*
58858832 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTG
*
58858859 GTGATTT
1 GTAATTT
58858866 GGTAAACTAA
Statistics
Matches: 169, Mismatches: 23, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.10
27 136 0.80
28 16 0.09
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAACCAAGGGTATTTTG
Found at i:58860850 original size:6 final size:6
Alignment explanation
Indices: 58860820--58860888 Score: 70
Period size: 6 Copynumber: 11.3 Consensus size: 6
58860810 AAGAAACATT
* * *
58860820 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGGCG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
58860869 ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
58860889 TAGGTGGCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 2 0.04
6 45 0.87
7 4 0.08
8 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
ATCAGA
Found at i:58860878 original size:31 final size:31
Alignment explanation
Indices: 58860834--58860916 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
58860824 GAACTAGAAT
*
58860834 CAAAATGAGAATCAGAATCAGAATCAGGCGA
1 CAAAATCAGAATCAGAATCAGAATCAGGCGA
* * * *
58860865 CAGAATCAGAATCAGAATCAGAATTAGGTGG
1 CAAAATCAGAATCAGAATCAGAATCAGGCGA
* *
58860896 CAAAATTAGAATCAGTATCAG
1 CAAAATCAGAATCAGAATCAG
58860917 GTAACAGAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.18
Consensus pattern (31 bp):
CAAAATCAGAATCAGAATCAGAATCAGGCGA
Found at i:58860906 original size:25 final size:25
Alignment explanation
Indices: 58860878--58860933 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
58860868 AATCAGAATC
* **
58860878 AGAATCAGAATTAGGTGGCAAAATT
1 AGAATCAGAATCAGGTAACAAAATT
* *
58860903 AGAATCAGTATCAGGTAACAGAATT
1 AGAATCAGAATCAGGTAACAAAATT
58860928 AGAATC
1 AGAATC
58860934 GGCATGTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAAAATT
Found at i:58862965 original size:28 final size:28
Alignment explanation
Indices: 58862902--58862999 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
58862892 ATATTAAGTC
*
58862902 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
58862929 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58862957 CGCACACTTAGTGCTAAACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
58862986 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58863000 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58865278 original size:27 final size:27
Alignment explanation
Indices: 58865259--58865374 Score: 162
Period size: 27 Copynumber: 4.3 Consensus size: 27
58865249 GGGGCAAAAT
*
58865259 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
* *
58865286 GGTATTTCTACCCTACAAGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTA
*
58865313 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTA
*
58865340 GATAATTCTACCCTACAAGGGGTATTTTA
1 GGTAATTCTACCCTAC-AGGGGTA-TTTA
58865369 -GTAATT
1 GGTAATT
58865375 TCACAAATCA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
27 63 0.81
28 12 0.15
29 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTA
Found at i:58865323 original size:54 final size:56
Alignment explanation
Indices: 58865259--58865374 Score: 193
Period size: 54 Copynumber: 2.1 Consensus size: 56
58865249 GGGGCAAAAT
* *
58865259 GGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAA-GGGTA-TTTA
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGGTATTTTA
58865313 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGGTATTTTA
1 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGGTATTTTA
58865369 -GTAATT
1 GGTAATT
58865375 TCACAAATCA
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
54 43 0.74
55 11 0.19
56 4 0.07
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (56 bp):
GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGGTATTTTA
Found at i:58865480 original size:80 final size:81
Alignment explanation
Indices: 58865357--58865555 Score: 274
Period size: 80 Copynumber: 2.5 Consensus size: 81
58865347 CTACCCTACA
* * * * * *
58865357 AGGGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
*
58865422 GGTAATTTT-TAAACT
66 GGTAATTTTGTAAACC
* *
58865437 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
58865502 GGTAATTTTGTAAACC
66 GGTAATTTTGTAAACC
** * *
58865518 AATGGTATTTTGGTAATTTTAGAAACTAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
58865556 GGTGATTTGG
Statistics
Matches: 104, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 66 0.63
81 38 0.37
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
GGTAATTTTGTAAACC
Found at i:58865571 original size:27 final size:27
Alignment explanation
Indices: 58865357--58865563 Score: 247
Period size: 27 Copynumber: 7.7 Consensus size: 27
58865347 CTACCCTACA
* * *
58865357 AGGGGTATTTTAGTAATTTCACAAA-T
1 AGGGGTATTTTGGTAATTTTATAAACT
*
58865383 CAGGGGTATTTTGGTAATTTTACAAACT
1 -AGGGGTATTTTGGTAATTTTATAAACT
58865411 AGGGGTATTTTGGTAATTTT-TAAACT
1 AGGGGTATTTTGGTAATTTTATAAACT
*
58865437 AGGGGTATTTTGGTAATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTATAAACT
* * * *
58865464 AAGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACT
* * *
58865491 AAGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTATAAACT
** *
58865518 AATGGTATTTTGGTAATTTTAGAAACT
1 AGGGGTATTTTGGTAATTTTATAAACT
*
58865545 AGGGGTATTTTGGTGATTT
1 AGGGGTATTTTGGTAATTT
58865564 GGTAAACTGA
Statistics
Matches: 161, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
26 25 0.16
27 135 0.84
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.42
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTATAAACT
Found at i:58868066 original size:51 final size:51
Alignment explanation
Indices: 58867963--58868084 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 51
58867953 GATGCCCGGT
* ***
58867963 GCCTTGCACATAGTACCACCCTTGTAGTTAAAGCTACCCTTTTCACAAAGTG
1 GCCTT-CACATAGTACCACACTTGTAACCAAAGCTACCCTTTTCACAAAGTG
* * *
58868015 GCCTTCACATAGTACCACACTTGTAACCAAAGGTA-TCTTTTACACATAGTG
1 GCCTTCACATAGTACCACACTTGTAACCAAAGCTACCCTTTT-CACAAAGTG
* *
58868066 GCCTGCACTTAGTACCACA
1 GCCTTCACATAGTACCACA
58868085 TGTGTGATCG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
50 5 0.08
51 50 0.83
52 5 0.08
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (51 bp):
GCCTTCACATAGTACCACACTTGTAACCAAAGCTACCCTTTTCACAAAGTG
Found at i:58868237 original size:52 final size:50
Alignment explanation
Indices: 58868110--58868239 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 50
58868100 ATTGGGTACG
* * *
58868110 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTAGAAAA
* * * * *
58868160 CGTAGTATCTTGCACTTAGTACTACACACGTGACCTAAAGCCATTTTA-AAAA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT-AA-CCA-TCTAGAAAA
*
58868212 CATAGTAGCCTGCACGTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
58868240 TGTGTTCTCA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 31 0.48
51 2 0.03
52 29 0.45
53 3 0.05
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTAGAAAA
Found at i:58869773 original size:12 final size:11
Alignment explanation
Indices: 58869753--58869784 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
58869743 TATGTCTAAG
58869753 AAAATAAAAAT
1 AAAATAAAAAT
58869764 AAACATAAAAAT
1 AAA-ATAAAAAT
58869776 AAAATAAAA
1 AAAATAAAA
58869785 CAAATGGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:58872518 original size:37 final size:37
Alignment explanation
Indices: 58872468--58872543 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
58872458 AAAATAGCTA
58872468 TAAATCTCAAGGTTGTAATATAGCCTATTCACATGTT
1 TAAATCTCAAGGTTGTAATATAGCCTATTCACATGTT
58872505 TAAATCTCAAGGTTGTAATATAGCCTATTCACATGTT
1 TAAATCTCAAGGTTGTAATATAGCCTATTCACATGTT
58872542 TA
1 TA
58872544 CTCTATTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (37 bp):
TAAATCTCAAGGTTGTAATATAGCCTATTCACATGTT
Found at i:58876254 original size:24 final size:24
Alignment explanation
Indices: 58876204--58876257 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
58876194 AATCAAATTT
*
58876204 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
58876228 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
58876252 GCACAC
1 GCACAC
58876258 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:58883982 original size:24 final size:24
Alignment explanation
Indices: 58883932--58883985 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
58883922 AATCAAATTT
*
58883932 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
58883956 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
58883980 GCACAC
1 GCACAC
58883986 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:58885101 original size:49 final size:50
Alignment explanation
Indices: 58885027--58885155 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 50
58885017 ATCAAAGTCA
* * * *
58885027 ATGCCATGTCCCAAACAGGTTTTACACTGACTT-TCATATATCGAG-GCCG
1 ATGCCATGTCCTAGATAGGTCTTACACTGACTTCTCATATATCG-GTGCCG
** * * *
58885076 ATGCTGTGTCCTAGATAGGTCTTACACTG-GTTCTCATCTATCGGTGTCG
1 ATGCCATGTCCTAGATAGGTCTTACACTGACTTCTCATATATCGGTGCCG
58885125 ATGCCATGTCCTAGATAGGTCTTACACTGAC
1 ATGCCATGTCCTAGATAGGTCTTACACTGAC
58885156 AAACATCAAG
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
48 3 0.05
49 62 0.95
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (50 bp):
ATGCCATGTCCTAGATAGGTCTTACACTGACTTCTCATATATCGGTGCCG
Found at i:58885287 original size:48 final size:46
Alignment explanation
Indices: 58885161--58885301 Score: 158
Period size: 48 Copynumber: 3.0 Consensus size: 46
58885151 CTGACAAACA
* *
58885161 TCAAGCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATC
1 TCAAGCTGATGCCATGTCCCAGACAGGTCTTACACTAGC-TCT-CATC
* * *
58885209 TCGAGGTCGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCATC
1 TCAAGCT-GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATC
* **
58885255 TCAATGCTGATGCCATGTCCTAGACATGGTCTTACACTTTCTCTCAT
1 TCAA-GCTGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCAT
58885302 AATGTGGCCG
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
46 10 0.13
47 16 0.21
48 48 0.62
49 4 0.05
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (46 bp):
TCAAGCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATC
Found at i:58885319 original size:47 final size:45
Alignment explanation
Indices: 58885168--58885341 Score: 136
Period size: 48 Copynumber: 3.7 Consensus size: 45
58885158 ACATCAAGCT
* * * * * *
58885168 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGTC
1 GATG-CATGTCCCAGACATGTCTTACACTAGC-TCT-CA-CTCAATGCC
*
58885217 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCA-CTCAATGCC
* **
58885263 GATGCCATGTCCTAGACATGGTCTTACACTTTCTCTCA-T-AATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCACTCAA--T-GCC
* *
58885311 GATGCATGTCCCAGATATGTCTCACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
58885342 ACATATATCA
Statistics
Matches: 104, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.02
46 22 0.21
47 28 0.27
48 48 0.46
49 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCACTCAATGCC
Found at i:58890053 original size:18 final size:18
Alignment explanation
Indices: 58890030--58890068 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
58890020 TGTCAAACTA
*
58890030 GAGAACATCTTATGGGTC
1 GAGAACATCTTACGGGTC
58890048 GAGAACATCTTACGGGTC
1 GAGAACATCTTACGGGTC
58890066 GAG
1 GAG
58890069 TACTTTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (18 bp):
GAGAACATCTTACGGGTC
Found at i:58890149 original size:42 final size:42
Alignment explanation
Indices: 58890081--58890173 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
58890071 CTTTGTTTAC
* * *
58890081 TTGATGCCATAGTCCAACTATTGTCTTACACGAAGTCTCATA
1 TTGATGCCATAGTCCAACTATGGTCTTACACGAAATCACATA
*
58890123 TTGATGCCAT-GTCCCAGAC-ATGGTCTTACATGAAATCACATA
1 TTGATGCCATAGT-CCA-ACTATGGTCTTACACGAAATCACATA
*
58890165 TCGATGCCA
1 TTGATGCCA
58890174 ATGCCATATC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
41 2 0.05
42 40 0.91
43 2 0.05
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
TTGATGCCATAGTCCAACTATGGTCTTACACGAAATCACATA
Found at i:58890197 original size:48 final size:48
Alignment explanation
Indices: 58890126--58890402 Score: 446
Period size: 48 Copynumber: 5.8 Consensus size: 48
58890116 TCTCATATTG
**
58890126 ATGCCATGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * *
58890174 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATATAGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
58890222 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
58890270 ATGCCATGTCCCAGAGATGGTCTTAAATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * *
58890318 ATGCCATGTCCTATACATGGTCTTACATGGGATCACATATTGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* *
58890366 ATTCCATGTCCCAGACATGGTCTTACATGGAATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
58890403 ATGCCATAGT
Statistics
Matches: 210, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 210 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:58890444 original size:37 final size:37
Alignment explanation
Indices: 58890382--58890466 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
58890372 TGTCCCAGAC
* *
58890382 ATGGTCTTACATGGAATCACAATGCCATAGTCCAGCT
1 ATGGTCTTACATGGAATCACAATGCCATAGCCCAACT
** * *
58890419 ATGGTCTTACATGTCATTACGATGCCATAGCCCAACT
1 ATGGTCTTACATGGAATCACAATGCCATAGCCCAACT
58890456 ATGGTCTTACA
1 ATGGTCTTACA
58890467 CGTACTCACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (37 bp):
ATGGTCTTACATGGAATCACAATGCCATAGCCCAACT
Found at i:58895705 original size:48 final size:48
Alignment explanation
Indices: 58895571--58895711 Score: 210
Period size: 48 Copynumber: 2.9 Consensus size: 48
58895561 GAAGTCTCAT
* * *
58895571 ACCCTAAGTGCCGATATCATGGCCCGAAGCCAACTCAACGAATCTCGC
1 ACCCAAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGAATCTCGC
** *
58895619 ACCCAAAGTGCCAATATCATGGCTTGAAGCCAACTCAATGGATCTCGC
1 ACCCAAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGAATCTCGC
*
58895667 ACCCAAAGTGCCAATATCATGGCCCAAAGCCAACTCAATGTAATC
1 ACCCAAAGTGCCAATATCATGGCCCGAAGCCAACTCAATG-AATC
58895712 CCTAATGACA
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
48 79 0.96
49 3 0.04
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.18
Consensus pattern (48 bp):
ACCCAAAGTGCCAATATCATGGCCCGAAGCCAACTCAATGAATCTCGC
Found at i:58906098 original size:30 final size:29
Alignment explanation
Indices: 58906064--58906123 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
58906054 TCCTTAACTC
58906064 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTT-GAAAAATTACAATTTTGCCCCT
* * * *
58906094 AAACTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGAAAAATTACAATTTTGCCCCT
58906123 A
1 A
58906124 GGCTGGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (29 bp):
AAACTTTGAAAAATTACAATTTTGCCCCT
Found at i:58909362 original size:43 final size:43
Alignment explanation
Indices: 58909242--58909370 Score: 108
Period size: 43 Copynumber: 3.0 Consensus size: 43
58909232 CATAGGATTC
* *
58909242 CGATATGTGATTTTGA-GTAAGACCACAG-CTGGGAC-GTTGGCAT
1 CGATATGTGA-TTTAATGTAAGACCAC-GTTTGGGACAG-TGGCAT
* * *
58909285 CGATTTGTGATTTAAGTGTAAAACC-C-TGTCGGGACAGTGGCAT
1 CGATATGTGATTTAA-TGTAAGACCACGT-TTGGGACAGTGGCAT
*
58909328 CGATATGTGA-TTATATGTAAGACCACGTTTGGGACATTGGCAT
1 CGATATGTGATTTA-ATGTAAGACCACGTTTGGGACAGTGGCAT
58909371 TGTACGAGCC
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
42 15 0.22
43 45 0.65
44 9 0.13
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
CGATATGTGATTTAATGTAAGACCACGTTTGGGACAGTGGCAT
Found at i:58910511 original size:19 final size:18
Alignment explanation
Indices: 58910474--58910517 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
58910464 ATACATACAG
58910474 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
58910491 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
58910510 TACTAATT
1 TAATAATT
58910518 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:58911059 original size:13 final size:13
Alignment explanation
Indices: 58911037--58911069 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
58911027 AAGGATTTGT
58911037 TTAT-TAAACTAA
1 TTATCTAAACTAA
58911049 TTATCTAAACTAA
1 TTATCTAAACTAA
*
58911062 TTAACTAA
1 TTATCTAA
58911070 TTTAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:58915000 original size:20 final size:20
Alignment explanation
Indices: 58914972--58915037 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
58914962 TTTAAGCCTC
58914972 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
*
58914992 ACACACCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
*
58915012 ACACGCCCGTGTACTTTGGG
1 ACACGCCCGTGTGCTTTGGG
58915032 ACACGC
1 ACACGC
58915038 TCGTCCCTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.15, C:0.32, G:0.30, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTTGGG
Found at i:58916492 original size:43 final size:43
Alignment explanation
Indices: 58916431--58916515 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
58916421 TACATGAATC
* *
58916431 GCATCCACCATGAACTCGGACCTCTCAACGAGCTCAGATGCTT
1 GCATCCACAATGAACTCGGACCTCTCAACGAGCGCAGATGCTT
*
58916474 GCATCCATAATGAACTCGGACCTCTCAACGAGCGCAGATGCT
1 GCATCCACAATGAACTCGGACCTCTCAACGAGCGCAGATGCT
58916516 ACAAACTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (43 bp):
GCATCCACAATGAACTCGGACCTCTCAACGAGCGCAGATGCTT
Found at i:58920670 original size:39 final size:39
Alignment explanation
Indices: 58920533--58920670 Score: 206
Period size: 40 Copynumber: 3.5 Consensus size: 39
58920523 CGGATGATAA
*
58920533 CCGGGCTAAGTCCCGAAGGCATTTGTGCGACTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTACTATAT
58920573 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
58920613 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
*
58920653 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58920671 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
39 17 0.18
40 75 0.82
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:58925662 original size:18 final size:17
Alignment explanation
Indices: 58925639--58925681 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
58925629 ATTGATAACA
58925639 TATAAAAGTTTCTAAACT
1 TATAAAAGTTT-TAAACT
* *
58925657 TATAAAAATTTTCAACT
1 TATAAAAGTTTTAAACT
*
58925674 TTTAAAAG
1 TATAAAAG
58925682 GTCACACACT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (17 bp):
TATAAAAGTTTTAAACT
Found at i:58945988 original size:26 final size:25
Alignment explanation
Indices: 58945952--58946007 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 25
58945942 AAAATTCTTA
58945952 ATGAGTCTGTTCTCTAGAAAGATAG
1 ATGAGTCTGTTCTCTAGAAAGATAG
58945977 ATGAGTTCTGTTCTCTAGAAAGATAG
1 ATGAG-TCTGTTCTCTAGAAAGATAG
58946003 ATGAG
1 ATGAG
58946008 ACCATTATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (25 bp):
ATGAGTCTGTTCTCTAGAAAGATAG
Done.