Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 121 of 373
Found at i:39572052 original size:82 final size:81
Alignment explanation
Indices: 39571836--39572164 Score: 342
Period size: 81 Copynumber: 4.0 Consensus size: 81
39571826 GCGTAAATCA
* * * * * *** * *
39571836 GTCATTTTACCTTTTAGGGGTATTACTGTCATTTTGCCCTACAAGGGTATTACAGTCATTTTACC
1 GTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACC
*
39571901 CTACAA-GGGTATTTCG
65 TTACAAGGGGTATTTCG
* * ** *
39571917 ATCATTTTACCCTATTGGGTGCTTCGGTTATTTTACCCTATGGGGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTAT-GGGGGTATTTCGGTCATTTTACC
* *
39571982 TTACAAGGGGAATTTTG
65 TTACAAGGGGTATTTCG
* *
39571999 GTCAGTTTACCCTATGGGCGTATTTCGGTCATTTTACCCCATGGGGGTATTTCGGTCATTTTACA
1 GTCATTTTACCCTATGGG-GTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTAC-
39572064 C-TACAAGGGGTATTTCG
64 CTTACAAGGGGTATTTCG
*** * * * *
39572081 GTCATTTTATTTTATAGGGG-CTTTCGGTCATTTTACCCTATAGGGGTATTTTGGTCACTTTACC
1 GTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACC
39572145 TTACAAGGGGT-TTTCG
65 TTACAAGGGGTATTTCG
39572161 GTCA
1 GTCA
39572165 CCATTTTGGC
Statistics
Matches: 206, Mismatches: 36, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
80 28 0.14
81 84 0.41
82 71 0.34
83 23 0.11
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCT
TACAAGGGGTATTTCG
Found at i:39572154 original size:54 final size:54
Alignment explanation
Indices: 39571836--39572164 Score: 274
Period size: 54 Copynumber: 6.1 Consensus size: 54
39571826 GCGTAAATCA
* * * * * * * * *
39571836 GTCATTTTACCTTTTAGGGGTATTACTGTCATTTTGCCCTACAAGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTACAAGGGGATTTCG
* * * * ** *
39571890 GTCATTTTACCCTACAAGGGTATTTCGATCATTTTACCCTA-TTGGGTG-CTTCG
1 GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTACAAGGG-GATTTCG
* * *
39571943 GTTATTTTACCCTATGGGGGGTATTTCGGTCATTTTACCTTACAAGGGGAATTTTG
1 GTCATTTTACCCTAT-AGGGGTATTTCGGTCATTTTACCTTACAAGGGG-ATTTCG
* * *
39571999 GTCAGTTTACCCTAT-GGGCGTATTTCGGTCATTTTACC--CCATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGG-GTATTTCGGTCATTTTACCTTACA-AGGGG-ATTTCG
* * ** * *
39572053 GTCATTTTACACTACAAGGGGTATTTCGGTCATTTTATTTTA-TAGGGGCTTTCG
1 GTCATTTTACCCTA-TAGGGGTATTTCGGTCATTTTACCTTACAAGGGGATTTCG
* * *
39572107 GTCATTTTACCCTATAGGGGTATTTTGGTCACTTTACCTTACAAGGGGTTTTCG
1 GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTACAAGGGGATTTCG
39572161 GTCA
1 GTCA
39572165 CCATTTTGGC
Statistics
Matches: 216, Mismatches: 47, Indels: 24
0.75 0.16 0.08
Matches are distributed among these distances:
53 42 0.19
54 112 0.52
55 43 0.20
56 19 0.09
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCTTACAAGGGGATTTCG
Found at i:39576858 original size:17 final size:17
Alignment explanation
Indices: 39576836--39576871 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
39576826 ATTTGAAAGA
39576836 TTGTGTGTTTGAGTTGT
1 TTGTGTGTTTGAGTTGT
39576853 TTGTGTGTTTGAGTTGT
1 TTGTGTGTTTGAGTTGT
39576870 TT
1 TT
39576872 TAATAGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.00, G:0.33, T:0.61
Consensus pattern (17 bp):
TTGTGTGTTTGAGTTGT
Found at i:39581655 original size:40 final size:40
Alignment explanation
Indices: 39581618--39581801 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
39581608 GCTACTCGTT
*
39581618 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * **
39581658 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGTG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
39581698 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
39581737 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
39581778 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
39581802 ACATCATTCA
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 73 0.62
41 14 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:39581729 original size:79 final size:79
Alignment explanation
Indices: 39581585--39581765 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
39581575 AAATCACGTA
* * *
39581585 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCTACTCGTGCAAATGCCTTCGGGACATAGCCCGGATATAGT
*
39581650 AACTCGCACAATTG
66 AACTCGCACAAATG
* * *
39581664 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTGCAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCGTGCAAATGCCTTCGGGACATAGCCCGGATA-T
*
39581726 AGTATCTCGCACAAATG
63 AGTAACTCGCACAAATG
* *
39581743 CCTTCGGATCTTAGTCCGGATAT
1 CCTTCGGAACTTA-ACCGGATAT
39581766 GGTCACTTAG
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 56 0.65
80 29 0.34
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGTGCAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:39589413 original size:40 final size:40
Alignment explanation
Indices: 39589376--39589566 Score: 167
Period size: 40 Copynumber: 4.8 Consensus size: 40
39589366 GGATATAGCT
* *
39589376 ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
39589416 ACTCGCACAATTGCCTTCGGGACTTAACCCGGATT-TAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
39589456 ACTCGTGCAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * * * * * *
39589495 TCTCGCACAAATTCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTA
* *
39589535 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGG
1 AC-TCGTACAAATGCCTTCGGGACTTAGCCCGG
39589567 ACATCATTCA
Statistics
Matches: 121, Mismatches: 22, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
38 2 0.02
39 28 0.23
40 77 0.64
41 14 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
ACTCGTACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:39589527 original size:79 final size:81
Alignment explanation
Indices: 39589360--39589567 Score: 218
Period size: 79 Copynumber: 2.6 Consensus size: 81
39589350 CCTTCAGAAT
* * *
39589360 TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGC
1 TTAACCCGGATATAG-TAACTCGTGCAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGC
39589422 ACAATTGCCTTCGGGAC
65 ACAATTGCCTTCGGGAC
* *
39589439 TTAACCCGGATTTAGTAACTCGTGCAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCA
1 TTAACCCGGATATAGTAACTCGTGCAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
39589502 CAAATT-CCTTC-GGATC
66 C-AATTGCCTTCGGGA-C
** * * *
39589518 TTAGTCCGGATATGGTCACT--TAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TTAACCCGGATATAGTAACTCGT-GCA-AATGCCTTCGGGACTTAGCCCGGA
39589568 CATCATTCAA
Statistics
Matches: 110, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
77 1 0.01
78 6 0.05
79 58 0.53
80 45 0.41
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
TTAACCCGGATATAGTAACTCGTGCAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
CAATTGCCTTCGGGAC
Found at i:39595970 original size:47 final size:47
Alignment explanation
Indices: 39595823--39596144 Score: 294
Period size: 47 Copynumber: 6.8 Consensus size: 47
39595813 GTTAAAATGT
** * *
39595823 CGATGCCATGTCCCGGACATGGTCTTACACTGCTCTCATACATT-GGTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGCTCACAT--ATTAAG-GC
* * *
39595872 CGATG-CATGTCCCAAACATGGTCTTACACTG-ACACATATACAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGCTCACATAT-TAAGGC
* *
39595918 CGATGCCATGTTCCAAACAT-GTCTTACACTGGCTCACATATTGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACT-GCTCACATATTAAGGC
* * * * * *
39595965 TGATGCCATGTCCCAAACATGGTCTTACACTACGCTCATAATAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGCTCACATATTAAGGC
* * *
39596012 CAATGCCATGTTCCAAACATGGTCTTACACTGCTCACATATTGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGCTCACATATTAAGGC
* * * * * * ** **
39596059 TGGTGCTATGTCCCAGACATGGTC-TACACTACTCTCATAACAATAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGCTCACATATTAAGGC
*
39596105 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
1 CGATGCCATGTCCCAAACATGGTCTTACACT-GCTCACAT
39596145 GTACCCTAAC
Statistics
Matches: 216, Mismatches: 49, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
45 2 0.01
46 51 0.24
47 111 0.51
48 47 0.22
49 5 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGCTCACATATTAAGGC
Found at i:39596126 original size:93 final size:93
Alignment explanation
Indices: 39595818--39596144 Score: 423
Period size: 94 Copynumber: 3.5 Consensus size: 93
39595808 AAAAGGTTAA
* * ** * *
39595818 AATGTCGATGCCATGTCCCGGACATGGTCTTACACT-GCTCTCATACATTG-GTGCCGATGCATG
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT--ATTGAG-GCTGATGCATG
*
39595881 TCCCAAACATGGTCTTACACTGA-CACATATAC
63 TCCCAAACATGGTCTTACACT-ACCTCATA-AC
39595913 AATGCCGATGCCATGTTCCAAACAT-GTCTTACACTGGCTCACATATTGAGGCTGATGCCATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCTGATG-CATGTC
*
39595977 CCAAACATGGTCTTACACTACGCTCATAAT
65 CCAAACATGGTCTTACACTAC-CTCATAAC
* *
39596007 AATGCCAATGCCATGTTCCAAACATGGTCTTACACT-GCTCACATATTGAGGCTGGTGCTATGTC
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCTGATGC-ATGTC
*
39596071 CCAGACATGGTC-TACACTACTCTCATAAC
65 CCAAACATGGTCTTACACTAC-CTCATAAC
*
39596100 AATACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACAT
39596145 GTACCCTAAC
Statistics
Matches: 209, Mismatches: 15, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
93 61 0.29
94 105 0.50
95 43 0.21
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (93 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCTGATGCATGTCC
CAAACATGGTCTTACACTACCTCATAAC
Found at i:39613391 original size:11 final size:11
Alignment explanation
Indices: 39613371--39613402 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
39613361 GATGCTTGTA
*
39613371 TAAGCCTATGC
1 TAAGCTTATGC
39613382 TAAGCTTATGC
1 TAAGCTTATGC
39613393 TAAGCTTATG
1 TAAGCTTATG
39613403 GTCTTGGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (11 bp):
TAAGCTTATGC
Found at i:39620898 original size:42 final size:43
Alignment explanation
Indices: 39620787--39620905 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
39620777 TATCGTACCA
* *
39620787 ATGCCATATCCCAGATATGGTCTTACA-TATAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGATAATCTCATATTG
* * * *
39620829 ATGCTAATAGCCCAGTTATGGTCTTACACGA-AGTCTCATATTG
1 ATGC-CATATCCCAGATATGGTCTTACACGATAATCTCATATTG
*
39620872 ATTCCATATCCCAGATATGGTCTTACACG-TAATC
1 ATGCCATATCCCAGATATGGTCTTACACGATAATC
39620906 CCAGTAACCT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
42 29 0.46
43 33 0.52
44 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (43 bp):
ATGCCATATCCCAGATATGGTCTTACACGATAATCTCATATTG
Found at i:39621510 original size:32 final size:32
Alignment explanation
Indices: 39621473--39621535 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
39621463 AAAAATTACT
*
39621473 TAGCAAAAGTAATTTATCAAATAATTAATATA
1 TAGCAAAAGTAATTTATCAAACAATTAATATA
39621505 TAGCAAAAGTAATTTATCAAACAATTAATAT
1 TAGCAAAAGTAATTTATCAAACAATTAATAT
39621536 GTATTTTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.33
Consensus pattern (32 bp):
TAGCAAAAGTAATTTATCAAACAATTAATATA
Found at i:39625043 original size:53 final size:53
Alignment explanation
Indices: 39624974--39625083 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 53
39624964 AGCATGGCTG
*
39624974 CCAGAACAAATAATGTGACAGAGTCACCAGAACAGATA-ATTGTGGCA-AGCCA
1 CCAGAACAAATAATGTGACAGAGCCACCAGAACAGATATA-TGTGGCATAGCCA
* * * *
39625026 CCAGAACAGATATATGTGGCAGAGCCACTAGATCAGATATATGTGGCATAGCCA
1 CCAGAACAAATA-ATGTGACAGAGCCACCAGAACAGATATATGTGGCATAGCCA
39625080 CCAG
1 CCAG
39625084 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
52 11 0.22
53 29 0.58
54 10 0.20
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (53 bp):
CCAGAACAAATAATGTGACAGAGCCACCAGAACAGATATATGTGGCATAGCCA
Found at i:39625062 original size:27 final size:27
Alignment explanation
Indices: 39624974--39625083 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
39624964 AGCATGGCTG
* * *
39624974 CCAGAACAAATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
39625000 CCAGAACAGATA-ATTGTGGCA-AGCCA
1 CCAGAACAGATATA-TGTGGCAGAGCCA
39625026 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
39625053 CTAGATCAGATATATGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
39625080 CCAG
1 CCAG
39625084 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 35 0.47
27 39 0.53
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:39626374 original size:26 final size:28
Alignment explanation
Indices: 39626321--39626375 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
39626311 GCTATAGAGA
**
39626321 AGAGAAGAAAAAGAAAAAGTTGATGGAG
1 AGAGAAGAAAAAGAAAAAGAAGATGGAG
*
39626349 AGAGGAGAAAAAG-AAAAGAAGA-GGAG
1 AGAGAAGAAAAAGAAAAAGAAGATGGAG
39626375 A
1 A
39626376 ATAGTCAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 7 0.29
28 12 0.50
ACGTcount: A:0.60, C:0.00, G:0.35, T:0.05
Consensus pattern (28 bp):
AGAGAAGAAAAAGAAAAAGAAGATGGAG
Found at i:39626551 original size:24 final size:24
Alignment explanation
Indices: 39626513--39626589 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
39626503 CCAACACCGT
*
39626513 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
39626537 TCTCCCTTATTAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
39626561 TCTCCCTTATCAGCTCCTAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
39626585 TCTCC
1 TCTCC
39626590 TGACAGCCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.21, C:0.40, G:0.04, T:0.35
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:39633252 original size:40 final size:39
Alignment explanation
Indices: 39633215--39633392 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
39633205 ATATCCGGAC
39633215 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
39633255 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
39633295 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
39633335 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
39633374 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
39633393 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:39633305 original size:80 final size:79
Alignment explanation
Indices: 39633221--39633392 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
39633211 GGACTAAGAT
*
39633221 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
39633285 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
39633301 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
39633366 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
39633380 CCGAAGGCATTTG
1 CCGAAGGCATTTG
39633393 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:39633410 original size:79 final size:80
Alignment explanation
Indices: 39633248--39633425 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
39633238 AGATACAAAT
* * * *
39633248 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
39633313 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
39633328 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
39633392 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
39633407 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
39633426 TACGTGATTG
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:39641201 original size:40 final size:40
Alignment explanation
Indices: 39641157--39641328 Score: 231
Period size: 40 Copynumber: 4.3 Consensus size: 40
39641147 GGACTAAGAT
*
39641157 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
39641197 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
39641237 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
39641277 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
39641316 CCGAAGGCATTTG
1 CCGAAGGCATTTG
39641329 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 33 0.28
40 82 0.69
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:39641346 original size:79 final size:80
Alignment explanation
Indices: 39641184--39641361 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
39641174 AGATACAAAT
* * * *
39641184 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
39641249 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
39641264 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
39641328 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
39641343 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
39641362 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:39643891 original size:26 final size:26
Alignment explanation
Indices: 39643862--39643946 Score: 116
Period size: 27 Copynumber: 3.2 Consensus size: 26
39643852 AGCATGGATG
* ** *
39643862 CCAGAACAGGTAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
39643888 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
39643915 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
39643942 CCAGA
1 CCAGA
39643947 TCAAATATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 12 0.23
27 40 0.75
28 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:39643954 original size:27 final size:27
Alignment explanation
Indices: 39643881--39643972 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
39643871 GTAATGTGAT
* *
39643881 AGAGTCACCAGAACAGATA-ATTGTGGC
1 AGAGCCACCAGAACAAATATA-TGTGGC
*
39643908 AGAGCCACCAGAACAGATATATGTGGC
1 AGAGCCACCAGAACAAATATATGTGGC
* *
39643935 AGAGCCACCAGATCAAATATATGTAGC
1 AGAGCCACCAGAACAAATATATGTGGC
* *
39643962 ATAGACACCAG
1 AGAGCCACCAG
39643973 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.16
Consensus pattern (27 bp):
AGAGCCACCAGAACAAATATATGTGGC
Found at i:39645501 original size:24 final size:24
Alignment explanation
Indices: 39645401--39645489 Score: 160
Period size: 24 Copynumber: 3.7 Consensus size: 24
39645391 CCAACACCAT
*
39645401 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
39645425 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
39645449 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
39645473 TCTCCCTTATCAACTCC
1 TCTCCCTTATCAGCTCC
39645490 AAAAACTTCT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.21, C:0.43, G:0.03, T:0.33
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:39645501 original size:48 final size:48
Alignment explanation
Indices: 39645400--39645501 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 48
39645390 ACCAACACCA
* * *
39645400 TTCTCCCTAATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATC
1 TTCTCCCTAATCAGCTCCTAAATCCTCTCCCTTATCAACTCCAAAAAC
* *
39645448 CTCTCCCTTATCAGCTCCTAAATCCTCTCCCTTATCAACTCCAAAAAC
1 TTCTCCCTAATCAGCTCCTAAATCCTCTCCCTTATCAACTCCAAAAAC
39645496 TTCTCC
1 TTCTCC
39645502 TGACAGCCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.24, C:0.41, G:0.03, T:0.32
Consensus pattern (48 bp):
TTCTCCCTAATCAGCTCCTAAATCCTCTCCCTTATCAACTCCAAAAAC
Found at i:39647557 original size:40 final size:40
Alignment explanation
Indices: 39647497--39647680 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
39647487 TATTCGAATG
* *
39647497 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * *
39647537 ATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * *
39647577 ATATCCGGGCTAAGACCCGAAGGCATTTGTCCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
39647617 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
39647657 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
39647681 CTTGTGCGAG
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 119 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:39659151 original size:23 final size:23
Alignment explanation
Indices: 39659121--39659167 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
39659111 AAAAAGCGTC
39659121 ACCTCTAGATGTTATTACTGGTA
1 ACCTCTAGATGTTATTACTGGTA
39659144 ACCTCTAGATGTTATTACTGGTA
1 ACCTCTAGATGTTATTACTGGTA
39659167 A
1 A
39659168 TTTTACTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (23 bp):
ACCTCTAGATGTTATTACTGGTA
Found at i:39675232 original size:13 final size:13
Alignment explanation
Indices: 39675214--39675248 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
39675204 CCGTGTGAGG
39675214 GACACGGGCCAAT
1 GACACGGGCCAAT
39675227 GACACGGGCCAAT
1 GACACGGGCCAAT
39675240 GACACGGGC
1 GACACGGGC
39675249 GTGTGTCCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.31, G:0.34, T:0.06
Consensus pattern (13 bp):
GACACGGGCCAAT
Found at i:39677629 original size:40 final size:40
Alignment explanation
Indices: 39677574--39677717 Score: 243
Period size: 40 Copynumber: 3.6 Consensus size: 40
39677564 CGGATGATAA
*
39677574 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
39677614 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* ***
39677654 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
39677694 CCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTT
39677718 AAGCGAGTAG
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:39677737 original size:80 final size:80
Alignment explanation
Indices: 39677574--39677737 Score: 240
Period size: 80 Copynumber: 2.0 Consensus size: 80
39677564 CGGATGATAA
* *** *
39677574 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAAACCGGGCTAAGTCCCGAAGGCATTTA
* *
39677639 TGCGAGTTACTATTT
66 AGCGAGTTACTATAT
*
39677654 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAACCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAAACCGGGCTAAGTCCCGAAGGCATTTA
39677719 AGCGAG-TAGCTATAT
66 AGCGAGTTA-CTATAT
39677734 CCGG
1 CCGG
39677738 CAAAACCCGA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
79 2 0.03
80 73 0.97
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTAAAACCGGGCTAAGTCCCGAAGGCATTTA
AGCGAGTTACTATAT
Found at i:39683087 original size:28 final size:27
Alignment explanation
Indices: 39683024--39683203 Score: 279
Period size: 27 Copynumber: 6.6 Consensus size: 27
39683014 ATATTAAGTC
* * *
39683024 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
39683051 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
39683079 CGCACACTTAGTGCTACTTAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
39683106 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
39683134 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
39683161 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
39683189 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39683204 GCACAATTTA
Statistics
Matches: 143, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
27 73 0.51
28 70 0.49
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:39683108 original size:55 final size:55
Alignment explanation
Indices: 39683024--39683203 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
39683014 ATATTAAGTC
* * *
39683024 CGCACACTCAGTGCTA-TATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACT-TAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
39683079 CGCACACTTAGTGCTACTTAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACTTAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* *
39683134 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACTTAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
39683189 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39683204 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 118 0.99
56 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACTTAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:39691134 original size:28 final size:27
Alignment explanation
Indices: 39691071--39691250 Score: 288
Period size: 27 Copynumber: 6.6 Consensus size: 27
39691061 ATATTAAGTC
* * *
39691071 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
39691098 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
39691126 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
39691153 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
39691181 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
39691208 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
39691236 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39691251 GCACAATTTA
Statistics
Matches: 145, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
27 74 0.51
28 71 0.49
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:39691155 original size:55 final size:55
Alignment explanation
Indices: 39691071--39691250 Score: 315
Period size: 55 Copynumber: 3.3 Consensus size: 55
39691061 ATATTAAGTC
* * * *
39691071 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
39691126 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
39691181 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
39691236 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39691251 GCACAATTTA
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 120 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:39706446 original size:42 final size:42
Alignment explanation
Indices: 39706400--39706480 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
39706390 TACAACTTGC
*
39706400 ATGTTAAGCATGCCGACTATGTTAACTATAAATTTGATTCGG
1 ATGTTAAGCATGCCGACTATGTTAACTATAAATCTGATTCGG
* *
39706442 ATGTTAAGCATGCCGACTATGTTGATTATAAATCTGATT
1 ATGTTAAGCATGCCGACTATGTTAACTATAAATCTGATT
39706481 GCATGTTCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (42 bp):
ATGTTAAGCATGCCGACTATGTTAACTATAAATCTGATTCGG
Found at i:39707846 original size:45 final size:45
Alignment explanation
Indices: 39707778--39707874 Score: 187
Period size: 45 Copynumber: 2.2 Consensus size: 45
39707768 TAAGAAATAA
39707778 TTAG-GATTTCCGAAATATGAATTATGTGTAAGACCGACTTTGTG
1 TTAGTGATTTCCGAAATATGAATTATGTGTAAGACCGACTTTGTG
39707822 TTAGTGATTTCCGAAATATGAATTATGTGTAAGACCGACTTTGTG
1 TTAGTGATTTCCGAAATATGAATTATGTGTAAGACCGACTTTGTG
39707867 TTAGTGAT
1 TTAGTGAT
39707875 ATTCGGGCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 4 0.08
45 48 0.92
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (45 bp):
TTAGTGATTTCCGAAATATGAATTATGTGTAAGACCGACTTTGTG
Found at i:39707930 original size:41 final size:41
Alignment explanation
Indices: 39707884--39708185 Score: 464
Period size: 41 Copynumber: 7.3 Consensus size: 41
39707874 TATTCGGGCT
*
39707884 TTATTGCCTAGCAGGTTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
39707925 TTATTGCCTAGCAGGCTTTGTGCCGATGTATTATATTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
39707966 TTATTGCCTAGCAGGCTTTGTGCCGGTGTTTTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
*
39708007 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
39708048 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
39708089 TTATTGCCTAGCAGGCTTTATATGTCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGC
* *
39708132 TTATTGCCTAGCAGACTCTGTGCCGGTGTATTATA-CTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGC
39708173 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
39708186 AATTTTATGT
Statistics
Matches: 242, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.01
41 201 0.83
42 3 0.01
43 36 0.15
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
Found at i:39710834 original size:42 final size:43
Alignment explanation
Indices: 39710788--39710909 Score: 115
Period size: 48 Copynumber: 2.7 Consensus size: 43
39710778 ACCACACATT
* *
39710788 GGTGCCATATCCCAGATATGGTCTTATACGAAG-CCTCGA-ATC
1 GGTGCCATGTCCCAGACATGGTCTTATACGAAGACCTC-ATATC
* *
39710830 GGTGCAGACGTCATGTCCCAGACATGGTCTTATACG-GGACTTCATATC
1 GGT---G-C--CATGTCCCAGACATGGTCTTATACGAAGACCTCATATC
*
39710878 GATGCCATGTCCCAGACATGGTCTTATACGAA
1 GGTGCCATGTCCCAGACATGGTCTTATACGAA
39710910 ATCACTTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
42 28 0.43
44 1 0.02
45 2 0.03
46 1 0.02
47 2 0.03
48 31 0.48
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (43 bp):
GGTGCCATGTCCCAGACATGGTCTTATACGAAGACCTCATATC
Found at i:39711480 original size:16 final size:16
Alignment explanation
Indices: 39711459--39711491 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
39711449 TTTTTATCAC
39711459 TCAATTTACTCCTTTT
1 TCAATTTACTCCTTTT
*
39711475 TCAATTTAGTCCTTTT
1 TCAATTTACTCCTTTT
39711491 T
1 T
39711492 AGGTGTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.03, T:0.58
Consensus pattern (16 bp):
TCAATTTACTCCTTTT
Found at i:39714598 original size:15 final size:15
Alignment explanation
Indices: 39714574--39714611 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
39714564 TGTAATGAAT
39714574 ACTG-AGTTGCCTCA
1 ACTGAAGTTGCCTCA
39714588 ACTGAAGTTGCCTCA
1 ACTGAAGTTGCCTCA
39714603 ACTGAAGTT
1 ACTGAAGTT
39714612 TGAATCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (15 bp):
ACTGAAGTTGCCTCA
Found at i:39721111 original size:28 final size:29
Alignment explanation
Indices: 39721072--39721140 Score: 124
Period size: 28 Copynumber: 2.4 Consensus size: 29
39721062 ATTTAAAAAC
39721072 ATAAAAACAAATATTAAAACAAGAAACAA
1 ATAAAAACAAATATTAAAACAAGAAACAA
39721101 A-AAAAACAAATATTAAAACAAGAAACAA
1 ATAAAAACAAATATTAAAACAAGAAACAA
39721129 ATAAAAA-AAATA
1 ATAAAAACAAATA
39721141 AGACTAAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
28 33 0.85
29 6 0.15
ACGTcount: A:0.75, C:0.09, G:0.03, T:0.13
Consensus pattern (29 bp):
ATAAAAACAAATATTAAAACAAGAAACAA
Found at i:39724146 original size:13 final size:13
Alignment explanation
Indices: 39724128--39724153 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39724118 ACTTTATGCA
39724128 AACAAATGGTTTT
1 AACAAATGGTTTT
39724141 AACAAATGGTTTT
1 AACAAATGGTTTT
39724154 TGGAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:39729723 original size:43 final size:43
Alignment explanation
Indices: 39729663--39729750 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 43
39729653 GTTGGGATAA
* *
39729663 TTTCATGAAATTATATCTTATTTTATTTTATTTTTTAAAAATT
1 TTTCATCAAATTATATCTTATTTTATTTTATTTTTAAAAAATT
39729706 TTTCATCAAA-TAGTATCTTATTTTATTTTATTTTTAAAAAATT
1 TTTCATCAAATTA-TATCTTATTTTATTTTATTTTTAAAAAATT
39729749 TT
1 TT
39729751 CTCTCTCTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 2 0.05
43 40 0.95
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (43 bp):
TTTCATCAAATTATATCTTATTTTATTTTATTTTTAAAAAATT
Found at i:39738228 original size:9 final size:9
Alignment explanation
Indices: 39738214--39738272 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
39738204 ATAAGTATAA
39738214 AATTAACCG
1 AATTAACCG
*
39738223 AATTAATCG
1 AATTAACCG
39738232 AATTAACCG
1 AATTAACCG
*
39738241 AATTACCCG
1 AATTAACCG
* *
39738250 AATTACCCA
1 AATTAACCG
39738259 AATTAACCG
1 AATTAACCG
39738268 AATTA
1 AATTA
39738273 TTTGTTTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:39738305 original size:6 final size:6
Alignment explanation
Indices: 39738294--39738339 Score: 74
Period size: 6 Copynumber: 7.3 Consensus size: 6
39738284 TTATATGTTC
39738294 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAGAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT--AT TTTTAT TTTTAT TT
39738340 ATTAAATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 32 0.84
8 6 0.16
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:39738350 original size:32 final size:31
Alignment explanation
Indices: 39738294--39738362 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
39738284 TTATATGTTC
** *
39738294 TTTTATTTTTATTTTTATTTTTATTTTTAGAT
1 TTTTATTTTTATTTTTATAATTATTTGTA-AT
39738326 TTTTATTTTTATTTATTA-AATTATTTGTAAT
1 TTTTATTTTTATTT-TTATAATTATTTGTAAT
39738357 TTTTAT
1 TTTTAT
39738363 GATTGGGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 8 0.24
32 22 0.67
33 3 0.09
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (31 bp):
TTTTATTTTTATTTTTATAATTATTTGTAAT
Found at i:39740162 original size:45 final size:44
Alignment explanation
Indices: 39740098--39740218 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 44
39740088 ATACATCCAT
*
39740098 ATGAACTCGGACCAACTCAATGAGCTCAGATGCTTCACATATATC
1 ATGAACTCGGACCAACTCAACGAGCTCAGATGC-TCACATATATC
* * * * *
39740143 ATGAACTTGGACCAACTCAACAAGTTCGGACTTCTCACATATATC
1 ATGAACTCGGACCAACTCAACGAGCTCAGA-TGCTCACATATATC
*
39740188 ATGAACTCGAACCAACTCAACGAGCTCAGAT
1 ATGAACTCGGACCAACTCAACGAGCTCAGAT
39740219 TTTCTAAATT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 1 0.02
45 61 0.95
46 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (44 bp):
ATGAACTCGGACCAACTCAACGAGCTCAGATGCTCACATATATC
Found at i:39742273 original size:10 final size:10
Alignment explanation
Indices: 39742260--39742343 Score: 52
Period size: 10 Copynumber: 8.7 Consensus size: 10
39742250 GAAAATATTA
*
39742260 AATATATTTT
1 AATATAATTT
39742270 AATATAATTT
1 AATATAATTT
39742280 AATATAA---
1 AATATAATTT
*
39742287 AATATAAAATT
1 AATAT-AATTT
* * *
39742298 ATTTTAATAT
1 AATATAATTT
*
39742308 AAAAT-ATTCT
1 AATATAATT-T
*
39742318 AA-ATATTTT
1 AATATAATTT
39742327 AATATAATTT
1 AATATAATTT
39742337 AATATAA
1 AATATAA
39742344 AAATAAAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
7 5 0.09
8 2 0.04
9 7 0.12
10 39 0.70
11 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (10 bp):
AATATAATTT
Found at i:39742282 original size:57 final size:55
Alignment explanation
Indices: 39742193--39742351 Score: 178
Period size: 57 Copynumber: 2.8 Consensus size: 55
39742183 TAAAAGATGG
** * * **
39742193 AGAAAATAAAAAAATATTTTAATATAAATTAATATAAAATATTATTTCTAAATTT-T
1 AGAAAATATTAAAATATTTTAATATAATTTAATATAAAATATAAAAT-T-AATTTAT
*
39742249 AGAAAATATTAAATATATTTTAATATAATTTAATATAAAATATAAAATTATTTTAAT
1 AGAAAATATTAAA-ATATTTTAATATAATTTAATATAAAATATAAAATTAATTT-AT
* *
39742306 ATAAAATATTCTAAATATTTTAATATAATTTAATATAAAA-ATAAAA
1 AGAAAATATT-AAAATATTTTAATATAATTTAATATAAAATATAAAA
39742352 AAATATTTTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
55 4 0.04
56 18 0.20
57 66 0.73
58 2 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (55 bp):
AGAAAATATTAAAATATTTTAATATAATTTAATATAAAATATAAAATTAATTTAT
Found at i:39742305 original size:23 final size:24
Alignment explanation
Indices: 39742277--39742333 Score: 82
Period size: 23 Copynumber: 2.4 Consensus size: 24
39742267 TTTAATATAA
39742277 TTTAATATAAAATA-T-AAAATTAT
1 TTTAATATAAAATATTCAAAA-TAT
*
39742300 TTTAATATAAAATATTCTAAATAT
1 TTTAATATAAAATATTCAAAATAT
39742324 TTTAATATAA
1 TTTAATATAA
39742334 TTTAATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 14 0.45
24 14 0.45
25 3 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTAATATAAAATATTCAAAATAT
Found at i:39742322 original size:16 final size:16
Alignment explanation
Indices: 39742286--39742323 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
39742276 ATTTAATATA
39742286 AAATATAAAATTATTT
1 AAATATAAAATTATTT
*
39742302 TAATATAAAA-TATTCT
1 AAATATAAAATTATT-T
39742318 AAATAT
1 AAATAT
39742324 TTTAATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATATAAAATTATTT
Found at i:39742342 original size:34 final size:33
Alignment explanation
Indices: 39742300--39742390 Score: 119
Period size: 34 Copynumber: 2.7 Consensus size: 33
39742290 ATAAAATTAT
39742300 TTTAATATAAAATATTCTAAATATTTTAATATAA
1 TTTAATATAAAATATT-TAAATATTTTAATATAA
*** *
39742334 TTTAATATAAAAATAAAAAAATATTTTAATATTA
1 TTTAATAT-AAAATATTTAAATATTTTAATATAA
*
39742368 TTTAATATAAAATACTTAAATAT
1 TTTAATATAAAATATTTAAATAT
39742391 AACTTAATAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 12 0.24
34 31 0.63
35 6 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (33 bp):
TTTAATATAAAATATTTAAATATTTTAATATAA
Found at i:39742389 original size:25 final size:25
Alignment explanation
Indices: 39742351--39742406 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
39742341 TAAAAATAAA
* * * *
39742351 AAAATATTTTAATATTATTTAATAT
1 AAAATACTTAAATATAACTTAATAT
39742376 AAAATACTTAAATATAACTTAATAT
1 AAAATACTTAAATATAACTTAATAT
39742401 AAAATA
1 AAAATA
39742407 TTATTTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAATACTTAAATATAACTTAATAT
Found at i:39742398 original size:59 final size:58
Alignment explanation
Indices: 39742270--39742404 Score: 164
Period size: 58 Copynumber: 2.3 Consensus size: 58
39742260 AATATATTTT
* * * * * *
39742270 AATATAATTTAATAT-AAAATATAAAATTATTTTAATATAAAATATTCTAAATATTTT
1 AATATAATTTAATATAAAAATAAAAAAATATTTTAATATAAAATAATATAAATACTTA
* **
39742327 AATATAATTTAATATAAAAATAAAAAAATATTTTAATATTATTTAATATAAAATACTTA
1 AATATAATTTAATATAAAAATAAAAAAATATTTTAATATAAAATAATAT-AAATACTTA
*
39742386 AATATAACTTAATATAAAA
1 AATATAATTTAATATAAAA
39742405 TATTATTTGA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
57 15 0.23
58 26 0.39
59 25 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (58 bp):
AATATAATTTAATATAAAAATAAAAAAATATTTTAATATAAAATAATATAAATACTTA
Found at i:39742418 original size:29 final size:28
Alignment explanation
Indices: 39742383--39742445 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
39742373 TATAAAATAC
* *
39742383 TTAAATATAACTTAATATAAAATATTAT
1 TTAAATATAACTTAATAGAAAATATAAT
*
39742411 TTGAAATATAATTTAATAGAAAATATAAT
1 TT-AAATATAACTTAATAGAAAATATAAT
39742440 TTAAAT
1 TTAAAT
39742446 TTTTTATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (28 bp):
TTAAATATAACTTAATAGAAAATATAAT
Found at i:39742796 original size:20 final size:20
Alignment explanation
Indices: 39742768--39742808 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
39742758 TTGTTGGTTT
*
39742768 AAATTAAAA-AAATTAATAAA
1 AAATAAAAAGAAATT-ATAAA
39742788 AAATAAAAAGAAATTATAAA
1 AAATAAAAAGAAATTATAAA
39742808 A
1 A
39742809 TCCAACTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATAAAAAGAAATTATAAA
Found at i:39750296 original size:17 final size:19
Alignment explanation
Indices: 39750274--39750308 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
39750264 CAAATGAATA
39750274 CTTTAT-TTAAA-AAAAAC
1 CTTTATCTTAAATAAAAAC
39750291 CTTTATCTTAAATAAAAA
1 CTTTATCTTAAATAAAAA
39750309 AAATTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
CTTTATCTTAAATAAAAAC
Found at i:39750877 original size:8 final size:8
Alignment explanation
Indices: 39750864--39750888 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
39750854 CAAATAAAAA
39750864 AGAAACAC
1 AGAAACAC
39750872 AGAAACAC
1 AGAAACAC
39750880 AGAAACAC
1 AGAAACAC
39750888 A
1 A
39750889 TAGCAACCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.24, G:0.12, T:0.00
Consensus pattern (8 bp):
AGAAACAC
Found at i:39759401 original size:20 final size:20
Alignment explanation
Indices: 39759378--39759449 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
39759368 ATTTATCACT
* * *
39759378 ATTTGTAAGGATTTATCGAA
1 ATTTCTAAGGTTTTATCAAA
* *
39759398 ATTTATAAAGTTTTATCAAA
1 ATTTCTAAGGTTTTATCAAA
39759418 ATTTCTAAGGTTTTATCAAA
1 ATTTCTAAGGTTTTATCAAA
39759438 ATTTCTAAGGTT
1 ATTTCTAAGGTT
39759450 ATACCCGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (20 bp):
ATTTCTAAGGTTTTATCAAA
Found at i:39759590 original size:44 final size:44
Alignment explanation
Indices: 39759527--39759636 Score: 202
Period size: 44 Copynumber: 2.5 Consensus size: 44
39759517 TATGTGTTTT
39759527 CGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTATGATTTA
39759571 CGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTATGATTTA
* *
39759615 CGTGTAAGACCATGTCTGGGAC
1 CGTGTAAGACCACGTTTGGGAC
39759637 ATCACATCGT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTATGATTTA
Found at i:39759672 original size:41 final size:43
Alignment explanation
Indices: 39759616--39759706 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 43
39759606 TATGATTTAC
*
39759616 GTGTAAGACCATGTCTGGGACA-TCACATCG-TATTTGATTTT
1 GTGTAAGACCATGTCTGGGACAGTCACATCGATATTTGATTAT
* **
39759657 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTAT
1 GTGTAAGACCATGTCTGGGACAGTCACATCGATATTTGATTAT
*
39759700 ATGTAAG
1 GTGTAAG
39759707 GCCACATCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 21 0.49
42 6 0.14
43 16 0.37
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGTCACATCGATATTTGATTAT
Found at i:39765979 original size:40 final size:40
Alignment explanation
Indices: 39765895--39766078 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
39765885 TTGAATGCTG
* * * *
39765895 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
39765934 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
39765975 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
39766015 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
39766055 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39766079 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:39766032 original size:80 final size:81
Alignment explanation
Indices: 39765895--39766075 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
39765885 TTGAATGCTG
* *
39765895 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
39765959 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
39765975 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
39766036 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
39766055 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
39766076 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:39767754 original size:39 final size:39
Alignment explanation
Indices: 39767700--39767777 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
39767690 TCTTAGTTTT
39767700 TAATCACCCTCTTCAAACAAAATATTTTTCTTTACCAAA
1 TAATCACCCTCTTCAAACAAAATATTTTTCTTTACCAAA
39767739 TAATCACCCTCTTCAAACAAAATATTTTTCTTTACCAAA
1 TAATCACCCTCTTCAAACAAAATATTTTTCTTTACCAAA
39767778 ATGTTTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (39 bp):
TAATCACCCTCTTCAAACAAAATATTTTTCTTTACCAAA
Found at i:39780683 original size:46 final size:45
Alignment explanation
Indices: 39780627--39780796 Score: 162
Period size: 46 Copynumber: 3.7 Consensus size: 45
39780617 TGGTTGAGCA
*
39780627 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAA-G
* ** * * * *
39780673 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTA-ACTAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACATATGGATGCGAAG
* **
39780718 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAA-G
* * *
39780766 CCCGAGCTCGTTGATTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
39780797 TTAGGGGCGG
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
45 1 0.01
46 61 0.63
47 34 0.35
48 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAAG
Found at i:39780785 original size:93 final size:93
Alignment explanation
Indices: 39780623--39780794 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
39780613 AGGATGGTTG
* *
39780623 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
*
39780688 TTGAGTTCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* ** * *
39780716 AGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAT
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
39780781 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
39780795 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:39782212 original size:48 final size:48
Alignment explanation
Indices: 39782137--39782364 Score: 261
Period size: 48 Copynumber: 4.9 Consensus size: 48
39782127 CACATGGTAG
* *
39782137 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *** *
39782185 GATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATTGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
39782233 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* **** * *
39782281 GATGCCGAT---A-G-CCCAG-CTATGGTCTTACACAAAATTATATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
* *
39782324 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATTGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
39782365 GCACATAACC
Statistics
Matches: 147, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 31 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 110 0.75
49 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:39782348 original size:91 final size:94
Alignment explanation
Indices: 39782137--39782364 Score: 293
Period size: 91 Copynumber: 2.4 Consensus size: 94
39782127 CACATGGTAG
* *
39782137 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAAT--CATGTC
* **** *
39782202 TCAGACATGGTCTTACATGGGATTGTAGATC
64 CCAGACATGGTCTTACACAAAATTATAGATC
*
39782233 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCGAT-A-G-CCC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATCATGTCCC
*
39782295 AG-CTATGGTCTTACACAAAATTATATATC
66 AGAC-ATGGTCTTACACAAAATTATAGATC
* *
39782324 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATTGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
39782365 GCACATAACC
Statistics
Matches: 119, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 62 0.52
92 1 0.01
93 1 0.01
96 54 0.45
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (94 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATCATGTCCC
AGACATGGTCTTACACAAAATTATAGATC
Found at i:39787769 original size:16 final size:16
Alignment explanation
Indices: 39787722--39787762 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
39787712 TAACCAAAAT
*
39787722 AAATTAGATTAAAATTA
1 AAATTA-ATTATAATTA
*
39787739 AAATTAATTATAATTT
1 AAATTAATTATAATTA
39787755 AAATTAAT
1 AAATTAAT
39787763 ATTAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
AAATTAATTATAATTA
Found at i:39791531 original size:46 final size:45
Alignment explanation
Indices: 39791435--39791643 Score: 199
Period size: 46 Copynumber: 4.5 Consensus size: 45
39791425 GTGCCAATGC
* * *
39791435 CATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCG-AGGCCGATG
*
39791480 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCCGATG
** ** * * *
39791526 CATGTCCTGGACATGTCTTACACTATCATTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGCCGATG
* * *
39791572 CCATGTCTCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCCGATG
39791620 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
39791644 AGCTCACATA
Statistics
Matches: 135, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 59 0.44
47 27 0.20
48 21 0.16
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCCGATG
Found at i:39791601 original size:94 final size:92
Alignment explanation
Indices: 39791435--39791644 Score: 234
Period size: 94 Copynumber: 2.3 Consensus size: 92
39791425 GTGCCAATGC
* * *
39791435 CATGTCCCAGACATGGTCTTACACTGA-CA--CATCTC-GTAGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACAT-GTCTTACACT-ATCATTCGTCTCAAT-GCCGATGCATGTCCCAGACATGT
* *
39791496 CTTACACTGGCT-TACGT-CTCGAGGCCGATG
63 CTTACACTGGCTCT-CATAAT-GAGGCCGATG
** *
39791526 CATGTCCTGGACATGTCTTACACTATCATTCGTCTCAATGCCGATGCCATGTCTCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTATCATTCGTCTCAATGCCGATG-CATGTCCCAGACAT-GTC
*
39791591 TTACACTGGCTCTCATAATGTGGCCGATG
64 TTACACTGGCTCTCATAATGAGGCCGATG
39791620 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
39791645 GCTCACATAA
Statistics
Matches: 100, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
89 1 0.01
90 12 0.12
91 12 0.12
92 11 0.11
93 14 0.14
94 48 0.48
95 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTATCATTCGTCTCAATGCCGATGCATGTCCCAGACATGTCTT
ACACTGGCTCTCATAATGAGGCCGATG
Found at i:39791654 original size:46 final size:47
Alignment explanation
Indices: 39791375--39791654 Score: 181
Period size: 46 Copynumber: 6.0 Consensus size: 47
39791365 ATGGGGTCAG
* * * *
39791375 GTGCTGATGCCATGTCCCAGACATGGTCTTAAACAAGTTCTAGCATATAT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-A-CATA-AT
* * *
39791425 GTGCCAATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT
* * * * *
39791469 CGTAGCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGT-CT
1 -GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT
* ** * *
39791515 CGAGGCCGATG-CATGTCCTGGACAT-GTCTTACACTATCATTCGTC-TCAA-
1 -G-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC--TC-ACAT-AAT
* * *
39791564 -TGCCGATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCATAAT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT
39791610 GTGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACATAA
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAA
39791655 GTAACCCAAC
Statistics
Matches: 185, Mismatches: 29, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
44 11 0.06
45 21 0.11
46 73 0.39
47 26 0.14
48 21 0.11
49 2 0.01
50 31 0.17
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATAAT
Found at i:39793842 original size:42 final size:42
Alignment explanation
Indices: 39793734--39793854 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
39793724 AGCTCGTATA
* * * *
39793734 ATGCCAATGACCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCC-ATGTCCCAGAAATGGTCTTACACGAAATCAAATATCG
* * *
39793777 ATGCCACTATCCCA-AACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCA-TGTCCCAGAA-ATGGTCTTACACGAAATCAAATATCG
39793819 ATGCCGATGTCCCAGAAATGGTCTTACACGTAAATC
1 ATGCC-ATGTCCCAGAAATGGTCTTACACG-AAATC
39793855 TCAAGTCGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
42 27 0.42
43 37 0.58
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCATGTCCCAGAAATGGTCTTACACGAAATCAAATATCG
Found at i:39797933 original size:58 final size:60
Alignment explanation
Indices: 39797863--39797986 Score: 207
Period size: 59 Copynumber: 2.1 Consensus size: 60
39797853 AGCCCAATTA
39797863 TTTTAAGTATACATTTAGAAAA-AAAATTAAAATGATTTTTTGAGTATGTCAAATATAGG
1 TTTTAAGTATACATTTAGAAAAGAAAATTAAAATGATTTTTTGAGTATGTCAAATATAGG
* * *
39797922 TTTTAA-TATACATTTAGAAAAGAAATTTAAAATTATTTTTTGAGTGTGTCAAATATAGG
1 TTTTAAGTATACATTTAGAAAAGAAAATTAAAATGATTTTTTGAGTATGTCAAATATAGG
39797981 TTTTAA
1 TTTTAA
39797987 CTTTGTTTCT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 15 0.25
59 46 0.75
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (60 bp):
TTTTAAGTATACATTTAGAAAAGAAAATTAAAATGATTTTTTGAGTATGTCAAATATAGG
Found at i:39798605 original size:17 final size:17
Alignment explanation
Indices: 39798583--39798621 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
39798573 ATGTAATAAA
*
39798583 TATATTTATAATAAAAT
1 TATATTTAAAATAAAAT
39798600 TATA-TTAAAATAAAAT
1 TATATTTAAAATAAAAT
39798616 T-TATTT
1 TATATTT
39798622 TGGTTGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 14 0.70
17 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATTTAAAATAAAAT
Found at i:39801049 original size:58 final size:59
Alignment explanation
Indices: 39800926--39801058 Score: 171
Period size: 58 Copynumber: 2.2 Consensus size: 59
39800916 AAATTGAGTG
* * * * *
39800926 TTAAATTTATTTAATTTTTTATAATTTGAATTAAAATGATAAATTTTATAAATATTAAGGG
1 TTAAATTTA-TTATTTTTTTATAATTTAAATTAAAATGATAAA-TATATAAATATAAAGGA
*
39800987 TTAAATTTATTATTTTTTTAT-ATTTAAAATTAAATTGATAAA-ATATAAATATAAAGGA
1 TTAAATTTATTATTTTTTTATAATTT-AAATTAAAATGATAAATATATAAATATAAAGGA
39801045 TTAAATTTATTATT
1 TTAAATTTATTATT
39801059 AAAGCAATAA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
58 27 0.42
59 4 0.06
60 25 0.38
61 9 0.14
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (59 bp):
TTAAATTTATTATTTTTTTATAATTTAAATTAAAATGATAAATATATAAATATAAAGGA
Found at i:39809231 original size:44 final size:44
Alignment explanation
Indices: 39809168--39809258 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
39809158 CCACGGCTTT
*
39809168 AACTGTCTCGAAGCATAAGCAATTACTTTGCCTTCCTACGTTAA
1 AACTGTCTCGAAGCATAAGCAATTACTTTGCCTTCCTACATTAA
*
39809212 AACTGTCTTGAAGCATAAGCAATTACTTTGCCTTCCTACATTAA
1 AACTGTCTCGAAGCATAAGCAATTACTTTGCCTTCCTACATTAA
39809256 AAC
1 AAC
39809259 ACATCCCAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (44 bp):
AACTGTCTCGAAGCATAAGCAATTACTTTGCCTTCCTACATTAA
Found at i:39814061 original size:55 final size:55
Alignment explanation
Indices: 39813960--39814091 Score: 148
Period size: 55 Copynumber: 2.4 Consensus size: 55
39813950 GTGAATCTGT
*
39813960 CAAAACAACACGGGCGTGCGACACGACCGTGTCTAGAGGCCATGGTTGAA-ACTGA
1 CAAAACAACACGGGCGTGCGACACGACCGTGTCTAGAGCCCATGGTT-AAGACTGA
* * *
39814015 GAAAACAACACGGGCGTGCGACACG-CACGTG-CTTACTA-CCCGTGGTTAAGACTGA
1 CAAAACAACACGGGCGTGCGACACGAC-CGTGTC-TA-GAGCCCATGGTTAAGACTGA
*
39814070 CAAAACAACATGGGCGTG-GACA
1 CAAAACAACACGGGCGTGCGACA
39814092 TACATACACG
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
54 8 0.12
55 58 0.87
56 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.28, T:0.14
Consensus pattern (55 bp):
CAAAACAACACGGGCGTGCGACACGACCGTGTCTAGAGCCCATGGTTAAGACTGA
Found at i:39817254 original size:33 final size:33
Alignment explanation
Indices: 39817216--39817281 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
39817206 GCTATGTTTT
*
39817216 ATTTTTGATAGCTAGCCTATGTTACTTGACTTG
1 ATTTTTGATACCTAGCCTATGTTACTTGACTTG
39817249 ATTTTTGATACCTAGCCTATGTTACTTGACTTG
1 ATTTTTGATACCTAGCCTATGTTACTTGACTTG
39817282 TTCTTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (33 bp):
ATTTTTGATACCTAGCCTATGTTACTTGACTTG
Found at i:39817301 original size:4 final size:4
Alignment explanation
Indices: 39817294--39817324 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
39817284 CTTAAAAAAA
39817294 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
39817325 TTAGTAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:39821177 original size:26 final size:26
Alignment explanation
Indices: 39821148--39821200 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
39821138 CATTCCTTCA
39821148 TTTCACATTAATTATAAACATAAATG
1 TTTCACATTAATTATAAACATAAATG
*
39821174 TTTCACATTAATTATAAATATAAATG
1 TTTCACATTAATTATAAACATAAATG
39821200 T
1 T
39821201 GAAACTTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (26 bp):
TTTCACATTAATTATAAACATAAATG
Found at i:39824712 original size:20 final size:20
Alignment explanation
Indices: 39824687--39824733 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
39824677 ATATCTCGAT
*
39824687 TTGATTTTATTCTAATCAAA
1 TTGATTTGATTCTAATCAAA
* * *
39824707 TTGATTTGATTTTATTCACA
1 TTGATTTGATTCTAATCAAA
39824727 TTGATTT
1 TTGATTT
39824734 AAAGGCTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (20 bp):
TTGATTTGATTCTAATCAAA
Found at i:39825368 original size:17 final size:17
Alignment explanation
Indices: 39825346--39825379 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
39825336 ATTTGGATTA
39825346 AAAAATAGAAATCCAAT
1 AAAAATAGAAATCCAAT
39825363 AAAAATAGAAATCCAAT
1 AAAAATAGAAATCCAAT
39825380 TACTAACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATAGAAATCCAAT
Found at i:39825769 original size:25 final size:21
Alignment explanation
Indices: 39825722--39825763 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
39825712 ATGTTTTAAC
*
39825722 TAAAATATATTATTTAATATT
1 TAAAATTTATTATTTAATATT
39825743 TAAAATTTAGTTATTTTAATA
1 TAAAATTTA-TTA-TTTAATA
39825764 AGTTTAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 3 0.17
23 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TAAAATTTATTATTTAATATT
Found at i:39826696 original size:16 final size:17
Alignment explanation
Indices: 39826675--39826706 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39826665 AAAATTTAAA
39826675 TTTAA-TTATTAATTTT
1 TTTAATTTATTAATTTT
39826691 TTTAATTTATTAATTT
1 TTTAATTTATTAATTT
39826707 AATATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTAATTTATTAATTTT
Found at i:39826698 original size:36 final size:35
Alignment explanation
Indices: 39826616--39826698 Score: 80
Period size: 36 Copynumber: 2.4 Consensus size: 35
39826606 AGTTTGTTCT
** *
39826616 ATTTTTTTAA-TTGAAATTTATTTTTAAATTTTTA
1 ATTTTTTTAATTTGAAATTTAAATTTAAATTATTA
* **
39826650 CTTTTTCAAATTTCGAAAATTTAAATTT-AATTATTA
1 ATTTTTTTAATTT-G-AAATTTAAATTTAAATTATTA
39826686 ATTTTTTTAATTT
1 ATTTTTTTAATTT
39826699 ATTAATTTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
34 7 0.19
35 2 0.05
36 18 0.49
37 10 0.27
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (35 bp):
ATTTTTTTAATTTGAAATTTAAATTTAAATTATTA
Found at i:39829480 original size:17 final size:17
Alignment explanation
Indices: 39829458--39829491 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
39829448 ATATCATATC
39829458 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
39829475 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
39829492 GCATATCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATCATATCTAAGATT
Found at i:39829484 original size:5 final size:5
Alignment explanation
Indices: 39829442--39829467 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
39829432 TTCAAGATTG
39829442 CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT C
39829468 TAAGATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:39830495 original size:44 final size:44
Alignment explanation
Indices: 39830442--39830533 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
39830432 CGTTCAGGTA
* ** *
39830442 AGATGCAGAACAGGTAAGAAACAAATGCATAACATATTTGATAC
1 AGATACAGAACAAATAAGAAACAAATGCATAACATATCTGATAC
* * * * *
39830486 AGATACAGAACAAATTAGATATAGATGCATAACATATCTGATGC
1 AGATACAGAACAAATAAGAAACAAATGCATAACATATCTGATAC
39830530 AGAT
1 AGAT
39830534 GCAGTTTCCT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (44 bp):
AGATACAGAACAAATAAGAAACAAATGCATAACATATCTGATAC
Found at i:39830519 original size:22 final size:22
Alignment explanation
Indices: 39830466--39830536 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
39830456 TAAGAAACAA
* *
39830466 ATGCATAACATATTTGATACAG
1 ATGCATAACAAATTAGATACAG
* * *
39830488 ATACAGAACAAATTAGATATAG
1 ATGCATAACAAATTAGATACAG
* *
39830510 ATGCATAACATATCT-GATGCAG
1 ATGCATAACAAAT-TAGATACAG
39830532 ATGCA
1 ATGCA
39830537 GTTTCCTACC
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 37 0.97
23 1 0.03
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (22 bp):
ATGCATAACAAATTAGATACAG
Found at i:39831236 original size:63 final size:63
Alignment explanation
Indices: 39831179--39831323 Score: 186
Period size: 63 Copynumber: 2.3 Consensus size: 63
39831169 AAATAATAAC
*
39831179 TTACACGACCTGTACACATGCCCACGTCCTTGGCCCGTGTGACCTTAAATCACAAATAGTGAG
1 TTACACGACCTGTACACATGCCCACGTCCCTGGCCCGTGTGACCTTAAATCACAAATAGTGAG
* * * *** **
39831242 TTACATGACTTGGACACATGCCTGTGTCCCTGGCTTGTGTGA-CTCTAAATCACAAATAGTGAG
1 TTACACGACCTGTACACATGCCCACGTCCCTGGCCCGTGTGACCT-TAAATCACAAATAGTGAG
39831305 TTACACGACCTGT-CACATG
1 TTACACGACCTGTACACATG
39831324 ACTTGGCATG
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
62 8 0.12
63 61 0.88
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (63 bp):
TTACACGACCTGTACACATGCCCACGTCCCTGGCCCGTGTGACCTTAAATCACAAATAGTGAG
Found at i:39846900 original size:46 final size:46
Alignment explanation
Indices: 39846850--39847025 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
39846840 TGGTTGAGCA
39846850 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
39846896 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39846941 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* ** *
39846989 CCCGTGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39847026 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39847006 original size:93 final size:93
Alignment explanation
Indices: 39846847--39847017 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
39846837 GGATGGTTGA
* * **
39846847 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
39846912 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
**
39846940 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGTGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
39847005 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
39847018 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:39848449 original size:47 final size:47
Alignment explanation
Indices: 39848380--39848472 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
39848370 GCCAACACTT
*
39848380 AGGCTATTTTCCAAGCCTTTATGTTACTCCTAATCCCTTACAACCTC
1 AGGCTATTTTCCAAGCCTTTATGTTACTCATAATCCCTTACAACCTC
39848427 AGGCTATTTTCCAAGCCTTTATGTTACTCATAATCCCTTACAACCT
1 AGGCTATTTTCCAAGCCTTTATGTTACTCATAATCCCTTACAACCT
39848473 TGCACACATC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.37
Consensus pattern (47 bp):
AGGCTATTTTCCAAGCCTTTATGTTACTCATAATCCCTTACAACCTC
Found at i:39850096 original size:59 final size:59
Alignment explanation
Indices: 39850004--39850199 Score: 313
Period size: 59 Copynumber: 3.3 Consensus size: 59
39849994 AGTGCCACAG
* * *
39850004 ATCACAGAATTACATGCCTTTCAACGGGGCTACTCAAAAGCAC-CTGGACCCTAGCATGT
1 ATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACTC-GGACCCTAGCATGT
*
39850063 ATCACATATTCACATGCCTCTCAACGGGGCTACTCAAAAGCACTCGGACCCTAGCATGT
1 ATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACTCGGACCCTAGCATGT
* * *
39850122 ATCACATAATCACATGCCTCTTATCGGGGCTACTCAAAAGCACTCGGACCCTAGCATGC
1 ATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACTCGGACCCTAGCATGT
39850181 ATCACATAATCACATGCCT
1 ATCACATAATCACATGCCT
39850200 TACGTATCAA
Statistics
Matches: 128, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
59 127 0.99
60 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.22
Consensus pattern (59 bp):
ATCACATAATCACATGCCTCTCAACGGGGCTACTCAAAAGCACTCGGACCCTAGCATGT
Found at i:39859165 original size:11 final size:11
Alignment explanation
Indices: 39859149--39859173 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39859139 TGCAGGATAA
39859149 TGGTAAAATTT
1 TGGTAAAATTT
39859160 TGGTAAAATTT
1 TGGTAAAATTT
39859171 TGG
1 TGG
39859174 GTGAGAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (11 bp):
TGGTAAAATTT
Found at i:39862843 original size:51 final size:51
Alignment explanation
Indices: 39862759--39862857 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
39862749 ATGCTTCAAG
* *
39862759 ATAGCTAAAACCACATAAAAAGAGTTACCCGATACATGATCTTGAATTTGA
1 ATAGCTAAAACCACATAAAAAGAATTACCCGATACATGATCTTAAATTTGA
* *
39862810 ATAGCTAAAACCACATGAAAAGAATTACTCGATACATGATCTTAAATT
1 ATAGCTAAAACCACATAAAAAGAATTACCCGATACATGATCTTAAATT
39862858 GCCAGCCATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.26
Consensus pattern (51 bp):
ATAGCTAAAACCACATAAAAAGAATTACCCGATACATGATCTTAAATTTGA
Found at i:39867353 original size:40 final size:40
Alignment explanation
Indices: 39867259--39867403 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
39867249 TACTCGAATG
*
39867259 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
39867300 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
39867340 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
39867380 ATATCCGGGTTAAGACCCGTAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
39867404 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:39875408 original size:79 final size:82
Alignment explanation
Indices: 39875267--39875454 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 82
39875257 GTTATTCGAA
* *
39875267 TAATGTCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG
1 TAAT-TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG
39875331 GCATTTGTGCGAGTTAC-
65 GCATTTGTGCGAGTTACG
* * * **
39875348 TAATTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAG
1 TAATTCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAG
39875410 GCATTTGTGCGAGTTACTG
65 GCATTTGTGCGAGTTAC-G
*
39875429 TAA--CCGGGCTATGTCCCGAAGGCATT
1 TAATTCCGGGCTAAGTCCCGAAGGCATT
39875455 TGAACGAGTA
Statistics
Matches: 94, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 1 0.01
79 57 0.61
80 29 0.31
81 7 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
TAATTCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGG
CATTTGTGCGAGTTACG
Found at i:39875463 original size:40 final size:40
Alignment explanation
Indices: 39875272--39875456 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
39875262 TCGAATAATG
* * *
39875272 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTTA-A
*
39875312 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTAC-TAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTTAA
* *
39875351 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTTAA
*
39875391 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTGTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-TAA
*
39875432 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39875457 AACGAGTAGA
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 33 0.26
40 83 0.66
41 10 0.08
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTTAA
Found at i:39875478 original size:79 final size:78
Alignment explanation
Indices: 39875325--39875479 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 78
39875315 GGACTAAGAT
** *
39875325 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAA-TCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTAATAA
39875390 ATCCGGGTTAAGTC
65 ATCCGGGTTAAGTC
* *
39875404 CCGAAGGCATTTGTGCGAGTTACTGTAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGA
1 CCGAAGGCATTTGTGCGAGTTAC--TAATCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-A
*
39875467 TATATCC-GGTTAA
62 TAAATCCGGGTTAA
39875480 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
79 40 0.61
80 23 0.35
81 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTAATAAA
TCCGGGTTAAGTC
Found at i:39877186 original size:20 final size:20
Alignment explanation
Indices: 39877161--39877211 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
39877151 TTAAGGCTCC
39877161 ACACGCCCGTGTGGCTTGCG
1 ACACGCCCGTGTGGCTTGCG
*
39877181 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGCG
*
39877201 ACACGCTCGTG
1 ACACGCCCGTG
39877212 CCCTTAGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.12, C:0.33, G:0.35, T:0.20
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGCG
Found at i:39889896 original size:29 final size:28
Alignment explanation
Indices: 39889860--39889937 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
39889850 TCATGAGATT
39889860 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
39889890 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
39889917 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
39889938 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:39890155 original size:174 final size:174
Alignment explanation
Indices: 39889890--39890217 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
39889880 AAATTGTACA
*
39889890 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTACG
* *
39889955 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
39890020 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
39890064 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTACG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTACG
*
39890129 TGTGTGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
39890194 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
39890218 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTACG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:39892166 original size:32 final size:32
Alignment explanation
Indices: 39892122--39892184 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
39892112 TATAATATAA
39892122 ATATGTAAGTGATTGTTATCCTTTGATTTATT
1 ATATGTAAGTGATTGTTATCCTTTGATTTATT
* *
39892154 ATATGTATGTGATTGTTATTCTTTGATTTAT
1 ATATGTAAGTGATTGTTATCCTTTGATTTAT
39892185 GAATATATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.56
Consensus pattern (32 bp):
ATATGTAAGTGATTGTTATCCTTTGATTTATT
Found at i:39893707 original size:50 final size:50
Alignment explanation
Indices: 39893634--39893859 Score: 228
Period size: 50 Copynumber: 4.5 Consensus size: 50
39893624 TGAATACATG
* * *
39893634 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTATTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * * ** *
39893684 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * *
39893735 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * *
39893785 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GACTGTTAAGTCACA
39893834 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
39893860 TGCGTATCAG
Statistics
Matches: 150, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 35 0.23
50 72 0.48
51 34 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:39893808 original size:101 final size:98
Alignment explanation
Indices: 39893633--39893872 Score: 266
Period size: 101 Copynumber: 2.4 Consensus size: 98
39893623 GTGAATACAT
* * * *
39893633 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTATTAAGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TATGAAGTCACATGTGTAGTACTAAG
* * *
39893698 TGTAGGCTACTATGCGTACTCAATGACT-TCGATCAC
65 TGCAGGCTACTACGCGTA--C-AGGACTGTCGATCAC
* * *
39893734 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-ATGAAGTCACATGTGTAGTACTAAG
* * * * *
39893799 TGCAGGCTACTACGTGTACAGGATTGTTGGTCGC
65 TGCAGGCTACTACGCGTACAGGACTGTCGATCAC
* * *
39893833 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATA
39893873 GCTTCGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
98 4 0.03
99 42 0.36
100 1 0.01
101 71 0.60
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATATGAAGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGCGTACAGGACTGTCGATCAC
Found at i:39893989 original size:27 final size:26
Alignment explanation
Indices: 39893959--39894010 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
39893949 GGGAAAATCG
39893959 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
39893986 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
39894011 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:39901207 original size:50 final size:49
Alignment explanation
Indices: 39901132--39901306 Score: 244
Period size: 50 Copynumber: 3.5 Consensus size: 49
39901122 TGAATACACG
* *
39901132 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAGGTCGCA
* * * *
39901182 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTTAGGTCGCA
* *
39901232 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAGGTCGCA
39901281 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
39901307 TGCGTATCAG
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
49 31 0.28
50 78 0.71
51 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTAGGTCGCA
Found at i:39901314 original size:99 final size:100
Alignment explanation
Indices: 39901128--39901318 Score: 312
Period size: 99 Copynumber: 1.9 Consensus size: 100
39901118 ATTGTGAATA
*
39901128 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
*
39901193 AAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
66 AAGTGCAGGCTACTACGCGTATCAGATGGTGAGGT
* * * *
39901228 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGTT-GGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
*
39901292 AAGTGCAGGCTACTATGCGTATCAGAT
66 AAGTGCAGGCTACTACGCGTATCAGAT
39901319 AGCTGCGGCT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 42 0.50
100 42 0.50
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCGCATGTGTAGTACT
AAGTGCAGGCTACTACGCGTATCAGATGGTGAGGT
Found at i:39901437 original size:27 final size:26
Alignment explanation
Indices: 39901407--39901458 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
39901397 GGGAAAATCG
39901407 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
39901434 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
39901459 GTTTATGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:39904429 original size:25 final size:24
Alignment explanation
Indices: 39904360--39904443 Score: 73
Period size: 23 Copynumber: 3.5 Consensus size: 24
39904350 TTAGCTCGTA
* *
39904360 AGAGCTTATTGTTTTCAGCTC-AT
1 AGAGCTTACTGTTATCAGCTCAAT
**
39904383 CAGAGCTTACCATT-TCAGCTCAAT
1 -AGAGCTTACTGTTATCAGCTCAAT
* *
39904407 AGAGCTTATTGTTCATCAGCTCAAG
1 AGAGCTTACTGTT-ATCAGCTCAAT
39904432 AGGAGCTTACTG
1 A-GAGCTTACTG
39904444 ATCATAGCTC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
23 17 0.35
24 12 0.25
25 10 0.21
26 9 0.19
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (24 bp):
AGAGCTTACTGTTATCAGCTCAAT
Found at i:39904452 original size:25 final size:25
Alignment explanation
Indices: 39904397--39904453 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
39904387 GCTTACCATT
* * *
39904397 TCAGCTCAATAGAGCTTATTGTTCA
1 TCAGCTCAAGAGAGCTTACTGATCA
39904422 TCAGCTCAAGAGGAGCTTACTGATCA
1 TCAGCTCAAGA-GAGCTTACTGATCA
39904448 T-AGCTC
1 TCAGCTC
39904454 GGAATAGCGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (25 bp):
TCAGCTCAAGAGAGCTTACTGATCA
Found at i:39905851 original size:20 final size:20
Alignment explanation
Indices: 39905823--39905862 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
39905813 TGCTCTAGGG
* *
39905823 CATCGGATAATGAGACATGA
1 CATCAGATAACGAGACATGA
*
39905843 CATCAGATAACGATACATGA
1 CATCAGATAACGAGACATGA
39905863 AACTCCCACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (20 bp):
CATCAGATAACGAGACATGA
Found at i:39908207 original size:22 final size:19
Alignment explanation
Indices: 39908182--39908223 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
39908172 TGATAATCAT
39908182 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
39908204 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
39908223 T
1 T
39908224 CAATTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:39908885 original size:25 final size:25
Alignment explanation
Indices: 39908857--39908905 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
39908847 TTTTCTCCTA
*
39908857 AAATTTT-AATTTTATTTAATTATTT
1 AAATTTTCAA-TTTATTGAATTATTT
39908882 AAATTTTCAATTTATTGAATTATT
1 AAATTTTCAATTTATTGAATTATT
39908906 AATAGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
AAATTTTCAATTTATTGAATTATTT
Found at i:39918723 original size:28 final size:28
Alignment explanation
Indices: 39918692--39918760 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 28
39918682 AAAAAAAAAG
39918692 TTAAGAATGATGTTAATTTTTTTCGTAT
1 TTAAGAATGATGTTAATTTTTTTCGTAT
39918720 TTAAGAAGAATGATGTTAATTTTTTTCGTAT
1 TT---AAGAATGATGTTAATTTTTTTCGTAT
*
39918751 TTAAGTATGA
1 TTAAGAATGA
39918761 ATTTATGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 9 0.24
31 28 0.76
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.49
Consensus pattern (28 bp):
TTAAGAATGATGTTAATTTTTTTCGTAT
Found at i:39918732 original size:31 final size:31
Alignment explanation
Indices: 39918694--39918755 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
39918684 AAAAAAAGTT
39918694 AAGAATGATGTTAATTTTTTTCGTATTTAAG
1 AAGAATGATGTTAATTTTTTTCGTATTTAAG
39918725 AAGAATGATGTTAATTTTTTTCGTATTTAAG
1 AAGAATGATGTTAATTTTTTTCGTATTTAAG
39918756 TATGAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.48
Consensus pattern (31 bp):
AAGAATGATGTTAATTTTTTTCGTATTTAAG
Found at i:39920722 original size:79 final size:81
Alignment explanation
Indices: 39920586--39920768 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
39920576 TCGAATGATG
* *
39920586 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
39920650 TGTGCGAGTTAC-TAA
66 TGTGCGAGTTACGTAA
* * * **
39920665 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
39920727 TTTGTGCGAGTTACTGTAA
64 TTTGTGCGAGTTAC-GTAA
*
39920746 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39920769 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 29 0.32
81 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACGTAA
Found at i:39920777 original size:40 final size:40
Alignment explanation
Indices: 39920586--39920770 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
39920576 TCGAATGATG
* * *
39920586 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTTA-A
*
39920626 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTAC-TAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTTAA
* *
39920665 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTTAA
*
39920705 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTGTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-TAA
*
39920746 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39920771 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 33 0.26
40 83 0.66
41 10 0.08
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTTAA
Done.