Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 142 of 313
Found at i:45714240 original size:19 final size:20
Alignment explanation
Indices: 45714197--45714240 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
45714187 CAAAGGTGTT
* *
45714197 TTTTTTAATCTTTTATTTTG
1 TTTTTTAATCCTTTATTTTC
*
45714217 ATTTTT-ATCCTTTATTTTC
1 TTTTTTAATCCTTTATTTTC
45714236 TTTTT
1 TTTTT
45714241 GTAAAGAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTTTAATCCTTTATTTTC
Found at i:45715028 original size:3 final size:3
Alignment explanation
Indices: 45715020--45715070 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
45715010 TGTCATTAGA
* * * *
45715020 TAT TAT TAT TAT TAT TAT AAT AAT TAT TAT AAT TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45715068 TAT
1 TAT
45715071 GTTATAGTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:45715844 original size:107 final size:107
Alignment explanation
Indices: 45715617--45716029 Score: 578
Period size: 99 Copynumber: 3.9 Consensus size: 107
45715607 AAAATTCAAG
* * *
45715617 AGGATATTTGGCTATTTGGTTGAACAAGAAATCGAAACCCAGCACATTAGGGCAC-GTTCCTCGA
1 AGGATACTTAGCTATTTGGTTGAACAAGAAATCGAAACCCAGCACATTAGGGCACATTTCCTCGA
* * *
45715681 ATTTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
66 ATTTCCAAACGCAAAACATTGCCTCATTTTGAAATTTTTAAA
* *
45715723 AGGATATTTGGCTATTTGGTTGAACAAGAAATCGAAACCCAGCACATTAGGGCACATTTCCTCGA
1 AGGATACTTAGCTATTTGGTTGAACAAGAAATCGAAACCCAGCACATTAGGGCACATTTCCTCGA
45715788 ATTTCCAAACGCAAAACATTGCCTCATTTTGAAATTTTTAAA
66 ATTTCCAAACGCAAAACATTGCCTCATTTTGAAATTTTTAAA
*
45715830 AGGATACTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGG--CA------C
1 AGGATACTTAGCTATTTGGTTGAAC-A-AGAAATCGAAACCCAGCACATTAGGGCACATTTCCTC
*
45715887 G--TTTCCAAACGCAAAACAGTGCCTCATTTTGAAATTTTTAAA
64 GAATTTCCAAACGCAAAACATTGCCTCATTTTGAAATTTTTAAA
45715929 AGGATACTTAGCTATTTGGTTGAACAAGAAAAATCGAAACCCAGCACATTAGGGCACATTTCCTC
1 AGGATACTTAGCTATTTGGTTGAACAAG--AAATCGAAACCCAGCACATTAGGGCACATTTCCTC
* * * * *
45715994 GAATTTCCAAATGCTAAATATTACCTCATTTAGAAA
64 GAATTTCCAAACGCAAAACATTGCCTCATTTTGAAA
45716030 AATTTTCCTT
Statistics
Matches: 277, Mismatches: 15, Indels: 27
0.87 0.05 0.08
Matches are distributed among these distances:
97 1 0.00
98 1 0.00
99 89 0.32
101 4 0.01
106 55 0.20
107 74 0.27
108 1 0.00
109 52 0.19
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (107 bp):
AGGATACTTAGCTATTTGGTTGAACAAGAAATCGAAACCCAGCACATTAGGGCACATTTCCTCGA
ATTTCCAAACGCAAAACATTGCCTCATTTTGAAATTTTTAAA
Found at i:45718552 original size:27 final size:25
Alignment explanation
Indices: 45718515--45718571 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
45718505 TATATATATG
*
45718515 TATAAAAATTATGAAAATATGAAAATA
1 TATAAAAATTAT-AAAATAT-AAAAAA
* *
45718542 TATATAAATTATAAGATATAAAAAA
1 TATAAAAATTATAAAATATAAAAAA
45718567 TATAA
1 TATAA
45718572 GTATTTACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 9 0.35
26 6 0.23
27 11 0.42
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (25 bp):
TATAAAAATTATAAAATATAAAAAA
Found at i:45718965 original size:12 final size:12
Alignment explanation
Indices: 45718950--45719016 Score: 71
Period size: 12 Copynumber: 5.6 Consensus size: 12
45718940 AAGTGTAAAT
*
45718950 ATAATGATAGTA
1 ATAATAATAGTA
*
45718962 ATAATAATATTA
1 ATAATAATAGTA
* *
45718974 GTAATAATACTA
1 ATAATAATAGTA
45718986 ATAATAATAGTA
1 ATAATAATAGTA
** *
45718998 AGGATAATAATA
1 ATAATAATAGTA
45719010 ATAATAA
1 ATAATAA
45719017 CATTAAAATA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:45718968 original size:3 final size:3
Alignment explanation
Indices: 45718950--45719016 Score: 62
Period size: 3 Copynumber: 22.3 Consensus size: 3
45718940 AAGTGTAAAT
* * * * * *
45718950 ATA ATG ATA GTA ATA ATA ATA TTA GTA ATA ATA CTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
**
45718998 AGG ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
45719017 CATTAAAATA
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:45718989 original size:21 final size:21
Alignment explanation
Indices: 45718960--45719015 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
45718950 ATAATGATAG
* *
45718960 TAATAATAATATTAGTAATAA
1 TAATAATAATAATAGTAAGAA
* *
45718981 TACTAATAATAATAGTAAGGA
1 TAATAATAATAATAGTAAGAA
45719002 TAATAATAATAATA
1 TAATAATAATAATA
45719016 ACATTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (21 bp):
TAATAATAATAATAGTAAGAA
Found at i:45719702 original size:12 final size:12
Alignment explanation
Indices: 45719677--45719711 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
45719667 ATTAATAGTT
45719677 AAAAATG-TAAA
1 AAAAATGATAAA
*
45719688 AAAAATGATACA
1 AAAAATGATAAA
45719700 AAAAATGATAAA
1 AAAAATGATAAA
45719712 TAAAGGAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.17
Consensus pattern (12 bp):
AAAAATGATAAA
Found at i:45728624 original size:94 final size:94
Alignment explanation
Indices: 45728487--45728988 Score: 471
Period size: 94 Copynumber: 5.3 Consensus size: 94
45728477 TGAAGATACA
* * * * * * * *
45728487 AATCCTATATCCCTAAAGTTGCGGTGGATCATATTGAAGCTAC-AATTTCTATACCCTTGAAGTT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCT-TATACCCCTAAAGTT
* * *
45728551 GCAGTAGGTCGGAATGAAACTACTATAATG
65 GCAGTGGGTCGGAATGAATCTACTATAACG
* * * ** * *
45728581 AATCTTATGTCCCTAAAGTTGTAGTGGAGCAAATTGAAACTACAAATCCCATACCCTTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATACCCCTAAAGTTG
* * *
45728646 CAGTGGGTTGGATTGAATCTA-TCATAGCG
66 CAGTGGGTCGGAATGAATCTACT-ATAACG
* * *
45728675 AATCTTATCTCCCTGAAA-TTGCATTGGAGCATATTGAAGCTACAAAATCTTATTCCCCT-AAGT
1 AATCTTATCTCCCT-AAAGTTGCAGTGGAGCAAATTGAAGCTAC-AAATCTTATACCCCTAAAGT
* *
45728738 TGCAGTGGGTCGGATTGATTCTACTATAGA-G
64 TGCAGTGGGTCGGAATGAATCTACTATA-ACG
* * *
45728769 AATCTTTTCTCCCTGAAGTTGTAGT-GAGCAAATTGAAGCTACAAATCTTATACCCCTAAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATACCCCTAAAGTTG
** * * * *
45728833 TTGTGGATC-GAATTGATTTTACTATAGCG
66 CAGTGGGTCGGAA-TGAATCTACTATAACG
* *
45728862 AATCTTATCTCCTTAAAGTTGCAATGGAGCAAATTGAAGCTACAAATCTTATACCCCTAAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATACCCCTAAAGTTG
* * * * *
45728927 TAGTGGGTC-GAATTGAAACTACAACAAACA
66 CAGTGGGTCGGAA-TGAATCTACTA-TAACG
* * *
45728957 AATCTTATCTCCTTGAAGTTGCAATGGAGCAA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAA
45728989 GATGAAATTG
Statistics
Matches: 341, Mismatches: 55, Indels: 23
0.81 0.13 0.05
Matches are distributed among these distances:
92 16 0.05
93 64 0.19
94 210 0.62
95 51 0.15
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (94 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGCTACAAATCTTATACCCCTAAAGTTG
CAGTGGGTCGGAATGAATCTACTATAACG
Found at i:45728906 original size:187 final size:190
Alignment explanation
Indices: 45728487--45728948 Score: 537
Period size: 187 Copynumber: 2.5 Consensus size: 190
45728477 TGAAGATACA
* * ** * ** * *
45728487 AATCCTATATCCC-TAAAGTTGCGGTGGATCATATTGAAGCTACAATTTC-TATACCCTTGAAGT
1 AATCTTATCTCCCTTAAAGTTGCAATGGAGCATATTGAAGCTACAAAATCTTATACCCCTAAAGT
* * *
45728550 TGCAGTAGGTCGGAATGAAACTACTATAATGAATCTTATGTCCCTAAAGTTGTAGTGGAGCAAAT
66 TGCAGTGGGTCGGATTGAAACTACTATAATGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAAT
* * * * *
45728615 TGAAACTACAAATCCCATACCCTTGAAGTTGCAGTGGGTTGGATTGAATCTATCATAGCG
131 TGAAACTACAAATCCCATACCCCTAAAGTTGCAGTGGATCGAATTGAATCTATCATAGCG
* * *
45728675 AATCTTATCTCCCTGAAA-TTGCATTGGAGCATATTGAAGCTACAAAATCTTATTCCCCT-AAGT
1 AATCTTATCTCCCTTAAAGTTGCAATGGAGCATATTGAAGCTACAAAATCTTATACCCCTAAAGT
** * *
45728738 TGCAGTGGGTCGGATTGATTCTACTATAGA-GAATCTTTTCTCCCTGAAGTTGTAGT-GAGCAAA
66 TGCAGTGGGTCGGATTGAAACTACTATA-ATGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAA
* ** ** * *
45728801 TTGAAGCTACAAATCTTATACCCCTAAAGTTGTTGTGGATCGAATTGATTTTA-CTATAGCG
130 TTGAAACTACAAATCCCATACCCCTAAAGTTGCAGTGGATCGAATTGAATCTATC-ATAGCG
*
45728862 AATCTTATCT-CCTTAAAGTTGCAATGGAGCAAATTGAAGCTAC-AAATCTTATACCCCTAAAGT
1 AATCTTATCTCCCTTAAAGTTGCAATGGAGCATATTGAAGCTACAAAATCTTATACCCCTAAAGT
* *
45728925 TGTAGTGGGTCGAATTGAAACTAC
66 TGCAGTGGGTCGGATTGAAACTAC
45728949 AACAAACAAA
Statistics
Matches: 231, Mismatches: 37, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
186 21 0.09
187 111 0.48
188 88 0.38
189 11 0.05
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (190 bp):
AATCTTATCTCCCTTAAAGTTGCAATGGAGCATATTGAAGCTACAAAATCTTATACCCCTAAAGT
TGCAGTGGGTCGGATTGAAACTACTATAATGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAAT
TGAAACTACAAATCCCATACCCCTAAAGTTGCAGTGGATCGAATTGAATCTATCATAGCG
Found at i:45728925 original size:44 final size:44
Alignment explanation
Indices: 45728794--45728926 Score: 117
Period size: 50 Copynumber: 2.9 Consensus size: 44
45728784 AAGTTGTAGT
***
45728794 GAGCAAATTGAAGCTACAAATCTTATACCCCTAAAGTTGTTGTG
1 GAGCAAATTGAAGCTACAAATCTTATACCCCTAAAGTTGCAATG
* * * *
45728838 GATCGAATTGATTTTA-CTATAGCGAATCTTAT-CTCCTTAAAGTTGCAATG
1 GAGCAAATTGA----AGC--TA-CAAATCTTATAC-CCCTAAAGTTGCAATG
45728888 GAGCAAATTGAAGCTACAAATCTTATACCCCTAAAGTTG
1 GAGCAAATTGAAGCTACAAATCTTATACCCCTAAAGTTG
45728927 TAGTGGGTCG
Statistics
Matches: 68, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
44 28 0.41
45 3 0.04
46 1 0.01
47 2 0.03
48 1 0.01
49 3 0.04
50 30 0.44
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (44 bp):
GAGCAAATTGAAGCTACAAATCTTATACCCCTAAAGTTGCAATG
Found at i:45728941 original size:44 final size:44
Alignment explanation
Indices: 45728707--45728950 Score: 140
Period size: 44 Copynumber: 5.3 Consensus size: 44
45728697 ATTGGAGCAT
* * *
45728707 ATTGAAGCTACAAAATCTTATTCCCCT-AAGTTGCAGTGGGTCGG
1 ATTGAAGCTAC-AAATCTTATACCCCTAAAGTTGTAGTGGGTCGA
** * * * *
45728751 ATTGATTCTACTATAGAGAATCTT-TTCTCCCTGAAGTTGTAGTGAG-CAA
1 ATTGAAGCTAC-----A-AATCTTATAC-CCCTAAAGTTGTAGTGGGTCGA
* *
45728800 ATTGAAGCTACAAATCTTATACCCCTAAAGTTGTTGTGGATCGA
1 ATTGAAGCTACAAATCTTATACCCCTAAAGTTGTAGTGGGTCGA
* * * * *
45728844 ATTGATTTTA-CTATAGCGAATCTTAT-CTCCTTAAAGTTGCAATGGAG-CAA
1 ATTGA----AGC--TA-CAAATCTTATAC-CCCTAAAGTTGTAGTGG-GTCGA
45728894 ATTGAAGCTACAAATCTTATACCCCTAAAGTTGTAGTGGGTCGA
1 ATTGAAGCTACAAATCTTATACCCCTAAAGTTGTAGTGGGTCGA
*
45728938 ATTGAAACTACAA
1 ATTGAAGCTACAA
45728951 CAAACAAATC
Statistics
Matches: 151, Mismatches: 28, Indels: 42
0.68 0.13 0.19
Matches are distributed among these distances:
43 21 0.14
44 56 0.37
45 3 0.02
46 1 0.01
47 2 0.01
48 5 0.03
49 23 0.15
50 40 0.26
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (44 bp):
ATTGAAGCTACAAATCTTATACCCCTAAAGTTGTAGTGGGTCGA
Found at i:45730447 original size:16 final size:16
Alignment explanation
Indices: 45730427--45730460 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
45730417 TTTGCCCACT
45730427 TTTTTTTA-TTT-TCA
1 TTTTTTTATTTTATCA
45730441 TTTTTTTATTTTATCA
1 TTTTTTTATTTTATCA
45730457 TTTT
1 TTTT
45730461 GGGAACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 3 0.17
16 7 0.39
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTATTTTATCA
Found at i:45734387 original size:75 final size:75
Alignment explanation
Indices: 45734264--45734410 Score: 276
Period size: 75 Copynumber: 2.0 Consensus size: 75
45734254 CAAATTATAT
* *
45734264 GAACTAAATCCTAAATATGAGCATTGCAGAGGGATCAAAGCCATAATTGGATCTAAGTAATTTGG
1 GAACTAAATCCTAAACATGAGCATTGCAGAGGGATCAAAGCCATAATTGAATCTAAGTAATTTGG
45734329 AATGTAATAA
66 AATGTAATAA
45734339 GAACTAAATCCTAAACATGAGCATTGCAGAGGGATCAAAGCCATAATTGAATCTAAGTAATTTGG
1 GAACTAAATCCTAAACATGAGCATTGCAGAGGGATCAAAGCCATAATTGAATCTAAGTAATTTGG
45734404 AATGTAA
66 AATGTAA
45734411 CATGGATTGT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (75 bp):
GAACTAAATCCTAAACATGAGCATTGCAGAGGGATCAAAGCCATAATTGAATCTAAGTAATTTGG
AATGTAATAA
Found at i:45736181 original size:21 final size:23
Alignment explanation
Indices: 45736152--45736193 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
45736142 AAAATTATAG
45736152 TTTATTTTATAAAATT-TAAATT
1 TTTATTTTATAAAATTATAAATT
*
45736174 TTTA-TTTATAATATTATAAA
1 TTTATTTTATAAAATTATAAA
45736194 AAATTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTATTTTATAAAATTATAAATT
Found at i:45738690 original size:15 final size:15
Alignment explanation
Indices: 45738654--45738682 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45738644 AGGGTCGGGT
45738654 TATTATATAGTATTA
1 TATTATATAGTATTA
45738669 TATTATA-AGTATTA
1 TATTATATAGTATTA
45738683 ATTTTATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
TATTATATAGTATTA
Found at i:45739104 original size:15 final size:16
Alignment explanation
Indices: 45739084--45739130 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
45739074 TAAGATACCC
45739084 TTTTGAATTTATACT-
1 TTTTGAATTTATACTA
**
45739099 TTTTGAAGACTATA-TA
1 TTTTGAA-TTTATACTA
45739115 TTTTGAATTTATACTA
1 TTTTGAATTTATACTA
45739131 ACAAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (16 bp):
TTTTGAATTTATACTA
Found at i:45741765 original size:24 final size:24
Alignment explanation
Indices: 45741728--45741775 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
45741718 AAAGTAAAAT
*
45741728 AAAATATGTGATAATTATAAATTTA
1 AAAATAAGTGATAATT-TAAATTTA
*
45741753 AAAATAAGT-ATAATTTATATTTA
1 AAAATAAGTGATAATTTAAATTTA
45741776 CATTTATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (24 bp):
AAAATAAGTGATAATTTAAATTTA
Found at i:45744996 original size:29 final size:29
Alignment explanation
Indices: 45744964--45745023 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
45744954 TTTTCCAAAC
** *
45744964 ATGAATA-TATATATTTTTATTTTTTATAT
1 ATGAATACTATA-ATTTAAATTTTTTAAAT
45744993 ATGAATACTATAATTTAAATTTTTTAAAT
1 ATGAATACTATAATTTAAATTTTTTAAAT
45745022 AT
1 AT
45745024 ATTTAAGCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (29 bp):
ATGAATACTATAATTTAAATTTTTTAAAT
Found at i:45747795 original size:57 final size:57
Alignment explanation
Indices: 45747707--45747814 Score: 189
Period size: 57 Copynumber: 1.9 Consensus size: 57
45747697 ATGTTATCAG
* * *
45747707 TGAATTTAGTATGGGATGCTATCATGCCCAGCTGTGTAATGGTGTGCTTTGAAACAT
1 TGAATTTAATATGGGATGCTATCATGCCCAGCAGTGTAATGGTATGCTTTGAAACAT
45747764 TGAATTTAATATGGGATGCTATCATGCCCAGCAGTGTAATGGTATGCTTTG
1 TGAATTTAATATGGGATGCTATCATGCCCAGCAGTGTAATGGTATGCTTTG
45747815 CTTTGAATCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (57 bp):
TGAATTTAATATGGGATGCTATCATGCCCAGCAGTGTAATGGTATGCTTTGAAACAT
Found at i:45760315 original size:13 final size:13
Alignment explanation
Indices: 45760299--45760350 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
45760289 TTAATCCAAT
45760299 AATTTAAATAAAA
1 AATTTAAATAAAA
**
45760312 AATTTTAAATAATT
1 AA-TTTAAATAAAA
*
45760326 AACTTAAATAAAA
1 AATTTAAATAAAA
45760339 AATTTCAAATAA
1 AATTT-AAATAA
45760351 TTTAATAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 14 0.45
14 17 0.55
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (13 bp):
AATTTAAATAAAA
Found at i:45760322 original size:23 final size:23
Alignment explanation
Indices: 45760296--45760359 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 23
45760286 AAGTTAATCC
*
45760296 AATAATTTAAATAAAAAATTTTA
1 AATAATTTAAATAAAAAATTTCA
45760319 AATAATTAACTTAAATAAAAAATTTCA
1 AATAA-T---TTAAATAAAAAATTTCA
45760346 AATAATTT-AATAAA
1 AATAATTTAAATAAA
45760360 CATTTTGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 6 0.17
23 7 0.19
24 1 0.03
26 1 0.03
27 21 0.58
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (23 bp):
AATAATTTAAATAAAAAATTTCA
Found at i:45767717 original size:16 final size:16
Alignment explanation
Indices: 45767698--45767741 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
45767688 GTCCAACTTG
*
45767698 AACTTGAATTGACCCA
1 AACTTGAAATGACCCA
* *
45767714 AACTTAAAATGACCGA
1 AACTTGAAATGACCCA
45767730 AACTTGAAATGA
1 AACTTGAAATGA
45767742 TCTAAATCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (16 bp):
AACTTGAAATGACCCA
Found at i:45769287 original size:17 final size:17
Alignment explanation
Indices: 45769265--45769310 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
45769255 ATTGAACCAG
*
45769265 ATTTTTTAATTATTATT
1 ATTTTTTAATTATTAAT
*
45769282 ATTTTTTGAATTCTTAAT
1 ATTTTTT-AATTATTAAT
*
45769300 AATTTTTAATT
1 ATTTTTTAATT
45769311 GGACTAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTTTTTAATTATTAAT
Found at i:45771942 original size:22 final size:21
Alignment explanation
Indices: 45771891--45771943 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
45771881 TACACCTACT
45771891 TATATATATTTTTATATTATA
1 TATATATATTTTTATATTATA
* * *
45771912 TAATCTATATTTTTTTATTTTCA
1 T-ATATATATTTTTATATTAT-A
45771935 TATATATAT
1 TATATATAT
45771944 GTATATACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TATATATATTTTTATATTATA
Found at i:45772066 original size:87 final size:84
Alignment explanation
Indices: 45771959--45772117 Score: 189
Period size: 87 Copynumber: 1.8 Consensus size: 84
45771949 TACATACGTC
* *
45771959 TTTTTTATTTTATAATTTTAAGAA-ATATACATGCA-CACGTACGTTCTTATAATCT-GTACATA
1 TTTTTTATTTTATAATTTTAA-AACATATACATGCATC-CATACATT-TTATAATCTCG-ACATA
45772021 TATTTTATAAATCCTAAATGTAT
62 TATTTTATAAATCCTAAATGTAT
* * *
45772044 TTTTTTATGTTTTATCATTTTAAAACTATGTACATGCATCCATATATTTTATAATCTCGACATAT
1 TTTTTTA--TTTTATAATTTTAAAAC-ATATACATGCATCCATACATTTTATAATCTCGACATAT
45772109 ATTTTATAA
63 ATTTTATAA
45772118 TATATATATA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
85 7 0.11
86 2 0.03
87 37 0.59
88 16 0.25
89 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (84 bp):
TTTTTTATTTTATAATTTTAAAACATATACATGCATCCATACATTTTATAATCTCGACATATATT
TTATAAATCCTAAATGTAT
Found at i:45772733 original size:12 final size:12
Alignment explanation
Indices: 45772716--45772741 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45772706 GAGTTTTTTT
45772716 TTAAGGATCGTA
1 TTAAGGATCGTA
45772728 TTAAGGATCGTA
1 TTAAGGATCGTA
45772740 TT
1 TT
45772742 CTAAATTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (12 bp):
TTAAGGATCGTA
Found at i:45776123 original size:20 final size:20
Alignment explanation
Indices: 45776098--45776137 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45776088 CGTAAAATGA
*
45776098 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
45776118 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
45776138 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:45776127 original size:34 final size:35
Alignment explanation
Indices: 45776083--45776149 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
45776073 CATTAAAATG
*
45776083 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
45776117 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
45776150 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:45776153 original size:14 final size:15
Alignment explanation
Indices: 45776077--45776153 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
45776067 GATTGCCATT
* *
45776077 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
45776091 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
45776105 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
45776125 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
45776140 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
45776154 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:45776794 original size:18 final size:18
Alignment explanation
Indices: 45776773--45776811 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
45776763 GTTGTATCTT
45776773 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
45776791 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
45776809 TAA
1 TAA
45776812 AGTTGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:45777473 original size:14 final size:13
Alignment explanation
Indices: 45777444--45777470 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45777434 AGAAGGTAAG
45777444 ACAGATACTTAAA
1 ACAGATACTTAAA
45777457 ACAGATACTTAAA
1 ACAGATACTTAAA
45777470 A
1 A
45777471 ACATGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ACAGATACTTAAA
Found at i:45778501 original size:41 final size:41
Alignment explanation
Indices: 45778456--45778546 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
45778446 ACTGGCACTT
* *
45778456 AGCCTGCTAGACATATAGTTTGAAATATTTCACCGGCATTA
1 AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCAATA
* * * *
45778497 AGCCTGCTAGACATTTTGTCTGAAGTGTTTCACCGGCAATA
1 AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCAATA
45778538 AGCCTGCTA
1 AGCCTGCTA
45778547 AGCTCTAAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (41 bp):
AGCCTGCTAGACATATAGTCTGAAATATTTCACCGGCAATA
Found at i:45781199 original size:19 final size:19
Alignment explanation
Indices: 45781175--45781214 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
45781165 AAACCAAATC
45781175 AAGGGAGAACGAAAGGGAG
1 AAGGGAGAACGAAAGGGAG
*
45781194 AAGGGAGAACGAACGGGAG
1 AAGGGAGAACGAAAGGGAG
45781213 AA
1 AA
45781215 CGAAACCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.45, T:0.00
Consensus pattern (19 bp):
AAGGGAGAACGAAAGGGAG
Found at i:45788878 original size:22 final size:22
Alignment explanation
Indices: 45788838--45788879 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
45788828 ATTAAAACAA
*
45788838 TAATAATAAAATAGTAGCAACG
1 TAATAATAAAATAGCAGCAACG
* *
45788860 TAATAATGAAATTGCAGCAA
1 TAATAATAAAATAGCAGCAA
45788880 AGCAGTGAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (22 bp):
TAATAATAAAATAGCAGCAACG
Found at i:45790660 original size:30 final size:30
Alignment explanation
Indices: 45790626--45790690 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
45790616 TAGTTTATAT
*
45790626 TTTTA-TAATTTTTAAAATATTAAATTAAAA
1 TTTTATTAATTTTTAAAA-ATTAAAATAAAA
* * *
45790656 TTTTATTATTTTTTGAAAATTAAAATATAA
1 TTTTATTAATTTTTAAAAATTAAAATAAAA
45790686 TTTTA
1 TTTTA
45790691 CCATGTACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTTATTAATTTTTAAAAATTAAAATAAAA
Found at i:45798811 original size:56 final size:57
Alignment explanation
Indices: 45798670--45798811 Score: 223
Period size: 57 Copynumber: 2.5 Consensus size: 57
45798660 TGAAAACTCT
*
45798670 AAAGTTCAAGCCTCAATATGGGAATAATTAACTAGTTCAGGGGCTAACTTGAACAAA
1 AAAGTTCAAGCCTCAATATGGGAATAATTAACAAGTTCAGGGGCTAACTTGAACAAA
* *
45798727 AAAGTTTAAGCCTCAATATGGGAATAATTAACAAGTTTAGGGGCTAACTTGAAC-AA
1 AAAGTTCAAGCCTCAATATGGGAATAATTAACAAGTTCAGGGGCTAACTTGAACAAA
* * *
45798783 AAAGTTCAAGTCTCAATATAGGATTAATT
1 AAAGTTCAAGCCTCAATATGGGAATAATT
45798812 GCAAAGTTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
56 27 0.35
57 51 0.65
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.27
Consensus pattern (57 bp):
AAAGTTCAAGCCTCAATATGGGAATAATTAACAAGTTCAGGGGCTAACTTGAACAAA
Found at i:45798841 original size:56 final size:56
Alignment explanation
Indices: 45798670--45798841 Score: 175
Period size: 56 Copynumber: 3.1 Consensus size: 56
45798660 TGAAAACTCT
* * * * * *
45798670 AAAGTTCAAGCCTCAATATGGGAATAATTAACTAGTTCAGGGGCTAACTTGAACAAA
1 AAAGTTCAAGCCTCAATATAGGAATAATTAACAAGTTTAAGGACTAACTT-AAAAAA
* * * * * *
45798727 AAAGTTTAAGCCTCAATATGGGAATAATTAACAAGTTTAGGGGCTAACTTGAACAA
1 AAAGTTCAAGCCTCAATATAGGAATAATTAACAAGTTTAAGGACTAACTTAAAAAA
* * * *
45798783 AAAGTTCAAGTCTCAATATAGGATTAATT-GCAAAGTTTAAGGACTAATTTAAAAAA
1 AAAGTTCAAGCCTCAATATAGGAATAATTAAC-AAGTTTAAGGACTAACTTAAAAAA
45798839 AAA
1 AAA
45798842 TTAGACCCAA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
55 1 0.01
56 50 0.51
57 47 0.48
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (56 bp):
AAAGTTCAAGCCTCAATATAGGAATAATTAACAAGTTTAAGGACTAACTTAAAAAA
Found at i:45805707 original size:6 final size:6
Alignment explanation
Indices: 45805698--45805745 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
45805688 TAAGAAACCG
* * * *
45805698 AACTCG AACTCA AACTCA AACTGA AACCCA AATTCA AACTC- AACTCA
1 AACTCA AACTCA AACTCA AACTCA AACTCA AACTCA AACTCA AACTCA
45805745 A
1 A
45805746 TCATTTTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.48, C:0.31, G:0.04, T:0.17
Consensus pattern (6 bp):
AACTCA
Found at i:45808136 original size:4 final size:4
Alignment explanation
Indices: 45808127--45808182 Score: 103
Period size: 4 Copynumber: 14.0 Consensus size: 4
45808117 TATCAAATCA
*
45808127 GTAT GTAT GTAT GTAT GTAT GTAT ATAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
45808175 GTAT GTAT
1 GTAT GTAT
45808183 TTTTGCTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:45812039 original size:42 final size:42
Alignment explanation
Indices: 45811992--45812273 Score: 268
Period size: 42 Copynumber: 6.5 Consensus size: 42
45811982 GGCTTAGCGC
* *
45811992 CTAGCAGGCTTATTGCCAGTGAAACAATATCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* *
45812034 CTAGCAGGCTTAATGCCGGTGAAACAATTNGAGACATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCGGTGAAACAA-T------A--TCAGACTTTACGT
* * *
45812085 CTAGCAAGCTTAATGCCGGTGAAATAATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* *
45812127 CTAGCAGGCTTAATGCTGGTGAAACAATATCAAACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* * *
45812169 CTAGCAGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
* * * * *
45812210 CTAGCAGGC-TAAGTGCCGGTG-TACTGA-ATCAGGCTTTAAGC
1 CTAGCAGGCTTAA-TGCCGGTGAAAC-AATATCAGACTTTACGT
45812251 CTAGCAGGC-TAAGTGCCGGTGAA
1 CTAGCAGGCTTAA-TGCCGGTGAA
45812274 TCTGTTTAAA
Statistics
Matches: 201, Mismatches: 26, Indels: 26
0.79 0.10 0.10
Matches are distributed among these distances:
40 5 0.02
41 59 0.29
42 98 0.49
43 1 0.00
49 1 0.00
50 1 0.00
51 36 0.18
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGT
Found at i:45812135 original size:93 final size:83
Alignment explanation
Indices: 45812076--45812230 Score: 222
Period size: 83 Copynumber: 1.9 Consensus size: 83
45812066 GACATTTCAG
* *
45812076 ACTATATGTCTAGCAAGCTTAATGCCGGTGAAATAATTTCAGACTTTACGTCTAGCAGGCTTAAT
1 ACTATACGTCTAGCAGGCTTAATGCCGGTGAAA-AATTTCAGACTTTACGTCTAGCAGGCTTAAT
*
45812141 GCTGGTGAAACAATATCAA
65 GCCGGTGAAACAATATCAA
* * * *
45812160 ACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGACTATATGTCTAGCAGGC-TAAGT
1 ACTATACGTCTAGCAGGCTTAATGCCGGTGAAAAATTTCAGACTTTACGTCTAGCAGGCTTAA-T
45812224 GCCGGTG
65 GCCGGTG
45812231 TACTGAATCA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
82 3 0.05
83 30 0.48
84 30 0.48
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (83 bp):
ACTATACGTCTAGCAGGCTTAATGCCGGTGAAAAATTTCAGACTTTACGTCTAGCAGGCTTAATG
CCGGTGAAACAATATCAA
Found at i:45814252 original size:5 final size:5
Alignment explanation
Indices: 45814242--45814313 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
45814232 TGTTAAAAAA
* *
45814242 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
45814288 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
45814314 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:45814295 original size:19 final size:19
Alignment explanation
Indices: 45814271--45814313 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
45814261 ATTATGTTTT
45814271 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
45814290 TATATTATATTATATTATA
1 TATATTATATTATATTATA
45814309 TATAT
1 TATAT
45814314 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:45814338 original size:17 final size:17
Alignment explanation
Indices: 45814316--45814350 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45814306 ATATATATAC
*
45814316 ATAAAACAAAAGAAAGA
1 ATAAAAAAAAAGAAAGA
45814333 ATAAAAAAAAAGAAAGA
1 ATAAAAAAAAAGAAAGA
45814350 A
1 A
45814351 AAGAAACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.80, C:0.03, G:0.11, T:0.06
Consensus pattern (17 bp):
ATAAAAAAAAAGAAAGA
Found at i:45815660 original size:37 final size:36
Alignment explanation
Indices: 45815559--45815693 Score: 92
Period size: 39 Copynumber: 3.5 Consensus size: 36
45815549 CGACCTTGAG
45815559 TCGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGAT
1 TCGATGAGACACTGGGTGTCA-AC--TTACTTCGGAT--AT
** ** *
45815600 TCGATGAGGTACTGGGTACCAACTTACTTCGGCT-T
1 TCGATGAGACACTGGGTGTCAACTTACTTCGGATAT
* *
45815635 TGCCGATGAGACACTGGGTGTCAACTATTGCTTCGAACTAT
1 T--CGATGAGACACTGGGTGTCAAC--TTACTTCGGA-TAT
* *
45815676 CCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
45815694 CCATTCTGGT
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
35 2 0.03
37 18 0.24
38 10 0.14
39 23 0.31
40 3 0.04
41 18 0.24
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (36 bp):
TCGATGAGACACTGGGTGTCAACTTACTTCGGATAT
Found at i:45828258 original size:22 final size:22
Alignment explanation
Indices: 45828233--45828275 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
45828223 ACACCAAAAC
*
45828233 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
45828255 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
45828276 AGAGCCGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:45828506 original size:43 final size:43
Alignment explanation
Indices: 45828434--45828782 Score: 146
Period size: 43 Copynumber: 8.2 Consensus size: 43
45828424 AGAGTAAGAC
* * *
45828434 CTTTAGCGGCGCTTTAGTG-GAAGCGCCGCTAAAGACCCTGAT
1 CTTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGACCCTGAT
* * ** *
45828476 CTTTAGCGGCGTTTTTGGGAGAAGCGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGACCCTGAT
* * * *
45828519 CTTTAGCAGCGTTTTTATCTAAAAG-GCCGC-AATAGACCCTGAT
1 CTTTAGCGGCGTTTTT-GCGAGAAGCGCCGCTAA-AGACCCTGAT
* * * * * * * *
45828562 CTATAGCGGCGTTTATACCACAAACGCCACTAAAGAACCT-ATT
1 CTTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGACCCTGA-T
* * * * *
45828605 CTTTAGCGGCG-CTTTGACCACAAACGCCACTAAAGA-CCT-ATT
1 CTTTAGCGGCGTTTTTG-CGAGAAGCGCCGCTAAAGACCCTGA-T
** * * * *
45828647 CTTTAGCGGCGTTTTCCCCTA-AAACACCGC-AATAGACTCTGAT
1 CTTTAGCGGCGTTTT-TGCGAGAAGCGCCGCTAA-AGACCCTGAT
* * * * *
45828690 CTGTAGCGGCGCTTTCT-C-ACAAACGCCGCTAAAGACCATGAT
1 CTTTAGCGGCG-TTTTTGCGAGAAGCGCCGCTAAAGACCCTGAT
* * * * * * *
45828732 CTTTAGTGGTGCTTTTT-CCACAAACGCCGCTAAAGACCTTTAT
1 CTTTAGCGGCG-TTTTTGCGAGAAGCGCCGCTAAAGACCCTGAT
45828775 CTTTAGCG
1 CTTTAGCG
45828783 ACGCTTTAAC
Statistics
Matches: 242, Mismatches: 49, Indels: 31
0.75 0.15 0.10
Matches are distributed among these distances:
41 3 0.01
42 83 0.34
43 146 0.60
44 10 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGACCCTGAT
Found at i:45828657 original size:42 final size:42
Alignment explanation
Indices: 45828565--45828808 Score: 207
Period size: 43 Copynumber: 5.7 Consensus size: 42
45828555 CCCTGATCTA
45828565 TAGCGGCG-TTTATACCACAAACGCCACTAAAGAACCTATTCTT
1 TAGCGGCGCTTT-TACCACAAACGCCACTAAAG-ACCTATTCTT
*
45828608 TAGCGGCGCTTTGACCACAAACGCCACTAAAGACCTATTCTT
1 TAGCGGCGCTTTTACCACAAACGCCACTAAAGACCTATTCTT
* * * *
45828650 TAGCGGCG-TTTT-CCCCTAAAACACCGC-AATAGACTCTGA-TCTG
1 TAGCGGCGCTTTTACCAC--AAACGCCACTAA-AGAC-CT-ATTCTT
*
45828693 TAGCGGCGC-TTT-CTCACAAACGCCGCTAAAGACC-ATGATCTT
1 TAGCGGCGCTTTTAC-CACAAACGCCACTAAAGACCTAT--TCTT
* * * * *
45828735 TAGTGGTGCTTTTTCCACAAACGCCGCTAAAGACCTTTATCTT
1 TAGCGGCGCTTTTACCACAAACGCCACTAAAGACCTAT-TCTT
* * *
45828778 TAGCGACGCTTTAACCAAAAACGCCACTAAA
1 TAGCGGCGCTTTTACCACAAACGCCACTAAA
45828809 AAGGCCACCA
Statistics
Matches: 167, Mismatches: 19, Indels: 30
0.77 0.09 0.14
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 6 0.04
42 51 0.31
43 98 0.59
44 8 0.05
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (42 bp):
TAGCGGCGCTTTTACCACAAACGCCACTAAAGACCTATTCTT
Found at i:45828659 original size:128 final size:127
Alignment explanation
Indices: 45828518--45828782 Score: 320
Period size: 128 Copynumber: 2.1 Consensus size: 127
45828508 AAGATCAGGG
* * * ** *
45828518 TCTTTAGCAGCGTTTTTATCTAAAAGGCCGCAATAGACCCTGATCTATAGCGGCG-TTTATACCA
1 TCTTTAGCGGCGTTTTCACCTAAAACACCGCAATAGACCCTGATCTATAGCGGCGCTTTCT--CA
45828582 CAAACGCCACTAAAGAACC-TATTCTTTAGCGGCGCTTTGACCACAAACGCCACTAAAGACCTAT
64 CAAACGCCACTAAAG-ACCATA-TCTTTAGCGGCGCTTTGACCACAAACGCCACTAAAGACCTAT
45828646 -
127 A
* * *
45828646 TCTTTAGCGGCGTTTTCCCCTAAAACACCGCAATAGACTCTGATCTGTAGCGGCGCTTTCTCACA
1 TCTTTAGCGGCGTTTTCACCTAAAACACCGCAATAGACCCTGATCTATAGCGGCGCTTTCTCACA
* * * ** * *
45828711 AACGCCGCTAAAGACCATGATCTTTAGTGGTGCTTTTTCCACAAACGCCGCTAAAGACCTTTA
66 AACGCCACTAAAGACCAT-ATCTTTAGCGGCGCTTTGACCACAAACGCCACTAAAGACCTATA
45828774 TCTTTAGCG
1 TCTTTAGCG
45828783 ACGCTTTAAC
Statistics
Matches: 117, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
126 3 0.03
127 53 0.45
128 57 0.49
129 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (127 bp):
TCTTTAGCGGCGTTTTCACCTAAAACACCGCAATAGACCCTGATCTATAGCGGCGCTTTCTCACA
AACGCCACTAAAGACCATATCTTTAGCGGCGCTTTGACCACAAACGCCACTAAAGACCTATA
Found at i:45828782 original size:85 final size:82
Alignment explanation
Indices: 45828565--45828808 Score: 228
Period size: 85 Copynumber: 2.9 Consensus size: 82
45828555 CCCTGATCTA
* *
45828565 TAGCGGCGTTTATACCACAAACGCCACTAAAGAACCTAT-TCTTTAGCGGCGCTTTGACCACAAA
1 TAGCGGCGTTT-T-CCACAAACGCCGCTAAAG-ACCTTTATCTTTAGCGGCGCTTT-ACCACAAA
45828629 CGCCACTAAAGACCTATTCTT
62 CGCCACTAAAGACCTATTCTT
* * * *
45828650 TAGCGGCGTTTTCCCCTAAAACACCGC-AATAGA-CTCTGATCTGTAGCGGCGCTTT-CTCACAA
1 TAGCGGCGTTTTCCAC--AAACGCCGCTAA-AGACCT-TTATCTTTAGCGGCGCTTTAC-CACAA
*
45828712 ACGCCGCTAAAGACC-ATGATCTT
61 ACGCCACTAAAGACCTAT--TCTT
* * * *
45828735 TAGTGGTGCTTTTTCCACAAACGCCGCTAAAGACCTTTATCTTTAGCGACGCTTTAACCAAAAAC
1 TAG-CG-GCGTTTTCCACAAACGCCGCTAAAGACCTTTATCTTTAGCGGCGCTTT-ACCACAAAC
45828800 GCCACTAAA
63 GCCACTAAA
45828809 AAGGCCACCA
Statistics
Matches: 129, Mismatches: 16, Indels: 27
0.75 0.09 0.16
Matches are distributed among these distances:
83 8 0.06
84 23 0.18
85 69 0.53
86 19 0.15
87 10 0.08
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (82 bp):
TAGCGGCGTTTTCCACAAACGCCGCTAAAGACCTTTATCTTTAGCGGCGCTTTACCACAAACGCC
ACTAAAGACCTATTCTT
Found at i:45829191 original size:21 final size:21
Alignment explanation
Indices: 45829165--45829257 Score: 107
Period size: 21 Copynumber: 4.4 Consensus size: 21
45829155 TTTGACGCTG
45829165 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
*
45829186 CTCTGCTTCCCTCGTTTTAGC
1 CTCTGCTTCCCTCGCTTTAGC
**
45829207 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTTTAGC
* * * *
45829228 CTGTACTTCTCTCGCTGCT-GC
1 CTCTGCTTCCCTCGCT-TTAGC
45829249 CTCTGCTTC
1 CTCTGCTTC
45829258 TCTTGCTGTC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.04, C:0.42, G:0.16, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTTTAGC
Found at i:45829274 original size:21 final size:21
Alignment explanation
Indices: 45829208--45829277 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
45829198 CGTTTTAGCC
* * *
45829208 TCTGCTTCCCTCGCTGCAGCC
1 TCTGCTTCTCTCGCTGCTGCA
* * *
45829229 TGTACTTCTCTCGCTGCTGCC
1 TCTGCTTCTCTCGCTGCTGCA
*
45829250 TCTGCTTCTCTTGCTG-TCGCA
1 TCTGCTTCTCTCGCTGCT-GCA
45829271 TCTGCTT
1 TCTGCTT
45829278 TAAGCTGCTG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 1 0.03
21 39 0.98
ACGTcount: A:0.04, C:0.39, G:0.19, T:0.39
Consensus pattern (21 bp):
TCTGCTTCTCTCGCTGCTGCA
Found at i:45831640 original size:14 final size:14
Alignment explanation
Indices: 45831621--45831648 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45831611 GCCGATTGGT
45831621 TCTCCAAAACTTTG
1 TCTCCAAAACTTTG
45831635 TCTCCAAAACTTTG
1 TCTCCAAAACTTTG
45831649 GAACAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
TCTCCAAAACTTTG
Found at i:45834388 original size:9 final size:9
Alignment explanation
Indices: 45834371--45834622 Score: 116
Period size: 9 Copynumber: 30.2 Consensus size: 9
45834361 TAAGTATAAT
*
45834371 TAAGCTATG
1 TAAGTTATG
45834380 TAAGTTATG
1 TAAGTTATG
45834389 T-A-TTATG
1 TAAGTTATG
45834396 TAAGTTAT-
1 TAAGTTATG
*
45834404 TTA-TTATG
1 TAAGTTATG
* *
45834412 AAAATTATG
1 TAAGTTATG
*
45834421 TAAGTTGTG
1 TAAGTTATG
45834430 T-A-TTATG
1 TAAGTTATG
*
45834437 -AA--AAT-
1 TAAGTTATG
* *
45834442 TATGCTATG
1 TAAGTTATG
45834451 TAAGTTATG
1 TAAGTTATG
* *
45834460 TAAGTCATA
1 TAAGTTATG
45834469 TAAGTTATG
1 TAAGTTATG
45834478 T-A-TTATG
1 TAAGTTATG
45834485 TAAGTTATG
1 TAAGTTATG
45834494 TAAGTTAT-
1 TAAGTTATG
*
45834502 TTA-TTATG
1 TAAGTTATG
* * *
45834510 CAAATTAAG
1 TAAGTTATG
45834519 TAAGTTATG
1 TAAGTTATG
* *
45834528 TAATTTACG
1 TAAGTTATG
*
45834537 -AA-TAAT-
1 TAAGTTATG
***
45834543 TAAAAAAATG
1 T-AAGTTATG
45834553 TAAGTTATG
1 TAAGTTATG
45834562 TAAG-T-TG
1 TAAGTTATG
45834569 TAAGTTATG
1 TAAGTTATG
45834578 TAAGTTATG
1 TAAGTTATG
*
45834587 TATA-ATAT-
1 TA-AGTTATG
**
45834595 TAA-TTAAC
1 TAAGTTATG
45834603 TAAGTTATG
1 TAAGTTATG
*
45834612 TAATTTATG
1 TAAGTTATG
45834621 TA
1 TA
45834623 TAATATTAAT
Statistics
Matches: 183, Mismatches: 38, Indels: 44
0.69 0.14 0.17
Matches are distributed among these distances:
6 3 0.02
7 36 0.20
8 24 0.13
9 118 0.64
10 2 0.01
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:45834397 original size:16 final size:16
Alignment explanation
Indices: 45834376--45834495 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
45834366 ATAATTAAGC
45834376 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
45834392 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
45834408 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
45834417 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
45834433 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
45834447 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
45834465 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
45834481 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
45834496 AGTTATTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 11 0.14
15 2 0.03
16 45 0.56
17 1 0.01
18 12 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:45834418 original size:25 final size:25
Alignment explanation
Indices: 45834390--45834529 Score: 133
Period size: 25 Copynumber: 5.7 Consensus size: 25
45834380 TAAGTTATGT
*
45834390 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
45834415 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
45834440 ATTATGCTATG-TAAG--TTATGTAA
1 ATTATG-TAAGTTATGTATTATGAAA
* * * *
45834463 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
45834488 GTTATGTAAGTTATTTATTATGCAA
1 ATTATGTAAGTTATGTATTATGAAA
*
45834513 ATTAAGTAAGTTATGTA
1 ATTATGTAAGTTATGTA
45834530 ATTTACGAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
22 3 0.03
23 13 0.14
25 74 0.80
26 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:45834572 original size:16 final size:16
Alignment explanation
Indices: 45834551--45834583 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45834541 ATTAAAAAAA
45834551 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
45834567 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
45834583 T
1 T
45834584 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:45834578 original size:25 final size:25
Alignment explanation
Indices: 45834447--45834588 Score: 80
Period size: 25 Copynumber: 5.6 Consensus size: 25
45834437 AAAATTATGC
*
45834447 TATGTAAGTTATGTAAGTCATATAAGT
1 TATGTAAGTTATGTAAGT--TGTAAGT
45834474 TATGT-A-TTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAG-T-TGTAAGT
* * *
45834499 TAT-TTA-TTATGCAAATTAAGTAAGT
1 TATGTAAGTTATGTAAGTT--GTAAGT
* * * **
45834524 TATGTAATTTACGAATAA-TT-AAAAA
1 TATGTAAGTTATG--TAAGTTGTAAGT
*
45834549 AATGTAAGTTATGTAAGTTGTAAGT
1 TATGTAAGTTATGTAAGTTGTAAGT
45834574 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
45834589 TAATATTAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
23 4 0.04
24 4 0.04
25 64 0.72
26 4 0.04
27 9 0.10
28 2 0.02
29 2 0.02
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.42
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTGTAAGT
Found at i:45834588 original size:34 final size:33
Alignment explanation
Indices: 45834447--45834588 Score: 96
Period size: 34 Copynumber: 4.2 Consensus size: 33
45834437 AAAATTATGC
45834447 TATGTAAGTTATGTAAGTCATATAAGTTATGT--AT
1 TATGTAAGTTATGTAAGT--T-TAAGTTATGTAAAT
* *
45834481 TATGTAAGTTATGTAAGTTATTTA-TTATGCAAAT
1 TATGTAAGTTATGTAAG-T-TTAAGTTATGTAAAT
* * * *
45834515 TAAGTAAGTTATGTAA-TTTACGAATAAT-TAAAAA
1 TATGTAAGTTATGTAAGTTTA--AGTTATGT-AAAT
* *
45834549 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAGTT-TAAGTTATGTAAAT
45834583 TATGTA
1 TATGTA
45834589 TAATATTAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
31 2 0.02
32 6 0.07
33 3 0.04
34 67 0.80
35 4 0.05
36 2 0.02
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.42
Consensus pattern (33 bp):
TATGTAAGTTATGTAAGTTTAAGTTATGTAAAT
Found at i:45834640 original size:56 final size:56
Alignment explanation
Indices: 45834575--45834697 Score: 219
Period size: 56 Copynumber: 2.2 Consensus size: 56
45834565 GTTGTAAGTT
* * *
45834575 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAAAATTAATTAACTAACTTATGTAATTTAAGTATAATATTA
45834631 ATGTAAGTTATGTATAAAATTAATTAACTAACTTATGTAATTTAAGTATAATATTA
1 ATGTAAGTTATGTATAAAATTAATTAACTAACTTATGTAATTTAAGTATAATATTA
45834687 ATGTAAGTTAT
1 ATGTAAGTTAT
45834698 ATAAGTTGTA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (56 bp):
ATGTAAGTTATGTATAAAATTAATTAACTAACTTATGTAATTTAAGTATAATATTA
Found at i:45834641 original size:22 final size:22
Alignment explanation
Indices: 45834609--45834654 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
45834599 TAACTAAGTT
* *
45834609 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAAAATTA
45834631 ATGTAAGTTATGTATAAAATTA
1 ATGTAAGTTATGTATAAAATTA
45834653 AT
1 AT
45834655 TAACTAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (22 bp):
ATGTAAGTTATGTATAAAATTA
Found at i:45834771 original size:22 final size:22
Alignment explanation
Indices: 45834746--45834791 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
45834736 TAACTAAGTT
*
45834746 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45834768 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45834790 AT
1 AT
45834792 TAACTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:45834772 original size:47 final size:48
Alignment explanation
Indices: 45834584--45834735 Score: 132
Period size: 56 Copynumber: 3.0 Consensus size: 48
45834574 TATGTAAGTT
45834584 ATGTATA-ATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTATAGATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
* *
45834631 ATGTAAGTTATGTATAAAATTAATTAACTAACTTATGTAATTTAAGTATAATATTA
1 ATGT-A--TA-G-AT---ATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
* * * *
45834687 ATGTA-AGTTATATAAGTT--GTAAGTGATGTAAGTTATGTATAATATTA
1 ATGTATAGATAT-TAA-TTAACTAAGTTATGTAATTTATGTATAATATTA
45834734 AT
1 AT
45834736 TAACTAAGTT
Statistics
Matches: 86, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
47 32 0.37
48 4 0.05
49 2 0.02
50 3 0.03
51 1 0.01
52 1 0.01
53 2 0.02
55 1 0.01
56 40 0.47
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (48 bp):
ATGTATAGATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
Found at i:45834772 original size:56 final size:56
Alignment explanation
Indices: 45834712--45835230 Score: 975
Period size: 56 Copynumber: 9.2 Consensus size: 56
45834702 GTTGTAAGTG
45834712 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
45834768 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
*
45834824 ATGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
*
45834880 ATGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
45834936 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
*
45834992 ATGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
45835048 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
*
45835104 ATGTAAGTTATGTATAATATTAAATAACTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
* *
45835160 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATATTAACTA
1 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAAT-ATTA
45835217 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
45835231 ATATCTTATA
Statistics
Matches: 454, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
56 437 0.96
57 17 0.04
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTA
Found at i:45834827 original size:22 final size:22
Alignment explanation
Indices: 45834802--45834846 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
45834792 TAACTAAGTT
*
45834802 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45834824 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45834846 A
1 A
45834847 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:45834883 original size:22 final size:22
Alignment explanation
Indices: 45834858--45834902 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
45834848 TAACTAAGTT
*
45834858 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45834880 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45834902 A
1 A
45834903 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:45834939 original size:22 final size:22
Alignment explanation
Indices: 45834914--45834959 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
45834904 TAACTAAGTT
*
45834914 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45834936 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45834958 AT
1 AT
45834960 TAACTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:45834995 original size:22 final size:22
Alignment explanation
Indices: 45834970--45835014 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
45834960 TAACTAAGTT
*
45834970 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45834992 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45835014 A
1 A
45835015 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:45835051 original size:22 final size:22
Alignment explanation
Indices: 45835026--45835071 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
45835016 TAACTAAGTT
*
45835026 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45835048 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45835070 AT
1 AT
45835072 TAACTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:45835107 original size:22 final size:22
Alignment explanation
Indices: 45835082--45835126 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
45835072 TAACTAAGTT
*
45835082 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45835104 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45835126 A
1 A
45835127 ATAACTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:45835163 original size:22 final size:22
Alignment explanation
Indices: 45835138--45835183 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
45835128 TAACTAAGTT
*
45835138 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45835160 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
45835182 AT
1 AT
45835184 TAACTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:45838127 original size:34 final size:36
Alignment explanation
Indices: 45838080--45838148 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
45838070 CAACTTTTAA
*
45838080 TTTGTAATATTATAATATTT-ATTTT-TTGTATAAAG
1 TTTGAAATATTATAATATTTAATTTTATTG-ATAAAG
45838115 TTTGAAAT-TTATAATATTTAATTTTATTGATAAA
1 TTTGAAATATTATAATATTTAATTTTATTGATAAA
45838149 TAAATAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 11 0.35
35 17 0.55
36 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (36 bp):
TTTGAAATATTATAATATTTAATTTTATTGATAAAG
Found at i:45838338 original size:30 final size:30
Alignment explanation
Indices: 45838304--45838366 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
45838294 CCTAAACCCC
* *
45838304 AAAT-CCATAACCCCCTAACCCATTACCCTT
1 AAATCCCATAA-CCCCTAAACCATAACCCTT
* *
45838334 AAATCCCCTAACCCCTAAAGCATAACCCTT
1 AAATCCCATAACCCCTAAACCATAACCCTT
45838364 AAA
1 AAA
45838367 CCCTAAATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.38, C:0.40, G:0.02, T:0.21
Consensus pattern (30 bp):
AAATCCCATAACCCCTAAACCATAACCCTT
Found at i:45838360 original size:37 final size:37
Alignment explanation
Indices: 45838319--45838390 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
45838309 CATAACCCCC
*
45838319 TAACCCATT-ACCCTTAAAT-CCCCTAACCCCTAAAGCA
1 TAACCC-TTAACCC-TAAATCCCCCCAACCCCTAAAGCA
45838356 TAACCCTTAAACCCTAAATCCCCCCAACCCCTAAA
1 TAACCCTT-AACCCTAAATCCCCCCAACCCCTAAA
45838391 ATCAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
36 2 0.06
37 11 0.35
38 18 0.58
ACGTcount: A:0.36, C:0.43, G:0.01, T:0.19
Consensus pattern (37 bp):
TAACCCTTAACCCTAAATCCCCCCAACCCCTAAAGCA
Found at i:45839386 original size:15 final size:15
Alignment explanation
Indices: 45839366--45839403 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
45839356 TTCAAATTAA
45839366 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
45839381 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
45839396 CCCTAAAT
1 CCCTAAAT
45839404 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:45840006 original size:41 final size:40
Alignment explanation
Indices: 45839961--45840200 Score: 169
Period size: 41 Copynumber: 5.8 Consensus size: 40
45839951 GAAGACAAGC
* * *
45839961 GAATTAGTGGCGCTCAGTTAGAAATGCCGCTAAAGATCCGA
1 GAATTAGCGGCGCT-AGTTAAAAACGCCGCTAAAGATCCGA
* * *
45840002 GAATTAGCAGCGCTTGTATAAAAACGCCGCTAAAGACCCGA
1 GAATTAGCGGCGCTAGT-TAAAAACGCCGCTAAAGATCCGA
* ** * *
45840043 GCATTAGCGGCGCATAGACAAAAACGCTGCTAAAGATCTGA
1 GAATTAGCGGCGC-TAGTTAAAAACGCCGCTAAAGATCCGA
** ** * *
45840084 GAATTAGCAACGCATAGACAAAAACACAGCTAAAGATCCGA
1 GAATTAGCGGCGC-TAGTTAAAAACGCCGCTAAAGATCCGA
* * *
45840125 GCATTAGCGGCGCT--TTCACAAAAACGCCGCGAAAGATCGGA
1 GAATTAGCGGCGCTAGTT---AAAAACGCCGCTAAAGATCCGA
* * ***
45840166 GCATTAGCGACGCTTACACAAAAACGCCGCTAAAG
1 GAATTAGCGGCGC-TAGTTAAAAACGCCGCTAAAG
45840201 GTTTAAAAAA
Statistics
Matches: 158, Mismatches: 33, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
40 3 0.02
41 152 0.96
42 3 0.02
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (40 bp):
GAATTAGCGGCGCTAGTTAAAAACGCCGCTAAAGATCCGA
Found at i:45840049 original size:82 final size:81
Alignment explanation
Indices: 45839986--45840200 Score: 234
Period size: 82 Copynumber: 2.6 Consensus size: 81
45839976 AGTTAGAAAT
* * * * *
45839986 GCCGCTAAAGATCCGAGAATTAGCAGCGC-TTGTATAAAAACGCCGCTAAAGACCCGAGCATTAG
1 GCCGCTAAAGATCCGAGAATTAGCAACGCATAG-ACAAAAACACAGCTAAAGACCCGAGCATTAG
45840050 CGGCGCATAGACAAAAAC
65 CGGCGC-TAGACAAAAAC
* * *
45840068 GCTGCTAAAGATCTGAGAATTAGCAACGCATAGACAAAAACACAGCTAAAGATCCGAGCATTAGC
1 GCCGCTAAAGATCCGAGAATTAGCAACGCATAGACAAAAACACAGCTAAAGACCCGAGCATTAGC
**
45840133 GGCGCTTTCACAAAAAC
66 GGCGC-TAGACAAAAAC
* * * * * * * *
45840150 GCCGCGAAAGATCGGAGCATTAGCGACGCTTACACAAAAACGCCGCTAAAG
1 GCCGCTAAAGATCCGAGAATTAGCAACGCATAGACAAAAACACAGCTAAAG
45840201 GTTTAAAAAA
Statistics
Matches: 112, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
82 110 0.98
83 2 0.02
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (81 bp):
GCCGCTAAAGATCCGAGAATTAGCAACGCATAGACAAAAACACAGCTAAAGACCCGAGCATTAGC
GGCGCTAGACAAAAAC
Found at i:45840331 original size:40 final size:40
Alignment explanation
Indices: 45840280--45840355 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
45840270 AATTCCTATT
* *
45840280 TTTAGCGGCGCTTCCGGAT-AATCGCCGCTAATGCTCTACC
1 TTTAGCAGCGCTT-CGGATAAATCACCGCTAATGCTCTACC
* *
45840320 TTTAGCAGCGCTTTGGCTAAATCACCGCTAATGCTC
1 TTTAGCAGCGCTTCGGATAAATCACCGCTAATGCTC
45840356 GATTTTTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.10
40 28 0.90
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (40 bp):
TTTAGCAGCGCTTCGGATAAATCACCGCTAATGCTCTACC
Found at i:45841249 original size:3 final size:3
Alignment explanation
Indices: 45841243--45841295 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
45841233 ATAATATTAA
45841243 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
45841291 TAC TA
1 TAC TA
45841296 ATAATAATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:45844227 original size:27 final size:27
Alignment explanation
Indices: 45844196--45844373 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45844186 TAAATTGTAC
45844196 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
45844223 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45844249 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
45844277 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
45844305 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45844332 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
45844359 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45844374 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:45844310 original size:82 final size:81
Alignment explanation
Indices: 45844197--45844352 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45844187 AAATTGTACA
* *
45844197 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45844261 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45844278 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45844343 TGCGAGTTGA
65 TGCGAATTGA
45844353 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45844364 original size:82 final size:81
Alignment explanation
Indices: 45844193--45844373 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
45844183 GATTAAATTG
* *
45844193 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45844258 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
45844274 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45844338 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
45844356 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45844374 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45846320 original size:3 final size:3
Alignment explanation
Indices: 45846312--45846349 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
45846302 TATTTTTAAC
45846312 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT AT
45846350 CATCTTCACT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.88
4 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:45846763 original size:18 final size:19
Alignment explanation
Indices: 45846718--45846765 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
45846708 GTTTAAGTGC
* *
45846718 TTTAATTTTTATTTATTTA
1 TTTACTTTTTATTTATTGA
*
45846737 TTTAC-TTTTATTTGTTGA
1 TTTACTTTTTATTTATTGA
45846755 TTT-CTTTTTAT
1 TTTACTTTTTAT
45846766 CATATATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.80
19 4 0.16
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTACTTTTTATTTATTGA
Found at i:45847319 original size:9 final size:9
Alignment explanation
Indices: 45847305--45847334 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
45847295 TTAAACGAAG
45847305 CGAGTTATT
1 CGAGTTATT
*
45847314 CGAGTTAAT
1 CGAGTTATT
45847323 CGAGTTATT
1 CGAGTTATT
45847332 CGA
1 CGA
45847335 ATCAACTCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (9 bp):
CGAGTTATT
Found at i:45847663 original size:30 final size:31
Alignment explanation
Indices: 45847629--45847688 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
45847619 AAACCTTTTA
*
45847629 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
45847659 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
45847689 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:45848064 original size:225 final size:225
Alignment explanation
Indices: 45847718--45848166 Score: 803
Period size: 225 Copynumber: 2.0 Consensus size: 225
45847708 CAAACCCTCC
45847718 CCCCTCCAATTTTTTTTAAATATTTTCCCTCCAAAATTTTACTCCCCCTATTTACTTTCCCTCAA
1 CCCCTCCAATTTTTTTTAAATATTTTCCCTCCAAAATTTTACTCCCCCTATTTACTTTCCCTCAA
* *
45847783 ACTTTTATTCCCCAAAACTTTTTATTTTTCCCGTAAACTTTTACGTCTCACCCTTTACTCTAAAA
66 ACTTTTATTCCCCAAAACTTTTTATTTTTCCCCTAAACTTTTACGTCTCACCCTTTACCCTAAAA
*
45847848 TAAAAAATCAAAATTATCCAAAAAAAA-TCACTAAACATAAATAGTAATAATTTTATTTATATCT
131 TAAAAAATCAAAATTATACAAAAAAAATTCACTAAACATAAATAGTAATAATTTTATTTATATCT
45847912 ACTATTTATATTATTAAATTAAATTTCACT
196 ACTATTTATATTATTAAATTAAATTTCACT
45847942 CCCCTCCAATTTTTTTTAAATATTTTCCCTCCAAAATTTTACTCCCCCCTATTT-CTTTTCCCTC
1 CCCCTCCAATTTTTTTTAAATATTTTCCCTCCAAAATTTTACT-CCCCCTATTTAC-TTTCCCTC
* *
45848006 AAACTTTTATTCCCCAAAACTTTTTATTTTTCCCCTAAACTTTTACTTCTCACCCTTTACCCTCA
64 AAACTTTTATTCCCCAAAACTTTTTATTTTTCCCCTAAACTTTTACGTCTCACCCTTTACCCTAA
*
45848071 AATAAAAAATCAAAATTATACAAAAAAAATTCACTAAACATAAATAGTTATAATTTTATTTATAT
129 AATAAAAAATCAAAATTATACAAAAAAAATTCACTAAACATAAATAGTAATAATTTTATTTATAT
*
45848136 CTACTATTTGTATTATTAAATTAAATTTCAC
194 CTACTATTTATATTATTAAATTAAATTTCAC
45848167 ATTTTATATT
Statistics
Matches: 215, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
224 44 0.20
225 107 0.50
226 64 0.30
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (225 bp):
CCCCTCCAATTTTTTTTAAATATTTTCCCTCCAAAATTTTACTCCCCCTATTTACTTTCCCTCAA
ACTTTTATTCCCCAAAACTTTTTATTTTTCCCCTAAACTTTTACGTCTCACCCTTTACCCTAAAA
TAAAAAATCAAAATTATACAAAAAAAATTCACTAAACATAAATAGTAATAATTTTATTTATATCT
ACTATTTATATTATTAAATTAAATTTCACT
Found at i:45857482 original size:37 final size:37
Alignment explanation
Indices: 45857432--45857508 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
45857422 CAACGCAGAG
* *
45857432 TTTGATTTTGAAAGACAAAAGTGCACAATGCTTTCCA
1 TTTGATTTCGAAAGACAAAAGTACACAATGCTTTCCA
*
45857469 TTTGATTTCGAAAGACAGAAGTACACAATGCTTTCCA
1 TTTGATTTCGAAAGACAAAAGTACACAATGCTTTCCA
45857506 TTT
1 TTT
45857509 TTCTCAACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (37 bp):
TTTGATTTCGAAAGACAAAAGTACACAATGCTTTCCA
Found at i:45858002 original size:25 final size:25
Alignment explanation
Indices: 45857968--45858017 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
45857958 CAGGTAAGGC
*
45857968 TCCTTCTTCTTCTTCCGTTCTTCAT
1 TCCTTCTTCTCCTTCCGTTCTTCAT
* *
45857993 TCCTTTTTCTCCTTCTGTTCTTCAT
1 TCCTTCTTCTCCTTCCGTTCTTCAT
45858018 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.34, G:0.04, T:0.58
Consensus pattern (25 bp):
TCCTTCTTCTCCTTCCGTTCTTCAT
Found at i:45858221 original size:11 final size:11
Alignment explanation
Indices: 45858205--45858230 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
45858195 TTGCTGGATG
45858205 ATATTTTGGTT
1 ATATTTTGGTT
45858216 ATATTTTGGTT
1 ATATTTTGGTT
45858227 ATAT
1 ATAT
45858231 ACAGATGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (11 bp):
ATATTTTGGTT
Found at i:45860559 original size:22 final size:20
Alignment explanation
Indices: 45860516--45860554 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
45860506 TAATTTAAAA
45860516 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
45860536 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
45860555 ATGTAAAAAC
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:45860659 original size:14 final size:15
Alignment explanation
Indices: 45860637--45860746 Score: 57
Period size: 14 Copynumber: 6.9 Consensus size: 15
45860627 CAATCAAACA
45860637 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
45860651 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
45860666 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
45860686 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
45860700 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
45860720 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
45860734 ACGGAAAA-CATTT
1 CCAGAAAATCATTT
45860747 CACTGCCAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
14 30 0.40
15 17 0.23
16 2 0.03
18 2 0.03
19 6 0.08
20 18 0.24
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:45860678 original size:20 final size:20
Alignment explanation
Indices: 45860653--45860726 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
45860643 AATATTTTCC
*
45860653 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45860673 AGTAAAACATTTTCCAG-AA
1 AGTAAAACATTTTACAGAAA
45860692 A-T----CATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45860707 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
45860727 TCATTTTACG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
14 9 0.20
15 3 0.07
16 1 0.02
18 1 0.02
19 3 0.07
20 27 0.61
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:45860698 original size:34 final size:34
Alignment explanation
Indices: 45860641--45860741 Score: 175
Period size: 34 Copynumber: 2.9 Consensus size: 34
45860631 CAAACACCAG
*
45860641 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAG-AAATCATTTTACAGAAAAGT
45860676 AAAACATTTTCCAGAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGAAATCATTTTACAGAAAAGT
*
45860710 AAAACATTTTCCAGAAATCATTTTACGGAAAA
1 AAAACATTTTCCAGAAATCATTTTACAGAAAA
45860742 CATTTCACTG
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
34 51 0.80
35 13 0.20
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.31
Consensus pattern (34 bp):
AAAACATTTTCCAGAAATCATTTTACAGAAAAGT
Found at i:45864369 original size:30 final size:30
Alignment explanation
Indices: 45864333--45864438 Score: 160
Period size: 30 Copynumber: 3.5 Consensus size: 30
45864323 TTTATTTTTT
45864333 ATTTTTTTAATTTTAAAATAATTTTTCAAA
1 ATTTTTTTAATTTTAAAATAATTTTTCAAA
*
45864363 ATTTTTTTAATTTTAAAATACTTTTTCAAA
1 ATTTTTTTAATTTTAAAATAATTTTTCAAA
*
45864393 ATTTTTTTAATTTTAAAAT-ATTTTTAAAA
1 ATTTTTTTAATTTTAAAATAATTTTTCAAA
45864422 TACTTTTTTTAAATTTT
1 -A-TTTTTTT-AATTTT
45864439 TTTAAATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
29 8 0.11
30 49 0.70
31 7 0.10
32 6 0.09
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (30 bp):
ATTTTTTTAATTTTAAAATAATTTTTCAAA
Found at i:45864417 original size:11 final size:11
Alignment explanation
Indices: 45864403--45864461 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
45864393 ATTTTTTTAA
45864403 TTTTAAAATAT
1 TTTTAAAATAT
45864414 TTTTAAAATACTT
1 TTTTAAAATA--T
*
45864427 TTTTTAAAT-T
1 TTTTAAAATAT
*
45864437 TTTT-TAA-AT
1 TTTTAAAATAT
45864446 TTTTAAAATAAT
1 TTTTAAAAT-AT
45864458 TTTT
1 TTTT
45864462 TTGTATTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
9 7 0.18
10 7 0.18
11 10 0.26
12 6 0.15
13 9 0.23
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:45864418 original size:41 final size:44
Alignment explanation
Indices: 45864373--45864461 Score: 139
Period size: 41 Copynumber: 2.1 Consensus size: 44
45864363 ATTTTTTTAA
45864373 TTTTAAAATACTTTTTCAAAATTTTTTT-AA-TTTTAAAAT-AT
1 TTTTAAAATACTTTTTCAAAATTTTTTTAAATTTTTAAAATAAT
**
45864414 TTTTAAAATACTTTTTTTAAATTTTTTTAAATTTTTAAAATAAT
1 TTTTAAAATACTTTTTCAAAATTTTTTTAAATTTTTAAAATAAT
45864458 TTTT
1 TTTT
45864462 TTGTATTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
41 26 0.60
42 2 0.05
43 9 0.21
44 6 0.14
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (44 bp):
TTTTAAAATACTTTTTCAAAATTTTTTTAAATTTTTAAAATAAT
Found at i:45866935 original size:31 final size:31
Alignment explanation
Indices: 45866899--45866974 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
45866889 TTATAATTTG
* **
45866899 GTCACTAAATTATTTGAAAGTTTGCATTTAA
1 GTCACTAAACTATTCAAAAGTTTGCATTTAA
* * **
45866930 GTCACTGAACTGTTCAAAAGTTTTTATTTAA
1 GTCACTAAACTATTCAAAAGTTTGCATTTAA
*
45866961 GTCACTAAGCTATT
1 GTCACTAAACTATT
45866975 AGTTTTCTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (31 bp):
GTCACTAAACTATTCAAAAGTTTGCATTTAA
Found at i:45868351 original size:25 final size:25
Alignment explanation
Indices: 45868297--45868359 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 25
45868287 ATAACGAGAC
45868297 TATTTAAAAAAATTAATTAATTATT
1 TATTTAAAAAAATTAATTAATTATT
*
45868322 T-TTTATAAAAAATGTATTTATATTTATT
1 TATTTA-AAAAAAT-TAATTA-A-TTATT
45868350 TAATTTAAAA
1 T-ATTTAAAA
45868360 CCGGTCCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
24 4 0.13
25 8 0.26
26 5 0.16
27 1 0.03
28 6 0.19
29 3 0.10
30 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TATTTAAAAAAATTAATTAATTATT
Found at i:45872014 original size:2 final size:2
Alignment explanation
Indices: 45872007--45872032 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45871997 TCTTCGTTTG
45872007 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
45872033 TTTCTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:45890682 original size:17 final size:17
Alignment explanation
Indices: 45890657--45890703 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
45890647 CGAATATAAT
* *
45890657 AAATATTTTTATTTTTA
1 AAATTTTTTTAATTTTA
45890674 AAATTTTTTTTAATTTTA
1 AAA-TTTTTTTAATTTTA
45890692 AAATTTTTTTAA
1 AAATTTTTTTAA
45890704 AATACTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AAATTTTTTTAATTTTA
Found at i:45890685 original size:18 final size:18
Alignment explanation
Indices: 45890662--45890742 Score: 72
Period size: 18 Copynumber: 4.2 Consensus size: 18
45890652 ATAATAAATA
*
45890662 TTTTTATTTTTAAAATTT
1 TTTTTAATTTTAAAATTT
45890680 TTTTTAATTTTAAAATTT
1 TTTTTAATTTTAAAATTT
* **
45890698 TTTTAAAATACTTTTTTTAATTT
1 TTTT----TA-ATTTTAAAATTT
45890721 TTTTTAATTTTAAAATATT
1 TTTTTAATTTTAAAAT-TT
45890740 TTT
1 TTT
45890743 AAAATATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
18 28 0.56
19 7 0.14
22 2 0.04
23 13 0.26
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTAATTTTAAAATTT
Found at i:45890725 original size:41 final size:43
Alignment explanation
Indices: 45890657--45890765 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 43
45890647 CGAATATAAT
* *
45890657 AAATATTTTTATTTTTAAAATTTTTTTTAATTTTAAAATTTTTTTA
1 AAATATCTTTA-TTTT--AATTTTTTTTAATTTTAAAATATTTTTA
45890703 AAATA-CTTT-TTTTAATTTTTTTTAATTTTAAAATATTTTTA
1 AAATATCTTTATTTTAATTTTTTTTAATTTTAAAATATTTTTA
*
45890744 AAATATTTTTATTTTAATTTTT
1 AAATATCTTTATTTTAATTTTT
45890766 AAAATAAATT
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
41 32 0.55
42 3 0.05
43 15 0.26
45 3 0.05
46 5 0.09
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (43 bp):
AAATATCTTTATTTTAATTTTTTTTAATTTTAAAATATTTTTA
Found at i:45892519 original size:20 final size:20
Alignment explanation
Indices: 45892474--45892530 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
45892464 CAAGAAAAAC
* *
45892474 AAATAAAATAA-AAAAATTTA
1 AAAT-AAATAATAAATATTCA
45892494 AGAATAAATAATAAATATTCA
1 A-AATAAATAATAAATATTCA
45892515 AAAT-AATAACTAAATA
1 AAATAAATAA-TAAATA
45892531 AAGAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 5 0.16
20 16 0.50
21 11 0.34
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (20 bp):
AAATAAATAATAAATATTCA
Found at i:45894344 original size:20 final size:20
Alignment explanation
Indices: 45894307--45894345 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
45894297 TTTTTAAGTA
*
45894307 TTTTTTATTTTGTATTTATG
1 TTTTTTATTTTATATTTATG
45894327 TTTTTTAATTTTAT-TTTAT
1 TTTTTT-ATTTTATATTTAT
45894346 TTTATTCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTTATTTTATATTTATG
Found at i:45894652 original size:18 final size:18
Alignment explanation
Indices: 45894629--45894675 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
45894619 AAACTAATCG
45894629 TGTTTCAAAAATTT-TCA
1 TGTTTCAAAAATTTATCA
*
45894646 TGTTTTC-AAAATTTATCG
1 TG-TTTCAAAAATTTATCA
45894664 TGTTTCAAAAAT
1 TGTTTCAAAAAT
45894676 AATAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.47
Consensus pattern (18 bp):
TGTTTCAAAAATTTATCA
Found at i:45894784 original size:21 final size:22
Alignment explanation
Indices: 45894742--45894784 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
45894732 CGTAATTTAT
**
45894742 CAAAATTTTTGTGTTTTTAAAA
1 CAAAATTTTTGTGTTTCAAAAA
45894764 CAAAA-TTTTGTGTTTCAAAAA
1 CAAAATTTTTGTGTTTCAAAAA
45894785 TTTTCGCGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (22 bp):
CAAAATTTTTGTGTTTCAAAAA
Found at i:45894799 original size:18 final size:18
Alignment explanation
Indices: 45894765--45895230 Score: 317
Period size: 17 Copynumber: 26.1 Consensus size: 18
45894755 TTTTTAAAAC
45894765 AAAATTTT-GTG-TTTCA
1 AAAATTTTCGTGTTTTCA
*
45894781 AAAATTTTCGCGTTTTCAAA
1 AAAATTTTCGTGTTTTC--A
*
45894801 AAAATTTCCCGTGTTTTCA
1 AAAATTT-TCGTGTTTTCA
** *
45894820 AAAATTCCCGT-ATTTCA
1 AAAATTTTCGTGTTTTCA
*
45894837 AAAATTTTCTTGTTTTCAGAA
1 AAAATTTTCGTGTTTTC---A
* *
45894858 AAAAATTCCGTGTTTTCA
1 AAAATTTTCGTGTTTTCA
45894876 AAAA-TTTCG-GTCTTTCA
1 AAAATTTTCGTGT-TTTCA
*
45894893 AAAAATTTCGTGTTTTCAA
1 AAAATTTTCGTGTTTTC-A
*
45894912 AAAAATTTCGTG-TTTCA
1 AAAATTTTCGTGTTTTCA
** *
45894929 AAAATCCTCGTTTTTTCA
1 AAAATTTTCGTGTTTTCA
* *
45894947 AAAA-TTCCAGT-ATTTCA
1 AAAATTTTC-GTGTTTTCA
* *
45894964 AAAAATTTCATGTTTTC-
1 AAAATTTTCGTGTTTTCA
* **
45894981 AAAATTTTTG-GTGAT-A
1 AAAATTTTCGTGTTTTCA
**
45894997 AAAA-AATCGTGTTTTCAAA
1 AAAATTTTCGTGTTTTC--A
45895016 GAAAATTTT-GTG-TTTCA
1 -AAAATTTTCGTGTTTTCA
** *
45895033 AAAATCCTCTTGTTTTCA
1 AAAATTTTCGTGTTTTCA
*
45895051 AAAA-TTCCGGTGTTTT-A
1 AAAATTTTC-GTGTTTTCA
45895068 AAAATTTTCGTGTTTTCAAA
1 AAAATTTTCGTGTTTTC--A
45895088 AAAATTTT-GTGTTTT-A
1 AAAATTTTCGTGTTTTCA
*
45895104 AAAATTTTCATGTTTTCAA
1 AAAATTTTCGTGTTTTC-A
* *
45895123 AAAATTCTCATGTTTT-A
1 AAAATTTTCGTGTTTTCA
*
45895140 AAAATTTCCGTGTTTTCA
1 AAAATTTTCGTGTTTTCA
*
45895158 AAAATTTTCGTGTTTTTA
1 AAAATTTTCGTGTTTTCA
* * *
45895176 AGAATTTTCGTG-TCTCT
1 AAAATTTTCGTGTTTTCA
*
45895193 AAAATTCTCGTGTTTT-A
1 AAAATTTTCGTGTTTTCA
45895210 AAAATTTTTCGTGTTTTCA
1 AAAA-TTTTCGTGTTTTCA
45895229 AA
1 AA
45895231 GAAAATAATT
Statistics
Matches: 352, Mismatches: 60, Indels: 73
0.73 0.12 0.15
Matches are distributed among these distances:
15 2 0.01
16 35 0.10
17 107 0.30
18 107 0.30
19 53 0.15
20 24 0.07
21 24 0.07
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.44
Consensus pattern (18 bp):
AAAATTTTCGTGTTTTCA
Found at i:45894804 original size:21 final size:21
Alignment explanation
Indices: 45894780--45894823 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
45894770 TTTGTGTTTC
*
45894780 AAAAATTT-TCGCGTTTTCAA
1 AAAAATTTCCCGCGTTTTCAA
*
45894800 AAAAATTTCCCGTGTTTTCAA
1 AAAAATTTCCCGCGTTTTCAA
45894821 AAA
1 AAA
45894824 TTCCCGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (21 bp):
AAAAATTTCCCGCGTTTTCAA
Found at i:45894808 original size:19 final size:18
Alignment explanation
Indices: 45894765--45895230 Score: 285
Period size: 18 Copynumber: 26.1 Consensus size: 18
45894755 TTTTTAAAAC
*
45894765 AAAATTTTGTG-TTTCAA
1 AAAATTTCGTGTTTTCAA
* *
45894782 AAATTTTCGCGTTTTCAAA
1 AAAATTTCGTGTTTTC-AA
45894801 AAAATTTCCCGTGTTTTC-A
1 AAAATTT--CGTGTTTTCAA
* *
45894820 AAAATTCCCGT-ATTTCAA
1 AAAATT-TCGTGTTTTCAA
* *
45894838 AAATTTTCTTGTTTTCAGAAA
1 AAAATTTCGTGTTTTC---AA
*
45894859 AAAATTCCGTGTTTTC-A
1 AAAATTTCGTGTTTTCAA
45894876 AAAATTTCG-GTCTTTCAA
1 AAAATTTCGTGT-TTTCAA
45894894 AAAATTTCGTGTTTTCAAA
1 AAAATTTCGTGTTTTC-AA
45894913 AAAATTTCGTG-TTTC-A
1 AAAATTTCGTGTTTTCAA
* *
45894929 AAAATCCTCGTTTTTTC-A
1 AAAAT-TTCGTGTTTTCAA
* *
45894947 AAAATTCCAGT-ATTTCAA
1 AAAATTTC-GTGTTTTCAA
*
45894965 AAAATTTCATGTTTTC-A
1 AAAATTTCGTGTTTTCAA
* * **
45894982 AAATTTTTG-GTGAT-AA
1 AAAATTTCGTGTTTTCAA
*
45894998 AAAA-ATCGTGTTTTCAAA
1 AAAATTTCGTGTTTTC-AA
*
45895016 GAAAATTTTGTG-TTTC-A
1 -AAAATTTCGTGTTTTCAA
* *
45895033 AAAATCCTCTTGTTTTC-A
1 AAAAT-TTCGTGTTTTCAA
*
45895051 AAAATTCCGGTGTTTT-AA
1 AAAATTTC-GTGTTTTCAA
*
45895069 AAATTTTCGTGTTTTCAAA
1 AAAATTTCGTGTTTTC-AA
*
45895088 AAAATTTTGTGTTTT-AA
1 AAAATTTCGTGTTTTCAA
* *
45895105 AAATTTTCATGTTTTCAA
1 AAAATTTCGTGTTTTCAA
*
45895123 AAAATTCTCATGTTTT--A
1 AAAATT-TCGTGTTTTCAA
45895140 AAAATTTCCGTGTTTTCAA
1 AAAATTT-CGTGTTTTCAA
* *
45895159 AAATTTTCGTGTTTTTAA
1 AAAATTTCGTGTTTTCAA
* * * *
45895177 GAATTTTCGTG-TCTC-T
1 AAAATTTCGTGTTTTCAA
45895193 AAAATTCTCGTGTTTT-AA
1 AAAATT-TCGTGTTTTCAA
*
45895211 AAATTTTTCGTGTTTTCAA
1 AAA-ATTTCGTGTTTTCAA
45895230 A
1 A
45895231 GAAAATAATT
Statistics
Matches: 347, Mismatches: 61, Indels: 80
0.71 0.12 0.16
Matches are distributed among these distances:
15 2 0.01
16 28 0.08
17 91 0.26
18 125 0.36
19 74 0.21
20 4 0.01
21 23 0.07
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.44
Consensus pattern (18 bp):
AAAATTTCGTGTTTTCAA
Found at i:45894843 original size:56 final size:55
Alignment explanation
Indices: 45894776--45895236 Score: 263
Period size: 53 Copynumber: 8.5 Consensus size: 55
45894766 AAATTTTGTG
*
45894776 TTTCAAAAATTTTCGCGTTTTCAAAAAAATTTCCCGTGTTTTCAAAAATTCCCGTA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATTT-CCGTGTTTTCAAAAATTCCCGTA
* * * * *
45894832 TTTCAAAAATTTTCTTGTTTTCAGAAAAAAATTCCGTGTTTTCAAAAATTTCGGTC
1 TTTCAAAAATTTTCGTGTTTTCA-AAAAAATTTCCGTGTTTTCAAAAATTCCCGTA
* *
45894888 TTTCAAAAAATTTCGTGTTTTCAAAAAAATTT-CGTG-TTTCAAAAA-TCCTCGTTT
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATTTCCGTGTTTTCAAAAATTCC-CG-TA
* * * * ***
45894942 TTTCAAAAA-TTCCAGT-ATTTC-AAAAAATTT-CATGTTTTCAAAATTTTTGGTGA
1 TTTCAAAAATTTTC-GTGTTTTCAAAAAAATTTCCGTGTTTTCAAAAATTCCCGT-A
** *
45894995 --T-AAAAA-AATCGTGTTTTCAAAGAAAATTT-TGTG-TTTCAAAAA-TCCTCTTGT-
1 TTTCAAAAATTTTCGTGTTTTCAAA-AAAATTTCCGTGTTTTCAAAAATTCC-C--GTA
* * ** *
45895046 TTTCAAAAA-TTCCGGTGTTTT---AAAAATTTTCGTGTTTTCAAAAAAATT-TTGTG
1 TTTCAAAAATTTTC-GTGTTTTCAAAAAAATTTCCGTGTTTTC--AAAAATTCCCGTA
* * * * *
45895099 TTTTAAAAATTTTCATGTTTTC-AAAAAA-TTCTCATGTTTT-AAAAATTTCCGTGT
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATTTC-CGTGTTTTCAAAAATTCCCGT-A
* * * * * * *
45895153 TTTCAAAAATTTTCGTGTTTT--TAAGAATTTTCGTG-TCTCTAAAATTCTCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATTTCCGTGTTTTCAAAAATTCCCGTA
*
45895205 TTTTAAAAATTTTTCGTGTTTTCAAAGAAAAT
1 TTTCAAAAA-TTTTCGTGTTTTCAAA-AAAAT
45895237 AATTGTTTAA
Statistics
Matches: 312, Mismatches: 58, Indels: 70
0.71 0.13 0.16
Matches are distributed among these distances:
49 2 0.01
50 11 0.04
51 18 0.06
52 47 0.15
53 77 0.25
54 49 0.16
55 33 0.11
56 67 0.21
57 8 0.03
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (55 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAATTTCCGTGTTTTCAAAAATTCCCGTA
Found at i:45894861 original size:21 final size:20
Alignment explanation
Indices: 45894847--45894932 Score: 71
Period size: 19 Copynumber: 4.6 Consensus size: 20
45894837 AAAATTTTCT
45894847 TGTTTTCAGAAAAAAATTCCG
1 TGTTTTCA-AAAAAAATTCCG
*
45894868 TGTTTTC---AAAAATTTCG
1 TGTTTTCAAAAAAAATTCCG
*
45894885 -GTCTTTC--AAAAAATTTCG
1 TGT-TTTCAAAAAAAATTCCG
*
45894903 TGTTTTC-AAAAAAATTTCG
1 TGTTTTCAAAAAAAATTCCG
45894922 TG-TTTCAAAAA
1 TGTTTTCAAAAA
45894933 TCCTCGTTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
16 2 0.03
17 13 0.22
18 18 0.31
19 19 0.32
21 7 0.12
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
TGTTTTCAAAAAAAATTCCG
Found at i:45894915 original size:36 final size:34
Alignment explanation
Indices: 45894857--45895230 Score: 219
Period size: 35 Copynumber: 10.6 Consensus size: 34
45894847 TGTTTTCAGA
*
45894857 AAAAAATTCCGTGTTTTC-AAAAATTTCGGTCTTT
1 AAAAAATTTCGTGTTTTCAAAAAATTTCGGT-TTT
45894891 CAAAAAATTTCGTGTTTTCAAAAAAATTTC-GTGTTT
1 -AAAAAATTTCGTGTTTTC-AAAAAATTTCGGT-TTT
* * * * *
45894927 CAAAAATCCTCGTTTTTTC-AAAAATTCCAGTATTT
1 AAAAAAT-TTCGTGTTTTCAAAAAATTTCGGT-TTT
* * * **
45894962 CAAAAAATTTCATGTTTTC-AAAATTTTTGGTGAT
1 -AAAAAATTTCGTGTTTTCAAAAAATTTCGGTTTT
* *
45894996 AAAAAA-ATCGTGTTTTCAAAGAAAATTT-TGTGTTT
1 AAAAAATTTCGTGTTTTC-AA-AAAATTTCGGT-TTT
* * * *
45895031 CAAAAATCCTCTTGTTTTC-AAAAATTCCGGTGTTTT
1 AAAAAAT-TTCGTGTTTTCAAAAAATTTC-G-GTTTT
* *
45895067 AAAAATTTTCGTGTTTTCAAAAAAATTTTGTGTTTT
1 AAAAAATTTCGTGTTTTC-AAAAAATTTCG-GTTTT
* * *
45895103 AAAAATTTTCATGTTTTCAAAAAATTCTCATGTTTT
1 AAAAAATTTCGTGTTTTCAAAAAATT-TC-GGTTTT
*
45895139 -AAAAATTTCCGTGTTTTCAAAAATTTTCGTGTTTTT
1 AAAAAATTT-CGTGTTTTCAAAAAATTTCG-G-TTTT
* * * *
45895175 AAGAATTTTCGTG-TCTC-TAAAATTCTCGTGTTTT
1 AAAAAATTTCGTGTTTTCAAAAAATT-TCG-GTTTT
*
45895209 AAAAATTTTTCGTGTTTTCAAA
1 AAAAA-ATTTCGTGTTTTCAAA
45895231 GAAAATAATT
Statistics
Matches: 264, Mismatches: 49, Indels: 50
0.73 0.13 0.14
Matches are distributed among these distances:
32 9 0.03
33 6 0.02
34 31 0.12
35 100 0.38
36 84 0.32
37 34 0.13
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (34 bp):
AAAAAATTTCGTGTTTTCAAAAAATTTCGGTTTT
Found at i:45895035 original size:104 final size:103
Alignment explanation
Indices: 45894900--45895088 Score: 299
Period size: 104 Copynumber: 1.8 Consensus size: 103
45894890 TCAAAAAATT
45894900 TCGTGTTTTCAAAAAAATTTCGTGTTTCAAAAATCCTCGTT-TTTTCAAAAATTCCAGTATTTCA
1 TCGTGTTTTCAAAAAAATTTCGTGTTTCAAAAATCCTC-TTGTTTTCAAAAATTCCAGTATTTCA
45894964 AAAAATTTCATGTTTTCAAAATTTTTGGTGATAAAAAAA
65 AAAAATTTCATGTTTTCAAAATTTTTGGTGATAAAAAAA
* * * *
45895003 TCGTGTTTTCAAAGAAAATTTTGTGTTTCAAAAATCCTCTTGTTTTCAAAAATTCCGGTGTTTTA
1 TCGTGTTTTCAAA-AAAATTTCGTGTTTCAAAAATCCTCTTGTTTTCAAAAATTCCAGTATTTCA
* *
45895068 AAAATTTTCGTGTTTTCAAAA
65 AAAAATTTCATGTTTTCAAAA
45895089 AAATTTTGTG
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
103 15 0.19
104 63 0.81
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (103 bp):
TCGTGTTTTCAAAAAAATTTCGTGTTTCAAAAATCCTCTTGTTTTCAAAAATTCCAGTATTTCAA
AAAATTTCATGTTTTCAAAATTTTTGGTGATAAAAAAA
Found at i:45895054 original size:52 final size:51
Alignment explanation
Indices: 45894900--45895089 Score: 137
Period size: 52 Copynumber: 3.6 Consensus size: 51
45894890 TCAAAAAATT
*
45894900 TCGTGTTTTCAAAAAAATTTCGTGTTTCAAAAATCCTCGTT-TTTTCAAAAA
1 TCGTGTTTTCAAAAAAATTTTGTGTTTCAAAAATCCTC-TTGTTTTCAAAAA
** * * **
45894951 TTCCAGTATTTC-AAAAAATTTCATGT-TTTC-AAAAT--TTTTGGTGATAAAAAAA
1 -TCGTGT-TTTCAAAAAAATTT--TGTGTTTCAAAAATCCTCTT-GT-TTTCAAAAA
45895003 TCGTGTTTTCAAAGAAAATTTTGTGTTTCAAAAATCCTCTTGTTTTCAAAAA
1 TCGTGTTTTCAAA-AAAATTTTGTGTTTCAAAAATCCTCTTGTTTTCAAAAA
45895055 TTCCGGTGTTTT---AAAAATTTTCGTGTTTTCAAAAA
1 -T-C-GTGTTTTCAAAAAAATTTT-GTG-TTTCAAAAA
45895090 AATTTTGTGT
Statistics
Matches: 108, Mismatches: 13, Indels: 33
0.70 0.08 0.21
Matches are distributed among these distances:
49 2 0.02
50 8 0.07
51 19 0.18
52 46 0.43
53 20 0.19
54 6 0.06
55 7 0.06
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (51 bp):
TCGTGTTTTCAAAAAAATTTTGTGTTTCAAAAATCCTCTTGTTTTCAAAAA
Found at i:45895107 original size:71 final size:72
Alignment explanation
Indices: 45895003--45895266 Score: 301
Period size: 71 Copynumber: 3.7 Consensus size: 72
45894993 GATAAAAAAA
* * *
45895003 TCGTGTTTTCAAAGAAAATTTTGTGTTTCAAAAATCCTCTTGTTTTCAAAAATTC-CGGTGTTTT
1 TCGTGTTTTCAAAGAAAATTTTGTGTTTTAAAAATCTTCGTGTTTTCAAAAATTCTC-GTGTTTT
45895067 AAAAATTT
65 AAAAATTT
* * *
45895075 TCGTGTTTTCAAA-AAAATTTTGTGTTTTAAAAATTTTCATGTTTTCAAAAAATTCTCATGTTTT
1 TCGTGTTTTCAAAGAAAATTTTGTGTTTTAAAAATCTTCGTGTTTTC-AAAAATTCTCGTGTTTT
45895139 AAAAATTT
65 AAAAATTT
* * * * *
45895147 CCGTGTTTTC--A-AAAATTTTCGTGTTTTTAAGAATTTTCGTG-TCTCTAAAATTCTCGTGTTT
1 TCGTGTTTTCAAAGAAAATTTT-GTG-TTTTAAAAATCTTCGTGTTTTCAAAAATTCTCGTGTTT
45895208 TAAAAATTTT
64 TAAAAA-TTT
** *
45895218 TCGTGTTTTCAAAGAAAATAAT-TGTTTAAAAAATCTTCGTGTTTT-AAAA
1 TCGTGTTTTCAAAGAAAATTTTGTGTTTTAAAAATCTTCGTGTTTTCAAAA
45895267 CAAAATTCTC
Statistics
Matches: 164, Mismatches: 19, Indels: 19
0.81 0.09 0.09
Matches are distributed among these distances:
70 29 0.18
71 64 0.39
72 63 0.38
73 2 0.01
74 6 0.04
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (72 bp):
TCGTGTTTTCAAAGAAAATTTTGTGTTTTAAAAATCTTCGTGTTTTCAAAAATTCTCGTGTTTTA
AAAATTT
Found at i:45904002 original size:13 final size:13
Alignment explanation
Indices: 45903984--45904008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45903974 TTATACATAG
45903984 ATAAAATAAGGAC
1 ATAAAATAAGGAC
45903997 ATAAAATAAGGA
1 ATAAAATAAGGA
45904009 AAGACAGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
ATAAAATAAGGAC
Found at i:45921811 original size:18 final size:20
Alignment explanation
Indices: 45921788--45921831 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
45921778 ATATAAGCTT
45921788 AAAAAA-TAA-ATTTAGATA
1 AAAAAATTAAGATTTAGATA
*
45921806 AAAAAATTAAGATTTATATA
1 AAAAAATTAAGATTTAGATA
45921826 AAAAAA
1 AAAAAA
45921832 AGGCTAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.26
19 3 0.13
20 14 0.61
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAAATTAAGATTTAGATA
Found at i:45924105 original size:33 final size:33
Alignment explanation
Indices: 45924033--45924104 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
45924023 CTTAGTCACC
*
45924033 AAAAATTTCAAATATCAAAATGTTAATCGCCAAAT
1 AAAAATTT--AATATCAAAATGTTAATCGACAAAT
* *
45924068 AAAAATTTAATATCAAAATGTTAGT-GATAAAT
1 AAAAATTTAATATCAAAATGTTAATCGACAAAT
45924100 AAAAA
1 AAAAA
45924105 ACTTTTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 10 0.29
33 16 0.47
35 8 0.24
ACGTcount: A:0.56, C:0.08, G:0.07, T:0.29
Consensus pattern (33 bp):
AAAAATTTAATATCAAAATGTTAATCGACAAAT
Done.