Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 74 of 100
Found at i:13221915 original size:34 final size:34
Alignment explanation
Indices: 13221753--13221917 Score: 125
Period size: 34 Copynumber: 4.9 Consensus size: 34
13221743 TAAATAATGA
* * * * *
13221753 TATTTTTTATATATAAATGCCGTTAATATAGCGA
1 TATTTTTCACATACAAATGCCGTTAATATAACGG
* * * * * *
13221787 TATTTTTTAGATTCAAACGCCATTAATATAACAG
1 TATTTTTCACATACAAATGCCGTTAATATAACGG
* * ** * *
13221821 TGTTTTTCACATTC-AATGTTGCTAATATAGCGG
1 TATTTTTCACATACAAATGCCGTTAATATAACGG
* * * *
13221854 CATTTTTCACATACAAACGTCGCTAATATAACGG
1 TATTTTTCACATACAAATGCCGTTAATATAACGG
*
13221888 TATTTTTCACATACAAGTGCCGTTAATATA
1 TATTTTTCACATACAAATGCCGTTAATATA
13221918 GCGGCGGTTT
Statistics
Matches: 101, Mismatches: 29, Indels: 2
0.77 0.22 0.02
Matches are distributed among these distances:
33 23 0.23
34 78 0.77
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (34 bp):
TATTTTTCACATACAAATGCCGTTAATATAACGG
Found at i:13226132 original size:161 final size:160
Alignment explanation
Indices: 13225784--13226142 Score: 391
Period size: 161 Copynumber: 2.2 Consensus size: 160
13225774 TCCATGTGGC
* * * * *
13225784 ATGACTTAAATATATCGATTATATGATATTAAATTTGTCTGAATGATTGAATTTGACTGTCACTT
1 ATGACTTAAATATCTCAATTATATGATATTAAACTTATCTGAATGATTGAATTAGACTGTCACTT
* * * *
13225849 TTAATATGTGTGAAAAAATTATGATTTTAGTGTTTTTGGACATTTTGTAACATTAAATGACAAAA
66 TTAATATGTCTAAAAAAATTACGATTTTAATGTTTTTGGACATTTTGTAACATTAAATGACAAAA
* * * * * *
13225914 TCGTAAATTTGGTTATATGTTTTTTATTTA
131 ACATAAATCTGATTATATATTTTTGATTTA
* * * * * * *
13225944 GTGACTTGAATATCTCAATTTTATGATATTAAACTTATCTTAATGGTTTAACTTAG-TTGTCACT
1 ATGACTTAAATATCTCAATTATATGATATTAAACTTATCTGAATGATTGAA-TTAGACTGTCACT
* * * * * *
13226008 TTTGATATGTCTAAAAAAAATTACGGTTTTAATGTTTTGTTGGAC-TTTTTTACCGTTAAA-GGC
65 TTTAATATGTCT-AAAAAAATTACGATTTTAATG-TTT-TTGGACATTTTGTAACATTAAATGAC
13226071 AAAAACATAAATCTGATTATATATTTTTGATTTA
127 AAAAACATAAATCTGATTATATATTTTTGATTTA
* *
13226105 ATGATTTAAATATCTCAATTATATGATATTACACTTAT
1 ATGACTTAAATATCTCAATTATATGATATTAAACTTAT
13226143 TCAAATGATT
Statistics
Matches: 162, Mismatches: 33, Indels: 7
0.80 0.16 0.03
Matches are distributed among these distances:
160 58 0.36
161 83 0.51
162 15 0.09
163 6 0.04
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (160 bp):
ATGACTTAAATATCTCAATTATATGATATTAAACTTATCTGAATGATTGAATTAGACTGTCACTT
TTAATATGTCTAAAAAAATTACGATTTTAATGTTTTTGGACATTTTGTAACATTAAATGACAAAA
ACATAAATCTGATTATATATTTTTGATTTA
Found at i:13230255 original size:6 final size:6
Alignment explanation
Indices: 13230244--13230349 Score: 81
Period size: 6 Copynumber: 17.8 Consensus size: 6
13230234 AAAACTCATG
* * * *
13230244 ATTTTA ATTTTA A-TTTG ATTTTG ATTTTGA TTTTTA ATTTTG ATTTT-
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTT-A ATTTTA ATTTTA ATTTTA
** * * * *
13230291 CGTTTA ATTTTT ATTTTA GTTTTA ATTTTA ATCTTG ATTTTA ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
* *
13230339 TTTTTA CTTTT
1 ATTTTA ATTTT
13230350 CATCTAATCA
Statistics
Matches: 78, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
5 7 0.09
6 67 0.86
7 4 0.05
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.68
Consensus pattern (6 bp):
ATTTTA
Found at i:13230281 original size:30 final size:29
Alignment explanation
Indices: 13230245--13230349 Score: 93
Period size: 30 Copynumber: 3.3 Consensus size: 29
13230235 AAACTCATGA
*
13230245 TTTTAATTTTAATTTGATTTTGATTTTGAT
1 TTTTAATTTTAATTTGATTTTAATTTT-AT
* * *
13230275 TTTTAATTTTGATTTTCGTTTAATTTTTATTTTAG
1 TTTTAATTTT-AATTT-G----ATTTTAATTTTAT
13230310 TTTTAATTTTAATCTTGATTTTAATTTTAT
1 TTTTAATTTTAAT-TTGATTTTAATTTTAT
*
13230340 TTTTACTTTT
1 TTTTAATTTT
13230350 CATCTAATCA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
30 30 0.49
31 4 0.07
32 1 0.02
34 3 0.05
35 13 0.21
36 10 0.16
ACGTcount: A:0.22, C:0.03, G:0.07, T:0.69
Consensus pattern (29 bp):
TTTTAATTTTAATTTGATTTTAATTTTAT
Found at i:13230828 original size:134 final size:134
Alignment explanation
Indices: 13230616--13231077 Score: 523
Period size: 134 Copynumber: 3.4 Consensus size: 134
13230606 TCTATTAGAA
* * * * * * * *
13230616 ACGCCGCTAAATAAGTTACGTTTTTATGAGAAAAATGTCGTTGCTTTAGTGGCGTTTGTAACTAA
1 ACGCCGCTAATTTAGTGACATTTTTATGAGAAAAATGCCGTTGCTTTGGTGGCATTTGTAACTGA
* * * * * * * * *
13230681 AAATGTCATTACTTTAAAGGCATTCGTATCTAAAAACACCTCTATATTAGTAGCATTTGTATCTT
66 AAATGTCACTACTTTAGAGGCGTTTGTATATGAAAATACCTCTATATTAGCAGCATTTGTATTTT
*
13230746 TGTG
131 TGAG
* * * *
13230750 ACGCTGCTAATTTAGT-AGCATTTTTATGAGAAAAATGTCTTTGCTTTGGTGGCGTTTGTAACTG
1 ACGCCGCTAATTTAGTGA-CATTTTTATGAGAAAAATGCCGTTGCTTTGGTGGCATTTGTAACTG
** * * * * ** *
13230814 AAAACATCGCTACTTTAGAGACGTTTGTATTTGAAAATATCTCTATATTAGCAGTGTTTTTTATT
65 AAAATGTCACTACTTTAGAGGCGTTTGTATATGAAAATACCTCTATATTAGCAG-CATTTGTATT
13230879 TTTGAG
129 TTTGAG
* * * *
13230885 ACGCCGCTAATTTAGTGACGTTTTTATGAG-AAAATGCCATTACTTTGGTGGCATTTGTAAATGA
1 ACGCCGCTAATTTAGTGACATTTTTATGAGAAAAATGCCGTTGCTTTGGTGGCATTTGTAACTGA
* * * *
13230949 AAATGTCACTACTTTAGAGGCGTTTGTATATGAAAATGCCTCCATATTAGCAGCGTTTGTGTTTT
66 AAATGTCACTACTTTAGAGGCGTTTGTATATGAAAATACCTCTATATTAGCAGCATTTGTATTTT
13231014 TGAG
131 TGAG
* *
13231018 ACACCGCTAATTTAGTGACATTTTTATGAGAAAAATACCGTTGCTTTGGTGGCATTTGTA
1 ACGCCGCTAATTTAGTGACATTTTTATGAGAAAAATGCCGTTGCTTTGGTGGCATTTGTA
13231078 TCAAAAACGC
Statistics
Matches: 275, Mismatches: 49, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
133 41 0.15
134 196 0.71
135 37 0.13
136 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (134 bp):
ACGCCGCTAATTTAGTGACATTTTTATGAGAAAAATGCCGTTGCTTTGGTGGCATTTGTAACTGA
AAATGTCACTACTTTAGAGGCGTTTGTATATGAAAATACCTCTATATTAGCAGCATTTGTATTTT
TGAG
Found at i:13230962 original size:33 final size:33
Alignment explanation
Indices: 13230914--13230988 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
13230904 GTTTTTATGA
* * *
13230914 GAAAATGCCATTACTTTGGTGGCATTTGTAAAT
1 GAAAATGCCACTACTTTAGAGGCATTTGTAAAT
* * *
13230947 GAAAATGTCACTACTTTAGAGGCGTTTGTATAT
1 GAAAATGCCACTACTTTAGAGGCATTTGTAAAT
13230980 GAAAATGCC
1 GAAAATGCC
13230989 TCCATATTAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.33
Consensus pattern (33 bp):
GAAAATGCCACTACTTTAGAGGCATTTGTAAAT
Found at i:13233011 original size:18 final size:19
Alignment explanation
Indices: 13232990--13233034 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
13232980 TAGTAAACTT
13232990 ATAAAATACAAATAT-ATG
1 ATAAAATACAAATATAATG
13233008 ATAAAATACAAATATAATG
1 ATAAAATACAAATATAATG
13233027 -TAAAATAC
1 ATAAAATAC
13233035 TTGTTTGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (19 bp):
ATAAAATACAAATATAATG
Found at i:13239893 original size:79 final size:80
Alignment explanation
Indices: 13239759--13240003 Score: 244
Period size: 79 Copynumber: 3.1 Consensus size: 80
13239749 CTTAAATATT
* * * * * ** *
13239759 ATGGTTTGCTGAACCTTGTTGTTTGAT-TTTTTTTGTTGAATGGTATTGTAGGATATTAGGGGGC
1 ATGGTTTGCTAAACCTTCTTGTATGATATTATATTGCCGAATGGTATTGTATGATATTAGGGGGC
*
13239823 TGAATCCTATGCTGA
66 TGAATCATATGCTGA
* * *
13239838 ATGGTTT-TTAAACCTTCTTGTATGATATTATATTGCCGAATAGTATTGTATGATATTAGAGGGC
1 ATGGTTTGCTAAACCTTCTTGTATGATATTATATTGCCGAATGGTATTGTATGATATTAGGGGGC
*
13239902 TGAATCATATGCTAA
66 TGAATCATATGCTGA
* * * * * * * * *
13239917 ATGGTTTGCTGAGCCTTGTTGTCTGATATTATTTTGCTGAATGGTTTTGTATGATA-TGGGGGGA
1 ATGGTTTGCTAAACCTTCTTGTATGATATTATATTGCCGAATGGTATTGTATGATATTAGGGGGC
* * *
13239981 TAAATCGTATGTTGA
66 TGAATCATATGCTGA
13239996 ATGGTTTG
1 ATGGTTTG
13240004 TTTAATGGTG
Statistics
Matches: 135, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
78 15 0.11
79 81 0.60
80 39 0.29
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.43
Consensus pattern (80 bp):
ATGGTTTGCTAAACCTTCTTGTATGATATTATATTGCCGAATGGTATTGTATGATATTAGGGGGC
TGAATCATATGCTGA
Found at i:13244117 original size:303 final size:305
Alignment explanation
Indices: 13243478--13244235 Score: 1126
Period size: 303 Copynumber: 2.5 Consensus size: 305
13243468 GGATTATTTA
* *
13243478 ACCAACTAAAAATTAATCGAATGGATTATGAAAGGCGTTTTTCTATGGGTAACGCCTTAAATAAT
1 ACCAACTAAAAATTAATCGAATGGATTATGAAAGGCGTTTTCCTATGGGTAACGCCTTGAATAAT
* * * * *
13243543 CCCTAACAAAATGTTATTAAAGGTGTTTCTGGATATAGCCGTCTTCAATAATTTGACCATCAAAA
66 CCCTAACAAAATGTTATTGAAGGCGTTTCTGGATATAACCGCCTTCAATAATCTGACCATCAAAA
* * * * *
13243608 TTTATCATT-TGAAATATTAATGGCATTTTTTACCAAAATCGCCTTCAATAATCCCACCAAAAAT
131 TTTAT-TTTCTGGAATATTAATAGCAGTTTTTACCAAAATCACCTTCAATAATCCCACCAAAAAT
* *
13243672 GTATTGTGTGGAATATTAAAAGGCGTTTTGGATAAAAAACACCTTCAAGAATCCGTCGAGTCTTT
195 GTATTGTGTGGAATATTAAAAGGCGTTTTGGACAAAAAACACCTTCAAGAATCCATCGAGTCTTT
*
13243737 TTTGTATAAATCATTGAAGGCATTTTAAAAAAATGCCTTCAATAAT
260 TTTGTATAAATCATTGAAGGCATTTTAAAAAAATACCTTCAATAAT
* * *
13243783 ACTAACTAAAAATTAATCGAATTGATTATGAAAGGCGTTTTCCTACGGGTAACGCCTTGAATAAT
1 ACCAACTAAAAATTAATCGAATGGATTATGAAAGGCGTTTTCCTATGGGTAACGCCTTGAATAAT
* **
13243848 CCCTAACAAAATGTTATTGAAGGCATTTCTGGATATAATTGCCTTCAATAATCTGACCATCAAAA
66 CCCTAACAAAATGTTATTGAAGGCGTTTCTGGATATAACCGCCTTCAATAATCTGACCATCAAAA
* *
13243913 TTTATTTTCTGGAATATTAATAGC-GTTTTTACCAAAATTACCTTCAATAATCCCACCAAAAATT
131 TTTATTTTCTGGAATATTAATAGCAGTTTTTACCAAAATCACCTTCAATAATCCCACCAAAAATG
* *
13243977 TATTGTGTGGAATATT-AAAGGTGTTTTGGACAAAAAACGCCTTCAAGAATCCATCGAGTCTTTT
196 TATTGTGTGGAATATTAAAAGGCGTTTTGGACAAAAAACACCTTCAAGAATCCATCGAGTCTTTT
*
13244041 TTGTATAAATTATTGAAGGCATTTTAAAAAAATACCTTCAATAAT
261 TTGTATAAATCATTGAAGGCATTTTAAAAAAATACCTTCAATAAT
* * * * * *
13244086 ACCAATTATAAATTAATCAAATGGATTATGAAGGGCATTTTCCTATGGATAACGCCTTGAATAAT
1 ACCAACTAAAAATTAATCGAATGGATTATGAAAGGCGTTTTCCTATGGGTAACGCCTTGAATAAT
* * * * *
13244151 CCCTAACAAAATTTTATTGAAGGCGTTTATGGATATAACCGCCTTCAATAATCCGACTATTAAAA
66 CCCTAACAAAATGTTATTGAAGGCGTTTCTGGATATAACCGCCTTCAATAATCTGACCATCAAAA
* * *
13244216 GTTATTGTCTAGAATATTAA
131 TTTATTTTCTGGAATATTAA
13244236 AGGTGTTTTG
Statistics
Matches: 406, Mismatches: 46, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
303 217 0.53
304 54 0.13
305 135 0.33
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.34
Consensus pattern (305 bp):
ACCAACTAAAAATTAATCGAATGGATTATGAAAGGCGTTTTCCTATGGGTAACGCCTTGAATAAT
CCCTAACAAAATGTTATTGAAGGCGTTTCTGGATATAACCGCCTTCAATAATCTGACCATCAAAA
TTTATTTTCTGGAATATTAATAGCAGTTTTTACCAAAATCACCTTCAATAATCCCACCAAAAATG
TATTGTGTGGAATATTAAAAGGCGTTTTGGACAAAAAACACCTTCAAGAATCCATCGAGTCTTTT
TTGTATAAATCATTGAAGGCATTTTAAAAAAATACCTTCAATAAT
Found at i:13246143 original size:16 final size:16
Alignment explanation
Indices: 13246122--13246156 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13246112 CATGATTATG
13246122 TATATAGTTACATGAT
1 TATATAGTTACATGAT
* *
13246138 TATATATTTGCATGAT
1 TATATAGTTACATGAT
13246154 TAT
1 TAT
13246157 TAATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (16 bp):
TATATAGTTACATGAT
Found at i:13246164 original size:20 final size:20
Alignment explanation
Indices: 13246139--13246242 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
13246129 TTACATGATT
13246139 ATATATTTGCATGATTATTA
1 ATATATTTGCATGATTATTA
* *
13246159 ATATATTTGCTTGATTATTG
1 ATATATTTGCATGATTATTA
* *
13246179 ATATATTGGCATG-CT-TTA
1 ATATATTTGCATGATTATTA
* *
13246197 TTAT-TTTGTATGA-T-TT-
1 ATATATTTGCATGATTATTA
*
13246213 GT-TATTTGCATGATTTATTA
1 ATATATTTGCATGA-TTATTA
13246233 A-ATATTTGCA
1 ATATATTTGCA
13246243 CGATATTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
15 1 0.02
16 9 0.14
17 9 0.14
18 6 0.09
19 3 0.05
20 37 0.57
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (20 bp):
ATATATTTGCATGATTATTA
Found at i:13251700 original size:73 final size:71
Alignment explanation
Indices: 13251566--13251799 Score: 242
Period size: 73 Copynumber: 3.3 Consensus size: 71
13251556 TTCAATAAGT
* * * * *
13251566 ACTGCATTTTTAAGATAACAACATAGTGGATGTT-AAAACTATATTTTCAAAATTCTGGAATTTT
1 ACTGCATTTTTAAGATAAAAATATAGTGGATGTTGAAAATTTTATTTTCAAAATT-TTGAATTTT
**
13251630 AACAAGG
65 AACAAAA
* * *
13251637 ATTGCATTTTTAAGATAAAAATTATATTGGATGTTGAAAATTTTTTTTTCAAAATTATTGAATTT
1 ACTGCATTTTTAAGATAAAAA-TATAGTGGATGTTGAAAATTTTATTTTCAAAATT-TTGAATTT
*
13251702 TGACAAAA
64 TAACAAAA
* * *
13251710 ACTGTATTTTTAAGATAAAAATATAGTAGATGTTG--AATTTTATTTTCAAAAATTTGAAATTTT
1 ACTGCATTTTTAAGATAAAAATATAGTGGATGTTGAAAATTTTATTTTCAAAATTTTG-AATTTT
* *
13251773 AAGAAAG
65 AACAAAA
* *
13251780 ACCGTATTTTTAA-ATAAAAA
1 ACTGCATTTTTAAGATAAAAA
13251800 ACATAATCTT
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
69 10 0.07
70 38 0.28
71 19 0.14
72 23 0.17
73 48 0.35
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.40
Consensus pattern (71 bp):
ACTGCATTTTTAAGATAAAAATATAGTGGATGTTGAAAATTTTATTTTCAAAATTTTGAATTTTA
ACAAAA
Found at i:13251800 original size:70 final size:71
Alignment explanation
Indices: 13251566--13251800 Score: 219
Period size: 70 Copynumber: 3.3 Consensus size: 71
13251556 TTCAATAAGT
* * * * * * *
13251566 ACTGCATTTTTAAGAT-AACAACATAGTGGATGTTAAAACTATATTTTC-AAAATTCTGGAATTT
1 ACTGTATTTTTAAGATAAAAAATATAGTAGATGTTGAAATTTTATTTTCAAAAATT-T-GAATTT
*
13251629 TAACAAGG
64 TAACAAAG
* * * * * * *
13251637 ATTGCATTTTTAAGATAAAAATTATATTGGATGTTGAAAATTTTTTTTTCAAAATTATTGAATTT
1 ACTGTATTTTTAAGATAAAAAATATAGTAGATGTTG-AAATTTTATTTTCAAAAAT-TTGAATTT
* *
13251702 TGACAAAA
64 TAACAAAG
13251710 ACTGTATTTTTAAGAT-AAAAATATAGTAGATGTTG-AATTTTATTTTCAAAAATTTGAAATTTT
1 ACTGTATTTTTAAGATAAAAAATATAGTAGATGTTGAAATTTTATTTTCAAAAATTTG-AATTTT
*
13251773 AAGAAAG
65 AACAAAG
*
13251780 ACCGTATTTTTAA-ATAAAAAA
1 ACTGTATTTTTAAGATAAAAAA
13251801 CATAATCTTT
Statistics
Matches: 134, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
69 5 0.04
70 43 0.32
71 15 0.11
72 30 0.22
73 35 0.26
74 5 0.04
75 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (71 bp):
ACTGTATTTTTAAGATAAAAAATATAGTAGATGTTGAAATTTTATTTTCAAAAATTTGAATTTTA
ACAAAG
Found at i:13253563 original size:24 final size:24
Alignment explanation
Indices: 13253534--13253586 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
13253524 AATTAATTAC
*
13253534 CATCATTACTTAGGCCTAATTTTG
1 CATCATTACTTAAGCCTAATTTTG
*
13253558 CATCATTTCTTAAGCCTAATTTTG
1 CATCATTACTTAAGCCTAATTTTG
13253582 CATCA
1 CATCA
13253587 CTGCTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (24 bp):
CATCATTACTTAAGCCTAATTTTG
Found at i:13253754 original size:2 final size:2
Alignment explanation
Indices: 13253747--13253771 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13253737 GTTAAGTAAA
13253747 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13253772 GTGTTTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13253815 original size:17 final size:16
Alignment explanation
Indices: 13253793--13253829 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
13253783 GGAAAATCAC
*
13253793 TTTAATATTTCTATATT
1 TTTAATATTT-TAAATT
13253810 TTTAATATTTTAAATT
1 TTTAATATTTTAAATT
13253826 TTTA
1 TTTA
13253830 TACATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATATTTTAAATT
Found at i:13258869 original size:8 final size:8
Alignment explanation
Indices: 13258856--13258890 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
13258846 TTCGAAGGGG
13258856 GAGGGAGA
1 GAGGGAGA
13258864 GAGGGAGA
1 GAGGGAGA
13258872 GAGGGAGA
1 GAGGGAGA
*
13258880 GAGAGAGA
1 GAGGGAGA
13258888 GAG
1 GAG
13258891 CTTACGAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (8 bp):
GAGGGAGA
Found at i:13259731 original size:71 final size:72
Alignment explanation
Indices: 13259642--13259793 Score: 166
Period size: 71 Copynumber: 2.1 Consensus size: 72
13259632 AATTTAAAAT
* ** *
13259642 TTTTGAAAAATAATTTTTTCATATTTTTTATA-AAAG-TTATATTTTTATCATAAAAATATCATC
1 TTTTAAAAAATAATTTTTT--TATACTTTAAACAAAGATTATATTTTTATCATAAAAATATCATC
*
13259705 TTTATTTAA
64 TTTATTAAA
* ** * *
13259714 TTTTAAAAAAT-ATTTTTTTATACTTTAAACAAAGATTGTATTTTTATTTTAAAAATATTATTTT
1 TTTTAAAAAATAATTTTTTTATACTTTAAACAAAGATTATATTTTTATCATAAAAATATCATCTT
13259778 TATTAAA
66 TATTAAA
*
13259785 TTCTAAAAA
1 TTTTAAAAA
13259794 TTAAATAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
69 8 0.12
70 4 0.06
71 45 0.67
72 10 0.15
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (72 bp):
TTTTAAAAAATAATTTTTTTATACTTTAAACAAAGATTATATTTTTATCATAAAAATATCATCTT
TATTAAA
Found at i:13259733 original size:25 final size:24
Alignment explanation
Indices: 13259705--13259781 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 24
13259695 AAATATCATC
13259705 TTTATTTAATTTTAAAAAATATTTT
1 TTTATTT-ATTTTAAAAAATATTTT
* * *
13259730 TTTA--TACTTTAAACAAAGATTGT
1 TTTATTTATTTTAAA-AAATATTTT
*
13259753 ATT-TTTATTTT-AAAAATATTATT
1 TTTATTTATTTTAAAAAATATT-TT
13259776 TTTATT
1 TTTATT
13259782 AAATTCTAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
22 13 0.33
23 15 0.38
24 7 0.18
25 4 0.10
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (24 bp):
TTTATTTATTTTAAAAAATATTTT
Found at i:13260273 original size:16 final size:16
Alignment explanation
Indices: 13260244--13260312 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
13260234 CAATCAATTT
13260244 TTTTCTTTGT-TTTTT-
1 TTTT-TTTGTATTTTTA
13260259 TTTTTTTGGTATTTTTA
1 TTTTTTT-GTATTTTTA
*
13260276 TTTTATTT-TATTTTTC
1 TTTT-TTTGTATTTTTA
*
13260292 TTTTTAGTTTTATTTTTA
1 TTTTT--TTGTATTTTTA
13260310 TTT
1 TTT
13260313 ATTAATTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
14 3 0.07
15 7 0.16
16 16 0.36
17 6 0.13
18 13 0.29
ACGTcount: A:0.10, C:0.03, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTTTTGTATTTTTA
Found at i:13260277 original size:6 final size:6
Alignment explanation
Indices: 13260268--13260347 Score: 67
Period size: 6 Copynumber: 12.8 Consensus size: 6
13260258 TTTTTTTTGG
* *
13260268 TATTTT TA-TTT TA-TTT TATTTT TCTTTT TAGTTT TATTTT TATTTAT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTT-T
13260315 TAATTTGCT TATTAATT T-TTTT TATTTT TATTT
1 T-ATTT--T TATT--TT TATTTT TATTTT TATTT
13260348 ACATAACTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
5 13 0.21
6 33 0.53
7 4 0.06
8 9 0.15
9 2 0.03
10 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:13262902 original size:17 final size:17
Alignment explanation
Indices: 13262872--13262904 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13262862 CTCAAATTTT
13262872 TCTTTCTTTCTCTCTCA
1 TCTTTCTTTCTCTCTCA
13262889 TCTTCTCTTT-TCTCTC
1 TCTT-TCTTTCTCTCTC
13262905 CCTTTTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (17 bp):
TCTTTCTTTCTCTCTCA
Found at i:13275176 original size:3 final size:3
Alignment explanation
Indices: 13275168--13275201 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13275158 TTGCCAATCT
13275168 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13275202 CATCATCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13275206 original size:3 final size:3
Alignment explanation
Indices: 13275200--13275258 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
13275190 TATTATTATT
* *
13275200 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATT TTC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
13275248 ATC ATC ATC AT
1 ATC ATC ATC AT
13275259 GTCATGTAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.32, C:0.31, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:13277925 original size:888 final size:874
Alignment explanation
Indices: 13276644--13278367 Score: 2097
Period size: 888 Copynumber: 1.9 Consensus size: 874
13276634 TGCTAACACA
*
13276644 AAAAATGCTAACAAATCTAATAATTAGTAACACGTTATACACCAAGAATCCAAAAAAAAAAAATT
1 AAAAATGCTAACAAATCTAATAATTAGTAACACGTTACACACCAAGAATCC---AAAAAAAAATT
* *
13276709 AGAAGACATTGAAAGTATTTATATAGTTCAAAAAAGGAAAATCAAAAGTCAAAAATAAATAATAT
63 AGAAGACATTGAAAATATTTATATAGTTCAAAAAA-GAAAATCAAAAATCAAAAATAAATAATAT
13276774 AAAAATAACACACATGCCTATGATTCTACCAAACAAACAAGAAAATGAATCAAAGATAATAAAAT
127 AAAAATAACACACATGCCTATGATTCTACCAAACAAACAAGAAAATGAATCAAAGATAATAAAAT
* * * * *
13276839 AGCATGACAAAAATAGAGAAAAAGCCATAATATATACATTTTCATCAATTAACATCATTTATGTA
192 AGCATGACAAAAATAAAGAAAAAGACATAATACATACATTTTCATCAATCAACATCATTTATGCA
* * * * * * * *
13276904 GTAACATGTTATTTAGTTTTATAATTATAACATCCAATAATCGATAAATACGAATCTTGGTCCTC
257 ATAACATGTTATTTAGTATTATAATGATAACACCCAATAATCAACAAACACGAATCTTGATCCTC
* ** * * *
13276969 AATCATCTTTTTTAGGAGATAATTATCCATTGTGACATATTCCAATTGTCTAATAGAGAAACTTA
322 AATCATCTTTTTCAAAAGACAATTATCAATCGTGACATATTCCAATTGTCTAATAGAGAAACTTA
*
13277034 AACTCC-AAAAAAACGATAATGGTAAAAACTAAAAAAATATGAAAATACAAACATTAAAAAAAAA
387 AACTCCAAAAAAAAAGATAATGGTAAAAA--AAAAAAATATGAAAATACAAACATT--------A
* *
13277098 AAAAACACACACCTCAATT-GACTAATAAACAAACTTGAAATGTAAAAAAAATAAATCATGATTC
442 AAAAACACACA--ACAATTAG-CAAATAAACAAACTTGAAATGTAAAAAAAA-AAATCATGA-T-
*
13277162 AAAAAGT-TTTAAAAA-TTTACTAATGAAAACACAA-TAAGAAATAAACCTTTTGGTTAATAATA
501 AAAAA-TATTTAAAAATTTTACTAATGAAAACACAATTAA-AAATAAACCTTTTGATTAATAATA
* * * * * *
13277224 TAACAAACAAGAATTAGAAGAGAAAATGTAATAGAGATATGTAAGATACTTAAATAACCCCACGC
564 TAA-AAACAAGAATTAGAAGAAAAAATGCAATAAAGATATGTAAGACACTCAAATAA-CCCACAC
* * *
13277289 CTAAAAAATAGAGGTGAAAAATTATAAGTTATAATAAAATT-AAAGTAAAAAACT-TAAATATTA
627 CT-AAAAA-A-A--TGAAAAATCATAAGTTACAAGAAAATTAAAAGTAAAAAA-TATAAATATTA
* * * * * * * *
13277352 GAAAACTAAAAGTTTCAATAACTTTTAATAAATTACCGTCTTAAAGAATGTGTATACTAGAAATT
686 AAAAACTAAAAATTTCAATAAATTTTAACAAATAACCGTCTTAAAGAATGTGAACACAAGAAATT
* * * *
13277417 CAAAA-TCACAAATTTATAAAAATGAT-GGTAACCAAAAGTTTATTGTGTTTTATG-CAA-GAAA
751 CAAAAGTCACAAATTTATAAAAATGATAAGTAACCAAAAATTTATTATGTTTTATGAAAACGAAA
13277478 ATTAAGAGATAAAGAATCAATCATGGATCATATAAAAAAAATTATAAAACAACTAATAT
816 ATTAAGAGATAAAGAATCAATCATGGATCATATAAAAAAAATTATAAAACAACTAATAT
* * * * * *
13277537 AAAAATGCTAACAAATCTCATGATTAGTAACATGTTACATATCAAGAA-CC-AAAAAATATGTAG
1 AAAAATGCTAACAAATCTAATAATTAGTAACACGTTACACACCAAGAATCCAAAAAAAAAT-TAG
*
13277600 AA-ACATTGAAAATATTTATATAGTTCAAAAAA-AAAAT-AAATAATCACAAATAAATAATATAA
65 AAGACATTGAAAATATTTATATAGTTCAAAAAAGAAAATCAAA-AATCAAAAATAAATAATAT-A
* * * * * *
13277662 AAAATAACACCCATGCTTATGATTCTACCAAATAAACAATAAAATGAATTAAATATAATAAAATA
128 AAAATAACACACATGCCTATGATTCTACCAAACAAACAAGAAAATGAATCAAAGATAATAAAATA
*
13277727 GCATGACGAAAAA-AAAG-AAAAGATATATATTACATACATTTTCATCAATCAACATCATTTATG
193 GCATGAC-AAAAATAAAGAAAAAGACATA-A-TACATACATTTTCATCAATCAACATCATTTATG
* * * *
13277790 CAATAACATTTTGTTTAGTCATT-TAATGATAACACCCCATAATCAACAAACATGAATCTTGATC
255 CAATAACATGTTATTTAGT-ATTATAATGATAACACCCAATAATCAACAAACACGAATCTTGATC
13277854 CTCAATCATCTTTTTCAAAAGACAATTATCAATCGTGACATACTT-CAATTG-CTTAATA-AGCA
319 CTCAATCATCTTTTTCAAAAGACAATTATCAATCGTGACATA-TTCCAATTGTC-TAATAGAG-A
* * * * *
13277916 AGCTTAAACTCCAAAAAAAAAAAAAAGATAGTGGTAAAAAATAAAAATATGAAGATGCAAACATT
381 AACTTAAACTCC-----AAAAAAAAAGATAATGGTAAAAAAAAAAAATATGAAAATACAAACATT
* * *
13277981 AAAAAACACACAACAATTAGCAAATTAACAAACTTGAAATGTTAAAAAAAAGATCATGATAAAAA
441 AAAAAACACACAACAATTAGCAAATAAACAAACTTGAAATGTAAAAAAAAAAATCATGATAAAAA
** * * *
13278046 TATTTAAAAATTTTACTAATGAAAACGTAATTAAAAATAAACTTTTTGATTAATAATATGAAAAT
506 TATTTAAAAATTTTACTAATGAAAACACAATTAAAAATAAACCTTTTGATTAATAATATAAAAAC
* * **
13278111 AAGAATTGGAAGAAAAAATGCAATAAAGATATGTAAGACACTCATATAAGTCACACCTAAAAAAA
571 AAGAATTAGAAGAAAAAATGCAATAAAGATATGTAAGACACTCAAATAACCCACACCTAAAAAAA
*
13278176 TGAAAAATCATAAGTTACAAGAAAATTAAAAGTAAAAGATATAAATATTAAAAAACTAAAAATTT
636 TGAAAAATCATAAGTTACAAGAAAATTAAAAGTAAAAAATATAAATATTAAAAAACTAAAAATTT
* * *
13278241 CAATAAATTTTAACAAATAACTGTCTTAAAGAATGTGAACACAAGAAATTTAAAAGTCACAGATT
701 CAATAAATTTTAACAAATAACCGTCTTAAAGAATGTGAACACAAGAAATTCAAAAGTCACAAATT
*
13278306 TATAAAAATGTTAAGTAACCAAAAATTTATTATGTTTTATGTAAAACGAAAATTAAGAGATA
766 TATAAAAATGATAAGTAACCAAAAATTTATTATGTTTTATG-AAAACGAAAATTAAGAGATA
13278368 TATATTTTGA
Statistics
Matches: 717, Mismatches: 87, Indels: 68
0.82 0.10 0.08
Matches are distributed among these distances:
873 25 0.03
874 79 0.11
875 20 0.03
876 26 0.04
877 5 0.01
878 9 0.01
879 73 0.10
880 42 0.06
881 11 0.02
882 32 0.04
883 1 0.00
884 12 0.02
885 3 0.00
886 30 0.04
887 74 0.10
888 180 0.25
889 9 0.01
892 24 0.03
893 42 0.06
894 20 0.03
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (874 bp):
AAAAATGCTAACAAATCTAATAATTAGTAACACGTTACACACCAAGAATCCAAAAAAAAATTAGA
AGACATTGAAAATATTTATATAGTTCAAAAAAGAAAATCAAAAATCAAAAATAAATAATATAAAA
ATAACACACATGCCTATGATTCTACCAAACAAACAAGAAAATGAATCAAAGATAATAAAATAGCA
TGACAAAAATAAAGAAAAAGACATAATACATACATTTTCATCAATCAACATCATTTATGCAATAA
CATGTTATTTAGTATTATAATGATAACACCCAATAATCAACAAACACGAATCTTGATCCTCAATC
ATCTTTTTCAAAAGACAATTATCAATCGTGACATATTCCAATTGTCTAATAGAGAAACTTAAACT
CCAAAAAAAAAGATAATGGTAAAAAAAAAAAATATGAAAATACAAACATTAAAAAACACACAACA
ATTAGCAAATAAACAAACTTGAAATGTAAAAAAAAAAATCATGATAAAAATATTTAAAAATTTTA
CTAATGAAAACACAATTAAAAATAAACCTTTTGATTAATAATATAAAAACAAGAATTAGAAGAAA
AAATGCAATAAAGATATGTAAGACACTCAAATAACCCACACCTAAAAAAATGAAAAATCATAAGT
TACAAGAAAATTAAAAGTAAAAAATATAAATATTAAAAAACTAAAAATTTCAATAAATTTTAACA
AATAACCGTCTTAAAGAATGTGAACACAAGAAATTCAAAAGTCACAAATTTATAAAAATGATAAG
TAACCAAAAATTTATTATGTTTTATGAAAACGAAAATTAAGAGATAAAGAATCAATCATGGATCA
TATAAAAAAAATTATAAAACAACTAATAT
Found at i:13279469 original size:48 final size:48
Alignment explanation
Indices: 13279393--13279491 Score: 144
Period size: 48 Copynumber: 2.1 Consensus size: 48
13279383 AAGCAAGCAA
* **
13279393 TTTCATGAGTTGATTTACAATGGTCAAATTATGCCATAATAAGTCTTT
1 TTTCATGAGTTGATCTACAATGAACAAATTATGCCATAATAAGTCTTT
* * *
13279441 TTTCTTGATTTGATCTACAATGAACAAATTATGCCTTAATAAGTCTTT
1 TTTCATGAGTTGATCTACAATGAACAAATTATGCCATAATAAGTCTTT
13279489 TTT
1 TTT
13279492 GTTTGCTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.44
Consensus pattern (48 bp):
TTTCATGAGTTGATCTACAATGAACAAATTATGCCATAATAAGTCTTT
Found at i:13279906 original size:17 final size:16
Alignment explanation
Indices: 13279884--13279921 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
13279874 TTTTGTAATA
13279884 TTAAA-TTTAATATATTT
1 TTAAATTTTAA-A-ATTT
13279901 TTAAATTTTAAAATTT
1 TTAAATTTTAAAATTT
13279917 TTAAA
1 TTAAA
13279922 AATCATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 6 0.30
18 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAATTTTAAAATTT
Found at i:13280554 original size:30 final size:31
Alignment explanation
Indices: 13280496--13280554 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
13280486 AAAAATAATA
* *
13280496 AAATTTGTAAAATATAAAACCTTTAAAAATG
1 AAATTTGTAAAATATAAAACATTGAAAAATG
* *
13280527 AAATTT-TAAAATTTAAAATATTGAAAAA
1 AAATTTGTAAAATATAAAACATTGAAAAA
13280555 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (31 bp):
AAATTTGTAAAATATAAAACATTGAAAAATG
Found at i:13280656 original size:21 final size:20
Alignment explanation
Indices: 13280617--13280656 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
13280607 ATTAATTTTT
13280617 TTAAAAAATAAAATCTTATC
1 TTAAAAAATAAAATCTTATC
13280637 TTAAAATAATAGAAAT-TTAT
1 TTAAAA-AATA-AAATCTTAT
13280657 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (20 bp):
TTAAAAAATAAAATCTTATC
Found at i:13280690 original size:31 final size:32
Alignment explanation
Indices: 13280650--13280710 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
13280640 AAATAATAGA
*
13280650 AATTTA-TTTTTTAAAAA-ATTAAAAAATTTT
1 AATTTATTTTTTTAAAAACATAAAAAAATTTT
13280680 AATTTAATTTTTTTAAAAACATAAAAAAATT
1 AATTT-ATTTTTTTAAAAACATAAAAAAATT
13280711 GTAAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
31 1 0.04
32 11 0.41
33 10 0.37
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (32 bp):
AATTTATTTTTTTAAAAACATAAAAAAATTTT
Found at i:13280721 original size:32 final size:32
Alignment explanation
Indices: 13280656--13280721 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
13280646 TAGAAATTTA
* * **
13280656 TTTTTTAAAAAATTAAAAAATTTTAATTTAAT
1 TTTTTTAAAAAATAAAAAAATTGTAATAAAAT
13280688 TTTTTTAAAAACATAAAAAAATTGTAA-AAAAT
1 TTTTTTAAAAA-ATAAAAAAATTGTAATAAAAT
13280720 TT
1 TT
13280722 GGAATAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (32 bp):
TTTTTTAAAAAATAAAAAAATTGTAATAAAAT
Found at i:13280783 original size:23 final size:22
Alignment explanation
Indices: 13280738--13280784 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
13280728 ATAAATTAAA
* *
13280738 AAAAATTAAAATATATGATTTT
1 AAAAATTAAAAAATATGAGTTT
*
13280760 AAAAATTCAAAAAATATTAGTTT
1 AAAAATT-AAAAAATATGAGTTT
13280783 AA
1 AA
13280785 TTAGTAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (22 bp):
AAAAATTAAAAAATATGAGTTT
Found at i:13282125 original size:17 final size:18
Alignment explanation
Indices: 13282105--13282138 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13282095 GAAAAAAAAA
*
13282105 GGAAAGAGCAAG-GAAAT
1 GGAAAAAGCAAGAGAAAT
13282122 GGAAAAAGCAAGAGAAA
1 GGAAAAAGCAAGAGAAA
13282139 AAAAAAGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.06, G:0.32, T:0.03
Consensus pattern (18 bp):
GGAAAAAGCAAGAGAAAT
Found at i:13282526 original size:19 final size:18
Alignment explanation
Indices: 13282491--13282547 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 18
13282481 ATATTATACA
*
13282491 AATAATTAATGGATAAAT
1 AATAATTAATAGATAAAT
* *
13282509 AATCATTATTAAGATAAAT
1 AATAATTAAT-AGATAAAT
13282528 AAATAATTAATAGATAAAT
1 -AATAATTAATAGATAAAT
13282547 A
1 A
13282548 CAAAGAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 9 0.28
19 15 0.47
20 8 0.25
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (18 bp):
AATAATTAATAGATAAAT
Found at i:13283239 original size:2 final size:2
Alignment explanation
Indices: 13283232--13283257 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13283222 TAGTTAGACC
13283232 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13283258 TTGTTATTCC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13286279 original size:20 final size:21
Alignment explanation
Indices: 13286243--13286281 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13286233 ACTTAGTTTT
13286243 TCATCCAATTATATATTGATC
1 TCATCCAATTATATATTGATC
13286264 TCATCCAATT-TATATTGA
1 TCATCCAATTATATATTGA
13286282 GCGATGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (21 bp):
TCATCCAATTATATATTGATC
Found at i:13288296 original size:63 final size:62
Alignment explanation
Indices: 13288199--13288485 Score: 206
Period size: 63 Copynumber: 4.4 Consensus size: 62
13288189 TTTTACACAG
* * ** *
13288199 TTTAAAAAATTTACAATTAACAATTATTGCATTTAGCTTTATTGAAACATAGTAATTTATTAT
1 TTTAAAAAA-TTACAATGAACAATTACTATATTTAGCTTTATTAAAACATAGTAATTTATTAT
* *
13288262 TTTACAAAAATTACAATGAATAATTACTATATTTAGC-TTA--AAAAAATGCAGT-ATTTGATTA
1 TTTA-AAAAATTACAATGAACAATTACTATATTTAGCTTTATTAAAACAT--AGTAATTT-ATTA
13288323 T
62 T
* * ** * *** * *
13288324 TTTAAATAAATTACAATGATCACTTACTACGTTTATCTTTAACGAAACGTAGTAATTGAGCTTTT
1 TTTAAA-AAATTACAATGAACAATTACTATATTTAGCTTTATTAAAACATAGTAA-T----TTAT
13288389 TAAAT
60 T--AT
* * *
13288394 GCTTTAAAAAATTACAATGAACAATTACTATGTTTA-ATTTCATTAAAACATAGTAATTGATTAT
1 --TTTAAAAAATTACAATGAACAATTACTATATTTAGCTTT-ATTAAAACATAGTAATTTATTAT
13288458 TTTACAAAAATTACAATGAACAATTACT
1 TTTA-AAAAATTACAATGAACAATTACT
13288486 GCTTTTAGCT
Statistics
Matches: 177, Mismatches: 27, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
60 5 0.03
61 6 0.03
62 43 0.24
63 55 0.31
64 8 0.05
65 5 0.03
66 3 0.02
68 2 0.01
69 2 0.01
70 6 0.03
71 36 0.20
72 6 0.03
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (62 bp):
TTTAAAAAATTACAATGAACAATTACTATATTTAGCTTTATTAAAACATAGTAATTTATTAT
Found at i:13288419 original size:196 final size:194
Alignment explanation
Indices: 13288008--13288505 Score: 544
Period size: 196 Copynumber: 2.5 Consensus size: 194
13287998 ACATGTTTTA
* * *
13288008 AAAAAATTACAATGAACAATTATTGCGTTAAGCTTTAAATAAACATTGTAATTGATT-TTTTA-A
1 AAAAAATTACAATGAACAATTATTGC-TTTAGCTTTAATTAAACATAGTAATTGATTATTTTACA
* * * * * *** ** *
13288071 AAAATTAAAAAGAAAAATTATTACATTTAACTTTAAAAGGGTATAGTACTTGATTGTTTTAAATA
65 AAAATTACAATGAAAAATTACTATATTTAGC-TTAAAAAAATGCAGTACTTGATTATTTTAAATA
* * *
13288136 AATTATAATGACCAATTACTACATTTGTCTTCAAAAAATGCAATAATTGAGCTTTTTACACAGTT
129 AATTACAATGACCAATTACTACATTTATCTTCAAAAAACGCAATAATTGAGCTTTTTACACAGTT
13288201 T
194 T
* *
13288202 AAAAAATTTACAATTAACAATTATTGCATTTAGCTTT-ATTGAAACATAGTAATTTATTATTTTA
1 AAAAAA-TTACAATGAACAATTATTGC-TTTAGCTTTAATT-AAACATAGTAATTGATTATTTTA
* *
13288266 CAAAAATTACAATGAATAATTACTATATTTAGCTTAAAAAAATGCAGTATTTGATTATTTTAAAT
63 CAAAAATTACAATGAAAAATTACTATATTTAGCTTAAAAAAATGCAGTACTTGATTATTTTAAAT
* * * * * * *
13288331 AAATTACAATGATCACTTACTACGTTTATCTTTAACGAAACGTAGTAATTGAGCTTTTTA-A-AT
128 AAATTACAATGACCAATTACTACATTTATCTTCAA-AAAACGCAATAATTGAGCTTTTTACACA-
13288394 GCTTT
191 G-TTT
* *
13288399 AAAAAATTACAATGAACAATTACTATG-TTTA-ATTTCATTAAAACATAGTAATTGATTATTTTA
1 AAAAAATTACAATGAACAATTA-T-TGCTTTAGCTTTAATT-AAACATAGTAATTGATTATTTTA
* *
13288462 CAAAAATTACAATGAACAATTACTGCT-TTTAGCTTAAAAAAATG
63 CAAAAATTACAATGAAAAATTACT-ATATTTAGCTTAAAAAAATG
13288506 TATAATTGAG
Statistics
Matches: 258, Mismatches: 35, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
194 8 0.03
195 46 0.18
196 145 0.56
197 57 0.22
198 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (194 bp):
AAAAAATTACAATGAACAATTATTGCTTTAGCTTTAATTAAACATAGTAATTGATTATTTTACAA
AAATTACAATGAAAAATTACTATATTTAGCTTAAAAAAATGCAGTACTTGATTATTTTAAATAAA
TTACAATGACCAATTACTACATTTATCTTCAAAAAACGCAATAATTGAGCTTTTTACACAGTTT
Found at i:13293936 original size:16 final size:16
Alignment explanation
Indices: 13293917--13293956 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
13293907 ATTAATTTTA
13293917 TTTTTTTTC-ATTCTT
1 TTTTTTTTCTATTCTT
*
13293932 TTTTTTTTCTTTTCTT
1 TTTTTTTTCTATTCTT
13293948 TTTCTTTTT
1 TTT-TTTTT
13293957 TTGTTTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 8 0.36
17 5 0.23
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTTCTATTCTT
Found at i:13295005 original size:18 final size:18
Alignment explanation
Indices: 13294917--13295005 Score: 55
Period size: 18 Copynumber: 5.0 Consensus size: 18
13294907 AAATATATTT
* *
13294917 AAAAAAAGTCTTTTTAAA
1 AAAAAAAATCTTTTCAAA
13294935 AAAAAAAATCTTTTC---
1 AAAAAAAATCTTTTCAAA
* *
13294950 -AAATAAA-GTTTTC-AA
1 AAAAAAAATCTTTTCAAA
13294965 AAAAAAAATCCTTTCAATACAAA
1 AAAAAAAAT-CTTT---T-CAAA
13294988 AAAAAAAATCTTTTCAAA
1 AAAAAAAATCTTTTCAAA
13295006 TAAATAATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 20
0.68 0.07 0.25
Matches are distributed among these distances:
13 5 0.09
14 6 0.11
16 6 0.11
18 20 0.36
19 1 0.02
21 1 0.02
22 5 0.09
23 11 0.20
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAAAAATCTTTTCAAA
Found at i:13301890 original size:112 final size:113
Alignment explanation
Indices: 13301765--13301968 Score: 261
Period size: 112 Copynumber: 1.8 Consensus size: 113
13301755 AAATAATGAG
* * * * * *
13301765 TTTCTATTCAAAGAAATGCGGTAAATAATAACAAATACTGCATTTTAAATCATGCAAACACAGTA
1 TTTCTATTCAAAGAAATCCAGTAAATAATAACAAATACTACATTTTAAAGCATACAAACACAATA
13301830 TTCA-AGT-GGAAAATATAAAAAA-AATAAACGAGTTGTTAAATACTACA
66 TT-AGAGTGGGAAAATA-AAAAAAGAATAAACGAGTTGTTAAATACTACA
* * * ** *
13301877 TTTCTATTTAAAGAAATCCAGTAAATAATCACAATTACTATGTTTTAAAGCCTACAAACACAATA
1 TTTCTATTCAAAGAAATCCAGTAAATAATAACAAATACTACATTTTAAAGCATACAAACACAATA
13301942 TTAGAGTGGGAAAATAAAAAAAGAATA
66 TTAGAGTGGGAAAATAAAAAAAGAATA
13301969 GTATTCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
111 1 0.01
112 64 0.83
113 12 0.16
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (113 bp):
TTTCTATTCAAAGAAATCCAGTAAATAATAACAAATACTACATTTTAAAGCATACAAACACAATA
TTAGAGTGGGAAAATAAAAAAAGAATAAACGAGTTGTTAAATACTACA
Found at i:13318076 original size:20 final size:20
Alignment explanation
Indices: 13318053--13318093 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13318043 CTTTAAAAGC
13318053 CGTCCTTACCTCAGCTTGTG
1 CGTCCTTACCTCAGCTTGTG
13318073 CGTCCTTACCTCAGCTTGTG
1 CGTCCTTACCTCAGCTTGTG
13318093 C
1 C
13318094 CTCTCTCAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.37, G:0.20, T:0.34
Consensus pattern (20 bp):
CGTCCTTACCTCAGCTTGTG
Found at i:13325477 original size:25 final size:26
Alignment explanation
Indices: 13325443--13325500 Score: 93
Period size: 25 Copynumber: 2.3 Consensus size: 26
13325433 TAAAATTAAT
13325443 ATATATATTTATAAAAAATATAT-T-A
1 ATATATATTTATAAAAAAT-TATCTAA
13325468 ATATATATTTATAAAAAATTATCTAA
1 ATATATATTTATAAAAAATTATCTAA
13325494 ATATATA
1 ATATATA
13325501 AGATTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 3 0.10
25 20 0.65
26 8 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATATATTTATAAAAAATTATCTAA
Found at i:13326814 original size:21 final size:21
Alignment explanation
Indices: 13326790--13326839 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
13326780 AAAATTTTAA
*
13326790 TTATTTTATGCATATTAAAAT
1 TTATTTTATGAATATTAAAAT
* * *
13326811 TTATTATATTAATTTTAAAAT
1 TTATTTTATGAATATTAAAAT
*
13326832 ATATTTTA
1 TTATTTTA
13326840 AAATTAAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTATTTTATGAATATTAAAAT
Found at i:13326996 original size:2 final size:2
Alignment explanation
Indices: 13326989--13327017 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13326979 GCAACCACAA
13326989 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13327018 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13327022 original size:2 final size:2
Alignment explanation
Indices: 13327017--13327053 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13327007 TCTCTCTCTC
13327017 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13327054 TCAACCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13329794 original size:26 final size:25
Alignment explanation
Indices: 13329764--13329813 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
13329754 AAAAATAGTA
13329764 AAATAATTTATTGTATTAAAT-TTTAC
1 AAATAATTTA-TG-ATTAAATCTTTAC
*
13329790 AAATATTTTATGATTAAATCTTTA
1 AAATAATTTATGATTAAATCTTTA
13329814 TGACACTACG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 6 0.27
26 9 0.41
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (25 bp):
AAATAATTTATGATTAAATCTTTAC
Found at i:13340718 original size:16 final size:16
Alignment explanation
Indices: 13340694--13340728 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13340684 AGATTAATTG
*
13340694 CAAACAAAAAAACTCA
1 CAAAAAAAAAAACTCA
*
13340710 CAAAAAAAATAACTCA
1 CAAAAAAAAAAACTCA
13340726 CAA
1 CAA
13340729 GAATTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.09
Consensus pattern (16 bp):
CAAAAAAAAAAACTCA
Found at i:13348223 original size:9 final size:9
Alignment explanation
Indices: 13348211--13348251 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
13348201 TGATAATAAT
13348211 AAATAAATA
1 AAATAAATA
13348220 AAATAAATA
1 AAATAAATA
* *
13348229 AATTAAA-G
1 AAATAAATA
13348237 AAA-AAATA
1 AAATAAATA
13348245 AAATAAA
1 AAATAAA
13348252 GCTAAAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
7 3 0.12
8 5 0.19
9 18 0.69
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (9 bp):
AAATAAATA
Found at i:13348684 original size:20 final size:20
Alignment explanation
Indices: 13348644--13348761 Score: 107
Period size: 20 Copynumber: 5.8 Consensus size: 20
13348634 TGTTAGATTT
13348644 CCTAGAAATTC-AA-CTACAAA
1 CCTAGAAATTCAAACCT--AAA
*
13348664 CCCAGAAATTCAAACCTAAA
1 CCTAGAAATTCAAACCTAAA
* *
13348684 CCAAAAAATTCAAACCTAAA
1 CCTAGAAATTCAAACCTAAA
* *
13348704 CCTAGAAACTT-GAACTCTCAAT
1 CCTAGAAA-TTCAAAC-CT-AAA
* *
13348726 CCTAGAACTTCAAACCAAAA
1 CCTAGAAATTCAAACCTAAA
13348746 CCTAGAAATTCAAACC
1 CCTAGAAATTCAAACC
13348762 ACTTTTAATC
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
20 57 0.71
21 9 0.11
22 14 0.17
ACGTcount: A:0.48, C:0.28, G:0.05, T:0.19
Consensus pattern (20 bp):
CCTAGAAATTCAAACCTAAA
Found at i:13349100 original size:3 final size:3
Alignment explanation
Indices: 13349092--13349132 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
13349082 TAGATTAAGA
13349092 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13349133 ACACCAGTCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13349648 original size:60 final size:60
Alignment explanation
Indices: 13349548--13349742 Score: 246
Period size: 60 Copynumber: 3.2 Consensus size: 60
13349538 ACCTGAACTA
* *
13349548 AGCTGAGATCGAAAACAAGTGATCGAGATTGAACCATGAGTTAGAAAGATGATCTGGATTG
1 AGCTGAGATC-AAAACAAGTGATCGAAATTGAACCGTGAGTTAGAAAGATGATCTGGATTG
* * ** *
13349609 AGCTGAGATCAAAGCAAGTGATCGAAATCGAATTGTGAGTCAGAAAGATGATCTGGATTG
1 AGCTGAGATCAAAACAAGTGATCGAAATTGAACCGTGAGTTAGAAAGATGATCTGGATTG
* * * * * ***
13349669 AGTTAAGATCAAAACAAGTGATCGAAATTGAACCGTGAGTTAAAAAAATGATCTAGACCA
1 AGCTGAGATCAAAACAAGTGATCGAAATTGAACCGTGAGTTAGAAAGATGATCTGGATTG
13349729 AGCTGAGATCAAAA
1 AGCTGAGATCAAAA
13349743 TGAACAATTT
Statistics
Matches: 112, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 102 0.91
61 10 0.09
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (60 bp):
AGCTGAGATCAAAACAAGTGATCGAAATTGAACCGTGAGTTAGAAAGATGATCTGGATTG
Found at i:13360483 original size:20 final size:20
Alignment explanation
Indices: 13360441--13360483 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
13360431 AAAGGTCATT
*
13360441 GAAAAATTCAAAGATTTTTA
1 GAAAAATTCAAAGATTTTCA
13360461 GAAAAATTCAAAG-TTTTCCA
1 GAAAAATTCAAAGATTTT-CA
13360481 GAA
1 GAA
13360484 TTTAGTGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (20 bp):
GAAAAATTCAAAGATTTTCA
Found at i:13361004 original size:14 final size:15
Alignment explanation
Indices: 13360985--13361013 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13360975 TTAAAACCAA
13360985 ACTTTTTT-TTTTTT
1 ACTTTTTTCTTTTTT
13360999 ACTTTTTTCTTTTTT
1 ACTTTTTTCTTTTTT
13361014 TCTTATAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (15 bp):
ACTTTTTTCTTTTTT
Found at i:13361031 original size:4 final size:4
Alignment explanation
Indices: 13361022--13361051 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
13361012 TTTCTTATAG
*
13361022 ATTA ATTA ATTA ATTA ATAA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
13361052 AATAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:13361285 original size:40 final size:40
Alignment explanation
Indices: 13361241--13361915 Score: 436
Period size: 40 Copynumber: 16.9 Consensus size: 40
13361231 TTTTTTTTTG
* **
13361241 AAAGGCTCTTCTAAACAGAGGTTATGAAACTTTAAATTCA
1 AAAGGCTCTTCTAACCAGAGGCAATGAAACTTTAAATTCA
* * *
13361281 AAAGGCTCATT-TGACCAGAGGCAACGAAACTTTAAATTTA
1 AAAGGCTC-TTCTAACCAGAGGCAATGAAACTTTAAATTCA
* *
13361321 AAAGGCTCTTCTAGCCAAAGGCAATGAAACTTTAAATGAT-A
1 AAAGGCTCTTCTAACCAGAGGCAATGAAACTTTAAAT--TCA
* ** *
13361362 AAAGGCTTCTT-TGATTAGAGGTAA--AAACTTTAAATTCA
1 AAAGGC-TCTTCTAACCAGAGGCAATGAAACTTTAAATTCA
* *
13361400 AAAGGCT-TCTCTAACCATAGGCAATGAAACTTTAAATGTTA
1 AAAGGCTCT-TCTAACCAGAGGCAATGAAACTTTAAAT-TCA
* * *
13361441 AAAGACTCATT-TGACCAAAGGCAATG-AACTTTAAATTCA
1 AAAGGCTC-TTCTAACCAGAGGCAATGAAACTTTAAATTCA
* * **
13361480 AAAGGCTCCTCTAACTAGAGGCAACAAAACTTTAAATTCA
1 AAAGGCTCTTCTAACCAGAGGCAATGAAACTTTAAATTCA
* * * *
13361520 AAGGGCTCATCTAACTAGAGGCAA-GAAAGCTTTTAATTCA
1 AAAGGCTCTTCTAACCAGAGGCAATGAAA-CTTTAAATTCA
* * * * * *
13361560 GAGGGCTCCTCTAACTAAAGGCAATGAAACTTTAAATGTTA
1 AAAGGCTCTTCTAACCAGAGGCAATGAAACTTTAAAT-TCA
* * * * * *
13361601 AAAAGCTCTTTTATCCAAATGCAATG-AACTTTAAATT-T
1 AAAGGCTCTTCTAACCAGAGGCAATGAAACTTTAAATTCA
* * * ** * *
13361639 AGAGG----GCTAACCAGAGGTAACAAAAGTTTAAATGTTA
1 AAAGGCTCTTCTAACCAGAGGCAATGAAACTTTAAAT-TCA
* * * *
13361676 AAAGGCTCATCTGACCAGAGGTAATGAAACTTTAAATGTTA
1 AAAGGCTCTTCTAACCAGAGGCAATGAAACTTTAAAT-TCA
* * *
13361717 AAAAGC-CTTTCTGACCATAGGCAATGAAACTTTAAATTCA
1 AAAGGCTC-TTCTAACCAGAGGCAATGAAACTTTAAATTCA
* ** *
13361757 AAAGGGCTCTTCTAACTAGAGGCAACAAAACTTTAAATGTTA
1 AAA-GGCTCTTCTAACCAGAGGCAATGAAACTTTAAAT-TCA
* * *
13361799 AAAGG--CTTCTATGACTAGAGGTAACG-AACTTTAAATTCA
1 AAAGGCTCTTCTA--ACCAGAGGCAATGAAACTTTAAATTCA
* * * ** *
13361838 AAAGGTTTTCTCTAACTAGAGGCAACAAAACTTTAAATTTA
1 AAAGGCTCT-TCTAACCAGAGGCAATGAAACTTTAAATTCA
* * * *
13361879 GAAGGCT-TCTCTAACTAGAGCCAATGAAATTTTAAAT
1 AAAGGCTCT-TCTAACCAGAGGCAATGAAACTTTAAAT
13361916 GGAAAATTTG
Statistics
Matches: 506, Mismatches: 94, Indels: 70
0.76 0.14 0.10
Matches are distributed among these distances:
34 9 0.02
35 9 0.02
36 2 0.00
37 7 0.01
38 19 0.04
39 49 0.10
40 218 0.43
41 176 0.35
42 16 0.03
43 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (40 bp):
AAAGGCTCTTCTAACCAGAGGCAATGAAACTTTAAATTCA
Found at i:13362120 original size:74 final size:73
Alignment explanation
Indices: 13362005--13362161 Score: 181
Period size: 74 Copynumber: 2.1 Consensus size: 73
13361995 AGGTTCTTAG
** * * *
13362005 AATTAAAAAGCTTTTTTGACTAAAGGCAACGAAATTTTAAATCGCT-CTTTGAATCGAAGGCAAA
1 AATTAAAAAGCTCCTTTAACTAAAGGCAACGAAACTTTAAATCGCTCCTTTGAAT-AAAGGCAAA
*
13362069 GAAATTTTA
65 GAAACTTTA
* * * * *
13362078 AATTAAAATAGCTCCTTTAACTAGAGGCAATGAAACTTTAAATGGCTCCTTTGACTAAAGGCAAT
1 AATTAAAA-AGCTCCTTTAACTAAAGGCAACGAAACTTTAAATCGCTCCTTTGAATAAAGGCAAA
13362143 GAAACTTTA
65 GAAACTTTA
13362152 AATTTAAAAA
1 AA-TTAAAAA
13362162 TCTGAGAGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
73 8 0.11
74 49 0.70
75 13 0.19
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (73 bp):
AATTAAAAAGCTCCTTTAACTAAAGGCAACGAAACTTTAAATCGCTCCTTTGAATAAAGGCAAAG
AAACTTTA
Found at i:13362126 original size:34 final size:34
Alignment explanation
Indices: 13362083--13362154 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
13362073 TTTTAAATTA
*
13362083 AAATAGCTCCTTTAACTAGAGGCAATGAAACTTT
1 AAATAGCTCCTTTAACTAAAGGCAATGAAACTTT
* *
13362117 AAATGGCTCCTTTGACTAAAGGCAATGAAACTTT
1 AAATAGCTCCTTTAACTAAAGGCAATGAAACTTT
13362151 AAAT
1 AAAT
13362155 TTAAAAATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (34 bp):
AAATAGCTCCTTTAACTAAAGGCAATGAAACTTT
Found at i:13362158 original size:40 final size:40
Alignment explanation
Indices: 13362061--13362159 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 40
13362051 CTTTGAATCG
* * *
13362061 AAGGCAAAGAAATTTTAAATTAAAATAGCTCCTTTAACTA
1 AAGGCAATGAAACTTTAAATTTAAATAGCTCCTTTAACTA
* * *
13362101 GAGGCAATGAAAC------TTTAAATGGCTCCTTTGACTA
1 AAGGCAATGAAACTTTAAATTTAAATAGCTCCTTTAACTA
13362135 AAGGCAATGAAACTTTAAATTTAAA
1 AAGGCAATGAAACTTTAAATTTAAA
13362160 AATCTGAGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
34 30 0.65
40 16 0.35
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.29
Consensus pattern (40 bp):
AAGGCAATGAAACTTTAAATTTAAATAGCTCCTTTAACTA
Found at i:13365979 original size:364 final size:364
Alignment explanation
Indices: 13365310--13366042 Score: 1162
Period size: 364 Copynumber: 2.0 Consensus size: 364
13365300 AATCTTCATC
* *
13365310 CCATTTTCTTAACCCATGTTTTTTAAGAATCTTGAATATGAGGTCACATTTGGCTGTAAGTTGAA
1 CCATTTTCTTAACCCATGTTTTTGAAGAATCTTGAATATGAGGTCACATTTGGCTATAAGTTGAA
* * * * * **
13365375 AAATAAAACGAGTAATATAATTTAATCTTCTTAAAAATCCTCTTACTTTTTTTCATGTCCACAGA
66 AAACAAAACGAGCAATATAATTCAATCTCCCTAAAAATCCTCTTACTTTTTTTCACATCCACAGA
* * * *
13365440 GGTGGTAGTTCTTGGATGGCACGTATCTTATTTGGATCCTCCTCGATTCCTCTTTTAGTAGCAAT
131 GGTGGTAGTTCTTGGATGGCACGTATCTTATTTGGATCCACCTCAATTCCTCTTTTACTAACAAT
* * * *
13365505 AAATCACAATAAGTTTTTTGAGGTTACACCAAAAATGCATTTAGTTGATTTAGCTTGAGTTGAAA
196 AAATCACAATAAGTTTTTTGAGGTTACACCAAAAATGCATTTAGCTGATTTAGCTTAAGCTAAAA
* *
13365570 CTTTTTGATCTTAGCCACATGATTTTCTTCCTCACGAGATTTGGCTATCATGTTATCCATATACA
261 CTTTTTAAGCTTAGCCACATGATTTTCTTCCTCACGAGATTTGGCTATCATGTTATCCATATACA
*
13365635 CCTCTATTTCTTTGTACATCATATCATGGAATAGAGTTA
326 CCTCTATTTCTTTGTACATCATATCATGGAATAAAGTTA
* *
13365674 CCATTTTCTTAACCCATGTTTTTGAAGAATCTTGAATATGGGGTCACATTTGGCTATAAGTTGGA
1 CCATTTTCTTAACCCATGTTTTTGAAGAATCTTGAATATGAGGTCACATTTGGCTATAAGTTGAA
* *
13365739 AAACAAAACGAGCAATATAATTCAATCTCCCTAAAAATCCTTTTACTTTTTTTCACATGCACAGA
66 AAACAAAACGAGCAATATAATTCAATCTCCCTAAAAATCCTCTTACTTTTTTTCACATCCACAGA
*
13365804 GGTGGTAGTTCTTGGATGGCACGTATCTTATTTGGATCCACCTCAATTCTTCTTTTACTAACAAT
131 GGTGGTAGTTCTTGGATGGCACGTATCTTATTTGGATCCACCTCAATTCCTCTTTTACTAACAAT
* * *
13365869 AAATC-CTAATAATTTTTTTGAGGTTGCACCAAAAGTGCATTTAGCTGATTTAGCTTAAGCTAAA
196 AAATCAC-AATAAGTTTTTTGAGGTTACACCAAAAATGCATTTAGCTGATTTAGCTTAAGCTAAA
* *
13365933 ACTTTTTAAGCTTAGCCACATGATTTTCTTCCTTATGAGATTTGGCTATCATGTTATCCATATAC
260 ACTTTTTAAGCTTAGCCACATGATTTTCTTCCTCACGAGATTTGGCTATCATGTTATCCATATAC
* *
13365998 ACCTTTATTTCTTTGTGCATCATATCATGGAATAAAGTTA
325 ACCTCTATTTCTTTGTACATCATATCATGGAATAAAGTTA
13366038 CCATT
1 CCATT
13366043 GCTCTTTGAT
Statistics
Matches: 336, Mismatches: 32, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
363 1 0.00
364 335 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (364 bp):
CCATTTTCTTAACCCATGTTTTTGAAGAATCTTGAATATGAGGTCACATTTGGCTATAAGTTGAA
AAACAAAACGAGCAATATAATTCAATCTCCCTAAAAATCCTCTTACTTTTTTTCACATCCACAGA
GGTGGTAGTTCTTGGATGGCACGTATCTTATTTGGATCCACCTCAATTCCTCTTTTACTAACAAT
AAATCACAATAAGTTTTTTGAGGTTACACCAAAAATGCATTTAGCTGATTTAGCTTAAGCTAAAA
CTTTTTAAGCTTAGCCACATGATTTTCTTCCTCACGAGATTTGGCTATCATGTTATCCATATACA
CCTCTATTTCTTTGTACATCATATCATGGAATAAAGTTA
Found at i:13374094 original size:50 final size:52
Alignment explanation
Indices: 13373978--13374074 Score: 128
Period size: 50 Copynumber: 1.9 Consensus size: 52
13373968 TTTAGGGATA
* * *
13373978 TCAGTGAGATCC-CAAAATTTATTAAACAAATTTTAAGATTATCTCAATTCT
1 TCAGTGAAATCCTAAAAATTTATTAAACAAATTTTAAGATCATCTCAATTCT
* *
13374029 TCAGTGAAATCCTAAAAATTT-TT-AACAATTTTTAGGATCATCTCAA
1 TCAGTGAAATCCTAAAAATTTATTAAACAAATTTTAAGATCATCTCAA
13374075 CTTTTTGATG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
50 20 0.50
51 13 0.32
52 7 0.17
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.37
Consensus pattern (52 bp):
TCAGTGAAATCCTAAAAATTTATTAAACAAATTTTAAGATCATCTCAATTCT
Found at i:13374135 original size:4 final size:4
Alignment explanation
Indices: 13374126--13374150 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13374116 ATTAAGGTAA
13374126 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
13374151 CTTATTGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:13377798 original size:5 final size:5
Alignment explanation
Indices: 13377776--13377818 Score: 65
Period size: 5 Copynumber: 9.2 Consensus size: 5
13377766 TGATAATAAT
13377776 AAAT- AAAT- AAAT- AAATA AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA A
13377819 GAAAAAGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 12 0.32
5 26 0.68
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:13377870 original size:19 final size:19
Alignment explanation
Indices: 13377846--13377887 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
13377836 GGAAATTACA
*
13377846 AAAATAAAAACAA-AAAATG
1 AAAATAAAAA-AAGAAAAAG
13377865 AAAATAAAAAAAGAAAAAG
1 AAAATAAAAAAAGAAAAAG
13377884 AAAA
1 AAAA
13377888 ACTTGCGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.07
Consensus pattern (19 bp):
AAAATAAAAAAAGAAAAAG
Found at i:13378330 original size:20 final size:20
Alignment explanation
Indices: 13378235--13378335 Score: 78
Period size: 20 Copynumber: 5.0 Consensus size: 20
13378225 ATTCAACTCC
*
13378235 AAACCTAAAAATT-AAACCA
1 AAACCCAAAAATTCAAACCA
* * * *
13378254 AAACCTATAAATTGAAACCT
1 AAACCCAAAAATTCAAACCA
* * *
13378274 AAACCCAAAAACTCGAACTCTC
1 AAACCCAAAAATTCAAAC-C-A
* *
13378296 AATCCCAAAACTTCAAACCA
1 AAACCCAAAAATTCAAACCA
*
13378316 AAACCCAGAAATTCAAACCA
1 AAACCCAAAAATTCAAACCA
13378336 CTTTCAATTA
Statistics
Matches: 63, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
19 12 0.19
20 35 0.56
21 2 0.03
22 14 0.22
ACGTcount: A:0.52, C:0.29, G:0.03, T:0.16
Consensus pattern (20 bp):
AAACCCAAAAATTCAAACCA
Found at i:13378635 original size:3 final size:3
Alignment explanation
Indices: 13378627--13378655 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13378617 AGAAAAAGAA
13378627 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13378656 GCACTACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13379069 original size:78 final size:79
Alignment explanation
Indices: 13378946--13379092 Score: 199
Period size: 78 Copynumber: 1.9 Consensus size: 79
13378936 AAACAAATAG
* * * * *
13378946 AAAGTATTTTGAATTACATTAAGTATGGCATGCATAAAGGGACATTGTTCTTAGTCCAATTGTTC
1 AAAGTATTTGGAATTACATCAAGTATGGCATGCATAAAGAGACATTATTCTTAATCCAATTGTTC
13379011 CTTTATATAAACAA
66 CTTTATATAAACAA
* * *
13379025 AAAGTATTTGGAATTGCA-CAAGTGTGGC-TAGCATAAAGAGACATTATTCTTAATCCAATTTTT
1 AAAGTATTTGGAATTACATCAAGTATGGCAT-GCATAAAGAGACATTATTCTTAATCCAATTGTT
13379088 CCTTT
65 CCTTT
13379093 TTCATTAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
77 1 0.02
78 42 0.71
79 16 0.27
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (79 bp):
AAAGTATTTGGAATTACATCAAGTATGGCATGCATAAAGAGACATTATTCTTAATCCAATTGTTC
CTTTATATAAACAA
Found at i:13379207 original size:21 final size:21
Alignment explanation
Indices: 13379185--13379223 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13379175 AAAAAGATTA
13379185 AAAAAATTA-AAATTGAAAAT
1 AAAAAATTATAAATTGAAAAT
*
13379205 AAAAACTTATAAATTGAAA
1 AAAAAATTATAAATTGAAA
13379224 GTTTTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAAAATTATAAATTGAAAAT
Found at i:13380412 original size:15 final size:15
Alignment explanation
Indices: 13380394--13380423 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13380384 CTAAATATAT
*
13380394 AATATAAAAATAAAA
1 AATAGAAAAATAAAA
13380409 AATAGAAAAATAAAA
1 AATAGAAAAATAAAA
13380424 TTTTATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (15 bp):
AATAGAAAAATAAAA
Found at i:13381123 original size:21 final size:22
Alignment explanation
Indices: 13381099--13381149 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
13381089 CTCAAGCTCG
13381099 AACTTAATATTATATC-AATCA
1 AACTTAATATTATATCGAATCA
* *
13381120 AACTTAATATTATATCGATTTA
1 AACTTAATATTATATCGAATCA
13381142 AACTTAAT
1 AACTTAAT
13381150 CAACTACACC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (22 bp):
AACTTAATATTATATCGAATCA
Found at i:13381333 original size:16 final size:16
Alignment explanation
Indices: 13381305--13381348 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
13381295 GTAAGATTTT
* *
13381305 TTAAACAATTATT-TA
1 TTAAAAAATTATTAAA
13381320 TTAAAAATATTATTAAA
1 TTAAAAA-ATTATTAAA
13381337 TTAAAAAATTAT
1 TTAAAAAATTAT
13381349 AATAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 11 0.44
17 8 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAAAAATTATTAAA
Found at i:13381448 original size:22 final size:24
Alignment explanation
Indices: 13381411--13381454 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
13381401 TCAAGATATT
*
13381411 TTTTAAAAATATTAAT-TTTAAAA
1 TTTTAAAAATAATAATATTTAAAA
13381434 TTTT-AAAATAATAATATTTAA
1 TTTTAAAAATAATAATATTTAA
13381455 GTTATTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTTAAAAATAATAATATTTAAAA
Found at i:13382379 original size:2 final size:2
Alignment explanation
Indices: 13382372--13382418 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
13382362 CAACCACAAA
*
13382372 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC GC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13382414 TC TC T
1 TC TC T
13382419 ATTCTATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.02, T:0.49
Consensus pattern (2 bp):
TC
Found at i:13387009 original size:70 final size:70
Alignment explanation
Indices: 13386879--13387008 Score: 192
Period size: 70 Copynumber: 1.9 Consensus size: 70
13386869 ATAATGGATA
* * * *
13386879 TTGAAATTTTATTTTTGGAATTATAAAATTTTAACATAAATCACGTTTTTAAGATAAAAAAGTGT
1 TTGAAACTTTATTTTTGAAATTATAAAATTTGAACATAAATCAAGTTTTTAAGATAAAAAAGTGT
13386944 AGATG
66 AGATG
*
13386949 TTGAAACTTTATTTTTGAAATTATGAAATTTGAACA-AAATCAAGTTTTT-AGATGAAAAAA
1 TTGAAACTTTATTTTTGAAATTATAAAATTTGAACATAAATCAAGTTTTTAAGAT-AAAAAA
13387009 ATATAATGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
68 4 0.07
69 18 0.33
70 32 0.59
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (70 bp):
TTGAAACTTTATTTTTGAAATTATAAAATTTGAACATAAATCAAGTTTTTAAGATAAAAAAGTGT
AGATG
Found at i:13387730 original size:18 final size:18
Alignment explanation
Indices: 13387704--13387764 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
13387694 TCCATTCACA
*
13387704 ACATGTATTCATTTAAGC
1 ACATATATTCATTTAAGC
*
13387722 ACATATATTCA-TTCA-C
1 ACATATATTCATTTAAGC
* *
13387738 AACATATATTTATTTACGC
1 -ACATATATTCATTTAAGC
13387757 ACATATAT
1 ACATATAT
13387765 CAATGTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 1 0.03
17 13 0.37
18 20 0.57
19 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.39
Consensus pattern (18 bp):
ACATATATTCATTTAAGC
Found at i:13387736 original size:35 final size:35
Alignment explanation
Indices: 13387696--13387764 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
13387686 TTTGCAAGTC
*
13387696 CATTCACAACATGTATTCATTTAAGCACATATATT
1 CATTCACAACATATATTCATTTAAGCACATATATT
* *
13387731 CATTCACAACATATATTTATTTACGCACATATAT
1 CATTCACAACATATATTCATTTAAGCACATATAT
13387765 CAATGTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (35 bp):
CATTCACAACATATATTCATTTAAGCACATATATT
Found at i:13387744 original size:17 final size:17
Alignment explanation
Indices: 13387696--13387747 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
13387686 TTTGCAAGTC
*
13387696 CATTCACAACATGTATT
1 CATTCACAACATATATT
*
13387713 CATTTA-AGCACATATATT
1 CATTCACA--ACATATATT
13387731 CATTCACAACATATATT
1 CATTCACAACATATATT
13387748 TATTTACGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 1 0.03
17 14 0.48
18 13 0.45
19 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (17 bp):
CATTCACAACATATATT
Found at i:13402414 original size:63 final size:63
Alignment explanation
Indices: 13402347--13402546 Score: 180
Period size: 63 Copynumber: 3.2 Consensus size: 63
13402337 ATCTTCCAGT
* *
13402347 GAAAAACGCCTTTAATTTTTTACAACTCAAATTTTAAGATGGTTAGTGAAGGCGTTTATTCTA
1 GAAAAATGCCTTTAATTTTTTACAACTCAAATTTTAAGATGGTTAGTGAAGGTGTTTATTCTA
* * * * * * *
13402410 GAAAAATGCCTTCACTAATTTTTTTA-AA--AAAATTTTTAG--GATTATTAAAAGTG-TCA-TC
1 GAAAAATGCCTT---TAA-TTTTTTACAACTCAAATTTTAAGATGGTTAGTGAAGGTGTTTATTC
*
13402468 CA
62 TA
* * *
13402470 GTGAAAAATGCCTTTAATTTTTCACAACTCAAATTTTAAGATAGTTAGTGAAGATGTTTATTCTA
1 --GAAAAATGCCTTTAATTTTTTACAACTCAAATTTTAAGATGGTTAGTGAAGGTGTTTATTCTA
13402535 GAAAAATGCCTT
1 GAAAAATGCCTT
13402547 CACTAATTCC
Statistics
Matches: 103, Mismatches: 21, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
58 6 0.06
59 5 0.05
60 3 0.03
61 11 0.11
62 21 0.20
63 31 0.30
64 11 0.11
65 3 0.03
66 5 0.05
67 7 0.07
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (63 bp):
GAAAAATGCCTTTAATTTTTTACAACTCAAATTTTAAGATGGTTAGTGAAGGTGTTTATTCTA
Found at i:13402451 original size:125 final size:123
Alignment explanation
Indices: 13402272--13402554 Score: 394
Period size: 125 Copynumber: 2.3 Consensus size: 123
13402262 TTGGGATTAT
* * *
13402272 TGAAGGCGTTT-TTTTAG--AAATGCCTTCAATAATGTTTTCTTAAAATTTTTAGGATTATTGAA
1 TGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAAT-TTTTCTTAAAATTTTTAGGATTATTAAA
* * * *
13402334 GGCATCTTCCAGTGAAAAACGCCTTTAATTTTTTACAACTCAAATTTTAAGATGGTTAG
65 AGCATCATCCAGTGAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGATAGTTAG
13402393 TGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTTTT-TTAAAAAAATTTTTAGGATTATTA
1 TGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTTTTCTT---AAAATTTTTAGGATTATTA
** *
13402457 AAAGTGTCATCCAGTGAAAAATGCCTTTAATTTTTCACAACTCAAATTTTAAGATAGTTAG
63 AAAGCATCATCCAGTGAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGATAGTTAG
**
13402518 TGAAGATGTTTATTCTAGAAAAATGCCTTCACTAATT
1 TGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATT
13402555 CCTTCTAATT
Statistics
Matches: 144, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
121 11 0.08
122 7 0.05
123 4 0.03
124 15 0.10
125 107 0.74
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (123 bp):
TGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTTTTCTTAAAATTTTTAGGATTATTAAAA
GCATCATCCAGTGAAAAACGCCTTTAATTTTTCACAACTCAAATTTTAAGATAGTTAG
Found at i:13402604 original size:125 final size:123
Alignment explanation
Indices: 13402123--13402608 Score: 327
Period size: 125 Copynumber: 3.9 Consensus size: 123
13402113 TTCAATATTC
* * *
13402123 CACAACTTAAATTTTAAGAT-GATTAGTGAAGTCATTTATTCTAGAAAAATGCCTTCACTAATTC
1 CACAACTCAAATTTTAAGATAG-TTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATT-
* * * * * *
13402187 TTTCTAATTTACGTACATAATAATTAAAGGCATTTTTTGAGAACAAATGTCTTCAATAATTT
64 TTTCTAATTTACGTACATAATTATTAAAGGCATCTTTTAAGAA-AAATGCCTTTAAT-TTTT
* * * ** * * *
13402249 C-C-TCTTAAAATTTT-TGGGA-TTATTGAAGGCGTTT-TTTTAG--AAATGCCTTCAATAATGT
1 CACAAC-TCAAATTTTAAGATAGTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAAT-T
* ** * ** * *
13402307 TTTCTTAAAATTT---T-TAGGATTATTGAAGGCATCTTCCAGTGAAAAACGCCTTTAATTTTT
64 TTTC-T--AATTTACGTACATAATTATTAAAGGCATCTTTTA-AGAAAAATGCCTTTAATTTTT
* *
13402367 TACAACTCAAATTTTAAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTTT
1 CACAACTCAAATTTTAAGATAGTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTTT
* ** ** *** ***
13402432 TTTAA-AAAAATTTTTAGGATTATTAAAAGTGTCATCCAGT--GAAAAATGCCTTTAATTTTT
66 TCTAATTTACGTACATA--ATTATT-AAAG-G-CATCTTTTAAGAAAAATGCCTTTAATTTTT
** *
13402492 CACAACTCAAATTTTAAGATAGTTAGTGAAGATGTTTATTCTAGAAAAATGCCTTCACTAATTCC
1 CACAACTCAAATTTTAAGATAGTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATT-T
* *
13402557 TTCTAATTTACGTACATAATTATTGAAGGCATTTTTTAAGAACAAATGCCTT
65 TTCTAATTTACGTACATAATTATTAAAGGCATCTTTTAAGAA-AAATGCCTT
13402609 CACTAATTCC
Statistics
Matches: 268, Mismatches: 64, Indels: 57
0.69 0.16 0.15
Matches are distributed among these distances:
118 3 0.01
119 34 0.13
120 27 0.10
121 16 0.06
122 16 0.06
123 23 0.09
124 23 0.09
125 108 0.40
126 9 0.03
127 5 0.02
128 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (123 bp):
CACAACTCAAATTTTAAGATAGTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACTAATTTT
TCTAATTTACGTACATAATTATTAAAGGCATCTTTTAAGAAAAATGCCTTTAATTTTT
Found at i:13403216 original size:25 final size:25
Alignment explanation
Indices: 13403173--13403239 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
13403163 GAATCGTATG
* ** *
13403173 CTGAATGGTTTTCCAAATGGTGTTT
1 CTGAATGGTTTGCTGAATGATGTTT
* *
13403198 CTGAGTGGTTTGTTGAATGATGTTT
1 CTGAATGGTTTGCTGAATGATGTTT
*
13403223 TTGAATGGTTTGCTGAA
1 CTGAATGGTTTGCTGAA
13403240 GAACACATTG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.19, C:0.07, G:0.28, T:0.45
Consensus pattern (25 bp):
CTGAATGGTTTGCTGAATGATGTTT
Found at i:13407699 original size:21 final size:21
Alignment explanation
Indices: 13407670--13407715 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
13407660 AATAAGCCTG
*
13407670 TAAATTTTTTTGTGGAATTAT
1 TAAAATTTTTTGTGGAATTAT
13407691 TAAAATTTTTTGTGGAATTAT
1 TAAAATTTTTTGTGGAATTAT
13407712 TAAA
1 TAAA
13407716 GGCTTTCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (21 bp):
TAAAATTTTTTGTGGAATTAT
Found at i:13413872 original size:135 final size:135
Alignment explanation
Indices: 13413716--13413965 Score: 349
Period size: 135 Copynumber: 1.9 Consensus size: 135
13413706 AGCAATGGTG
* * * * *
13413716 TTTTTCTCATAAAAATGTCACTAAACTAACGGCATCTCAAAGAGGA-AAATGCTGTTAATATGGA
1 TTTTTCTCATAAAAATATCACTAAACTAACGACATCTCAAA-AAGACAAATGCTGCTAATATAGA
* *
13413780 GGCATTTTCAAATACAAACACCTCTAAAGTAGCGACATTTTCATTTACAAAATACCATCAAAACA
65 AGCATTTTCAAATACAAACACCTCTAAAGTAGCGACATTTTCAGTTACAAAATACCATCAAAACA
13413845 ATGGCA
130 ATGGCA
* ** *
13413851 TTTTTCTCATAAAAATATCACTAAATTAGTGACATCTCAAAAATACAAATGCTGCTAATATAGAA
1 TTTTTCTCATAAAAATATCACTAAACTAACGACATCTCAAAAAGACAAATGCTGCTAATATAGAA
* * * *
13413916 GCATTTTCATATACAAACGCCTCTAAAGTAGTGACATTTTTAGTTACAAA
66 GCATTTTCAAATACAAACACCTCTAAAGTAGCGACATTTTCAGTTACAAA
13413966 CACCACCAAA
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
134 2 0.02
135 97 0.98
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (135 bp):
TTTTTCTCATAAAAATATCACTAAACTAACGACATCTCAAAAAGACAAATGCTGCTAATATAGAA
GCATTTTCAAATACAAACACCTCTAAAGTAGCGACATTTTCAGTTACAAAATACCATCAAAACAA
TGGCA
Found at i:13413954 original size:33 final size:33
Alignment explanation
Indices: 13413917--13413995 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
13413907 AATATAGAAG
* * *
13413917 CATTTTCA-TATACAAACGCCTCTAAAGTAGTGA
1 CATTTTCAGT-TACAAACACCACCAAAGTAGTGA
* *
13413950 CATTTTTAGTTACAAACACCACCAAAGTAGTGG
1 CATTTTCAGTTACAAACACCACCAAAGTAGTGA
*
13413983 CATTTTCAATTAC
1 CATTTTCAGTTAC
13413996 CAATGTCACC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 37 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (33 bp):
CATTTTCAGTTACAAACACCACCAAAGTAGTGA
Found at i:13414074 original size:167 final size:168
Alignment explanation
Indices: 13413782--13414143 Score: 458
Period size: 167 Copynumber: 2.2 Consensus size: 168
13413772 AATATGGAGG
** * * * *
13413782 CATTTTCAAATACAAACACCTCTAAAGTAGCGACATTTTCATTTACAAAATACCATCAAAACAAT
1 CATTTTCAGTTACAAACACCACCAAAGTAGCGACATTTTCAATTACAAAATACCACCAAAACAAT
* *
13413847 GGCATTTTTCTCATAAAAATATCACTAAATTAGTGACATCTCAAAAATACAAATGCTGCTAATAT
66 GGCATTTTTCTCATAAAAATATCACTAAATTAGCGACATCTCAAAAATACAAACGCTGCTAATAT
* * *
13413912 AGA-AGCATTTTCATATACAAACGCCTCTAAAGTAGTGA
131 AGAGA-CATTTTCAGATACAAAAGCCTCTAAAGTAATGA
* * * * ** *
13413950 CATTTTTAGTTACAAACACCACCAAAGTAGTGGCATTTTCAATTAC-CAATGTCACCAAAGCAAT
1 CATTTTCAGTTACAAACACCACCAAAGTAGCGACATTTTCAATTACAAAATACCACCAAAACAAT
* * * *
13414014 GGCATTTTTCTCATAAAAATGTCACTAAATTAGCGGCGTCTCAAATATACAAACGCTGCTAATAT
66 GGCATTTTTCTCATAAAAATATCACTAAATTAGCGACATCTCAAAAATACAAACGCTGCTAATAT
* * *
13414079 AGAGACATTTTTAGATACAAAAGTCTCTAAAGTAATGG
131 AGAGACATTTTCAGATACAAAAGCCTCTAAAGTAATGA
* *
13414117 CGTTTTCAGTTACAAACACTACCAAAG
1 CATTTTCAGTTACAAACACCACCAAAG
13414144 CAACGATGTT
Statistics
Matches: 165, Mismatches: 28, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
167 126 0.76
168 39 0.24
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (168 bp):
CATTTTCAGTTACAAACACCACCAAAGTAGCGACATTTTCAATTACAAAATACCACCAAAACAAT
GGCATTTTTCTCATAAAAATATCACTAAATTAGCGACATCTCAAAAATACAAACGCTGCTAATAT
AGAGACATTTTCAGATACAAAAGCCTCTAAAGTAATGA
Found at i:13414111 original size:134 final size:134
Alignment explanation
Indices: 13413924--13414210 Score: 303
Period size: 134 Copynumber: 2.1 Consensus size: 134
13413914 AAGCATTTTC
* * *
13413924 ATATACAAACGCCT-CTAAAGTAGTGACATTTTTAGTTACAAACACCACCAAAGTAGTGGCATTT
1 ATATACAAACG-CTGCTAAAGTAGAGACATTTTTAGATACAAACACCACCAAAGTAATGGCATTT
* ** * * * * *
13413988 TCAATTACCAA-TGTCACCAAAGCAATGGCATTTTTCTCATAAAAATGTCACTAAATTAGCGGCG
65 TCAATTACAAACACT-ACCAAAGCAACGACATTTTTCTCATAAAAACGTAACTAAATTAACGGCG
13414052 TCTCAA
129 TCTCAA
* * * *
13414058 ATATACAAACGCTGCTAATA-TAGAGACATTTTTAGATACAAA-AGTCTCTAAAGTAATGGCGTT
1 ATATACAAACGCTGCTAA-AGTAGAGACATTTTTAGATACAAACA-CCACCAAAGTAATGGCATT
* ** *
13414121 TTCAGTTACAAACACTACCAAAGCAACGATGTTTTTCTCATAAAAACGTAACTAATTTAACGGCG
64 TTCAATTACAAACACTACCAAAGCAACGACATTTTTCTCATAAAAACGTAACTAAATTAACGGCG
* *
13414186 TTTGAA
129 TCTCAA
* *
13414192 AGATAGAAACGCTGCTAAA
1 ATATACAAACGCTGCTAAA
13414211 ATTGTGGCAT
Statistics
Matches: 126, Mismatches: 23, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
133 4 0.03
134 120 0.95
135 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.28
Consensus pattern (134 bp):
ATATACAAACGCTGCTAAAGTAGAGACATTTTTAGATACAAACACCACCAAAGTAATGGCATTTT
CAATTACAAACACTACCAAAGCAACGACATTTTTCTCATAAAAACGTAACTAAATTAACGGCGTC
TCAA
Found at i:13416449 original size:20 final size:21
Alignment explanation
Indices: 13416424--13416473 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
13416414 AATGACATAT
13416424 TTAATTAATGATAAAATT-AA
1 TTAATTAATGATAAAATTAAA
* *
13416444 TTAATTAATTATATAATTAAA
1 TTAATTAATGATAAAATTAAA
*
13416465 TTAAATAAT
1 TTAATTAAT
13416474 ATCATTAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAATTAATGATAAAATTAAA
Found at i:13422633 original size:16 final size:16
Alignment explanation
Indices: 13422614--13422652 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
13422604 TACATTTAAT
*
13422614 TATATATATTTTTATA
1 TATATATAATTTTATA
*
13422630 TATATTTAATTTTATA
1 TATATATAATTTTATA
*
13422646 TTTATAT
1 TATATAT
13422653 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATATAATTTTATA
Found at i:13422645 original size:12 final size:13
Alignment explanation
Indices: 13422607--13422655 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
13422597 TAAATTTTAC
13422607 ATTTAATTATATAT
1 ATTTAATT-TATAT
13422621 ATTT--TTATATAT
1 ATTTAATT-TATAT
13422633 ATTTAATTT-TAT
1 ATTTAATTTATAT
13422645 ATTTATATTTA
1 ATTTA-ATTTA
13422656 AAATAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 20 0.65
13 5 0.16
14 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTAATTTATAT
Found at i:13422653 original size:18 final size:17
Alignment explanation
Indices: 13422621--13422656 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
13422611 AATTATATAT
13422621 ATTTTTATATATATTTA
1 ATTTTTATATATATTTA
*
13422638 ATTTTATATTTATATTTA
1 ATTTT-TATATATATTTA
13422656 A
1 A
13422657 AATAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTATATATATTTA
Found at i:13439220 original size:29 final size:30
Alignment explanation
Indices: 13439162--13439245 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 30
13439152 AAGTCATGCG
* *
13439162 AATTTATTAAAATAAGATAT-TATATAATA
1 AATTTATTAATATAATATATATATATAATA
* *
13439191 ATTTTATTAATATAATACATATATAT-ATA
1 AATTTATTAATATAATATATATATATAATA
* * *
13439220 AATTAAATAATAAAATATATATATAT
1 AATTTATTAATATAATATATATATAT
13439246 TTATATGCAC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 40 0.89
30 5 0.11
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (30 bp):
AATTTATTAATATAATATATATATATAATA
Found at i:13439237 original size:25 final size:25
Alignment explanation
Indices: 13439196--13439244 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13439186 TAATAATTTT
*
13439196 ATTAATATAATACATATATATATAA
1 ATTAATATAATAAATATATATATAA
13439221 ATTAA-ATAATAAAATATATATATA
1 ATTAATATAAT-AAATATATATATA
13439245 TTTATATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
ATTAATATAATAAATATATATATAA
Found at i:13443661 original size:2 final size:2
Alignment explanation
Indices: 13443656--13443682 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13443646 TATTGAATCA
13443656 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
13443683 TTATTACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13445407 original size:4 final size:4
Alignment explanation
Indices: 13445398--13445442 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
13445388 AAACAGAGTG
* * *
13445398 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGC ATGC ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
13445443 AATACATTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (4 bp):
ATGT
Found at i:13447247 original size:17 final size:16
Alignment explanation
Indices: 13447210--13447273 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
13447200 AAAATTTATG
*
13447210 AAATAAAAACCATAAATA
1 AAATAAAAA--ATAAAAA
13447228 AAATAAATAAATAAACAA
1 AAATAAA-AAATAAA-AA
*
13447246 AAA-CAAAAATAAATAA
1 AAATAAAAAATAAA-AA
13447262 AAATAAAAAATA
1 AAATAAAAAATA
13447274 GCTCATAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
16 12 0.31
17 14 0.36
18 11 0.28
19 2 0.05
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (16 bp):
AAATAAAAAATAAAAA
Found at i:13447257 original size:16 final size:16
Alignment explanation
Indices: 13447236--13447270 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13447226 TAAAATAAAT
13447236 AAATAAACAAAAACAA
1 AAATAAACAAAAACAA
* *
13447252 AAATAAATAAAAATAA
1 AAATAAACAAAAACAA
13447268 AAA
1 AAA
13447271 ATAGCTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (16 bp):
AAATAAACAAAAACAA
Found at i:13447886 original size:19 final size:19
Alignment explanation
Indices: 13447864--13447915 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
13447854 GAAATAATTT
13447864 AATAAAAAAAGAAACAAG-A
1 AATAAAAAAA-AAACAAGAA
*
13447883 AATAACAAAAAAAAGAAGAA
1 AATAA-AAAAAAAACAAGAA
13447903 AATAAAACAAAAA
1 AATAAAA-AAAAA
13447916 GGAAAAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.81, C:0.06, G:0.08, T:0.06
Consensus pattern (19 bp):
AATAAAAAAAAAACAAGAA
Found at i:13447916 original size:19 final size:18
Alignment explanation
Indices: 13447864--13447916 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
13447854 GAAATAATTT
*
13447864 AATAAAAAAAGAAACAAGA
1 AATAAAAAAA-AAAGAAGA
13447883 AATAACAAAAAAAAGAAGAA
1 AATAA-AAAAAAAAGAAG-A
*
13447903 AATAAAACAAAAAG
1 AATAAAAAAAAAAG
13447917 GAAAAAAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (18 bp):
AATAAAAAAAAAAGAAGA
Found at i:13448361 original size:29 final size:29
Alignment explanation
Indices: 13448311--13448396 Score: 68
Period size: 29 Copynumber: 2.9 Consensus size: 29
13448301 CATCTTAATT
*
13448311 ATATATAAATATAATATTTTTATAAA-ATTAAG
1 ATATATAAATA-AA-A-ATTTATAAATA-TAAG
* *
13448343 ATAT-TAAATAATAAATTTATTAATATAAT
1 ATATATAAATAA-AAATTTATAAATATAAG
**
13448372 ATATATAAATAAAAATAAATAAATA
1 ATATATAAATAAAAATTTATAAATA
13448397 ATTAAAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
29 24 0.53
30 10 0.22
31 7 0.16
32 4 0.09
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (29 bp):
ATATATAAATAAAAATTTATAAATATAAG
Found at i:13449291 original size:21 final size:23
Alignment explanation
Indices: 13449249--13449292 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
13449239 TTAGAGTCTT
13449249 AAAGTTATAATTTCATTATTTTA
1 AAAGTTATAATTTCATTATTTTA
* *
13449272 AAAG-TAT-ATTTTATTTTTTTA
1 AAAGTTATAATTTCATTATTTTA
13449293 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 3 0.16
23 4 0.21
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (23 bp):
AAAGTTATAATTTCATTATTTTA
Found at i:13450133 original size:24 final size:24
Alignment explanation
Indices: 13450093--13450141 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
13450083 AATCTTTTTT
* *
13450093 TTAATTATATTTTTAATTATTAATA
1 TTAATTATATTTATAATCA-TAATA
13450118 TTAATT-TATTTATAATCATAATA
1 TTAATTATATTTATAATCATAATA
13450141 T
1 T
13450142 GATATAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 10 0.45
25 6 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTAATTATATTTATAATCATAATA
Found at i:13451387 original size:62 final size:63
Alignment explanation
Indices: 13451286--13451430 Score: 170
Period size: 62 Copynumber: 2.3 Consensus size: 63
13451276 GCATTTTTAG
* * * * *
13451286 CCCTTCTAAATTTTATTGAGAGGATTATTGAAAGTGTTTTTGGCTAAAAATGCT-TTCAATAAT
1 CCCTTCCAAATTTTATTGAGAGGATTATTGAAAGCGTTTTTGACCAAAAATACTCTT-AATAAT
* *
13451349 CCCTTCCAAATTTT-TTTAG-GAGATTATTGAAGGCGTTTTTGACCAAAAATACTCTTAATAAT
1 CCCTTCCAAATTTTATTGAGAG-GATTATTGAAAGCGTTTTTGACCAAAAATACTCTTAATAAT
* *
13451411 CCCTTTCAAATTTTGTTGAG
1 CCCTTCCAAATTTTATTGAG
13451431 CCAAAAACGC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
61 1 0.01
62 50 0.71
63 19 0.27
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (63 bp):
CCCTTCCAAATTTTATTGAGAGGATTATTGAAAGCGTTTTTGACCAAAAATACTCTTAATAAT
Found at i:13451620 original size:64 final size:63
Alignment explanation
Indices: 13451440--13451642 Score: 223
Period size: 63 Copynumber: 3.2 Consensus size: 63
13451430 GCCAAAAACG
**
13451440 CCTTCAATAATC-CTCTTAACAAAATTTTTTGTTTGGATTATTGAAGGTGTTTTTAGACCAAAAT
1 CCTTCAATAATCTCTCTT--CAAAATTTTTTGAATGGATTATTGAAGGTGTTTTT-GACCAAAAT
13451504 A
63 A
* * * * * * *
13451505 CCTTCAAAAATCTCT-TCCAAACTTTTTTGAATGGAGTATTGAAAGCGTTTTTGATCGAAAATA
1 CCTTCAATAATCTCTCTTCAAAATTTTTTGAATGGATTATTGAAGGTGTTTTTGA-CCAAAATA
* * * *
13451568 CCTTCAATATTCTCTCTTCAAAATTTTTTGAATGGATTATTGAAGGTATTTTTGGCCAAAATG
1 CCTTCAATAATCTCTCTTCAAAATTTTTTGAATGGATTATTGAAGGTGTTTTTGACCAAAATA
13451631 CC-TCAAATAATC
1 CCTTC-AATAATC
13451643 CCAATCAAAA
Statistics
Matches: 113, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
62 4 0.04
63 63 0.56
64 32 0.28
65 12 0.11
66 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (63 bp):
CCTTCAATAATCTCTCTTCAAAATTTTTTGAATGGATTATTGAAGGTGTTTTTGACCAAAATA
Found at i:13453347 original size:40 final size:41
Alignment explanation
Indices: 13453294--13453374 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 41
13453284 CCATGGAGAT
* *
13453294 GCGCACAGGCTTGACAACGCTATCA-TTTTTTCCATGCCAC
1 GCGCACAGACTTGACAACACTATCATTTTTTTCCATGCCAC
* *
13453334 GCGCATAGACTTGACAACACTATCATTTTTTTCCGTGCCAC
1 GCGCACAGACTTGACAACACTATCATTTTTTTCCATGCCAC
13453375 ACAAATTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 22 0.61
41 14 0.39
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (41 bp):
GCGCACAGACTTGACAACACTATCATTTTTTTCCATGCCAC
Found at i:13453791 original size:16 final size:16
Alignment explanation
Indices: 13453768--13453810 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
13453758 AACGTCAAAT
*
13453768 AAATATATTCACACAT
1 AAATATATTCACACAC
* *
13453784 ATATATATCCACACAC
1 AAATATATTCACACAC
13453800 AAATATATTCA
1 AAATATATTCA
13453811 TAAATATATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATATATTCACACAC
Found at i:13453817 original size:12 final size:12
Alignment explanation
Indices: 13453800--13453838 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
13453790 ATCCACACAC
13453800 AAATATATTCAT
1 AAATATATTCAT
13453812 AAATATATT-AT
1 AAATATATTCAT
13453823 AAATTATATTCAT
1 AAA-TATATTCAT
13453836 AAA
1 AAA
13453839 CAATAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 5 0.20
12 15 0.60
13 5 0.20
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (12 bp):
AAATATATTCAT
Found at i:13453848 original size:24 final size:24
Alignment explanation
Indices: 13453803--13453849 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13453793 CACACACAAA
* *
13453803 TATATTCATAAATATATTATAAAT
1 TATATTCATAAAAATATAATAAAT
13453827 TATATTCATAAACAATA-AATAAA
1 TATATTCATAAA-AATATAATAAA
13453850 CTAAACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (24 bp):
TATATTCATAAAAATATAATAAAT
Found at i:13456461 original size:19 final size:18
Alignment explanation
Indices: 13456437--13456482 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
13456427 ATATGAAATA
13456437 TATTTTATAATT-TTTAATT
1 TATTTT-TAATTATTTAA-T
*
13456456 TATTTTTTATTATTTAAT
1 TATTTTTAATTATTTAAT
13456474 TATTTTTAA
1 TATTTTTAA
13456483 CTTAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TATTTTTAATTATTTAAT
Found at i:13456786 original size:34 final size:33
Alignment explanation
Indices: 13456748--13456820 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 33
13456738 CATAAAAAAT
* *
13456748 TTATAATA-TTATTTTTATAGTATTTTTGAAT-ATA
1 TTATAATATTTA-TTTTATA-AATTATT-AATAATA
13456782 TTAT-ATATTTATTTTATAAATTATTAATAATA
1 TTATAATATTTATTTTATAAATTATTAATAATA
13456814 TTATAAT
1 TTATAAT
13456821 GTATAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
31 3 0.09
32 12 0.35
33 12 0.35
34 7 0.21
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.58
Consensus pattern (33 bp):
TTATAATATTTATTTTATAAATTATTAATAATA
Found at i:13458560 original size:25 final size:25
Alignment explanation
Indices: 13458531--13458578 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
13458521 AATACATTTT
13458531 ATTGTATTATT-TTTATATTTAAAAA
1 ATTGTATTATTCTTTA-ATTTAAAAA
*
13458556 ATTGTTTTATTCTTTAATTTAAA
1 ATTGTATTATTCTTTAATTTAAA
13458579 CAATAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
ATTGTATTATTCTTTAATTTAAAAA
Found at i:13460644 original size:20 final size:21
Alignment explanation
Indices: 13460602--13460647 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
13460592 TGATATTTTT
13460602 AATTAAGAATAATTAAATAAA
1 AATTAAGAATAATTAAATAAA
13460623 AATTAA-AATCAA-TAAATTAAA
1 AATTAAGAAT-AATTAAA-TAAA
13460644 AATT
1 AATT
13460648 TTTGTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AATTAAGAATAATTAAATAAA
Found at i:13460721 original size:14 final size:14
Alignment explanation
Indices: 13460698--13460736 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13460688 TAATAAATTT
* *
13460698 ATATATATATTTTG
1 ATATAAATATTTTA
13460712 ATATAAATATTTTA
1 ATATAAATATTTTA
*
13460726 ATAAAAATATT
1 ATATAAATATT
13460737 AACAGAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
ATATAAATATTTTA
Found at i:13460779 original size:11 final size:11
Alignment explanation
Indices: 13460751--13460781 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13460741 GAATTTTTAT
*
13460751 TTTAAAATAAA
1 TTTAAATTAAA
13460762 TTTAAATTAAA
1 TTTAAATTAAA
13460773 TTTAAATTA
1 TTTAAATTA
13460782 TAAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:13460823 original size:17 final size:18
Alignment explanation
Indices: 13460766--13460823 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 18
13460756 AATAAATTTA
*
13460766 AATTAAA-TTTAAATTAT
1 AATTAAATTTTATATTAT
*
13460783 AAATAATATTTT-TATATAT
1 AATTAA-ATTTTATAT-TAT
*
13460802 TATTAAATTTTATATTA-
1 AATTAAATTTTATATTAT
13460819 AATTA
1 AATTA
13460824 TATCAATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
17 9 0.28
18 10 0.31
19 13 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTAAATTTTATATTAT
Found at i:13467679 original size:3 final size:3
Alignment explanation
Indices: 13467671--13467708 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
13467661 TGAACTTCTT
* *
13467671 ATA ATA ATA ATA ATA ATA ATA ATC ATA ATC ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13467709 GAGAACATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13467809 original size:3 final size:3
Alignment explanation
Indices: 13467801--13467829 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13467791 TTTATATATT
13467801 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13467830 TCAATACACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13470450 original size:170 final size:171
Alignment explanation
Indices: 13470158--13470475 Score: 512
Period size: 170 Copynumber: 1.9 Consensus size: 171
13470148 TTGCAAACTT
* *
13470158 TATCATTCTATAGGTTTCCAAGTTAGGGTTTAGCTATATGGGACTTACACGAATGTACAATGATC
1 TATCATTCTATAGGTTTCCAAGTTAGGGTTTAGCTATATAGGACTTACAAGAATGTACAATGATC
* * * *
13470223 CTGTCTTTGAAGATGTTGGCTTATCAATCATCAAGCATGCATTCGATAAAGGAATCACTTTTTTT
66 CTGTCTTTGAAGATGTTGGCTTATCAATCATCAAACATGCATTCGACAAAAGAATCACTTTATTT
*
13470288 TATACATCA-AAATCTATAGACCCATTTTTGTTGTAAAGTC
131 GATACATCAGAAATCTATAGACCCATTTTTGTTGTAAAGTC
* * *
13470328 TATCATTCTGTAGGTTTTCAAGTTAGGGTTTGGCTATATAGGACTTACAAGAATGTACAATGATC
1 TATCATTCTATAGGTTTCCAAGTTAGGGTTTAGCTATATAGGACTTACAAGAATGTACAATGATC
* *
13470393 TTGTCTTTGAAGATGTTGGCTTATCAATCATCAAACATGTATTCGACAAAAGAATCACTTTATTT
66 CTGTCTTTGAAGATGTTGGCTTATCAATCATCAAACATGCATTCGACAAAAGAATCACTTTATTT
*
13470458 GATACATCAGACATCTAT
131 GATACATCAGAAATCTAT
13470476 GAAACCAAAA
Statistics
Matches: 134, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
170 127 0.95
171 7 0.05
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.37
Consensus pattern (171 bp):
TATCATTCTATAGGTTTCCAAGTTAGGGTTTAGCTATATAGGACTTACAAGAATGTACAATGATC
CTGTCTTTGAAGATGTTGGCTTATCAATCATCAAACATGCATTCGACAAAAGAATCACTTTATTT
GATACATCAGAAATCTATAGACCCATTTTTGTTGTAAAGTC
Found at i:13473371 original size:28 final size:27
Alignment explanation
Indices: 13473318--13473376 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
13473308 ATTTATTTTA
*
13473318 TAATAAAATATTATTAAATTATTAAAT
1 TAATAAAATATTATTAAATTATTAAAC
13473345 TAATAAATATATTTATT-AA-TATGTAAAC
1 TAATAAA-ATA-TTATTAAATTAT-TAAAC
13473373 TAAT
1 TAAT
13473377 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 10 0.36
28 13 0.46
29 5 0.18
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TAATAAAATATTATTAAATTATTAAAC
Found at i:13475243 original size:22 final size:22
Alignment explanation
Indices: 13475217--13475262 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
13475207 CATCATTATT
13475217 ATTTAAAATTAAAATTA-TCAAA
1 ATTT-AAATTAAAATTACTCAAA
**
13475239 ATTTAAATTTTAATTACTCAAA
1 ATTTAAATTAAAATTACTCAAA
13475261 AT
1 AT
13475263 AAAAATCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTTAAATTAAAATTACTCAAA
Found at i:13477126 original size:13 final size:14
Alignment explanation
Indices: 13477108--13477137 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
13477098 TCTGATTAAA
13477108 AATTTTAATT-TTT
1 AATTTTAATTATTT
13477121 AATTTTAATTATTT
1 AATTTTAATTATTT
13477135 AAT
1 AAT
13477138 ATATTTTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTTAATTATTT
Done.