Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 125 of 160
Found at i:23346809 original size:31 final size:29
Alignment explanation
Indices: 23346663--23346825 Score: 110
Period size: 31 Copynumber: 5.2 Consensus size: 29
23346653 CTAAAATTCG
* *
23346663 AAACCTTTAAACCCTAAAACCTTAAAACCTTTA
1 AAACC-TTAAACCCT-AAACCTT-AAATC-TCA
* * * *
23346696 AAACCCTCAAAACCCTAAACCCTAAACCTTA
1 AAA-CCT-TAAACCCTAAACCTTAAATCTCA
* ** *
23346727 TATACCCAAAACCCTAAACCCTGAAATCTCA
1 -AAACCTTAAACCCTAAA-CCTTAAATCTCA
23346758 AAACCCTTAAATCCCTAAACCTTAAATACTCA
1 AAA-CCTTAAA-CCCTAAACCTTAAAT-CTCA
*
23346790 AAACCTTAAACCCTGAAACCTTGAAATCCCA
1 AAACCTTAAACCCT-AAACCTT-AAATCTCA
23346821 AAACC
1 AAACC
23346826 AAAACCTTAA
Statistics
Matches: 108, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
30 17 0.16
31 47 0.44
32 25 0.23
33 10 0.09
34 9 0.08
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (29 bp):
AAACCTTAAACCCTAAACCTTAAATCTCA
Found at i:23347150 original size:26 final size:26
Alignment explanation
Indices: 23347114--23347166 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
23347104 TTTCATACAC
23347114 TTCCTTAGCTCGAATAATAATGTGAT
1 TTCCTTAGCTCGAATAATAATGTGAT
23347140 TTCCTTAGCTCGAATAATAATGTGAT
1 TTCCTTAGCTCGAATAATAATGTGAT
23347166 T
1 T
23347167 AAACACAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (26 bp):
TTCCTTAGCTCGAATAATAATGTGAT
Found at i:23350011 original size:32 final size:33
Alignment explanation
Indices: 23349964--23350028 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 33
23349954 AAAAATTAAG
23349964 AAATATAATAAATAAAATATTATT-TTA-ATAAAC
1 AAATATAATAAAT-AAAT-TTATTATTATATAAAC
23349997 AAATA-AATAAATAAATTTATTATTATATAAAC
1 AAATATAATAAATAAATTTATTATTATATAAAC
23350029 TACTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 5 0.17
31 7 0.23
32 13 0.43
33 5 0.17
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (33 bp):
AAATATAATAAATAAATTTATTATTATATAAAC
Found at i:23350017 original size:231 final size:230
Alignment explanation
Indices: 23349586--23350053 Score: 823
Period size: 231 Copynumber: 2.0 Consensus size: 230
23349576 TCGGGATCTT
* *
23349586 TTTTATATATAGGAGTATAGATTTGTTCGCTGATGAATTTTGGTTGGTGGATTGGAGCTCACTTT
1 TTTTATATATAGGAGTATAGATTTATTCACTGATGAATTTTGGTTGGTGGATTGGAGCTCACTTT
23349651 TCATTTTTGCCCTTTTTGTCATTTATTTTATGTTGCAAATACAAAAATGTCCTTTTGAATTAATT
66 TCATTTTTGCCCTTTTTGTCATTTATTTTATGTTGCAAATACAAAAATGTCCTTTTGAATTAATT
23349716 TTATTTAAAAATTAAGAAATATAATAAATAAAATATTATTTTAATAAAAAAATAAATAAATAAAA
131 TTATTTAAAAATTAAGAAATATAATAAATAAAATATTATTTTAATAAAAAAATAAATAAATAAAA
23349781 TTTATTACTATATAATA-AACTATTATTTTTATTAA
196 TTTATTACTATATAA-ACAACTATTATTTTTATTAA
*
23349816 TTTTATATATAGGGGTATAGATTTATTCACTGATGAATTTTGGTTGGTGGATTGGAGCTCACTTT
1 TTTTATATATAGGAGTATAGATTTATTCACTGATGAATTTTGGTTGGTGGATTGGAGCTCACTTT
*
23349881 TCATTTTTTTCCCTTTTTGTCATTTATTTTATGTTGCAAATACAAAAATGTCCTTTTGAATTAAT
66 TCA-TTTTTGCCCTTTTTGTCATTTATTTTATGTTGCAAATACAAAAATGTCCTTTTGAATTAA-
*
23349946 TTTTATTTAAAAATTAAGAAATATAATAAATAAAATATTATTTTAATAAACAAATAAATAAAT-A
129 TTTTATTTAAAAATTAAGAAATATAATAAATAAAATATTATTTTAATAAAAAAATAAATAAATAA
* * *
23350010 AATTTATTATTATATAAACTACTATTATTTTTGTTAA
194 AATTTATTACTATATAAACAACTATTATTTTTATTAA
23350047 TTTTATA
1 TTTTATA
23350054 ATTATTATTT
Statistics
Matches: 227, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
230 66 0.29
231 99 0.44
232 62 0.27
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (230 bp):
TTTTATATATAGGAGTATAGATTTATTCACTGATGAATTTTGGTTGGTGGATTGGAGCTCACTTT
TCATTTTTGCCCTTTTTGTCATTTATTTTATGTTGCAAATACAAAAATGTCCTTTTGAATTAATT
TTATTTAAAAATTAAGAAATATAATAAATAAAATATTATTTTAATAAAAAAATAAATAAATAAAA
TTTATTACTATATAAACAACTATTATTTTTATTAA
Found at i:23354564 original size:16 final size:14
Alignment explanation
Indices: 23354543--23354588 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
23354533 TAATTATTTA
23354543 TTTAATTTTATATT
1 TTTAATTTTATATT
*
23354557 TCTATAATTTATATATA
1 T-T-TAATTT-TATATT
23354574 TTTAATTTTATATT
1 TTTAATTTTATATT
23354588 T
1 T
23354589 ATATTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 7 0.26
15 7 0.26
16 7 0.26
17 6 0.22
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTAATTTTATATT
Found at i:23354604 original size:18 final size:18
Alignment explanation
Indices: 23354583--23354633 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 18
23354573 ATTTAATTTT
23354583 ATATTTATATTAAAAATA
1 ATATTTATATTAAAAATA
23354601 ATATTTTATATTTAAAAAATA
1 ATA-TTTATA-TT-AAAAATA
23354622 ATATTT-TATTAA
1 ATATTTATATTAA
23354634 TTTTAGGTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.07
18 5 0.17
19 8 0.27
20 5 0.17
21 10 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTTATATTAAAAATA
Found at i:23354638 original size:24 final size:21
Alignment explanation
Indices: 23354586--23354630 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
23354576 TAATTTTATA
23354586 TTTATA-TT-AAAAATAATAT
1 TTTATATTTAAAAAATAATAT
23354605 TTTATATTTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
23354626 TTTAT
1 TTTAT
23354631 TAATTTTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:23357261 original size:22 final size:22
Alignment explanation
Indices: 23357233--23357275 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23357223 GAGGTCTCAC
23357233 AGATTATG-CTCAAAAGTGTTAG
1 AGATTATGTCT-AAAAGTGTTAG
*
23357255 AGATTATGTCTAGAAGTGTTA
1 AGATTATGTCTAAAAGTGTTA
23357276 TAAATCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (22 bp):
AGATTATGTCTAAAAGTGTTAG
Found at i:23357435 original size:104 final size:104
Alignment explanation
Indices: 23357266--23357676 Score: 455
Period size: 104 Copynumber: 3.9 Consensus size: 104
23357256 GATTATGTCT
* * * *
23357266 AGAAGTGTTATAAATCTCAACATCATTAAATGCTCTTCT-TATTAAAGGCATTGAAACTTTCAAA
1 AGAAGTCTTATAAATCTCAACATCTTTAAATGCTCTT-TATATCAAAGGCATTGAAACTTTAAAA
* * * * *
23357330 TTTTAAAATCTTTTGCCTGGAGGTCTTACAGATTATCCCC
65 TTTTAAAATGTTTTACCTGGAAGTCTTATAGATTATACCC
* * * *
23357370 AGAAGTCTTATGAATCTCAATATCTTTAAATGCTCTTTATATCAGAGGTATTGAAACTTTAAAAT
1 AGAAGTCTTATAAATCTCAACATCTTTAAATGCTCTTTATATCAAAGGCATTGAAACTTTAAAAT
* * *
23357435 TTTAAAATGTTTTTACTTGGAAGTCTTATAGATTATGCCT
66 TTTAAAATG-TTTTACCTGGAAGTCTTATAGATTATACCC
* * * * *
23357475 AGAGGTCTTATAAATCTCAACATCTTTAAGTGCTCCTCATATAAAAGGCATTGAAACTTTAAAAT
1 AGAAGTCTTATAAATCTCAACATCTTTAAATGCTCTTTATATCAAAGGCATTGAAACTTTAAAAT
* *
23357540 TTTAAAATGTTTTACCTTGAAATCTTATAGATTATACCC
66 TTTAAAATGTTTTACCTGGAAGTCTTATAGATTATACCC
* * * * * ** * * * *
23357579 AAAAATCTTACAAATCTCAACATCTTTAAGTACTAATTGTATCAGAGGCATTGAAATTTTAAAAA
1 AGAAGTCTTATAAATCTCAACATCTTTAAATGCTCTTTATATCAAAGGCATTGAAACTTTAAAAT
* ***
23357644 TTTAAAATGTTTTGCCCAAAAGTCTTATAGATT
66 TTTAAAATGTTTTACCTGGAAGTCTTATAGATT
23357677 TTGCCCGAGT
Statistics
Matches: 258, Mismatches: 47, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
103 1 0.00
104 168 0.65
105 89 0.34
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (104 bp):
AGAAGTCTTATAAATCTCAACATCTTTAAATGCTCTTTATATCAAAGGCATTGAAACTTTAAAAT
TTTAAAATGTTTTACCTGGAAGTCTTATAGATTATACCC
Found at i:23357624 original size:209 final size:209
Alignment explanation
Indices: 23357246--23357656 Score: 543
Period size: 209 Copynumber: 2.0 Consensus size: 209
23357236 TTATGCTCAA
* * * * * *
23357246 AAGTGTTAGAGATTATGTCTAGAAGTGTTATAAATCTCAACATCATTAAATGCTCTTCTTATTAA
1 AAGTCTTAGAGATTATGCCTAGAAGTCTTATAAATCTCAACATCATTAAATGCTCCTCATATAAA
* * ** * * *
23357311 AGGCATTGAAACTTTCAAATTTTAAAATCTTTTGCCTGGAGGTCTTACAGATTATCCCCAGAAGT
66 AGGCATTGAAACTTTAAAATTTTAAAATCTTTTACCTGGAAATCTTACAGATTATACCCAAAAAT
** * * ** * *
23357376 CTTATGAATCTCAATATCTTTAAATGCTCTTTATATCAGAGGTATTGAAACTTTAAAATTTTAAA
131 CTTACAAATCTCAACATCTTTAAATACTAATTATATCAGAGGCATTGAAACTTTAAAAATTTAAA
23357441 ATGTTTTTACTTGG
196 ATGTTTTTACTTGG
* * * *
23357455 AAGTCTTATAGATTATGCCTAGAGGTCTTATAAATCTCAACATCTTTAAGTGCTCCTCATATAAA
1 AAGTCTTAGAGATTATGCCTAGAAGTCTTATAAATCTCAACATCATTAAATGCTCCTCATATAAA
* * *
23357520 AGGCATTGAAACTTTAAAATTTTAAAATGTTTTACCTTGAAATCTTATAGATTATACCCAAAAAT
66 AGGCATTGAAACTTTAAAATTTTAAAATCTTTTACCTGGAAATCTTACAGATTATACCCAAAAAT
* * *
23357585 CTTACAAATCTCAACATCTTTAAGTACTAATTGTATCAGAGGCATTGAAATTTTAAAAATTTAAA
131 CTTACAAATCTCAACATCTTTAAATACTAATTATATCAGAGGCATTGAAACTTTAAAAATTTAAA
23357650 ATGTTTT
196 ATGTTTT
23357657 GCCCAAAAGT
Statistics
Matches: 171, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
209 171 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (209 bp):
AAGTCTTAGAGATTATGCCTAGAAGTCTTATAAATCTCAACATCATTAAATGCTCCTCATATAAA
AGGCATTGAAACTTTAAAATTTTAAAATCTTTTACCTGGAAATCTTACAGATTATACCCAAAAAT
CTTACAAATCTCAACATCTTTAAATACTAATTATATCAGAGGCATTGAAACTTTAAAAATTTAAA
ATGTTTTTACTTGG
Found at i:23358182 original size:26 final size:27
Alignment explanation
Indices: 23358153--23358217 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
23358143 TACAAATGCC
*
23358153 ATGATTTAGATGCAAATGTC-TTTCTT
1 ATGATTTAGATGCAAATGCCTTTTCTT
** * * *
23358179 ATGATGAAAATACAAATGCCTTTTTTT
1 ATGATTTAGATGCAAATGCCTTTTCTT
23358206 ATGATTTAGATG
1 ATGATTTAGATG
23358218 TTAATGCAAA
Statistics
Matches: 28, Mismatches: 10, Indels: 1
0.72 0.26 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.43
Consensus pattern (27 bp):
ATGATTTAGATGCAAATGCCTTTTCTT
Found at i:23366984 original size:15 final size:15
Alignment explanation
Indices: 23366934--23366999 Score: 62
Period size: 15 Copynumber: 4.1 Consensus size: 15
23366924 CCACTCTTCA
23366934 TTTT-CTTTTTTTTC
1 TTTTCCTTTTTTTTC
*
23366948 TTTCTCTCCTTCATTTTCTC
1 -TT-T-TCCTT--TTTTTTC
23366968 TTTTCCTTTTTTTTC
1 TTTTCCTTTTTTTTC
*
23366983 TTTTCCATTTTTTTC
1 TTTTCCTTTTTTTTC
23366998 TT
1 TT
23367000 CCCAAAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
15 24 0.56
16 1 0.02
17 6 0.14
18 4 0.09
19 2 0.05
20 6 0.14
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCCTTTTTTTTC
Found at i:23375264 original size:4 final size:4
Alignment explanation
Indices: 23375244--23375304 Score: 54
Period size: 4 Copynumber: 15.0 Consensus size: 4
23375234 TATATATAAA
* *
23375244 TTAT TT-T TTAA TTAT TTAT TTAT TTAT ATATAT TTAT ATAT TTAT TTAAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT -T-TAT TTAT TTAT TTAT TT-AT
*
23375294 TT-T ATAT TTAT
1 TTAT TTAT TTAT
23375305 ATTAAAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
3 5 0.11
4 32 0.70
5 6 0.13
6 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:23375279 original size:18 final size:18
Alignment explanation
Indices: 23375256--23375306 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
23375246 ATTTTTTAAT
*
23375256 TATTTATTTATTTATATA
1 TATTTATATATTTATATA
*
23375274 TATTTATATATTTATTTA
1 TATTTATATATTTATATA
23375292 -ATTT-TATATTTATAT
1 TATTTATATATTTATAT
23375307 TAAAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 10 0.33
17 4 0.13
18 16 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTATATATTTATATA
Found at i:23375292 original size:38 final size:37
Alignment explanation
Indices: 23375228--23375304 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 37
23375218 GTCAAATCTG
23375228 ATTTGATATATATAAATTATTTTTTAATTATT-TATTT
1 ATTTGATATATATAAATTATTTTTTAATT-TTATATTT
**
23375265 ATTT-ATATATATTTATATATTTATTTAATTTTATATTT
1 ATTTGATATATATAAAT-TATTT-TTTAATTTTATATTT
23375303 AT
1 AT
23375305 ATTAAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 10 0.29
37 11 0.31
38 14 0.40
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (37 bp):
ATTTGATATATATAAATTATTTTTTAATTTTATATTT
Found at i:23375307 original size:18 final size:18
Alignment explanation
Indices: 23375250--23375307 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 18
23375240 TAAATTATTT
23375250 TTTAATTATT-TATTTAT-
1 TTTAATT-TTATATTTATA
23375267 TTATATATATTTATATATT-TA
1 TT-TA-AT-TTTATAT-TTATA
23375288 TTTAATTTTATATTTATA
1 TTTAATTTTATATTTATA
23375306 TT
1 TT
23375308 AAAAAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
17 4 0.12
18 13 0.38
19 6 0.18
20 7 0.21
21 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTAATTTTATATTTATA
Found at i:23375341 original size:22 final size:20
Alignment explanation
Indices: 23375300--23375344 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
23375290 TAATTTTATA
*
23375300 TTTATATTAAAAAATAATTT
1 TTTATATTTAAAAATAATTT
*
23375320 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATTT
23375340 TTTAT
1 TTTAT
23375345 TAATTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTATATTTAAAAATAATTT
Found at i:23375386 original size:26 final size:28
Alignment explanation
Indices: 23375328--23375386 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 28
23375318 TTTTTATATT
*
23375328 TAAAA-ATAATATTTTATTAATTTCAAA
1 TAAAATATAATATTTTATTAATATCAAA
* *
23375355 TTAAATATAAT-TTTTA-TAATATCGAA
1 TAAAATATAATATTTTATTAATATCAAA
23375381 TAAAAT
1 TAAAAT
23375387 TGAATTCGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 13 0.48
27 9 0.33
28 5 0.19
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (28 bp):
TAAAATATAATATTTTATTAATATCAAA
Found at i:23375788 original size:11 final size:11
Alignment explanation
Indices: 23375750--23375791 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
23375740 TATCTATTTA
*
23375750 AAAATATATATC
1 AAAATTTAT-TC
23375762 AAAATTTATT-
1 AAAATTTATTC
*
23375772 AAAATTTTTTC
1 AAAATTTATTC
23375783 AAAATTTAT
1 AAAATTTAT
23375792 ATATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 9 0.35
12 8 0.31
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (11 bp):
AAAATTTATTC
Found at i:23377166 original size:10 final size:10
Alignment explanation
Indices: 23377151--23377180 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
23377141 ATCGAATTTT
23377151 TATATTTTAA
1 TATATTTTAA
23377161 TATATTTTAA
1 TATATTTTAA
23377171 T-TATTTTAA
1 TATATTTTAA
23377180 T
1 T
23377181 TGATATACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:23391421 original size:19 final size:20
Alignment explanation
Indices: 23391397--23391435 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
23391387 TATATATATA
23391397 TATTCATGT-TAATCATGTT
1 TATTCATGTATAATCATGTT
*
23391416 TATTCATGTATATTCATGTT
1 TATTCATGTATAATCATGTT
23391436 AGTCGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (20 bp):
TATTCATGTATAATCATGTT
Found at i:23391424 original size:10 final size:10
Alignment explanation
Indices: 23391397--23391435 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
23391387 TATATATATA
23391397 TATTCATG-T
1 TATTCATGTT
*
23391406 TAATCATGTT
1 TATTCATGTT
*
23391416 TATTCATGTA
1 TATTCATGTT
23391426 TATTCATGTT
1 TATTCATGTT
23391436 AGTCGTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (10 bp):
TATTCATGTT
Found at i:23391456 original size:29 final size:29
Alignment explanation
Indices: 23391392--23391457 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
23391382 ATATATATAT
*
23391392 ATATATATTCATGTTAATCATGTTTATTC
1 ATATATATTCATGTTAATCATATTTATTC
* * *
23391421 ATGTATATTCATGTTAGTCGTATTTATTC
1 ATATATATTCATGTTAATCATATTTATTC
*
23391450 GTATATAT
1 ATATATAT
23391458 CTGTATTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.52
Consensus pattern (29 bp):
ATATATATTCATGTTAATCATATTTATTC
Found at i:23395436 original size:55 final size:55
Alignment explanation
Indices: 23395353--23395496 Score: 137
Period size: 55 Copynumber: 2.6 Consensus size: 55
23395343 TTTAGTATCC
* * * * * *
23395353 ATCAGGATAGACTTATATTTTTTTAATTTTTTTACCTATATCGATTGTTAGAGACT
1 ATCAGTATAGAATTATA-TCTTTTAATTTTTTTACCTATACCAATGGTTAGAGACT
* * * * * * *
23395409 GTCCGTATAGAATTATGTGC-TTTAATTTTCTTACTTTTACCAATGGTTAGAGATT
1 ATCAGTATAGAATTATAT-CTTTTAATTTTTTTACCTATACCAATGGTTAGAGACT
*
23395464 ATCAGTATAGACTTATATCTTTTAATTTTTTTA
1 ATCAGTATAGAATTATATCTTTTAATTTTTTTA
23395497 TTATATTTTG
Statistics
Matches: 68, Mismatches: 18, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
54 1 0.01
55 55 0.81
56 12 0.18
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (55 bp):
ATCAGTATAGAATTATATCTTTTAATTTTTTTACCTATACCAATGGTTAGAGACT
Found at i:23395788 original size:15 final size:15
Alignment explanation
Indices: 23395768--23395802 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
23395758 ACCAAGTCTG
*
23395768 ATAAAACAAACATCT
1 ATAAAACAAACATAT
23395783 ATAAAACAAACATAT
1 ATAAAACAAACATAT
23395798 ATAAA
1 ATAAA
23395803 GAGTTACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAAAACAAACATAT
Found at i:23396399 original size:68 final size:68
Alignment explanation
Indices: 23396327--23396453 Score: 182
Period size: 68 Copynumber: 1.9 Consensus size: 68
23396317 ACAGAAGGTA
* ** * * *
23396327 AGAAGGTAATCATCTATTCATATACCATTAGAAATAATTTTATAAACGTCTTATTCATTCATATA
1 AGAAGGTAATCATCCATTCATATACCAGCAAAAATAATTTTATAAACATCATATTCATTCATATA
23396392 TAT
66 TAT
* *
23396395 AGAAGGTAATCATCCATTTATATACTAGCAAAAATAATTTTATAAACATCATATTCATT
1 AGAAGGTAATCATCCATTCATATACCAGCAAAAATAATTTTATAAACATCATATTCATT
23396454 AGTGTAATAC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 51 1.00
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (68 bp):
AGAAGGTAATCATCCATTCATATACCAGCAAAAATAATTTTATAAACATCATATTCATTCATATA
TAT
Found at i:23402226 original size:26 final size:27
Alignment explanation
Indices: 23402167--23402226 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
23402157 ATTTAAAAAA
** *
23402167 TTTTTAATCTAATATTTAATTATAAAT
1 TTTTTAATCTAATAAATAATTACAAAT
* *
23402194 TTATTAAT-TAATAAATACTTACAAAT
1 TTTTTAATCTAATAAATAATTACAAAT
23402220 TTTTTAA
1 TTTTTAA
23402227 AAAACTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTTTAATCTAATAAATAATTACAAAT
Found at i:23409713 original size:14 final size:14
Alignment explanation
Indices: 23409674--23409715 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
23409664 ATTAATTAAA
23409674 ATTAATATATTTTAT
1 ATTAATATA-TTTAT
*
23409689 TTTAA-AT-TTTAT
1 ATTAATATATTTAT
23409701 ATTAATATATTTAT
1 ATTAATATATTTAT
23409715 A
1 A
23409716 AAAAATTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 8 0.35
15 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTAATATATTTAT
Found at i:23410311 original size:32 final size:32
Alignment explanation
Indices: 23410275--23410337 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
23410265 AAACATTCAA
23410275 TTTTTTATAAAATTTATGTTCAATGGTTTTTT
1 TTTTTTATAAAATTTATGTTCAATGGTTTTTT
* ** **
23410307 TTTTTTTTTGAATTTATGTTCCTTGGTTTTT
1 TTTTTTATAAAATTTATGTTCAATGGTTTTT
23410338 AATATCAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.17, C:0.05, G:0.11, T:0.67
Consensus pattern (32 bp):
TTTTTTATAAAATTTATGTTCAATGGTTTTTT
Found at i:23418031 original size:23 final size:23
Alignment explanation
Indices: 23417986--23418031 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
23417976 ATCAATCCCA
* *
23417986 AAAGATTGAATCTTAGGCGTATG
1 AAAGATTGAATCTTAAGCATATG
23418009 AAAGATTGAATCTTAAGCATATG
1 AAAGATTGAATCTTAAGCATATG
23418032 TGGTTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGATTGAATCTTAAGCATATG
Found at i:23419002 original size:18 final size:17
Alignment explanation
Indices: 23418981--23419041 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
23418971 GTTACTCTAT
23418981 TTTATTTTTCATTTTATC
1 TTTATTTTT-ATTTTATC
*
23418999 TTTATTTTTGAATTTATC
1 TTTATTTTT-ATTTTATC
*
23419017 ATTT-TTTATATGTTTATC
1 -TTTATTTTTAT-TTTATC
23419035 TTTATTT
1 TTTATTT
23419042 CATGTATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 4 0.11
18 29 0.81
19 3 0.08
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATTTTTATTTTATC
Found at i:23419053 original size:19 final size:18
Alignment explanation
Indices: 23418993--23419055 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
23418983 TATTTTTCAT
* *
23418993 TTTATCTTTATTTTTGAA
1 TTTATCTTTATTTATGTA
* *
23419011 TTTATCATTT-TTTATATG
1 TTTATC-TTTATTTATGTA
23419029 TTTATCTTTATTTCATGTA
1 TTTATCTTTATTT-ATGTA
23419048 TTTATCTT
1 TTTATCTT
23419056 GTTTTGATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
17 3 0.08
18 19 0.53
19 14 0.39
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTATCTTTATTTATGTA
Found at i:23419087 original size:20 final size:19
Alignment explanation
Indices: 23419062--23419111 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
23419052 TCTTGTTTTG
23419062 ATTTATTTCTTTTTATAATT
1 ATTTATTTCTTTTTAT-ATT
*
23419082 ATTTATTGT-TTTTTATTTT
1 ATTTATT-TCTTTTTATATT
*
23419101 TTTTATTTCTT
1 ATTTATTTCTT
23419112 GGATAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.04
19 10 0.38
20 14 0.54
21 1 0.04
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (19 bp):
ATTTATTTCTTTTTATATT
Found at i:23420771 original size:9 final size:10
Alignment explanation
Indices: 23420748--23420772 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23420738 AATTTGGGAT
23420748 TTTTTGAAAA
1 TTTTTGAAAA
23420758 TTTTTGAAAA
1 TTTTTGAAAA
23420768 TTTTT
1 TTTTT
23420773 TTATTTCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (10 bp):
TTTTTGAAAA
Found at i:23421613 original size:3 final size:3
Alignment explanation
Indices: 23421589--23421627 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
23421579 CAATACAAAA
*
23421589 AAT AAT AAA AAT AA- AAT GAAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
23421628 TGATATTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:23424760 original size:66 final size:65
Alignment explanation
Indices: 23424654--23424794 Score: 167
Period size: 66 Copynumber: 2.2 Consensus size: 65
23424644 ATTTAAAAGT
* * * * * *
23424654 AAAAAATAAATGACCTTAACTGAATTGAGGTAAAGAATAAGTAACTGAGATTGAATCGTCAGTCA
1 AAAAAATAAATGACATTAACTAAACTGAGGCAAAGAATAAGTAACT-AGATTGAATCATAAGTCA
23424719 A
65 A
* * *
23424720 AAAAAATAAATGACATTAATTAAACTGAGGCCACA-AATAAGTAACTAGATTGAATCATAAGTTA
1 AAAAAATAAATGACATTAACTAAACTGAGG-CAAAGAATAAGTAACTAGATTGAATCATAAGTCA
23424784 A
65 A
*
23424785 AATAAATAAA
1 AAAAAATAAA
23424795 CAAATAAATA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
65 25 0.39
66 37 0.58
67 2 0.03
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (65 bp):
AAAAAATAAATGACATTAACTAAACTGAGGCAAAGAATAAGTAACTAGATTGAATCATAAGTCAA
Found at i:23424896 original size:78 final size:77
Alignment explanation
Indices: 23424723--23424929 Score: 195
Period size: 78 Copynumber: 2.7 Consensus size: 77
23424713 CAGTCAAAAA
* * * * * *
23424723 AAATAAATGACATTAATTAAACTGAGGCCACAAATAAGT-AACTAGATTGAATCATAAGTTAAAA
1 AAATAAATGAC-TTGATTAAACTAAGGCCACAAATAAGTGATCGAGACTGAATCATAAGTCAAAA
23424787 TAAATAAACAAAT
65 TAAATAAACAAAT
* * * *
23424800 AAATAATTGACCTAGATTAAACTAAGGCCACAAATAAGTGATCGGGACTGAAAT-GTAAGTCAAA
1 AAATAAATGA-CTTGATTAAACTAAGGCCACAAATAAGTGATCGAGACTG-AATCATAAGTCAAA
**
23424864 ATAAATAAATTAAT
64 ATAAATAAACAAAT
* * * * *
23424878 CAATAAATGACTTGGATTAAATTGAA-GCCATAAATAAGTGATTGAGATTGAA
1 AAATAAATGACTT-GATTAAACT-AAGGCCACAAATAAGTGATCGAGACTGAA
23424930 CTACAATTAA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
77 37 0.35
78 63 0.60
79 5 0.05
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (77 bp):
AAATAAATGACTTGATTAAACTAAGGCCACAAATAAGTGATCGAGACTGAATCATAAGTCAAAAT
AAATAAACAAAT
Found at i:23425084 original size:65 final size:63
Alignment explanation
Indices: 23425015--23425224 Score: 194
Period size: 65 Copynumber: 3.3 Consensus size: 63
23425005 GGACCGAATT
*
23425015 AAGGTAAAAAATAAATG-CCTAGGAATAAACCACAAGTTAGAAAAATAAATGACCTAGATTGAAC
1 AAGGT-AAAAATAAATGACCTA-GAATAAACCGCAAGTTA-AAAAATAAATGACCTAGATTGAAC
23425079 C
63 C
* * * *
23425080 AAGGTAAAAATAAATGACCTAGATTGAACCGTAAG-T-AAAAATAAATGACTTAGATTGAACC
1 AAGGTAAAAATAAATGACCTAGAATAAACCGCAAGTTAAAAAATAAATGACCTAGATTGAACC
** * * * * * *
23425141 AATATCGAAAATAAATGACCGAGACTAAATCGCAAGTTAAAAAAATAAATG-CTCTAGACTGAGC
1 AAGGT-AAAAATAAATGACCTAGAATAAACCGCAAGTT-AAAAAATAAATGAC-CTAGATTGAAC
23425205 C
63 C
* *
23425206 GAGGTTGAAAATAAATGAC
1 AAGG-TAAAAATAAATGAC
23425225 AGGACTGAAC
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
61 27 0.23
62 24 0.20
63 2 0.02
64 22 0.18
65 43 0.36
66 1 0.01
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (63 bp):
AAGGTAAAAATAAATGACCTAGAATAAACCGCAAGTTAAAAAATAAATGACCTAGATTGAACC
Found at i:23425121 original size:31 final size:30
Alignment explanation
Indices: 23425055--23425160 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 30
23425045 CACAAGTTAG
23425055 AAAAATAAATGACCTAGATTGAACCAAGGT
1 AAAAATAAATGACCTAGATTGAACCAAGGT
23425085 AAAAATAAATGACCTAGATTGAACCGTAA-GT
1 AAAAATAAATGACCTAGATTGAACC--AAGGT
* **
23425116 AAAAATAAATGACTTAGATTGAACCAATAT
1 AAAAATAAATGACCTAGATTGAACCAAGGT
*
23425146 CGAAAATAAATGACC
1 -AAAAATAAATGACC
23425161 GAGACTAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
29 2 0.03
30 26 0.38
31 38 0.56
32 2 0.03
ACGTcount: A:0.51, C:0.13, G:0.14, T:0.22
Consensus pattern (30 bp):
AAAAATAAATGACCTAGATTGAACCAAGGT
Found at i:23425265 original size:64 final size:63
Alignment explanation
Indices: 23424989--23425328 Score: 181
Period size: 64 Copynumber: 5.3 Consensus size: 63
23424979 CCATAAATAA
* *** * ** * *
23424989 AAAAAATAAATGACTTGGACCGAATTAAGGTAAAAAATAAATGCCTA-GGAATAAACCACAAGTT
1 AAAAAATAAATGACTTGGACTGAACCGAGGTTAAAAATAAATG-AAAGGGACTGAA-CACAAGTT
* * * * **** *
23425053 AGAAAAATAAATGACCTAGATTGAACCAAGG-TAAAAATAAATGACCTAGATTGAAC-CGTAAG-
1 A-AAAAATAAATGACTTGGACTGAACCGAGGTTAAAAATAAATGAAAGGGACTGAACAC--AAGT
23425115 T
63 T
* * * ** ** ** * * *
23425116 -AAAAATAAATGACTTAGATTGAACCAATATCGAAAATAAATGACCGAGACTAAATCGCAAGTT
1 AAAAAATAAATGACTTGGACTGAACCGAGGTTAAAAATAAATGAAAGGGACTGAA-CACAAGTT
* * * * *
23425179 AAAAAAATAAATG-CTCTAGACTGAGCCGAGGTTGAAAATAAATGACA-GGACTGAACTATAAGT
1 -AAAAAATAAATGACT-TGGACTGAACCGAGGTTAAAAATAAATGAAAGGGACTGAAC-ACAAGT
*
23425242 C
63 T
* *
23425243 AAAATAATAAATGACTTGGACTGAATCGATGTTAAAAATAAATGAAAGGGACTGAACACAAGTT
1 AAAA-AATAAATGACTTGGACTGAACCGAGGTTAAAAATAAATGAAAGGGACTGAACACAAGTT
*
23425307 AGAAAAATAAATAACTTGGACT
1 A-AAAAATAAATGACTTGGACT
23425329 AAATTGATGT
Statistics
Matches: 218, Mismatches: 42, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
61 26 0.12
62 23 0.11
63 9 0.04
64 88 0.40
65 72 0.33
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.21
Consensus pattern (63 bp):
AAAAAATAAATGACTTGGACTGAACCGAGGTTAAAAATAAATGAAAGGGACTGAACACAAGTT
Found at i:23425345 original size:64 final size:64
Alignment explanation
Indices: 23425212--23425345 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 64
23425202 AGCCGAGGTT
* * * * *
23425212 GAAAATAAATGACAGGACTGAACTATAAGTCAAAATAATAAATGACTTGGACTGAATCGATGTT
1 GAAAATAAATGAAAGGACTGAACTACAAGTCAAAATAATAAATAACTTGGACTAAATCGATGTC
* * *
23425276 AAAAATAAATGAAAGGGACTGAAC-ACAAGTTAGAAA-AATAAATAACTTGGACTAAATTGATGT
1 GAAAATAAATGAAA-GGACTGAACTACAAGTCA-AAATAATAAATAACTTGGACTAAATCGATGT
23425339 C
64 C
23425340 GAAAAT
1 GAAAAT
23425346 GATTAGGTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
64 47 0.80
65 12 0.20
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (64 bp):
GAAAATAAATGAAAGGACTGAACTACAAGTCAAAATAATAAATAACTTGGACTAAATCGATGTC
Found at i:23428349 original size:11 final size:11
Alignment explanation
Indices: 23428333--23428383 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
23428323 ATTAAAAAAA
23428333 ATAAATAATAT
1 ATAAATAATAT
23428344 ATAAATAATA-
1 ATAAATAATAT
23428354 A-AAATAATAT
1 ATAAATAATAT
23428364 A-AAATAATAT
1 ATAAATAATAT
*
23428374 TTAAATAATA
1 ATAAATAATA
23428384 AAAAATAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 8 0.22
10 11 0.30
11 18 0.49
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAAATAATAT
Found at i:23428355 original size:18 final size:18
Alignment explanation
Indices: 23428332--23428390 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
23428322 CATTAAAAAA
23428332 AATAAATAATATATAAAT
1 AATAAATAATATATAAAT
23428350 AATAAA-AATA-AT--AT
1 AATAAATAATATATAAAT
*
23428364 -A-AAATAATATTTAAAT
1 AATAAATAATATATAAAT
*
23428380 AATAAAAAATA
1 AATAAATAATA
23428391 AAAAAACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
12 3 0.09
13 5 0.15
14 3 0.09
16 4 0.12
17 5 0.15
18 13 0.39
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAAATAATATATAAAT
Found at i:23428358 original size:20 final size:19
Alignment explanation
Indices: 23428335--23428396 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 19
23428325 TAAAAAAAAT
23428335 AAATAATATATAAATAATAA
1 AAATAATATA-AAATAATAA
*
23428355 AAATAATATAAAATAATATTT
1 AAATAATATAAAATAATA--A
*
23428376 AAATAATAAAAAATAA-AA
1 AAATAATATAAAATAATAA
23428394 AAA
1 AAA
23428397 CTTGGCTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.08
19 8 0.22
20 11 0.30
21 15 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAATAATATAAAATAATAA
Found at i:23428369 original size:27 final size:29
Alignment explanation
Indices: 23428327--23428388 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
23428317 TTAGCCATTA
23428327 AAAAAAATAAATAAT-ATA-TAAATAATA
1 AAAAAAATAAATAATAATATTAAATAATA
*
23428354 AAAATAATATAA-AATAATATTTAAATAATA
1 AAAAAAATA-AATAATAATA-TTAAATAATA
23428384 AAAAA
1 AAAAA
23428389 TAAAAAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 11 0.38
28 5 0.17
30 13 0.45
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAAAAATAAATAATAATATTAAATAATA
Found at i:23429704 original size:18 final size:19
Alignment explanation
Indices: 23429681--23429719 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
23429671 TATTCAGATG
23429681 ATTATGACCTTT-TGAATA
1 ATTATGACCTTTATGAATA
23429699 ATTATGACCTTTATGAATA
1 ATTATGACCTTTATGAATA
23429718 AT
1 AT
23429720 AATCTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (19 bp):
ATTATGACCTTTATGAATA
Found at i:23430868 original size:32 final size:32
Alignment explanation
Indices: 23430822--23430906 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
23430812 TTAAGCCTAA
* *
23430822 TTTTACTAGCACCCATGAAAATATGAGTCGAG
1 TTTTTCTAGCACCCATGAAAATATAAGTCGAG
23430854 TTTTTCTAGCACCCATGAAAATATAAGTCGAG
1 TTTTTCTAGCACCCATGAAAATATAAGTCGAG
* *
23430886 TTTTTCTAGCATCCATAAAAA
1 TTTTTCTAGCACCCATGAAAA
23430907 GATTTAAGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (32 bp):
TTTTTCTAGCACCCATGAAAATATAAGTCGAG
Found at i:23431001 original size:83 final size:83
Alignment explanation
Indices: 23430883--23431047 Score: 294
Period size: 83 Copynumber: 2.0 Consensus size: 83
23430873 AATATAAGTC
* *
23430883 GAGTTTTTCTAGCATCCATAAAAAGATTTAAGCTTAGTTTAGGTATCACTTATGAGAGTTTAAGC
1 GAGTTTTTCTAGCATCCATAAAAAGATTTAAGCTTAGTTTAGGTAGCACTTATGAGAATTTAAGC
23430948 ACAGTTTAGCTGGGACGT
66 ACAGTTTAGCTGGGACGT
* *
23430966 GAGTTTTTTTAGCATCCATGAAAAGATTTAAGCTTAGTTTAGGTAGCACTTATGAGAATTTAAGC
1 GAGTTTTTCTAGCATCCATAAAAAGATTTAAGCTTAGTTTAGGTAGCACTTATGAGAATTTAAGC
23431031 ACAGTTTAGCTGGGACG
66 ACAGTTTAGCTGGGACG
23431048 CAAGCTCAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (83 bp):
GAGTTTTTCTAGCATCCATAAAAAGATTTAAGCTTAGTTTAGGTAGCACTTATGAGAATTTAAGC
ACAGTTTAGCTGGGACGT
Found at i:23431073 original size:21 final size:22
Alignment explanation
Indices: 23431035--23431140 Score: 99
Period size: 22 Copynumber: 4.8 Consensus size: 22
23431025 TTAAGCACAG
* * *
23431035 TTTAGCTGGGACGCAAGCTCAAA
1 TTTA-CTGGCACGTAAGCCCAAA
23431058 TTTACTGG-ACGTAAGCCCAAA
1 TTTACTGGCACGTAAGCCCAAA
* *
23431079 -TTAGTTGGCATGTAAGCCCAAA
1 TTTA-CTGGCACGTAAGCCCAAA
* *
23431101 ATTACTGGCACGAAAGCCCAAA
1 TTTACTGGCACGTAAGCCCAAA
* *
23431123 TTTGCTGGCATGTAAGCC
1 TTTACTGGCACGTAAGCC
23431141 TAGATTAACT
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
20 3 0.04
21 14 0.20
22 45 0.65
23 7 0.10
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (22 bp):
TTTACTGGCACGTAAGCCCAAA
Found at i:23431152 original size:44 final size:43
Alignment explanation
Indices: 23431049--23431140 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 43
23431039 GCTGGGACGC
* * * *
23431049 AAGCTCAAATTTACTGGACGTAAGCCCAAATTAGTTGGCATGT
1 AAGCCCAAAATTACTGGACGAAAGCCCAAATTAGCTGGCATGT
*
23431092 AAGCCCAAAATTACTGGCACGAAAGCCCAAATTTGCTGGCATGT
1 AAGCCCAAAATTACTGG-ACGAAAGCCCAAATTAGCTGGCATGT
23431136 AAGCC
1 AAGCC
23431141 TAGATTAACT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 15 0.35
44 28 0.65
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (43 bp):
AAGCCCAAAATTACTGGACGAAAGCCCAAATTAGCTGGCATGT
Found at i:23431383 original size:34 final size:33
Alignment explanation
Indices: 23431331--23431538 Score: 150
Period size: 34 Copynumber: 6.2 Consensus size: 33
23431321 AATCCACCCT
* * *
23431331 AAATTCAAACCTAGATTAGCTGGCACTCAATGC
1 AAATTTAAGCCTAAATTAGCTGGCACTCAATGC
* * * *
23431364 AAATTTTAAACCCAAATTAGCTGTCACTTAATGC
1 AAA-TTTAAGCCTAAATTAGCTGGCACTCAATGC
* *
23431398 AAATTTAAGCCTAATTTTAGCTGGCACTTAATGC
1 AAATTTAAGCCTAA-ATTAGCTGGCACTCAATGC
* * * * * *
23431432 AAAATTTAAGCCTAATTTAGTTGGTACCCTATTAC
1 -AAATTTAAGCCTAAATTAGCTGGCACTC-AATGC
* *
23431467 AAATTTAAGCCAAAATTAGCTAGCA-TCCAATG-
1 AAATTTAAGCCTAAATTAGCTGGCACT-CAATGC
* * ** *
23431499 AGAATTTAAACATAGTTTAGCTGGCATTCAATGC
1 A-AATTTAAGCCTAAATTAGCTGGCACTCAATGC
23431533 AAATTT
1 AAATTT
23431539 TATGTCTAGG
Statistics
Matches: 138, Mismatches: 29, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
32 1 0.01
33 42 0.30
34 78 0.57
35 17 0.12
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (33 bp):
AAATTTAAGCCTAAATTAGCTGGCACTCAATGC
Found at i:23431715 original size:32 final size:32
Alignment explanation
Indices: 23431580--23431740 Score: 119
Period size: 32 Copynumber: 5.0 Consensus size: 32
23431570 GCTAGTATTC
* * * * *
23431580 AATGCAAATTTTAATCCCAGTCTAGTTAGCACCT
1 AATG-AAATTTTAAGCCCAATTTAGCTAGCA-CA
* *
23431614 AATGAAAATTTTAAGCTCAATTTAGCTGGCACCA
1 AATG-AAATTTTAAGCCCAATTTAGCTAGCA-CA
* * * * *
23431648 AA-GAAAATATAAGCCCAAATTAGCTAACACC
1 AATGAAATTTTAAGCCCAATTTAGCTAGCACA
* *
23431679 AATGAAATTTTAAGCCCAATTTAACTAGCATA
1 AATGAAATTTTAAGCCCAATTTAGCTAGCACA
* * *
23431711 AATGAAGTTTTAAG-CTAATTTAGCTGGCAC
1 AATGAAATTTTAAGCCCAATTTAGCTAGCAC
23431741 CTAAATTTAA
Statistics
Matches: 99, Mismatches: 27, Indels: 5
0.76 0.21 0.04
Matches are distributed among these distances:
31 15 0.15
32 55 0.56
33 1 0.01
34 28 0.28
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.29
Consensus pattern (32 bp):
AATGAAATTTTAAGCCCAATTTAGCTAGCACA
Found at i:23431790 original size:91 final size:92
Alignment explanation
Indices: 23431620--23431816 Score: 211
Period size: 91 Copynumber: 2.1 Consensus size: 92
23431610 ACCTAATGAA
*
23431620 AATTTTAAGCTCAATTTAGCTGGCACCAAAGAAAATATAAGCCCAAATTAGCTAACACCAATGAA
1 AATTTTAAGCTCAATTTAGCTGGCACC--A-AAAATATAAACCCAAATTAGCTAACACCAATGAA
*
23431685 ATTTTAAGCCCAATTTAACT-AGCATAAATG
63 AATTTAAGCCCAATTTAACTGA-CATAAATG
* * * * **
23431715 AAGTTTTAAGCT-AATTTAGCTGGCACC-TAAATTTAAACCTAAATTAGCTAGCACTGATGAAAA
1 AA-TTTTAAGCTCAATTTAGCTGGCACCAAAAATATAAACCCAAATTAGCTAACACCAATGAAAA
** * *
23431778 TTTAAGTTCAATTTGACTGACATCAATG
65 TTTAAGCCCAATTTAACTGACATAAATG
*
23431806 AAATTTAAGCT
1 AATTTTAAGCT
23431817 TAGTTTAGTT
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
90 8 0.09
91 52 0.60
92 1 0.01
95 17 0.20
96 9 0.10
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (92 bp):
AATTTTAAGCTCAATTTAGCTGGCACCAAAAATATAAACCCAAATTAGCTAACACCAATGAAAAT
TTAAGCCCAATTTAACTGACATAAATG
Found at i:23431824 original size:91 final size:91
Alignment explanation
Indices: 23431664--23431841 Score: 200
Period size: 91 Copynumber: 2.0 Consensus size: 91
23431654 ATATAAGCCC
* *
23431664 AAATTAGCTAACACCAATGAAATTTTAAGCCCAATTTAACTAGCATAAATGAAGTTTTAAGCTAA
1 AAATTAGCTAACACCAATGAAAATTTAAGCCCAATTTAACTAGCATAAATGAAGATTTAAGCTAA
*
23431729 TTTAGCTGGCA-CCTAAATTTAAACCT
66 TTTAGCTGCCATCC-AAATTTAAACCT
* ** ** * *
23431755 AAATTAGCTAGCACTGATGAAAATTTAAGTTCAATTTGACT-GACATCAATGAA-ATTTAAGCTT
1 AAATTAGCTAACACCAATGAAAATTTAAGCCCAATTTAACTAG-CATAAATGAAGATTTAAGC-T
* *
23431818 AGTTTAGTTGCCATCCAAATTTAA
64 AATTTAGCTGCCATCCAAATTTAA
23431842 GCCCATTATT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
90 8 0.11
91 62 0.86
92 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (91 bp):
AAATTAGCTAACACCAATGAAAATTTAAGCCCAATTTAACTAGCATAAATGAAGATTTAAGCTAA
TTTAGCTGCCATCCAAATTTAAACCT
Found at i:23432059 original size:5 final size:6
Alignment explanation
Indices: 23432037--23432177 Score: 51
Period size: 6 Copynumber: 23.0 Consensus size: 6
23432027 AAAAAACAAC
* * *
23432037 AAAAAC AAAAGAT AAAAAT AAAAAT CAAAAT AAAAACT AAAAAAAT CAAAATT
1 AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAA-T --AAAAAT -AAAAAT
* ** * * * * *
23432090 AAAAA- AACTAA- AAAACC AAAAACCA AAAAAC AAAAAC AAAAAG CAAAAT
1 AAAAAT AA-AAAT AAAAAT AAAAA--T AAAAAT AAAAAT AAAAAT AAAAAT
*
23432139 -AAAAT AAAAAT AAAAA- CAAAA- AAAAAT AAATAA- AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT
23432178 TCACCTTAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
5 18 0.17
6 64 0.60
7 13 0.12
8 6 0.06
9 5 0.05
ACGTcount: A:0.79, C:0.09, G:0.01, T:0.11
Consensus pattern (6 bp):
AAAAAT
Found at i:23432082 original size:21 final size:23
Alignment explanation
Indices: 23432056--23432104 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
23432046 AGATAAAAAT
23432056 AAAAATCAAAA-T-AAAAACTAA
1 AAAAATCAAAATTAAAAAACTAA
23432077 AAAAATCAAAATTAAAAAAACTAA
1 AAAAATCAAAATT-AAAAAACTAA
23432101 AAAA
1 AAAA
23432105 CCAAAAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 11 0.44
22 1 0.04
24 13 0.52
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (23 bp):
AAAAATCAAAATTAAAAAACTAA
Found at i:23432087 original size:15 final size:15
Alignment explanation
Indices: 23432063--23432173 Score: 59
Period size: 15 Copynumber: 7.3 Consensus size: 15
23432053 AATAAAAATC
23432063 AAAATAAAAACTAAA
1 AAAATAAAAACTAAA
* *
23432078 AAAATCAAAATTAAA
1 AAAATAAAAACTAAA
*
23432093 AAAACTAAAAAACCAAA
1 AAAA-T-AAAAACTAAA
*
23432110 AACCA-AAAAAC-AAA
1 AA-AATAAAAACTAAA
* * *
23432124 AACA-AAAAGCAAAA
1 AAAATAAAAACTAAA
23432138 TAAAATAAAAA-TAAA
1 -AAAATAAAAACTAAA
* *
23432153 AACAAAAAAAAATAAA
1 AA-AATAAAAACTAAA
23432169 TAAAA
1 -AAAA
23432174 AAATTCACCT
Statistics
Matches: 76, Mismatches: 11, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
13 7 0.09
14 10 0.13
15 36 0.47
16 11 0.14
17 11 0.14
18 1 0.01
ACGTcount: A:0.79, C:0.10, G:0.01, T:0.10
Consensus pattern (15 bp):
AAAATAAAAACTAAA
Found at i:23432110 original size:14 final size:14
Alignment explanation
Indices: 23432091--23432175 Score: 61
Period size: 14 Copynumber: 5.9 Consensus size: 14
23432081 ATCAAAATTA
23432091 AAAAAACTAAAAAACC
1 AAAAAAC-AAAAAA-C
*
23432107 AAAAACCAAAAAAC
1 AAAAAACAAAAAAC
*
23432121 -AAAAACAAAAAGC
1 AAAAAACAAAAAAC
23432134 AAAATAA-AATAAAA-
1 AAAA-AACAA-AAAAC
23432148 ATAAAAACAAAAAA-
1 A-AAAAACAAAAAAC
*
23432162 AAATAAATAAAAAA
1 AAA-AAACAAAAAA
23432176 ATTCACCTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
13 13 0.22
14 23 0.40
15 16 0.28
16 6 0.10
ACGTcount: A:0.81, C:0.11, G:0.01, T:0.07
Consensus pattern (14 bp):
AAAAAACAAAAAAC
Found at i:23432117 original size:24 final size:23
Alignment explanation
Indices: 23432068--23432176 Score: 68
Period size: 23 Copynumber: 4.8 Consensus size: 23
23432058 AAATCAAAAT
**
23432068 AAAAACTAAAAAA-ATCAAAATTAA
1 AAAAACTAAAAAACA--AAAACCAA
23432092 AAAAACTAAAAAACCAAAAACC-A
1 AAAAACTAAAAAA-CAAAAACCAA
*
23432115 AAAAAC--AAAAACAAAAAGCAA
1 AAAAACTAAAAAACAAAAACCAA
* * *
23432136 AATAAAAT-AAAAATAAAAACAAA
1 AA-AAACTAAAAAACAAAAACCAA
* *
23432159 AAAAAATAAATAA-AAAAA
1 AAAAACTAAAAAACAAAAA
23432177 TTCACCTTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
20 7 0.10
21 8 0.11
22 13 0.18
23 25 0.35
24 17 0.24
26 1 0.01
ACGTcount: A:0.80, C:0.10, G:0.01, T:0.09
Consensus pattern (23 bp):
AAAAACTAAAAAACAAAAACCAA
Found at i:23432142 original size:11 final size:11
Alignment explanation
Indices: 23432051--23432174 Score: 69
Period size: 11 Copynumber: 10.9 Consensus size: 11
23432041 ACAAAAGATA
23432051 AAAATAAAAATC
1 AAAATAAAAA-C
23432063 AAAATAAAAAC
1 AAAATAAAAAC
* *
23432074 TAAA-AAAATC
1 AAAATAAAAAC
*
23432084 AAAATTAAAA-
1 AAAATAAAAAC
*
23432094 AAACTAAAAAACC
1 AAAAT-AAAAA-C
*
23432107 AAAAACCAAAAAAC
1 -AAAA--TAAAAAC
*
23432121 AAAAACAAAAAGC
1 -AAAATAAAAA-C
23432134 AAAATAAAATA-
1 AAAATAAAA-AC
23432145 AAAATAAAAAC
1 AAAATAAAAAC
23432156 AAAA-AAAAA-
1 AAAATAAAAAC
*
23432165 TAAATAAAAA
1 AAAATAAAAA
23432175 AATTCACCTT
Statistics
Matches: 89, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
9 3 0.03
10 23 0.26
11 24 0.27
12 23 0.26
13 2 0.02
14 9 0.10
15 5 0.06
ACGTcount: A:0.79, C:0.10, G:0.01, T:0.10
Consensus pattern (11 bp):
AAAATAAAAAC
Found at i:23432173 original size:71 final size:68
Alignment explanation
Indices: 23432018--23432175 Score: 160
Period size: 71 Copynumber: 2.3 Consensus size: 68
23432008 CATCATAAAG
* * * * * *
23432018 AAAAAAATGAAA-AAACAACAAAAACAAAAGATAAAAATAAAAATCAAAATAAAAACTAAAAAAA
1 AAAAAAAT-AAATAAAAAACAAAAACAAAAAACAAAAACAAAAAGCAAAATAAAAACAAAAAAAA
*
23432082 TCAA
65 ACAA
*
23432086 AATTAAAAA-AACTAAAAAACCAAAAACCAAAAAACAAAAACAAAAAGCAAAATAAAATA-AAAA
1 AA--AAAAATAAATAAAAAA-CAAAAA-CAAAAAACAAAAACAAAAAGCAAAATAAAA-ACAAAA
23432149 TAAAAACAA
61 -AAAAACAA
23432158 AAAAAAATAAATAAAAAA
1 AAAAAAATAAATAAAAAA
23432176 ATTCACCTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
68 4 0.05
69 5 0.07
70 16 0.22
71 38 0.52
72 10 0.14
ACGTcount: A:0.79, C:0.09, G:0.02, T:0.09
Consensus pattern (68 bp):
AAAAAAATAAATAAAAAACAAAAACAAAAAACAAAAACAAAAAGCAAAATAAAAACAAAAAAAAA
CAA
Found at i:23432175 original size:11 final size:10
Alignment explanation
Indices: 23432018--23432176 Score: 58
Period size: 10 Copynumber: 15.5 Consensus size: 10
23432008 CATCATAAAG
23432018 AAAAAAATGAA
1 AAAAAAAT-AA
* *
23432029 AAAACAACAA
1 AAAAAAATAA
* *
23432039 AAACAAA-AG
1 AAAAAAATAA
*
23432048 ATAAAAATAA
1 AAAAAAATAA
23432058 AAATCAAAATAA
1 AAA--AAAATAA
23432070 AAACTAAAA-AA
1 AAA--AAAATAA
** *
23432081 ATCAAAATTA
1 AAAAAAATAA
*
23432091 AAAAAACTAA
1 AAAAAAATAA
**
23432101 AAAACCA-AA
1 AAAAAAATAA
**
23432110 AACCAAA-AA
1 AAAAAAATAA
* *
23432119 ACAAAAACAA
1 AAAAAAATAA
23432129 AAAGCAAAATAA
1 AAA--AAAATAA
23432141 AATAAAAATAA
1 AA-AAAAATAA
23432152 AAACAAAA-AA
1 AAA-AAAATAA
*
23432162 AAATAAATAA
1 AAAAAAATAA
23432172 AAAAA
1 AAAAA
23432177 TTCACCTTAA
Statistics
Matches: 106, Mismatches: 32, Indels: 21
0.67 0.20 0.13
Matches are distributed among these distances:
9 24 0.23
10 37 0.35
11 22 0.21
12 22 0.21
13 1 0.01
ACGTcount: A:0.79, C:0.09, G:0.02, T:0.09
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:23432175 original size:16 final size:16
Alignment explanation
Indices: 23432135--23432176 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
23432125 ACAAAAAGCA
*
23432135 AAAT-AAAATAAAAAT
1 AAATAAAAAAAAAAAT
23432150 AAA-AACAAAAAAAAAT
1 AAATAA-AAAAAAAAAT
23432166 AAATAAAAAAA
1 AAATAAAAAAA
23432177 TTCACCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 4 0.17
16 17 0.74
17 2 0.09
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (16 bp):
AAATAAAAAAAAAAAT
Found at i:23432496 original size:18 final size:19
Alignment explanation
Indices: 23432473--23432527 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 19
23432463 AGCCATTAAA
23432473 AAATAATAAATAATATAT-
1 AAATAATAAATAATATATG
23432491 AAATAATAAA-AATAATATG
1 AAATAATAAATAAT-ATATG
23432510 AAATATATAAAATAATAT
1 AAATA-AT-AAATAATAT
23432528 TTTAGTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.09
18 14 0.44
19 5 0.16
20 2 0.06
21 5 0.16
22 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AAATAATAAATAATATATG
Found at i:23432505 original size:9 final size:9
Alignment explanation
Indices: 23432471--23432526 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
23432461 TTAGCCATTA
23432471 AAAAATAAT
1 AAAAATAAT
23432480 AAATAAT-AT
1 AAA-AATAAT
*
23432489 ATAAATAAT
1 AAAAATAAT
23432498 AAAAATAAT
1 AAAAATAAT
*
23432507 ATGAAAT-AT
1 A-AAAATAAT
23432516 ATAAAATAAT
1 A-AAAATAAT
23432526 A
1 A
23432527 TTTTAGTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 3 0.08
9 26 0.67
10 10 0.26
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATAAT
Found at i:23432507 original size:27 final size:28
Alignment explanation
Indices: 23432471--23432526 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
23432461 TTAGCCATTA
23432471 AAAAATAATA-AATAATATAT-AAATAAT
1 AAAAATAATATAA-AATATATAAAATAAT
*
23432498 AAAAATAATATGAAATATATAAAATAAT
1 AAAAATAATATAAAATATATAAAATAAT
23432526 A
1 A
23432527 TTTTAGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAATAATATAAAATATATAAAATAAT
Found at i:23432521 original size:19 final size:20
Alignment explanation
Indices: 23432474--23432527 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
23432464 GCCATTAAAA
*
23432474 AATAATAAATAATATATAAAT
1 AATAA-AAATAATATAGAAAT
23432495 AATAAAAATAATAT-GAAAT
1 AATAAAAATAATATAGAAAT
23432514 -ATATAAAATAATAT
1 AATA-AAAATAATAT
23432528 TTTAGTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 3 0.10
19 14 0.45
20 9 0.29
21 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAAAAATAATATAGAAAT
Found at i:23433659 original size:12 final size:12
Alignment explanation
Indices: 23433641--23433688 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
23433631 TTATTTATTT
23433641 ATTTTTATTTTG
1 ATTTTTATTTTG
*
23433653 GTTTTTATTTTG
1 ATTTTTATTTTG
*
23433665 ATTTTTTATTATTT
1 A-TTTTTATT-TTG
23433679 A-TTTTATTTT
1 ATTTTTATTTT
23433689 AAGATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 2 0.06
12 18 0.58
13 8 0.26
14 3 0.10
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (12 bp):
ATTTTTATTTTG
Found at i:23433723 original size:11 final size:12
Alignment explanation
Indices: 23433709--23433737 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23433699 GATGTTAATT
23433709 AAAAAA-TGAAA
1 AAAAAATTGAAA
23433720 AAAAAATTGAAA
1 AAAAAATTGAAA
23433732 AAAAAA
1 AAAAAA
23433738 GTGGTTGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAAAATTGAAA
Found at i:23434161 original size:31 final size:30
Alignment explanation
Indices: 23434096--23434162 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
23434086 AAAATTCCAA
*
23434096 TTTTCGATGAATTTTTCAACGTCAATTGACT
1 TTTTCGATGAATTTTTCAACG-CAATTGAAT
* *
23434127 TTTTCGATGAGTTTTTCGATAC-CAGTTGAAT
1 TTTTCGATGAATTTTTC-A-ACGCAATTGAAT
23434158 TTTTC
1 TTTTC
23434163 AGTAGAATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 28 0.90
32 1 0.03
33 2 0.06
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (30 bp):
TTTTCGATGAATTTTTCAACGCAATTGAAT
Found at i:23434202 original size:19 final size:19
Alignment explanation
Indices: 23434162--23434203 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
23434152 TTGAATTTTT
*
23434162 CAGTAGAATTCTCAGAATC
1 CAGTAGAATTCTCAGAAGC
*
23434181 CAGTAGAATAT-TCTGAAGC
1 CAGTAGAAT-TCTCAGAAGC
23434200 CAGT
1 CAGT
23434204 TACATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (19 bp):
CAGTAGAATTCTCAGAAGC
Found at i:23434319 original size:12 final size:10
Alignment explanation
Indices: 23434296--23434338 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
23434286 TCATCCAGGT
23434296 AGAGAGAGAA
1 AGAGAGAGAA
23434306 AGAGAGAAGAA
1 AGAGAG-AGAA
23434317 A-AGAG-GAA
1 AGAGAGAGAA
*
23434325 AGAGAGAGAG
1 AGAGAGAGAA
23434335 AGAG
1 AGAG
23434339 GGAAGAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 16 0.55
11 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (10 bp):
AGAGAGAGAA
Found at i:23434645 original size:24 final size:22
Alignment explanation
Indices: 23434618--23434674 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
23434608 TTTATTTTTC
* *
23434618 TTTTATTTTTTATTTATTTAGTA
1 TTTT-TTTTTTTTTTACTTAGTA
*
23434641 TTTTTCTTATTTTTTTCCTTAGTA
1 TTTTT-TT-TTTTTTTACTTAGTA
23434665 TTTTTTTTTT
1 TTTTTTTTTT
23434675 CATGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 4 0.14
23 8 0.28
24 17 0.59
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (22 bp):
TTTTTTTTTTTTTTACTTAGTA
Found at i:23434656 original size:28 final size:28
Alignment explanation
Indices: 23434602--23434656 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
23434592 CAAACCATGT
* *
23434602 TTTATTTTTATTTTTCTTTTATTTTTTA
1 TTTATTTGTATTTTTCTTATATTTTTTA
23434630 TTTATTTAGTATTTTTCTTAT-TTTTTT
1 TTTATTT-GTATTTTTCTTATATTTTTT
23434657 CCTTAGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.80
Consensus pattern (28 bp):
TTTATTTGTATTTTTCTTATATTTTTTA
Found at i:23434890 original size:12 final size:12
Alignment explanation
Indices: 23434873--23434899 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23434863 TATTTTTTTC
23434873 AAATAAAAAATA
1 AAATAAAAAATA
23434885 AAATAAAAAATA
1 AAATAAAAAATA
23434897 AAA
1 AAA
23434900 AACATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAAAAATA
Found at i:23434908 original size:8 final size:7
Alignment explanation
Indices: 23434873--23434918 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
23434863 TATTTTTTTC
23434873 AAATAAA
1 AAATAAA
23434880 AAAT--A
1 AAATAAA
23434885 AAATAAA
1 AAATAAA
23434892 AAATAAA
1 AAATAAA
*
23434899 AAACATAA
1 AAATA-AA
23434907 AAATATAA
1 AAATA-AA
23434915 AAAT
1 AAAT
23434919 TTTGGAACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 5 0.15
7 16 0.47
8 13 0.38
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:23439309 original size:19 final size:19
Alignment explanation
Indices: 23439286--23439333 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
23439276 ATAAAAGAAA
*
23439286 GAAAAAAATGA-AAAAAAT
1 GAAAAAAAAGAGAAAAAAT
*
23439304 GAAAAATAAGAGAAAAAAT
1 GAAAAAAAAGAGAAAAAAT
*
23439323 GAAAAATAAGA
1 GAAAAAAAAGA
23439334 AAGATGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (19 bp):
GAAAAAAAAGAGAAAAAAT
Found at i:23439335 original size:9 final size:9
Alignment explanation
Indices: 23439286--23439328 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
23439276 ATAAAAGAAA
23439286 GAAAAAAAT
1 GAAAAAAAT
23439295 GAAAAAAAT
1 GAAAAAAAT
23439304 GAAAAATAA-
1 GAAAAA-AAT
23439313 GAGAAAAAAT
1 GA-AAAAAAT
23439323 GAAAAA
1 GAAAAA
23439329 TAAGAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 23 0.74
10 8 0.26
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:23440144 original size:23 final size:23
Alignment explanation
Indices: 23440118--23440161 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
23440108 AAAGCCTTCG
*
23440118 AATGGCGATCAAGT-GATGAAAAT
1 AATGACGATC-AGTAGATGAAAAT
*
23440141 AATGATGATCAGTAGATGAAA
1 AATGACGATCAGTAGATGAAA
23440162 CTTGCTTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.45, C:0.07, G:0.25, T:0.23
Consensus pattern (23 bp):
AATGACGATCAGTAGATGAAAAT
Found at i:23440650 original size:80 final size:79
Alignment explanation
Indices: 23440481--23440650 Score: 191
Period size: 80 Copynumber: 2.1 Consensus size: 79
23440471 CTTTTGATAA
* *
23440481 AAATTTTTGAGTTCTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTCAAATATAAATC
1 AAATTTTTGAGTTCTCAAATGAGAATCTTTGAAGTGTGAAACCCAAAATTCGTCAAATATAAATC
23440546 TTCGAACTCAAATG
66 TTCGAACTCAAATG
* * * * * * * *
23440560 AGAATCTTTGAGTT-TCAACTTAGAATCTTTGAAGTGTGAAACTCAAGAGTTCGTCGAATGTGAA
1 A-AATTTTTGAGTTCTCAAATGAGAATCTTTGAAGTGTGAAACCCAA-AATTCGTCAAATATAAA
*
23440624 TCTTTGAACT-AGAATG
64 TCTTCGAACTCA-AATG
23440640 AAATGTTTTGA
1 AAAT-TTTTGA
23440651 ACTTTTGGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
79 33 0.44
80 42 0.56
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (79 bp):
AAATTTTTGAGTTCTCAAATGAGAATCTTTGAAGTGTGAAACCCAAAATTCGTCAAATATAAATC
TTCGAACTCAAATG
Found at i:23440812 original size:22 final size:23
Alignment explanation
Indices: 23440784--23440833 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
23440774 ATGTGGATAC
*
23440784 GAATCTTGTAAT-TTACAAATGT
1 GAATCTTGAAATCTTACAAATGT
* *
23440806 GAATCTTGAAATCTTGCAAATTT
1 GAATCTTGAAATCTTACAAATGT
23440829 GAATC
1 GAATC
23440834 CTTATGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (23 bp):
GAATCTTGAAATCTTACAAATGT
Found at i:23441056 original size:44 final size:44
Alignment explanation
Indices: 23441001--23441476 Score: 526
Period size: 44 Copynumber: 11.1 Consensus size: 44
23440991 AGTATTTTAG
* * *
23441001 TTTCC-AAAGTTGTGATTACCTCTATTTAGAGGAGCGTTTTATT
1 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
*
23441044 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGATGAGCATTTTATT
1 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
* * * * *
23441088 TTT-C-AAAGTTGTGATTG-CTCTCTTTAGAGGAACAATTT-GT
1 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
*
23441128 TTT-CTAAAGTTGTGGTTGCCTCTGTTTAGAGGAGCATTTTATT
1 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
* * * *
23441171 TTTCCTAAAATTGTGGTTGCCTCTGTTTAGAAGAGTATTTTATT
1 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
* *
23441215 TTTCATAAAGTTGTAGTTGCCTCTATTTAGAGGAGCATTTTATT
1 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
** * *
23441259 TTT-C-AAAGTTGTTATTGCCTCTGTTTAGAAGAGCATTTTATT
1 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
* * * * *
23441301 TTTCATAAAATTATGGTTGCCTCTATTTAGAGAAGGATTTTATT
1 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
* * * * *
23441345 TTT--TAAAGTTGTAGTTGCCTTTGTTTAAAGAAGCATTTTATT
1 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
* * * *
23441387 TTTCCTAAAGTTGTGGTTGCCTTTATTTAGGGGAGTAATTTATT
1 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
* * **
23441431 TTTTC-AAAGTTGTGGTTGCTTCTA-TTAGAATAGCATTTTATT
1 TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
23441473 TTTC
1 TTTC
23441477 AAAATCGTTG
Statistics
Matches: 363, Mismatches: 61, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
40 5 0.01
41 29 0.08
42 118 0.33
43 27 0.07
44 184 0.51
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.47
Consensus pattern (44 bp):
TTTCCTAAAGTTGTGGTTGCCTCTATTTAGAGGAGCATTTTATT
Found at i:23441320 original size:86 final size:86
Alignment explanation
Indices: 23440994--23441477 Score: 575
Period size: 86 Copynumber: 5.6 Consensus size: 86
23440984 GTTAAAGAGT
* * * * * * *
23440994 ATTTTAGTTTCCAAAGTTGTGATTACCTCTATTTAGAGGAGCGTTTTATTTTTCCTAAAGTTGTG
1 ATTTTATTTTTCAAAGTTGTGATTGCCTCTGTTTAGAAGAGCATTTTATTTTTCATAAAGTTGTG
*
23441059 GTTGCCTCTATTTAGATGAGC
66 GTTGCCTCTATTTAGAGGAGC
* * * * *
23441080 ATTTTATTTTTCAAAGTTGTGATTG-CTCTCTTTAGAGGAACAATTT-GTTTTC-TAAAGTTGTG
1 ATTTTATTTTTCAAAGTTGTGATTGCCTCTGTTTAGAAGAGCATTTTATTTTTCATAAAGTTGTG
*
23441142 GTTGCCTCTGTTTAGAGGAGC
66 GTTGCCTCTATTTAGAGGAGC
* * *
23441163 ATTTTATTTTTCCTAAAATTGTGGTTGCCTCTGTTTAGAAGAGTATTTTATTTTTCATAAAGTTG
1 ATTTTATTTTT-C-AAAGTTGTGATTGCCTCTGTTTAGAAGAGCATTTTATTTTTCATAAAGTTG
*
23441228 TAGTTGCCTCTATTTAGAGGAGC
64 TGGTTGCCTCTATTTAGAGGAGC
* * *
23441251 ATTTTATTTTTCAAAGTTGTTATTGCCTCTGTTTAGAAGAGCATTTTATTTTTCATAAAATTATG
1 ATTTTATTTTTCAAAGTTGTGATTGCCTCTGTTTAGAAGAGCATTTTATTTTTCATAAAGTTGTG
* *
23441316 GTTGCCTCTATTTAGAGAAGG
66 GTTGCCTCTATTTAGAGGAGC
* * *
23441337 ATTTTATTTTTTAAAGTTGT-AGTTGCCTTTGTTTA-AAGAAGCATTTTATTTTTCCTAAAGTTG
1 ATTTTATTTTTCAAAGTTGTGA-TTGCCTCTGTTTAGAAG-AGCATTTTATTTTTCATAAAGTTG
* * *
23441400 TGGTTGCCTTTATTTAGGGGAGT
64 TGGTTGCCTCTATTTAGAGGAGC
* * * * *
23441423 AATTTATTTTTTCAAAGTTGTGGTTGCTTCT-ATTAGAATAGCATTTTATTTTTCA
1 ATTTTA-TTTTTCAAAGTTGTGATTGCCTCTGTTTAGAAGAGCATTTTATTTTTCA
23441478 AAATCGTTGA
Statistics
Matches: 342, Mismatches: 46, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
83 40 0.12
84 6 0.02
85 32 0.09
86 197 0.58
87 27 0.08
88 40 0.12
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (86 bp):
ATTTTATTTTTCAAAGTTGTGATTGCCTCTGTTTAGAAGAGCATTTTATTTTTCATAAAGTTGTG
GTTGCCTCTATTTAGAGGAGC
Found at i:23441519 original size:130 final size:129
Alignment explanation
Indices: 23441001--23441524 Score: 528
Period size: 130 Copynumber: 4.1 Consensus size: 129
23440991 AGTATTTTAG
* * * *
23441001 TTTCCAAAGTTGTGATTACCTCTATTTAGAGGAGCGTTTTATTTTTCCTAAAGTTGTGGTTGCCT
1 TTTCTAAAGTTGTGATTGCCTCTATTTAGAGGAGCATTTTATTTTTCCTAAAATTGTGGTTGCCT
* * * * * *
23441066 CTATTTAG-ATGAGCATTTTATTTTTCAAAGTTGT-GATTGC-TCTCTTTAGAGGAACAATTT-G
66 CTATTTAGAAT-AGCATTTTATTTTTCAAAATTGTAG-TAGCTTCTGTTTAGAGGAGCATTTTAT
23441127 T
129 T
* *
23441128 TTTCTAAAGTTGTGGTTGCCTCTGTTTAGAGGAGCATTTTATTTTTCCTAAAATTGTGGTTGCCT
1 TTTCTAAAGTTGTGATTGCCTCTATTTAGAGGAGCATTTTATTTTTCCTAAAATTGTGGTTGCCT
* * * * * *
23441193 CTGTTTAGAAGAGTATTTTATTTTTCATAAAGTTGTAGTTGCCTCTATTTAGAGGAGCATTTTAT
66 CTATTTAGAATAGCATTTTATTTTTCA-AAA-TTGTAGTAGCTTCTGTTTAGAGGAGCATTTTAT
23441258 T
129 T
* * * * *
23441259 TTTC-AAAGTTGTTATTGCCTCTGTTTAGAAGAGCATTTTATTTTTCATAAAATTATGGTTGCCT
1 TTTCTAAAGTTGTGATTGCCTCTATTTAGAGGAGCATTTTATTTTTCCTAAAATTGTGGTTGCCT
* * * * * *
23441323 CTATTTAGAGA-AGGATTTTATTTTTTAAAGTTGTAGTTGCCTT-TGTTTAAAGAAGCATTTTAT
66 CTATTTAGA-ATAGCATTTTATTTTTCAAAATTGTAGTAG-CTTCTGTTTAGAGGAGCATTTTAT
23441386 T
129 T
* * * * * * * *
23441387 TTTCCTAAAGTTGTGGTTGCCTTTATTTAGGGGAGTAATTTATTTTTTC-AAAGTTGTGGTTGCT
1 TTT-CTAAAGTTGTGATTGCCTCTATTTAGAGGAGCATTTTATTTTTCCTAAAATTGTGGTTGCC
* * *
23441451 TCTA-TTAGAATAGCATTTTATTTTTCAAAATCGTTG-AGCTTCTGTTTAGAGGAGCTTTGTTTA
65 TCTATTTAGAATAGCATTTTATTTTTCAAAATTGTAGTAGCTTCTGTTTAGAGGAGC-AT-TTTA
23441514 CTT
128 -TT
23441517 TTTCTAAA
1 TTTCTAAA
23441525 AAAAAAAATG
Statistics
Matches: 333, Mismatches: 49, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
126 3 0.01
127 94 0.28
128 59 0.18
129 38 0.11
130 133 0.40
131 6 0.02
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (129 bp):
TTTCTAAAGTTGTGATTGCCTCTATTTAGAGGAGCATTTTATTTTTCCTAAAATTGTGGTTGCCT
CTATTTAGAATAGCATTTTATTTTTCAAAATTGTAGTAGCTTCTGTTTAGAGGAGCATTTTATT
Found at i:23442252 original size:31 final size:30
Alignment explanation
Indices: 23442198--23442277 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
23442188 GAAAAATTTC
* *
23442198 AGTTTTTAGTGAATTTTTCGACGTTGGTTG
1 AGTTTTTTGTGAATTTTTCGACGTCGGTTG
23442228 AGTTTTTTGATGAGATTTTT-GACGTCGGTTG
1 AGTTTTTTG-TGA-ATTTTTCGACGTCGGTTG
*
23442259 AATTTTTTTGTGAATTTTT
1 -AGTTTTTTGTGAATTTTT
23442278 TAGAATTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
30 14 0.32
31 16 0.36
32 14 0.32
ACGTcount: A:0.17, C:0.05, G:0.24, T:0.54
Consensus pattern (30 bp):
AGTTTTTTGTGAATTTTTCGACGTCGGTTG
Found at i:23445498 original size:22 final size:22
Alignment explanation
Indices: 23445470--23445515 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
23445460 TTCATTTATA
*
23445470 AACCAGGATTGCAGTTAGCATG
1 AACCAGGATTGCAATTAGCATG
23445492 AACCAGGATTGCAATTAGCATG
1 AACCAGGATTGCAATTAGCATG
23445514 AA
1 AA
23445516 TAATAGTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (22 bp):
AACCAGGATTGCAATTAGCATG
Found at i:23446925 original size:17 final size:17
Alignment explanation
Indices: 23446900--23446939 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
23446890 GCTATTAAAA
23446900 TATTAAAAATTAGTTAT
1 TATTAAAAATTAGTTAT
* *
23446917 TATTTAAAATTATTTAT
1 TATTAAAAATTAGTTAT
23446934 TATTAA
1 TATTAA
23446940 CATTCTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTAAAAATTAGTTAT
Found at i:23447086 original size:20 final size:20
Alignment explanation
Indices: 23447061--23447099 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23447051 TTAAAAATAT
23447061 TTAAAATAATATTATTATTC
1 TTAAAATAATATTATTATTC
* *
23447081 TTAAAATATTATTTTTATT
1 TTAAAATAATATTATTATT
23447100 AATATCATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAAAATAATATTATTATTC
Found at i:23447101 original size:17 final size:17
Alignment explanation
Indices: 23447068--23447144 Score: 52
Period size: 17 Copynumber: 4.4 Consensus size: 17
23447058 TATTTAAAAT
*
23447068 AATATTATTATTCTTAA
1 AATATTATTATTATTAA
*
23447085 AATATTATTTTTATT--
1 AATATTATTATTATTAA
* *
23447100 AATATCA-TAGTATTAAA
1 AATATTATTATTATT-AA
23447117 AATATTAATTTTTATTATTAA
1 AATATT-A---TTATTATTAA
23447138 AATATTA
1 AATATTA
23447145 AAAATATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
14 5 0.11
15 6 0.13
17 18 0.40
18 1 0.02
20 1 0.02
21 8 0.18
22 6 0.13
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (17 bp):
AATATTATTATTATTAA
Found at i:23447146 original size:30 final size:32
Alignment explanation
Indices: 23447083--23447152 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 32
23447073 TATTATTCTT
* *
23447083 AAAATATTATTTTTATTAATATCATAGTATTA
1 AAAATATTATTTTTATTAATATCAAAATATTA
23447115 AAAATATTAATTTTTATT-AT-T-AAAATATTA
1 AAAATATT-ATTTTTATTAATATCAAAATATTA
23447145 AAAATATT
1 AAAATATT
23447153 TATACTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 15 0.43
31 1 0.03
32 10 0.29
33 9 0.26
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (32 bp):
AAAATATTATTTTTATTAATATCAAAATATTA
Found at i:23447161 original size:26 final size:25
Alignment explanation
Indices: 23447127--23447206 Score: 83
Period size: 26 Copynumber: 3.1 Consensus size: 25
23447117 AATATTAATT
*
23447127 TTTAT-TATTAAAATATTAAAAATA
1 TTTATCTATTAAAATATAAAAAATA
23447151 TTTATACTATTAAAATAGTAAATAAATAAA
1 TTTAT-CTATTAAAATA-TAAA-AAAT--A
*
23447181 TTTATC-AATAAAATATAAAAAATA
1 TTTATCTATTAAAATATAAAAAATA
23447205 TT
1 TT
23447207 ATAAAATTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
24 8 0.17
26 14 0.29
27 7 0.15
28 12 0.25
29 1 0.02
30 6 0.12
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (25 bp):
TTTATCTATTAAAATATAAAAAATA
Found at i:23447238 original size:27 final size:26
Alignment explanation
Indices: 23447190--23447240 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
23447180 ATTTATCAAT
23447190 AAAATATAAAAAATATTATAAAATTA
1 AAAATATAAAAAATATTATAAAATTA
*
23447216 AAAATAGTAAGAAATGATT-TAAAAT
1 AAAATA-TAAAAAAT-ATTATAAAAT
23447241 ATTTATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 13 0.59
28 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (26 bp):
AAAATATAAAAAATATTATAAAATTA
Found at i:23447338 original size:7 final size:7
Alignment explanation
Indices: 23447314--23447402 Score: 58
Period size: 7 Copynumber: 12.1 Consensus size: 7
23447304 TTATTTACTC
23447314 TATT-AA
1 TATTAAA
*
23447320 TATTTAA
1 TATTAAA
23447327 TATTAAA
1 TATTAAA
23447334 TATTAAA
1 TATTAAA
23447341 -ATTATAA
1 TATTA-AA
23447348 T-TTAATA
1 TATTAA-A
* *
23447355 TTATTTAT
1 -TATTAAA
*
23447363 TATTGAA
1 TATTAAA
23447370 TATTAAAA
1 TATT-AAA
23447378 TATTAAAA
1 TATT-AAA
23447386 TACTTATAA
1 TA-TTA-AA
23447395 TATTAAA
1 TATTAAA
23447402 T
1 T
23447403 GAAAATATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 17
0.75 0.07 0.19
Matches are distributed among these distances:
6 9 0.13
7 33 0.49
8 17 0.25
9 9 0.13
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (7 bp):
TATTAAA
Found at i:23447355 original size:51 final size:49
Alignment explanation
Indices: 23447274--23447384 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 49
23447264 ATTATATTAG
*
23447274 ATAATATTAATTATTAAAAATAATAAAATATTATTTACTCTATT-AATATT
1 ATAATATTAAATATTAAAAATAATAAAATATTATTTA-T-TATTGAATATT
**
23447324 -TAATATTAAATATTAAAATTATAATTTAATATTATTTATTATTGAATATT
1 ATAATATTAAATATTAAAA--ATAATAAAATATTATTTATTATTGAATATT
*
23447374 AAAATATTAAA
1 ATAATATTAAA
23447385 ATACTTATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
49 21 0.40
50 7 0.13
51 25 0.47
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (49 bp):
ATAATATTAAATATTAAAAATAATAAAATATTATTTATTATTGAATATT
Found at i:23447358 original size:13 final size:13
Alignment explanation
Indices: 23447321--23447358 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
23447311 CTCTATTAAT
23447321 ATTTAATATTA-A
1 ATTTAATATTATA
*
23447333 ATATTAAAATTATA
1 AT-TTAATATTATA
23447347 ATTTAATATTAT
1 ATTTAATATTAT
23447359 TTATTATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 2 0.09
13 17 0.77
14 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTAATATTATA
Found at i:23447363 original size:26 final size:26
Alignment explanation
Indices: 23447275--23447364 Score: 71
Period size: 26 Copynumber: 3.6 Consensus size: 26
23447265 TTATATTAGA
*
23447275 TAATATTAATTATTAAAA--ATAATA
1 TAATATTAATTATTAAAATTATAATT
* * * **
23447299 AAATATTATTTACT-CTATTA-ATATT
1 TAATATTAATTATTAAAATTATA-ATT
*
23447324 TAATATTAAATATTAAAATTATAATT
1 TAATATTAATTATTAAAATTATAATT
*
23447350 TAATATTATTTATTA
1 TAATATTAATTATTA
23447365 TTGAATATTA
Statistics
Matches: 47, Mismatches: 14, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
23 1 0.02
24 12 0.26
25 13 0.28
26 20 0.43
27 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATATTAATTATTAAAATTATAATT
Found at i:23447381 original size:8 final size:8
Alignment explanation
Indices: 23447368--23447401 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
23447358 TTTATTATTG
23447368 AATATTAA
1 AATATTAA
23447376 AATATTAA
1 AATATTAA
*
23447384 AATACTTAT
1 AATA-TTAA
23447393 AATATTAA
1 AATATTAA
23447401 A
1 A
23447402 TGAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
AATATTAA
Found at i:23450805 original size:27 final size:26
Alignment explanation
Indices: 23450767--23450824 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
23450757 ACAAAATAAG
*
23450767 ATAACATTATTTAAT-CTAATCCTATT
1 ATAATATTATTTAATCCT-ATCCTATT
*
23450793 CATAATATTATTTTATCCTATCCTATT
1 -ATAATATTATTTAATCCTATCCTATT
23450820 ATAAT
1 ATAAT
23450825 CTTGTATGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 5 0.18
27 21 0.75
28 2 0.07
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAATATTATTTAATCCTATCCTATT
Found at i:23455994 original size:23 final size:23
Alignment explanation
Indices: 23455947--23455995 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
23455937 GTTTTCTTGA
23455947 TTTTTTTATTTATTGAAAATTAGT
1 TTTTTTTATTTATTGAAAA-TAGT
23455971 TTTTTTTAGTTATATT-AAAA-AGT
1 TTTTTTTA-TT-TATTGAAAATAGT
23455994 TT
1 TT
23455996 ATTAGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 5 0.22
24 8 0.35
25 6 0.26
26 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (23 bp):
TTTTTTTATTTATTGAAAATAGT
Found at i:23456695 original size:17 final size:17
Alignment explanation
Indices: 23456654--23456696 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
23456644 TTTTCTTACC
* *
23456654 ATTTTTATTAATTTTGT
1 ATTTTTATTAAGTTTAT
*
23456671 ATTATTATTAAGTTTAT
1 ATTTTTATTAAGTTTAT
*
23456688 TTTTTTATT
1 ATTTTTATT
23456697 TTTAAAGTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (17 bp):
ATTTTTATTAAGTTTAT
Found at i:23456701 original size:20 final size:21
Alignment explanation
Indices: 23456672--23456711 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23456662 TAATTTTGTA
23456672 TTATTATT-AAGTTTATTTTT
1 TTATTATTAAAGTTTATTTTT
*
23456692 TTATTTTTAAAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
23456712 AAAGATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
TTATTATTAAAGTTTATTTTT
Found at i:23457931 original size:27 final size:27
Alignment explanation
Indices: 23457899--23457950 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
23457889 TTGGGCTTAG
* *
23457899 TTAAATTGAAATTGGGTCTCAGCCCGA
1 TTAAATTGAAATTAGGCCTCAGCCCGA
*
23457926 TTAAATTGAACTTAGGCCTCAGCCC
1 TTAAATTGAAATTAGGCCTCAGCCC
23457951 AAAAACCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (27 bp):
TTAAATTGAAATTAGGCCTCAGCCCGA
Found at i:23458255 original size:49 final size:49
Alignment explanation
Indices: 23458146--23458270 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 49
23458136 TACTCGAGGC
* * *
23458146 TTAACAACTTTAAAAATTCTATCTTG--AAAAGCTCCTATCAGCAGAAGC
1 TTAACAACTTT-AAAATTTTATCTTGAAAAAAGCTCATATCAGCAGAAGA
* * * *
23458194 TTAACAATTTTAAAATTTTATCTTGAAAAAAGCTTATTTCAGTAG-AGA
1 TTAACAACTTTAAAATTTTATCTTGAAAAAAGCTCATATCAGCAGAAGA
23458242 TTCAACAACTTTAAAATTTTATCTT-AAAA
1 TT-AACAACTTTAAAATTTTATCTTGAAAA
23458271 GAGGCTCAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
47 13 0.20
48 18 0.27
49 35 0.53
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (49 bp):
TTAACAACTTTAAAATTTTATCTTGAAAAAAGCTCATATCAGCAGAAGA
Found at i:23458285 original size:33 final size:34
Alignment explanation
Indices: 23458243--23458311 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
23458233 CAGTAGAGAT
*
23458243 TCAACAACTTT-AAAATTTTATCTTAAAAGAGGC
1 TCAACAACTTTAAAAATTTTATCTTAAAAAAGGC
23458276 TCAACAACTTTAAAAATTTTATCTTAAAAAAGGC
1 TCAACAACTTTAAAAATTTTATCTTAAAAAAGGC
23458310 TC
1 TC
23458312 TTCTTAGCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 11 0.32
34 23 0.68
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.33
Consensus pattern (34 bp):
TCAACAACTTTAAAAATTTTATCTTAAAAAAGGC
Found at i:23458300 original size:83 final size:83
Alignment explanation
Indices: 23458196--23458354 Score: 211
Period size: 83 Copynumber: 1.9 Consensus size: 83
23458186 GCAGAAGCTT
* *
23458196 AACAATTTTAAAATTTTATCTTGAAAAAA-GCT-TAT-TTCAG-TAGAGATTCAACAACTTT-AA
1 AACAATTTAAAAATTTTATCTT-AAAAAAGGCTCT-TCTT-AGCT-GAGACTCAACAACTTTAAA
23458256 AATTTTATCTTAAAAGAGGCTC
62 AATTTTATCTTAAAAGAGGCTC
*
23458278 AACAACTTTAAAAATTTTATCTTAAAAAAGGCTCTTCTTAGCTGAGGCTCAACAACTTTAAAAAT
1 AACAA-TTTAAAAATTTTATCTTAAAAAAGGCTCTTCTTAGCTGAGACTCAACAACTTTAAAAAT
23458343 TTTATCTTAAAA
65 TTTATCTTAAAA
23458355 AGCTTATATC
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
82 11 0.16
83 36 0.53
84 21 0.31
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.36
Consensus pattern (83 bp):
AACAATTTAAAAATTTTATCTTAAAAAAGGCTCTTCTTAGCTGAGACTCAACAACTTTAAAAATT
TTATCTTAAAAGAGGCTC
Found at i:23458444 original size:145 final size:142
Alignment explanation
Indices: 23458270--23458825 Score: 645
Period size: 145 Copynumber: 3.8 Consensus size: 142
23458260 TTATCTTAAA
* * *
23458270 AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAAGGCTCTTCTTAGCTGAGGCTCAACAACT
1 AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAA-GCTCCTCTCAGCAGAGGCTCAACAACT
* * *
23458335 TTAAAAATTTTATCTTAAAAAGCTTATATCAGCAAAGGCTCAACAACTTGAAAATCTTATCTTAA
65 TTAAAAATCTTATCTTAAAAAGCTT-TATCAGCAGAGGCTCAACAACTTAAAAATCTTATCTTAA
*
23458400 AAAGCTCATATCAGC
129 AAAGCTC-TATCAGT
* * * *
23458415 AGAGGCTCAACAACTTTAAAAATTTTATCTT-AAAAAGCTCATATCAACAGATGCTCAACAA-TT
1 AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTT
* * *
23458478 TTAAAATCTTATCTTAAAAAGCTCCTATCAGCAGAGGCTCAACAACTTTTAAAAATTTTATCTTA
66 TAAAAATCTTATCTTAAAAAGCT-TTATCAGCAGAGGCTCAACAAC--TTAAAAATCTTATCTTA
* *
23458543 AAAAGTTCCTCTCAGT
128 AAAAGCT-CTATCAGT
* * * *
23458559 AGAGGCTCAACAATTTTTAAAAATTTTAT-TTTAAAAAGCTCCTCTTAGTAGAGGCTCAACAACT
1 AGAGGCTCAACAA-CTTTAAAAATTTTATCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
* * * *
23458623 TT-AAAATCTTATTTTAAAAAGCTCTTCTCAGCAGAGGCACAACAACTTTAAAATCTTATCTTGA
65 TTAAAAATCTTATCTTAAAAAGCT-TTATCAGCAGAGGCTCAACAACTTAAAAATCTTATCTT--
*
23458687 AAAAAGCTTCTTTCAGT
127 AAAAAGC-TCTATCAGT
* * *
23458704 AAAGGCTCAATAACTTTAAAAATTTTATCTTAAAAAAAGCTCCTCTCAGCAGAGGTTCAACAACT
1 AGAGGCTCAACAACTTTAAAAATTTTATCTT-AAAAAAGCTCCTCTCAGCAGAGGCTCAACAACT
* * * *
23458769 TTAAAAATTTTATCTTAAAAAGC-TCATCTAATCAGAGGCTCAATAACTTTAAAAATC
65 TTAAAAATCTTATCTTAAAAAGCTTTATC--AGCAGAGGCTCAACAAC-TTAAAAATC
23458826 CAATATGTTC
Statistics
Matches: 350, Mismatches: 45, Indels: 29
0.83 0.11 0.07
Matches are distributed among these distances:
142 43 0.12
143 33 0.09
144 60 0.17
145 139 0.40
146 35 0.10
147 32 0.09
148 8 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (142 bp):
AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTT
TAAAAATCTTATCTTAAAAAGCTTTATCAGCAGAGGCTCAACAACTTAAAAATCTTATCTTAAAA
AGCTCTATCAGT
Found at i:23458563 original size:49 final size:48
Alignment explanation
Indices: 23458270--23458824 Score: 659
Period size: 47 Copynumber: 11.5 Consensus size: 48
23458260 TTATCTTAAA
* *
23458270 AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAAGGCTCTTCTTAGC
1 AGAGGCTCAACAACTTTAAAAATTTTATCTT-AAAAA-GCTCCTCTCAGC
* ** *
23458320 TGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAGCTTATATCAGC
1 AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAGCTCCTCTCAGC
* * * * *
23458368 AAAGGCTCAACAAC-TTGAAAATCTTATCTTAAAAAGCTCATATCAGC
1 AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAGCTCCTCTCAGC
* * *
23458415 AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAGCTCATATCAAC
1 AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAGCTCCTCTCAGC
* * * *
23458463 AGATGCTCAACAA-TTTTAAAATCTTATCTTAAAAAGCTCCTATCAGC
1 AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAGCTCCTCTCAGC
* *
23458510 AGAGGCTCAACAACTTTTAAAAATTTTATCTTAAAAAGTTCCTCTCAGT
1 AGAGGCTCAACAAC-TTTAAAAATTTTATCTTAAAAAGCTCCTCTCAGC
* * * *
23458559 AGAGGCTCAACAATTTTTAAAAATTTTATTTTAAAAAGCTCCTCTTAGT
1 AGAGGCTCAACAA-CTTTAAAAATTTTATCTTAAAAAGCTCCTCTCAGC
* * *
23458608 AGAGGCTCAACAACTTT-AAAATCTTATTTTAAAAAGCTCTTCTCAGC
1 AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAGCTCCTCTCAGC
* * * * *
23458655 AGAGGCACAACAACTTT-AAAATCTTATCTTGAAAAAAGCTTCTTTCAGT
1 AGAGGCTCAACAACTTTAAAAATTTTATCTT--AAAAAGCTCCTCTCAGC
* *
23458704 AAAGGCTCAATAACTTTAAAAATTTTATCTTAAAAAAAGCTCCTCTCAGC
1 AGAGGCTCAACAACTTTAAAAATTTTATCTT--AAAAAGCTCCTCTCAGC
* * * *
23458754 AGAGGTTCAACAACTTTAAAAATTTTATCTTAAAAAGCTCATCTAATC
1 AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAGCTCCTCTCAGC
*
23458802 AGAGGCTCAATAACTTTAAAAAT
1 AGAGGCTCAACAACTTTAAAAAT
23458825 CCAATATGTT
Statistics
Matches: 442, Mismatches: 56, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
47 139 0.31
48 100 0.23
49 118 0.27
50 85 0.19
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (48 bp):
AGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAGCTCCTCTCAGC
Found at i:23459662 original size:8 final size:8
Alignment explanation
Indices: 23459649--23459690 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
23459639 AGATAAGTCA
23459649 TCATTTTT
1 TCATTTTT
23459657 TCATTTTTT
1 TCA-TTTTT
* *
23459666 TGACTTTT
1 TCATTTTT
23459674 TCA-TTTT
1 TCATTTTT
23459681 TCATTTTT
1 TCATTTTT
23459689 TC
1 TC
23459691 TCAAAATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 7 0.24
8 15 0.52
9 7 0.24
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (8 bp):
TCATTTTT
Found at i:23460884 original size:20 final size:21
Alignment explanation
Indices: 23460859--23460898 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
23460849 ATTCATAGCC
23460859 AACCTTCTGATA-ATTTTTTT
1 AACCTTCTGATACATTTTTTT
*
23460879 AACCTTTTGATACATTTTTT
1 AACCTTCTGATACATTTTTT
23460899 ATCATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.25, C:0.15, G:0.05, T:0.55
Consensus pattern (21 bp):
AACCTTCTGATACATTTTTTT
Found at i:23470449 original size:23 final size:23
Alignment explanation
Indices: 23470402--23470450 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
23470392 ATTTTCTTGA
23470402 TTTTTTTATTTATTGAAAATTAGT
1 TTTTTTTATTTATTGAAAA-TAGT
23470426 TTTTTTTAGTTATATT-AAAA-AGT
1 TTTTTTTA-TT-TATTGAAAATAGT
23470449 TT
1 TT
23470451 ATTATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 5 0.22
24 8 0.35
25 6 0.26
26 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (23 bp):
TTTTTTTATTTATTGAAAATAGT
Found at i:23471144 original size:20 final size:21
Alignment explanation
Indices: 23471115--23471154 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23471105 TAATTTTGCA
23471115 TTATTATT-AAGTTTATTTTT
1 TTATTATTAAAGTTTATTTTT
*
23471135 TTATTTTTAAAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
23471155 AAAGATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
TTATTATTAAAGTTTATTTTT
Found at i:23472245 original size:14 final size:14
Alignment explanation
Indices: 23472226--23472286 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
23472216 CCGACCCCTT
23472226 TTTTTTTCTTTTTG
1 TTTTTTTCTTTTTG
*
23472240 TTTTTTAGC-TTTTG
1 TTTTTT-TCTTTTTG
23472254 -TTTTTTCGTTTTTG
1 TTTTTTTC-TTTTTG
* *
23472268 TATTTTTCTGTTTG
1 TTTTTTTCTTTTTG
23472282 TTTTT
1 TTTTT
23472287 ATTTTCATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 1 0.03
13 5 0.13
14 25 0.66
15 7 0.18
ACGTcount: A:0.03, C:0.07, G:0.11, T:0.79
Consensus pattern (14 bp):
TTTTTTTCTTTTTG
Found at i:23472266 original size:28 final size:27
Alignment explanation
Indices: 23472227--23472286 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
23472217 CGACCCCTTT
23472227 TTTTTTCTTTTTGT-TTTTTAGCT-TTTG
1 TTTTTTCTTTTTGTATTTTT--CTGTTTG
23472254 TTTTTTCGTTTTTGTATTTTTCTGTTTG
1 TTTTTTC-TTTTTGTATTTTTCTGTTTG
23472282 TTTTT
1 TTTTT
23472287 ATTTTCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 9 0.30
28 16 0.53
29 5 0.17
ACGTcount: A:0.03, C:0.07, G:0.12, T:0.78
Consensus pattern (27 bp):
TTTTTTCTTTTTGTATTTTTCTGTTTG
Found at i:23473556 original size:10 final size:10
Alignment explanation
Indices: 23473543--23473572 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
23473533 TAAAATAAAA
23473543 TAATATTATT
1 TAATATTATT
23473553 TAATATTA-T
1 TAATATTATT
23473562 TAATATTATT
1 TAATATTATT
23473572 T
1 T
23473573 TATTTTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TAATATTATT
Found at i:23474104 original size:15 final size:15
Alignment explanation
Indices: 23474081--23474110 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23474071 TTCTCCCTCG
23474081 ATATCTTTTTTTTTA
1 ATATCTTTTTTTTTA
*
23474096 ATATTTTTTTTTTTA
1 ATATCTTTTTTTTTA
23474111 TGAAAAAAAT
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:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
ATATCTTTTTTTTTA
Found at i:23479772 original size:13 final size:13
Alignment explanation
Indices: 23479754--23479781 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23479744 ATTTTAAGAT
23479754 TACATCAGAACTA
1 TACATCAGAACTA
23479767 TACATCAGAACTA
1 TACATCAGAACTA
23479780 TA
1 TA
23479782 ACAACATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (13 bp):
TACATCAGAACTA
Found at i:23486441 original size:14 final size:14
Alignment explanation
Indices: 23486408--23486440 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
23486398 TATCTATATT
23486408 TAAAATTTTATAAA
1 TAAAATTTTATAAA
23486422 TAAAATTTTATTAAA
1 TAAAATTTTA-TAAA
23486437 TAAA
1 TAAA
23486441 TATATATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAAATTTTATAAA
Found at i:23487308 original size:22 final size:23
Alignment explanation
Indices: 23487262--23487309 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
23487252 TGAATAAACA
* *
23487262 TATTTGAATAGAAAAAATATGAT
1 TATTTAAATACAAAAAATATGAT
*
23487285 TATTTAAATACAAAAAA-ATTAT
1 TATTTAAATACAAAAAATATGAT
23487307 TAT
1 TAT
23487310 ACAAAATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (23 bp):
TATTTAAATACAAAAAATATGAT
Found at i:23489553 original size:24 final size:24
Alignment explanation
Indices: 23489524--23489586 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
23489514 TGATTATTTA
***
23489524 TTAAAATATATTTTTAATAAAATT
1 TTAAAATATATTAAAAATAAAATT
* *
23489548 TTAAAATTTATTAAAAATATAATT
1 TTAAAATATATTAAAAATAAAATT
*
23489572 TTAAAATCTA-TAAAA
1 TTAAAATATATTAAAA
23489587 TAATTTGAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 5 0.15
24 28 0.85
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TTAAAATATATTAAAAATAAAATT
Found at i:23490537 original size:3 final size:3
Alignment explanation
Indices: 23490529--23490573 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
23490519 TAGAAACCAT
23490529 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23490574 GAATCATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Done.