Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 102 of 279
Found at i:32610303 original size:30 final size:28
Alignment explanation
Indices: 32610266--32610335 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 28
32610256 TTTTATATTT
*
32610266 CTATATTTTATTATGTATATACTTTTAATA
1 CTATATTTTATTATG--TATACTCTTAATA
*
32610296 TTATATTTT-TATATGTATACTCTTAATA
1 CTATATTTTAT-TATGTATACTCTTAATA
*
32610324 CCATATTTTATT
1 CTATATTTTATT
32610336 TATTATTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 20 0.59
29 2 0.06
30 12 0.35
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (28 bp):
CTATATTTTATTATGTATACTCTTAATA
Found at i:32610309 original size:13 final size:14
Alignment explanation
Indices: 32610244--32610314 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 14
32610234 ATATATGTTA
*
32610244 TTTACATGTAT-TT
1 TTTATATGTATATT
* *
32610257 TTTATATTTCTATAT
1 TTTATATGTATAT-T
32610272 TTTATTATGTATATACT
1 TTTA-TATGTATAT--T
32610289 TTTAATAT-TATATT
1 TTT-ATATGTATATT
32610303 TTTATATGTATA
1 TTTATATGTATA
32610315 CTCTTAATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
13 12 0.26
14 9 0.20
15 5 0.11
16 12 0.26
17 7 0.15
18 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (14 bp):
TTTATATGTATATT
Found at i:32610968 original size:17 final size:17
Alignment explanation
Indices: 32610937--32610982 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
32610927 TATGTATGCC
*
32610937 ATGTATATATATATGTAT
1 ATGTATAT-TTTATGTAT
32610955 ATGTATATTTTATGTAT
1 ATGTATATTTTATGTAT
32610972 ATTGT-TATTTT
1 A-TGTATATTTT
32610983 CTATCGTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (17 bp):
ATGTATATTTTATGTAT
Found at i:32623267 original size:59 final size:60
Alignment explanation
Indices: 32623193--32623313 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 60
32623183 ATTTTCAATT
* *
32623193 TCTGCCTTTC-AAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGC
* **
32623252 TCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTTGGGACACGC
1 TCTGCCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGC
32623313 T
1 T
32623314 GAGATAGTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 9 0.16
61 46 0.84
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (60 bp):
TCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGC
Found at i:32623381 original size:132 final size:135
Alignment explanation
Indices: 32623126--32623532 Score: 385
Period size: 145 Copynumber: 2.9 Consensus size: 135
32623116 TCTACTGTTC
* * * * *
32623126 AAAAAAATTAGCTCATATTGCGAGAGGTAAGTTGAGCCTTGACTGACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTGA-GGACACGCTGAGATATTTTCAA
* * * *
32623191 TTTCTGCCTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTCTG
65 TTTCTG-CTTTC-AAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGCTCTG
32623256 TCTTTCAA
128 TCTTTCAA
*
32623264 AAAAAAATCAACTCATATTGCGAGAGGTGAA-TTGAGCCTTG-GGACACGCTGAGATAGTTTT-T
1 AAAAAAATCAACTCATATTGCGAGAGGT-AAGTTGAGCCTTGAGGACACGCTGAGATA-TTTTCA
* **
32623326 ATTTCTG-TTTC-AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGG
64 ATTTCTGCTTTCAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGCT-CTG
*
32623389 TATTTTCAA
128 T-CTTTCAA
* * * *
32623398 TTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCC-TCAAGACACGTTGAG
1 -----------AAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTGAGGACACGCTGAG
* * * * * *
32623462 GTATTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGA
55 ATATTTTCAATTTCTG-CTTTCAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGA
32623527 CACGCT
119 CACGCT
32623533 GAGGTAATTT
Statistics
Matches: 222, Mismatches: 26, Indels: 32
0.79 0.09 0.11
Matches are distributed among these distances:
132 43 0.19
133 2 0.01
134 10 0.05
136 19 0.09
137 4 0.02
138 36 0.16
139 2 0.01
144 7 0.03
145 53 0.24
147 4 0.02
148 42 0.19
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (135 bp):
AAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTGAGGACACGCTGAGATATTTTCAAT
TTCTGCTTTCAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGCTCTGTCT
TTCAA
Found at i:32623444 original size:74 final size:74
Alignment explanation
Indices: 32623265--32623709 Score: 505
Period size: 74 Copynumber: 6.0 Consensus size: 74
32623255 GTCTTTCAAA
* *** * * *
32623265 AAAAAATCAACTCATATTGCGAGAGGTGAA-TTGAGCCTTGGGACACGCTGAGATAGTTTT-TAT
1 AAAAAATCAACTCATATTGCAAGAGGT-AAGTTGAGCCTCAAGACACGTTGAGGTA-TTTTCAAT
32623328 TTCTG--TTTC
64 TTCTGTCTTTC
* * * *
32623337 -AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
32623401 CTGTCTTTC
66 CTGTCTTTC
*
32623410 AAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
32623475 CTGTCTTTC
66 CTGTCTTTC
* * * *
32623484 AAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGGTAATTTAAATTT
1 AAAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
32623549 CTGTCTTTC
66 CTGTCTTTC
* *
32623558 AAAATAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAGGACACGTTGAGGTAATTTT-GAT
1 AAAA-AATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAAT
* *
32623622 CTCCGT-TTT-
64 TTCTGTCTTTC
** * * * *
32623631 TTAAAATCAACTCATATTGCAAGAGGTGAGTGGAGCCTC-GGATCACATGTCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAAGA-CAC--GTTGAGGTATTTTCAA
*
32623695 ATTCTG-CTTTTC
63 TTTCTGTC-TTTC
32623707 AAA
1 AAA
32623710 TTAAGTTTCA
Statistics
Matches: 322, Mismatches: 37, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
70 5 0.02
71 52 0.16
72 36 0.11
73 11 0.03
74 157 0.49
75 56 0.17
76 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
CTGTCTTTC
Found at i:32623686 original size:149 final size:145
Alignment explanation
Indices: 32623265--32623709 Score: 499
Period size: 149 Copynumber: 3.0 Consensus size: 145
32623255 GTCTTTCAAA
** * * * *
32623265 AAAAAATCAACTCATATTGCGAGAGGTGAA-TTGAGCCTTGGGACACGCTGAGATAGTTTTTATT
1 AAAAAATCAACTCATATTGCGAGAGGT-AAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATT
* * * * * *
32623329 TC-TGTTTCAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATT
65 CCGT-TTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGTATT
*
32623393 TTCAATTTCTGTCTTTC
129 TTAAATTTCTGTCTTTC
*
32623410 AAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGTTGAGGTAATTTT-AA-T
* * * *
32623474 TCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACG-CTGAGGT
64 TCCGT-TTT-TAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTC-GAGGT
*
32623538 AATTTAAATTTCTGTCTTTC
126 ATTTTAAATTTCTGTCTTTC
* *
32623558 AAAATAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAGGACACGTTGAGGTAATTTTGATC
1 AAAA-AATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAAT-
* * *
32623623 TCCGTTTTTTAAAATCAACTCATATTGCAAGAGGTGAGTGGAGCCTC-GGATCACATGTCGAGGT
64 TCCGTTTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGA-CAC--GTCGAGGT
32623687 ATTTTCAAA-TTCTG-CTTTTC
126 ATTTT-AAATTTCTGTC-TTTC
32623707 AAA
1 AAA
32623710 TTAAGTTTCA
Statistics
Matches: 255, Mismatches: 30, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
144 6 0.02
145 47 0.18
146 4 0.02
147 41 0.16
148 73 0.29
149 75 0.29
150 9 0.04
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (145 bp):
AAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGTTGAGGTAATTTTAATTC
CGTTTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTCGAGGTATTTT
AAATTTCTGTCTTTC
Found at i:32623692 original size:223 final size:219
Alignment explanation
Indices: 32623265--32623709 Score: 560
Period size: 223 Copynumber: 2.0 Consensus size: 219
32623255 GTCTTTCAAA
*** * **
32623265 AAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTTGGGACACGCTGAGATAGTTTTTATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGCTGAGATAATTTAAATTT
*
32623330 CTGTTTCAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
66 CTGTTTCAAAATTCAACTCATACTGCAAGAAGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTT
* * * * *
32623395 CAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGTTG
131 CAATCTCCGTCTTTCAAAAAATCAACTCATATTGCAAGAGGTAAGTGGAGCCTCAAGACACGTCG
*
32623460 AGGTATTTTCAATTTCTG-TCTTTC
196 AGGTATTTTCAAATTCTGCT-TTTC
*
32623484 AAAAAATCAACTCATATTGCGAGAGGT-AAGTTGAGCCTCAAGACACGCTGAGGTAATTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAA-TTGAGCCTCAAGACACGCTGAGATAATTTAAATT
* * *
32623548 TCTGTCTTTCAAAATAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAGGACACGTTGAGGT
65 TCTG--TTTCAAAAT--TCAACTCATACTGCAAGAAGTAAGTTGAGCCTCAAGACACGTTGAGGT
* ** * *
32623613 AATTTT-GATCTCCGT-TTT-TTAAAATCAACTCATATTGCAAGAGGTGAGTGGAGCCTC-GGAT
126 -ATTTTCAATCTCCGTCTTTCAAAAAATCAACTCATATTGCAAGAGGTAAGTGGAGCCTCAAGA-
32623674 CACATGTCGAGGTATTTTCAAATTCTGCTTTTC
189 CAC--GTCGAGGTATTTTCAAATTCTGCTTTTC
32623707 AAA
1 AAA
32623710 TTAAGTTTCA
Statistics
Matches: 194, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
218 2 0.01
219 58 0.30
220 2 0.01
221 46 0.24
222 3 0.02
223 77 0.40
224 6 0.03
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (219 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGCTGAGATAATTTAAATTT
CTGTTTCAAAATTCAACTCATACTGCAAGAAGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTT
CAATCTCCGTCTTTCAAAAAATCAACTCATATTGCAAGAGGTAAGTGGAGCCTCAAGACACGTCG
AGGTATTTTCAAATTCTGCTTTTC
Found at i:32623787 original size:87 final size:88
Alignment explanation
Indices: 32623633--32623860 Score: 230
Period size: 87 Copynumber: 2.6 Consensus size: 88
32623623 TCCGTTTTTT
* * * * * *
32623633 AAAATCAACTCATATTGCAAGAGGTGAGTGGAGCCTCGGATCACATG-TCGAGGTATTTTCAAAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTCGAGCCTTGGATCACACGCT-GAGCTATTTTCAAAT
32623697 TCTGCTTTTCAA-AT-TAAGTTTCA
65 TCTG-TTTTCAATATCTAAGTTTCA
* * * * *
32623720 AAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTTAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTCGAGCCTTGGATCACACGCTGAGCTATTTTCAAATT
* * ** *
32623785 CTGTTTTTAATGTCTATTTTTTA
66 CTGTTTTCAATATCTAAGTTTCA
* *
32623808 AAGAGTCAATTCATATTGCGAGAAGTGAGTCGAG-CTTAGGATCACACGCTGAG
1 AA-AATCAACTCATATTGCGAGAAGTGAGTCGAGCCTT-GGATCACACGCTGAG
32623861 TAAAGAATCA
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
86 6 0.05
87 57 0.49
88 12 0.10
89 41 0.35
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (88 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTCGAGCCTTGGATCACACGCTGAGCTATTTTCAAATT
CTGTTTTCAATATCTAAGTTTCA
Found at i:32623793 original size:13 final size:13
Alignment explanation
Indices: 32623772--32623805 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
32623762 ACACGCTGAG
*
32623772 CTATTTTTAATTT
1 CTATTTTTAATGT
*
32623785 CTGTTTTTAATGT
1 CTATTTTTAATGT
32623798 CTATTTTT
1 CTATTTTT
32623806 TAAAGAGTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (13 bp):
CTATTTTTAATGT
Found at i:32625702 original size:3 final size:3
Alignment explanation
Indices: 32625648--32625683 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
32625638 TTACTTTATG
32625648 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
32625684 CTAGTATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32625891 original size:14 final size:15
Alignment explanation
Indices: 32625874--32625914 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
32625864 TTATTACGTA
32625874 TATACTTTTAATAT-
1 TATACTTTTAATATG
*
32625888 TATA-TTTTTATATG
1 TATACTTTTAATATG
*
32625902 TATACTCTTAATA
1 TATACTTTTAATA
32625915 CCATATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
13 8 0.36
14 8 0.36
15 6 0.27
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (15 bp):
TATACTTTTAATATG
Found at i:32626555 original size:17 final size:17
Alignment explanation
Indices: 32626524--32626569 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
32626514 TATGTATGCC
*
32626524 ATGTATATATATATGTAT
1 ATGTATAT-TTTATGTAT
32626542 ATGTATATTTTATGTAT
1 ATGTATATTTTATGTAT
32626559 ATTGT-TATTTT
1 A-TGTATATTTT
32626570 CTATCGTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (17 bp):
ATGTATATTTTATGTAT
Found at i:32628418 original size:22 final size:22
Alignment explanation
Indices: 32628393--32628439 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
32628383 TATGTTTGGA
32628393 AAAGTGTATTCATTTGTAAGTG
1 AAAGTGTATTCATTTGTAAGTG
32628415 AAAGTGTATTCATTTGTAAGTG
1 AAAGTGTATTCATTTGTAAGTG
32628437 AAA
1 AAA
32628440 TTATATGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.38
Consensus pattern (22 bp):
AAAGTGTATTCATTTGTAAGTG
Found at i:32628694 original size:43 final size:43
Alignment explanation
Indices: 32628598--32628701 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
32628588 CTATTTCCGC
* * *
32628598 CGCCGCTAAAAGCCATGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGGCCATGACCTTTAGCGACGCTTTTCCCAAAAA
32628641 CGCCGCTAAAGGCCATGACCTTTAGCGACGCTTTTCCCAAAAA
1 CGCCGCTAAAGGCCATGACCTTTAGCGACGCTTTTCCCAAAAA
* *
32628684 CGCCACTAAAGGTCATGA
1 CGCCGCTAAAGGCCATGA
32628702 AATTCAAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (43 bp):
CGCCGCTAAAGGCCATGACCTTTAGCGACGCTTTTCCCAAAAA
Found at i:32628988 original size:18 final size:19
Alignment explanation
Indices: 32628951--32628991 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32628941 ATTTAGAGTC
32628951 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
32628970 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
32628988 AAAA
1 AAAA
32628992 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:32628993 original size:31 final size:31
Alignment explanation
Indices: 32628917--32628990 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
32628907 TCAAGTTATC
*
32628917 TTAAATATTAAAATAAAAATAAAAATTTAGAG
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAG
*
32628949 TCAAA-ACTAAAATAAATAATAAAAA-CTAGA-
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAG
32628979 TTAAATATAAAA
1 TTAAATATAAAA
32628991 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 9 0.25
31 15 0.42
32 12 0.33
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAG
Found at i:32633593 original size:22 final size:22
Alignment explanation
Indices: 32633552--32633610 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
32633542 CTGCCTCATA
*
32633552 AACAC-TAAACCCTAAACCCTT
1 AACACTTAAACCCAAAACCCTT
*
32633573 AACACTTAACCCCAAAACCCTT
1 AACACTTAAACCCAAAACCCTT
32633595 -ACACTTTAAACTCCAA
1 AACAC-TTAAAC-CCAA
32633611 CACTAACCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 9 0.28
22 19 0.59
23 4 0.12
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.20
Consensus pattern (22 bp):
AACACTTAAACCCAAAACCCTT
Found at i:32633699 original size:7 final size:7
Alignment explanation
Indices: 32633689--32633791 Score: 53
Period size: 7 Copynumber: 14.1 Consensus size: 7
32633679 AACTCATAAC
32633689 CCTTAAA
1 CCTTAAA
32633696 CCTTAAA
1 CCTTAAA
32633703 CCTTAAA
1 CCTTAAA
*
32633710 CCCTAAA
1 CCTTAAA
* * *
32633717 TCATATA
1 CCTTAAA
*
32633724 TCTTAAA
1 CCTTAAA
**
32633731 CCACAGCTAA
1 CCTTA---AA
*
32633741 CTCCTAAA
1 C-CTTAAA
32633749 CCTTAAA
1 CCTTAAA
32633756 CCTTAAA
1 CCTTAAA
* * *
32633763 TCATATA
1 CCTTAAA
*
32633770 TCTTAAA
1 CCTTAAA
*
32633777 CCATAAA
1 CCTTAAA
32633784 CCTTAAA
1 CCTTAAA
32633791 C
1 C
32633792 TATAATGATA
Statistics
Matches: 72, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
7 64 0.89
8 3 0.04
10 3 0.04
11 2 0.03
ACGTcount: A:0.43, C:0.28, G:0.01, T:0.28
Consensus pattern (7 bp):
CCTTAAA
Found at i:32633706 original size:14 final size:14
Alignment explanation
Indices: 32633692--32633796 Score: 66
Period size: 14 Copynumber: 7.2 Consensus size: 14
32633682 TCATAACCCT
*
32633692 TAAACCTTAAACCT
1 TAAACCTTAAACCA
* *
32633706 TAAACCCTAAATCA
1 TAAACCTTAAACCA
* *
32633720 TATATCTTAAACCA
1 TAAACCTTAAACCA
* * *
32633734 CAGCTAACTCCTAAACCT
1 TA---AAC-CTTAAACCA
*
32633752 TAAACCTTAAATCA
1 TAAACCTTAAACCA
* *
32633766 TATATCTTAAACCA
1 TAAACCTTAAACCA
*
32633780 TAAACCTTAAACTA
1 TAAACCTTAAACCA
32633794 TAA
1 TAA
32633797 TGATAATTAA
Statistics
Matches: 65, Mismatches: 22, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
14 53 0.82
15 3 0.05
17 1 0.02
18 8 0.12
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.29
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:32633728 original size:21 final size:21
Alignment explanation
Indices: 32633704--32633783 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
32633694 AACCTTAAAC
32633704 CTTAAACCCTAAATCATATAT
1 CTTAAACCCTAAATCATATAT
* * * *
32633725 CTTAAACCACAGCTAACTCCTAAAC
1 CTTAAA-C-C--CTAAATCATATAT
*
32633750 CTTAAACCTTAAATCATATAT
1 CTTAAACCCTAAATCATATAT
*
32633771 CTTAAACCATAAA
1 CTTAAACCCTAAA
32633784 CCTTAAACTA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
21 26 0.58
22 1 0.02
23 2 0.04
24 1 0.02
25 15 0.33
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.29
Consensus pattern (21 bp):
CTTAAACCCTAAATCATATAT
Found at i:32634071 original size:41 final size:41
Alignment explanation
Indices: 32633954--32634295 Score: 499
Period size: 41 Copynumber: 8.4 Consensus size: 41
32633944 GTTATATGAC
* * *
32633954 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
* * *
32633995 TTTTAGCGGCGTTTTATCAAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTA-CCAAAAGCGCCGCCAATGCTCTGGT
* *
32634037 TTTTAGCGGCGTTTTATCAAAAGCGCAGCCAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
* * * *
32634078 TTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
* *
32634119 TTTTAGCGGCGTTTTATCAAAATCGCCGCCAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
*
32634160 TTTTAG-TGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
32634200 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
* *
32634241 TATTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
*
32634281 TTTTAGCGGTGTTTT
1 TTTTAGCGGCGTTTT
32634296 TTACTAAAAC
Statistics
Matches: 270, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
40 52 0.19
41 181 0.67
42 37 0.14
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
Found at i:32634222 original size:122 final size:123
Alignment explanation
Indices: 32633954--32634295 Score: 519
Period size: 122 Copynumber: 2.8 Consensus size: 123
32633944 GTTATATGAC
* *
32633954 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTATCAAAAAG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTATC-AAAA-
*
32634019 T-GCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTATCAAAAGCGCAGCCAATGCTCTGGT
64 TCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCAGCCAATGCTCTGGT
* * *
32634078 TTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTTATCAAAATC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTATCAAAATC
* * *
32634143 GCCGCCAATGCTCTGGTTTTTAG-TGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
66 GCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCAGCCAATGCTCTGGT
* * * *
32634200 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGTTATTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTATCAAAATC
*
32634265 GCCGCTAATGCTCT-GTTTTTAGCGGTGTTTT
66 GCCGCTAATGCTCTGGTTTTTAGCGGCGTTTT
32634296 TTACTAAAAC
Statistics
Matches: 197, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
121 8 0.04
122 109 0.55
123 26 0.13
124 54 0.27
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.34
Consensus pattern (123 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTATCAAAATC
GCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCAGCCAATGCTCTGGT
Found at i:32634318 original size:41 final size:40
Alignment explanation
Indices: 32633954--32634367 Score: 465
Period size: 41 Copynumber: 10.1 Consensus size: 40
32633944 GTTATATGAC
* *
32633954 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
* *
32633995 TTTTAGCGGCGTTTTATCAAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTA-CCAAAAGCGCCGCTAATGCTCT-GT
* * *
32634037 TTTTAGCGGCGTTTTATCAAAAGCGCAGCCAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
* *
32634078 TTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG-T
* * *
32634119 TTTTAGCGGCGTTTTATCAAAATCGCCGCCAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
* *
32634160 TTTTAG-TGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
*
32634200 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
*
32634241 TATTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
* * * * **
32634281 TTTTAGCGGTGTTTTTTACTAAAA-CGCCTCTATTGCTCCAT
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTGT
*** *
32634322 TTTTAGCGGCGCTTTTGGTAAAA-CGCCGCTATTGCTCTGT
1 TTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTGT
32634362 GTTTTA
1 -TTTTA
32634368 CAATTTTTGC
Statistics
Matches: 327, Mismatches: 39, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
40 72 0.22
41 207 0.63
42 48 0.15
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGT
Found at i:32634325 original size:122 final size:124
Alignment explanation
Indices: 32633954--32634366 Score: 491
Period size: 122 Copynumber: 3.4 Consensus size: 124
32633944 GTTATATGAC
* * *
32633954 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTATCAAAAAG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTA-CCAAAAG
* * * *
32634019 TGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAT-CAAAAGCGCAGCCAATGCTCTGGT
65 CGCCGCTAATGCTCTGGTTTTTAGCGGTGTTTTTTACAAAAGCGCCGCCAATGCTCTGGT
* * * * *
32634078 TTTTTGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGATTTTTAGCGGCGTTTTATCAAAATC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
* **
32634143 GCCGCCAATGCTCTGGTTTTTA---GTGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGT
66 GCCGCTAATGCTCTGGTTTTTAGCGGTGTTTTTTA-CAAAAGCGCCGCCAATGCTCTGGT
* *
32634200 TTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGTTATTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
* * * **
32634265 GCCGCTAATGCTCT-GTTTTTAGCGGTGTTTTTTACTAAAA-CGCCTCTATTGCTC-CAT
66 GCCGCTAATGCTCTGGTTTTTAGCGGTGTTTTTTAC-AAAAGCGCCGCCAATGCTCTGGT
*** *
32634322 TTTTAGCGGCGCTTTTGGTAAAA-CGCCGCTATTGCTCTGTGTTTT
1 TTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTG-GTTTT
32634367 ACAATTTTTG
Statistics
Matches: 245, Mismatches: 36, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
120 5 0.02
121 7 0.03
122 120 0.49
123 49 0.20
124 64 0.26
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (124 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
GCCGCTAATGCTCTGGTTTTTAGCGGTGTTTTTTACAAAAGCGCCGCCAATGCTCTGGT
Found at i:32634360 original size:163 final size:163
Alignment explanation
Indices: 32633954--32634366 Score: 492
Period size: 163 Copynumber: 2.5 Consensus size: 163
32633944 GTTATATGAC
* * * * * ** *
32633954 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTATCAAAAAG
1 TTTTAGCGGCGTTTTATCAAAATCGCCGCCAATGCTCTCATTTTTAG-GGCGTTTTA-CCAAAAG
* * * *
32634019 TGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTATCAAAAGCGCAGCCAATGCTCTGGTTTTTTG
64 CGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCAGCCAATGCTCTGGTTATTAG
*
32634084 CGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGAT
129 CGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGAT
** *
32634119 TTTTAGCGGCGTTTTATCAAAATCGCCGCCAATGCTCTGGTTTTTAGTGCGTTTTACCAAAAGCG
1 TTTTAGCGGCGTTTTATCAAAATCGCCGCCAATGCTCTCATTTTTAGGGCGTTTTACCAAAAGCG
* *
32634184 CCGCCAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCCAATGCTCTGGTTATTAGCG
66 CCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCAGCCAATGCTCTGGTTATTAGCG
32634249 GCGTTTTACCAAAAGCGCCGCTAATGCTCTG-T
131 GCGTTTTACCAAAAGCGCCGCTAATGCTCTGAT
* * * * * ***
32634281 TTTTAGCGGTGTTTTTTACTAAAA-CGCCTCTATTGCTC-CATTTTTAGCGGCGCTTTTGGTAAA
1 TTTTAGCGGCGTTTTAT-C-AAAATCGCCGCCAATGCTCTCATTTTTAG-GGCG-TTTTACCAAA
*
32634344 A-CGCCGCTATTGCTCTGTGTTTT
62 AGCGCCGCTAATGCTCTG-GTTTT
32634367 ACAATTTTTG
Statistics
Matches: 216, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
162 23 0.11
163 126 0.58
164 25 0.12
165 42 0.19
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (163 bp):
TTTTAGCGGCGTTTTATCAAAATCGCCGCCAATGCTCTCATTTTTAGGGCGTTTTACCAAAAGCG
CCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGCGCAGCCAATGCTCTGGTTATTAGCG
GCGTTTTACCAAAAGCGCCGCTAATGCTCTGAT
Found at i:32645000 original size:34 final size:33
Alignment explanation
Indices: 32644933--32645001 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 33
32644923 AAAATTACGG
*
32644933 TGAAAAGTGAAAATATTATTTTTAAACATAATAT
1 TGAAAAGTGAAAAGATTATTTTTAAACA-AATAT
32644967 TGAAAAGT-AAAAGATTAATTAATTTAAAC-AATAT
1 TGAAAAGTGAAAAGATT-ATT--TTTAAACAAATAT
32645001 T
1 T
32645002 ATTTAAATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
33 7 0.23
34 17 0.55
36 7 0.23
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (33 bp):
TGAAAAGTGAAAAGATTATTTTTAAACAAATAT
Found at i:32645116 original size:31 final size:31
Alignment explanation
Indices: 32645071--32645155 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
32645061 TTAATGATAC
* *
32645071 ATAAAATAT-TTTAAA-ATTTTAAACATAAAA
1 ATAAATTATATTTAAATAATTT-AACATAAAA
* *
32645101 ATAAATTATATTTAAATAATTTAATATAATA
1 ATAAATTATATTTAAATAATTTAACATAAAA
* *
32645132 ATAAATGATATTTAAATGATTTAA
1 ATAAATTATATTTAAATAATTTAA
32645156 TACAACCATA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 8 0.17
31 35 0.74
32 4 0.09
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (31 bp):
ATAAATTATATTTAAATAATTTAACATAAAA
Found at i:32645156 original size:31 final size:31
Alignment explanation
Indices: 32645095--32645157 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
32645085 AATTTTAAAC
*
32645095 ATAAAAATAAATTATATTTAAATAATTTAAT
1 ATAAAAATAAATGATATTTAAATAATTTAAT
* *
32645126 ATAATAATAAATGATATTTAAATGATTTAAT
1 ATAAAAATAAATGATATTTAAATAATTTAAT
32645157 A
1 A
32645158 CAACCATAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (31 bp):
ATAAAAATAAATGATATTTAAATAATTTAAT
Found at i:32646404 original size:17 final size:17
Alignment explanation
Indices: 32646377--32646410 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
32646367 TGGATTGAAA
32646377 TTTTCATATCTC-GGTG
1 TTTTCATATCTCTGGTG
32646393 TTTTCTATATCTCTGGTG
1 TTTTC-ATATCTCTGGTG
32646411 ATGGTATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (17 bp):
TTTTCATATCTCTGGTG
Found at i:32648582 original size:6 final size:6
Alignment explanation
Indices: 32648540--32648581 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
32648530 CTGTAGTGAA
* *
32648540 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT TTGAGT TTGAGT
1 GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT GTGAGT
32648582 TACTACTCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.00, G:0.45, T:0.38
Consensus pattern (6 bp):
GTGAGT
Found at i:32651403 original size:35 final size:35
Alignment explanation
Indices: 32651357--32651427 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
32651347 CTTTCTGTTG
32651357 CCCTCATTTATCTATCTGTCTGTACCACCCAAAAA
1 CCCTCATTTATCTATCTGTCTGTACCACCCAAAAA
32651392 CCCTCATTTATCTATCTGTCTGTACCACCCAAAAA
1 CCCTCATTTATCTATCTGTCTGTACCACCCAAAAA
32651427 C
1 C
32651428 TGTTCTTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.35, G:0.06, T:0.31
Consensus pattern (35 bp):
CCCTCATTTATCTATCTGTCTGTACCACCCAAAAA
Found at i:32659528 original size:95 final size:95
Alignment explanation
Indices: 32659365--32659663 Score: 490
Period size: 95 Copynumber: 3.1 Consensus size: 95
32659355 AGGAGGAGAT
* * * * * * * * *
32659365 TCTGGCAGTTTAATGATCTGCGCCATATGGTTGTTTATCCACATTTATGCCTGGCAACATGGCTG
1 TCTGGCATTTTAATGATTTTCACCATATGGTGGTTTATCCATATTTCTGCCTGGCAGCCTGGCTG
32659430 CAATATAGTGGCTTGACCATATATATTTGA
66 CAATATAGTGGCTTGACCATATATATTTGA
32659460 TCTGGCATTTTAATGATTTTCACCATATGGTGGTTTATCCATATTTCTGCCTGGCAGCCTGGCTG
1 TCTGGCATTTTAATGATTTTCACCATATGGTGGTTTATCCATATTTCTGCCTGGCAGCCTGGCTG
32659525 CAATATAGTGGCTTGACCATATATATTTGA
66 CAATATAGTGGCTTGACCATATATATTTGA
32659555 TCTGGCATTTTAATGATTTTCACCATATGGTGGTTTATCCATATTTCTGCCTGGCAGCCTGGCTG
1 TCTGGCATTTTAATGATTTTCACCATATGGTGGTTTATCCATATTTCTGCCTGGCAGCCTGGCTG
*
32659620 CAATATAGTGGCTTGACCATATATATTCGA
66 CAATATAGTGGCTTGACCATATATATTTGA
*
32659650 TTTGGCAATTTTAA
1 TCTGGC-ATTTTAA
32659664 CTGCACTATC
Statistics
Matches: 192, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
95 185 0.96
96 7 0.04
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (95 bp):
TCTGGCATTTTAATGATTTTCACCATATGGTGGTTTATCCATATTTCTGCCTGGCAGCCTGGCTG
CAATATAGTGGCTTGACCATATATATTTGA
Found at i:32661455 original size:18 final size:18
Alignment explanation
Indices: 32661428--32661464 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32661418 ATTCTAGATC
* *
32661428 AGGTATCGATACCCATCT
1 AGGTACCGATACCAATCT
32661446 AGGTACCGATACCAATCT
1 AGGTACCGATACCAATCT
32661464 A
1 A
32661465 AGCTTCAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (18 bp):
AGGTACCGATACCAATCT
Found at i:32661705 original size:114 final size:114
Alignment explanation
Indices: 32661428--32661668 Score: 448
Period size: 114 Copynumber: 2.1 Consensus size: 114
32661418 ATTCTAGATC
* *
32661428 AGGTATCGATACC-CATCTAGGTACCGATACCAATCTAAGCTTCAATGTTTCAGAAAAATTGATT
1 AGGTATTGATACCTCATCTAAGTACCGATACCAATCTAAGCTTCAATGTTTCAGAAAAATTGATT
32661492 TAAAACCAAAGGTATCGATACTAGACTTAAAGTACTGATACTTCCTTTA
66 TAAAACCAAAGGTATCGATACTAGACTTAAAGTACTGATACTTCCTTTA
32661541 AGGTATTGATACCTCATCTAAGTACCGATACCAATCTAAGCTTCAATGTTTCAGAAAAATTGATT
1 AGGTATTGATACCTCATCTAAGTACCGATACCAATCTAAGCTTCAATGTTTCAGAAAAATTGATT
*
32661606 TAAAACCAAAGGTATCGATACTAGACTTAAGGTACTGATACTTCCTTTA
66 TAAAACCAAAGGTATCGATACTAGACTTAAAGTACTGATACTTCCTTTA
32661655 AGGTATTGATACCT
1 AGGTATTGATACCT
32661669 TACTTCTATA
Statistics
Matches: 124, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
113 12 0.10
114 112 0.90
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.31
Consensus pattern (114 bp):
AGGTATTGATACCTCATCTAAGTACCGATACCAATCTAAGCTTCAATGTTTCAGAAAAATTGATT
TAAAACCAAAGGTATCGATACTAGACTTAAAGTACTGATACTTCCTTTA
Found at i:32668871 original size:23 final size:24
Alignment explanation
Indices: 32668841--32668890 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
32668831 AGGTAATTGC
32668841 TTCTCCTTATTCTCTCGAACAT-A
1 TTCTCCTTATTCTCTCGAACATCA
32668864 TTCTCCTTATTCTCTCGAACATCA
1 TTCTCCTTATTCTCTCGAACATCA
32668888 TTC
1 TTC
32668891 AAAATATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.20, C:0.32, G:0.04, T:0.44
Consensus pattern (24 bp):
TTCTCCTTATTCTCTCGAACATCA
Found at i:32670162 original size:11 final size:11
Alignment explanation
Indices: 32670148--32670173 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32670138 TTTCTTATTG
32670148 TTTTCTCCCTA
1 TTTTCTCCCTA
32670159 TTTTCTCCCTA
1 TTTTCTCCCTA
32670170 TTTT
1 TTTT
32670174 ACTATTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.31, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTCTCCCTA
Found at i:32670267 original size:30 final size:30
Alignment explanation
Indices: 32670233--32670297 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
32670223 ATTTATTTTA
*
32670233 TTGTTAATTTTTTTATTATTTTA-AAGACAT
1 TTGTTAATTTTGTTATTATTTTAGAA-ACAT
32670263 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTTGTTATTATTTTAGAAACAT
32670293 TTGTT
1 TTGTT
32670298 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAACAT
Found at i:32670418 original size:20 final size:19
Alignment explanation
Indices: 32670372--32670410 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
32670362 TGTTGAGAAA
*
32670372 TATTTATTTGATGTTTTTAG
1 TATTT-TTTGATGTTTATAG
32670392 TATTTTTTGATGGTTTATA
1 TATTTTTTGAT-GTTTATA
32670411 TATATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (19 bp):
TATTTTTTGATGTTTATAG
Found at i:32670910 original size:10 final size:11
Alignment explanation
Indices: 32670878--32670907 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
32670868 AAACACAGCT
32670878 AAAATATTTAA
1 AAAATATTTAA
32670889 AAAATATTTAA
1 AAAATATTTAA
*
32670900 AACATATT
1 AAAATATT
32670908 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:32674166 original size:13 final size:13
Alignment explanation
Indices: 32674148--32674186 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
32674138 GTCAACTGAT
32674148 AATATATTATAAA
1 AATATATTATAAA
* *
32674161 AATATATTACAAT
1 AATATATTATAAA
32674174 AATATATTTATAA
1 AATATA-TTATAA
32674187 TTTCTCATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
AATATATTATAAA
Found at i:32674888 original size:29 final size:29
Alignment explanation
Indices: 32674783--32674888 Score: 88
Period size: 29 Copynumber: 3.7 Consensus size: 29
32674773 GTTCCAGAAG
* * * *
32674783 AAATAAATTTGACAAGATGGGA-TATGAAA
1 AAATAAATTTGACGAGAT-GTATTCTAAAA
* * * *
32674812 AAATAAATTTGATGCGATGTGTTTTAAAA
1 AAATAAATTTGACGAGATGTATTCTAAAA
* *
32674841 AAATAAATTTAACGTGATGTATTCTAAAA
1 AAATAAATTTGACGAGATGTATTCTAAAA
* *
32674870 AAATTATTTTGACGAGATG
1 AAATAAATTTGACGAGATG
32674889 GATTTTATTT
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
28 1 0.02
29 59 0.98
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (29 bp):
AAATAAATTTGACGAGATGTATTCTAAAA
Found at i:32675026 original size:28 final size:28
Alignment explanation
Indices: 32674982--32675041 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
32674972 GGGTTTAGGG
*
32674982 TTAAGGTTAGGGTTTTTGAAAAA-ATAAA
1 TTAAGGTTAAGGTTTTT-AAAAATATAAA
*
32675010 TTAAGGTTTAAGG-TTTTAAAAATATATA
1 TTAAGG-TTAAGGTTTTTAAAAATATAAA
32675038 TTAA
1 TTAA
32675042 TTAGGGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.18
28 18 0.64
29 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (28 bp):
TTAAGGTTAAGGTTTTTAAAAATATAAA
Found at i:32676135 original size:59 final size:59
Alignment explanation
Indices: 32676083--32676209 Score: 182
Period size: 59 Copynumber: 2.2 Consensus size: 59
32676073 TGTATTGTCT
* * **
32676083 TATTCAAAAGAATTTATATTTTATTAAATGAAACAGTATAAAAATAATTTGTACAAAAA
1 TATTCAAAACAACTTATATTTTATTAAATGAAACAAAATAAAAATAATTTGTACAAAAA
* * *
32676142 TATTCAAAACAACTTATGTTTTATTAAATGAAACAAAATAAAAATAGTTTGTACAAATA
1 TATTCAAAACAACTTATATTTTATTAAATGAAACAAAATAAAAATAATTTGTACAAAAA
*
32676201 TATTAAAAA
1 TATTCAAAA
32676210 AAATCAATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (59 bp):
TATTCAAAACAACTTATATTTTATTAAATGAAACAAAATAAAAATAATTTGTACAAAAA
Found at i:32678548 original size:40 final size:40
Alignment explanation
Indices: 32678487--32678563 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
32678477 TTAGGGGAAA
32678487 AACATTGGGTAAAGCACGCCCAAGTCAGTGCGCTTTTGCT
1 AACATTGGGTAAAGCACGCCCAAGTCAGTGCGCTTTTGCT
** *
32678527 AACATTGGGTAAAGCGTGCCCACGTCAGTGCGCTTTT
1 AACATTGGGTAAAGCACGCCCAAGTCAGTGCGCTTTT
32678564 CTGTAATTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (40 bp):
AACATTGGGTAAAGCACGCCCAAGTCAGTGCGCTTTTGCT
Found at i:32679018 original size:21 final size:21
Alignment explanation
Indices: 32678994--32679044 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
32678984 CTTCTTTACA
*
32678994 AAATAATTTCTCTCCATTGTG
1 AAATAATTACTCTCCATTGTG
*
32679015 AAATTATTACTCTCCATTGTG
1 AAATAATTACTCTCCATTGTG
*
32679036 AAATTATTA
1 AAATAATTA
32679045 TTGCTTTTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (21 bp):
AAATAATTACTCTCCATTGTG
Found at i:32681227 original size:27 final size:25
Alignment explanation
Indices: 32681197--32681246 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
32681187 TATTAAAATT
*
32681197 ATCAATATTGTAATAAATATATTTATG
1 ATCAATAATGTAA-AAATA-ATTTATG
32681224 ATCAATAATGTAAAAATAATTTA
1 ATCAATAATGTAAAAATAATTTA
32681247 ATTAAAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 5 0.23
27 12 0.55
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (25 bp):
ATCAATAATGTAAAAATAATTTATG
Found at i:32681360 original size:16 final size:16
Alignment explanation
Indices: 32681324--32681354 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32681314 ATGGATTATT
*
32681324 ATATTTTTATGATTTA
1 ATATTTTTATAATTTA
32681340 ATATTTTTATAATTT
1 ATATTTTTATAATTT
32681355 TTTATTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
ATATTTTTATAATTTA
Found at i:32689253 original size:21 final size:22
Alignment explanation
Indices: 32689229--32689269 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
32689219 ATAAAAAAAT
32689229 TGGACTGATTTAAAC-ATTTAG
1 TGGACTGATTTAAACTATTTAG
* *
32689250 TGGATTGTTTTAAACTATTT
1 TGGACTGATTTAAACTATTT
32689270 GAAATTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.46
Consensus pattern (22 bp):
TGGACTGATTTAAACTATTTAG
Found at i:32692865 original size:19 final size:17
Alignment explanation
Indices: 32692843--32692879 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
32692833 TAGTTAAATG
32692843 ATAAAATAATACAAAGAAA
1 ATAAAAT-ATA-AAAGAAA
32692862 ATAAAATATAAAAGAAA
1 ATAAAATATAAAAGAAA
32692879 A
1 A
32692880 ACAAATAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 3 0.17
19 7 0.39
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
ATAAAATATAAAAGAAA
Found at i:32693703 original size:40 final size:40
Alignment explanation
Indices: 32693655--32693740 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
32693645 AATTATGGGA
* *
32693655 TACTGAATATTGTTTTGAATACCGAATTGAACTGTGAAAT
1 TACTGAATATTGTTATGAATACCGAATTGAACTGTAAAAT
* * * *
32693695 TACTGAATATTGTTATGTATACTGCATTGAATTGTAAAAT
1 TACTGAATATTGTTATGAATACCGAATTGAACTGTAAAAT
*
32693735 TTCTGA
1 TACTGA
32693741 TAAAATGAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (40 bp):
TACTGAATATTGTTATGAATACCGAATTGAACTGTAAAAT
Found at i:32693990 original size:39 final size:41
Alignment explanation
Indices: 32693936--32694044 Score: 105
Period size: 45 Copynumber: 2.6 Consensus size: 41
32693926 CAGACACTTA
* * *
32693936 TGTGCCGACTACTGTTACTGTTAC-C-GATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTCAGATTCAACACTTTG
* *
32693975 TTTGTCGAATACTGTTACCGTTACTATTACAGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTAC---T-CAGATTCAACACTTTG
* *
32694020 TGTGTTGAATACTTTTACTGTTACT
1 TGTGTCGAATACTGTTACTGTTACT
32694045 GTTATCGTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
39 20 0.36
42 1 0.02
44 1 0.02
45 33 0.60
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (41 bp):
TGTGTCGAATACTGTTACTGTTACTCAGATTCAACACTTTG
Found at i:32694016 original size:45 final size:45
Alignment explanation
Indices: 32693949--32694044 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
32693939 GCCGACTACT
* * * *
32693949 GTTACTGTTACCGATTCGACACTTTGTTTGTCGAATACTGTTACC
1 GTTACTATTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
* * *
32693994 GTTACTATTACAGATTCAACACTTTGTGTGTTGAATACTTTTACT
1 GTTACTATTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
32694039 GTTACT
1 GTTACT
32694045 GTTATCGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.43
Consensus pattern (45 bp):
GTTACTATTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
Found at i:32697391 original size:22 final size:23
Alignment explanation
Indices: 32697349--32697391 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
32697339 CCAACCTCAA
* *
32697349 ATCACTTGTTTTCCCTTTCTCCT
1 ATCACTTGTATTCACTTTCTCCT
32697372 ATCACTTG-ATTCACTTTCTC
1 ATCACTTGTATTCACTTTCTC
32697392 AATTTCTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.14, C:0.33, G:0.05, T:0.49
Consensus pattern (23 bp):
ATCACTTGTATTCACTTTCTCCT
Found at i:32699573 original size:46 final size:45
Alignment explanation
Indices: 32699471--32699579 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
32699461 TGTCTTTGAC
** * * * *
32699471 ATGGACTTACATGAATTATTCCTGTCTCTAATGCCAATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCAATATATAAT
* *
32699516 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCA-ATATATAAT
32699562 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
32699580 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 30 0.55
46 25 0.45
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCAATATATAAT
Found at i:32708637 original size:9 final size:9
Alignment explanation
Indices: 32708623--32708869 Score: 85
Period size: 9 Copynumber: 27.8 Consensus size: 9
32708613 CATAAGAATG
32708623 ATTAAAAAT
1 ATTAAAAAT
32708632 ATTAAAAAT
1 ATTAAAAAT
32708641 -TATAAAAA-
1 AT-TAAAAAT
*
32708649 AATAAAAA-
1 ATTAAAAAT
*
32708657 A-TAAATAT
1 ATTAAAAAT
32708665 ATT-AAAAT
1 ATTAAAAAT
*
32708673 TTTAAAAAT
1 ATTAAAAAT
32708682 -TTAAAAAT
1 ATTAAAAAT
*
32708690 ATTAAAATT
1 ATTAAAAAT
**
32708699 AATATAAACTT
1 -AT-TAAAAAT
* *
32708710 TTTAAAATT
1 ATTAAAAAT
*
32708719 ATAAAAAAT
1 ATTAAAAAT
32708728 A-TAAAAA-
1 ATTAAAAAT
*
32708735 CTTATAAAA-
1 ATTA-AAAAT
32708744 ATTATAAAAT
1 ATTA-AAAAT
*
32708754 ATAAAAAAT
1 ATTAAAAAT
*
32708763 TTTAATAAAT
1 ATTAA-AAAT
*
32708773 -TATGAAAAT
1 AT-TAAAAAT
32708782 A-T-AAAAT
1 ATTAAAAAT
*
32708789 -TAAAAAACTT
1 ATTAAAAA--T
*
32708799 ATTTAAAAT
1 ATTAAAAAT
*
32708808 -TAAAAAAGT
1 ATTAAAAA-T
*
32708817 ATTAAAATT
1 ATTAAAAAT
*
32708826 CTT-AAAAT
1 ATTAAAAAT
*
32708834 AATAAAAA-
1 ATTAAAAAT
*
32708842 ATTGAAAAAAA
1 ATT--AAAAAT
32708853 ATATAAAAAT
1 AT-TAAAAAT
32708863 ATTAAAA
1 ATTAAAA
32708870 TTGGTATAAA
Statistics
Matches: 181, Mismatches: 31, Indels: 52
0.69 0.12 0.20
Matches are distributed among these distances:
7 10 0.06
8 47 0.26
9 80 0.44
10 30 0.17
11 13 0.07
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:32708728 original size:26 final size:26
Alignment explanation
Indices: 32708681--32708786 Score: 90
Period size: 28 Copynumber: 3.9 Consensus size: 26
32708671 ATTTTAAAAA
32708681 TTTAAAAA-TATTAAAATTAATATAAACT
1 TTTAAAAATTA-TAAAA--AATATAAACT
*
32708709 TTTTAAAATTATAAAAAATATAAAAACT
1 TTTAAAAATTATAAAAAATAT--AAACT
* * * *
32708737 TATAAAAATTATAAAATATAAAAAAT
1 TTTAAAAATTATAAAAAATATAAACT
*
32708763 TTTAATAAATTAT-GAAAATATAAA
1 TTTAA-AAATTATAAAAAATATAAA
32708787 ATTAAAAAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
26 21 0.33
27 7 0.11
28 34 0.53
29 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (26 bp):
TTTAAAAATTATAAAAAATATAAACT
Found at i:32708735 original size:28 final size:28
Alignment explanation
Indices: 32708681--32708843 Score: 100
Period size: 26 Copynumber: 5.6 Consensus size: 28
32708671 ATTTTAAAAA
* * * *
32708681 TTTAAAAATATTAAAATTAATATAAACTT
1 TTTAAAATTATAAAAAAT-ATAAAAACTT
32708710 TTTAAAATTATAAAAAATATAAAAACTT
1 TTTAAAATTATAAAAAATATAAAAACTT
* * *
32708738 ATAAAAATTAT--AAAATATAAAAAATT
1 TTTAAAATTATAAAAAATATAAAAACTT
* *
32708764 TTAATAAATTATGAAAATATAAAATTAAAAAACTT
1 TTTA-AAATTAT--AAA-A-AATA-T-AAAAACTT
* *
32708799 ATTTAAAATTA-AAAAAGTATTAAAA-TT
1 -TTTAAAATTATAAAAAATATAAAAACTT
* *
32708826 CTTAAAATAATAAAAAAT
1 TTTAAAATTATAAAAAAT
32708844 TGAAAAAAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
26 25 0.24
27 15 0.14
28 22 0.21
29 16 0.15
30 2 0.02
31 2 0.02
32 4 0.04
33 3 0.03
34 1 0.01
35 13 0.12
36 3 0.03
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.35
Consensus pattern (28 bp):
TTTAAAATTATAAAAAATATAAAAACTT
Found at i:32708741 original size:19 final size:18
Alignment explanation
Indices: 32708626--32708862 Score: 107
Period size: 19 Copynumber: 12.8 Consensus size: 18
32708616 AAGAATGATT
32708626 AAAAATATTAAAAATTATA
1 AAAAATA-TAAAAATTATA
32708645 AAAAA-ATAAAAAATAAATATA
1 AAAAATAT-AAAAAT---TATA
* *
32708666 TTAAAATTTTAAAAATT-T-
1 --AAAAATATAAAAATTATA
*
32708684 AAAAATATTAAAATTAATA
1 AAAAATATAAAAATT-ATA
** * *
32708703 TAAACTTTTTAAAATTATA
1 -AAAAATATAAAAATTATA
32708722 AAAAATATAAAAACTTATA
1 AAAAATATAAAAA-TTATA
*
32708741 AAAATTAT-AAAA-TATA
1 AAAAATATAAAAATTATA
*
32708757 AAAAATTTTAATAAATTAT-
1 AAAAA-TATAA-AAATTATA
*
32708776 GAAAATAT-AAAATTA-A
1 AAAAATATAAAAATTATA
* *
32708792 AAAACTTATTTAAAATTA-A
1 AAAA-ATA-TAAAAATTATA
* * *
32708811 AAAAGTATTAAAATTCTTA
1 AAAAATATAAAAATT-ATA
*
32708830 AAATAATA-AAAAATTGAAA
1 AAA-AATATAAAAATT-ATA
32708849 AAAAATATAAAAAT
1 AAAAATATAAAAAT
32708863 ATTAAAATTG
Statistics
Matches: 168, Mismatches: 26, Indels: 48
0.69 0.11 0.20
Matches are distributed among these distances:
16 29 0.17
17 14 0.08
18 31 0.18
19 60 0.36
20 19 0.11
21 4 0.02
23 10 0.06
24 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (18 bp):
AAAAATATAAAAATTATA
Found at i:32708741 original size:36 final size:37
Alignment explanation
Indices: 32708627--32708762 Score: 109
Period size: 36 Copynumber: 3.6 Consensus size: 37
32708617 AGAATGATTA
* * * *
32708627 AAAATATTAAAAATTATAAAAAAATAAAAAATAAATATATT
1 AAAATTTTTAAAATTAT-AAAAAAT-ATAAA-AACTATA-T
* * *
32708668 AAAATTTTAAAAATT-T-AAAAATATTAAAATTAATAT
1 AAAATTTTTAAAATTATAAAAAATATAAAAACT-ATAT
*
32708704 AAACTTTTTAAAATTATAAAAAATATAAAAACT-TAT
1 AAAATTTTTAAAATTATAAAAAATATAAAAACTATAT
* *
32708740 AAAAATTATAAAA-TATAAAAAAT
1 AAAATTTTTAAAATTATAAAAAAT
32708763 TTTAATAAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
35 10 0.12
36 30 0.37
37 7 0.09
38 19 0.23
40 1 0.01
41 14 0.17
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (37 bp):
AAAATTTTTAAAATTATAAAAAATATAAAAACTATAT
Found at i:32708781 original size:36 final size:34
Alignment explanation
Indices: 32708712--32708795 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 34
32708702 ATAAACTTTT
32708712 TAAAATTATAAAAAATATAAAAACTTATAAAAATTA
1 TAAAA-TATAAAAAATATAAAAACTTATAAAAA-TA
* *
32708748 TAAAATATAAAAAATTTTAATAAA-TTATGAAAATA
1 TAAAATATAAAAAA-TATAA-AAACTTATAAAAATA
32708783 TAAAAT-TAAAAAA
1 TAAAATATAAAAAA
32708796 CTTATTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
34 7 0.16
35 17 0.39
36 17 0.39
37 3 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (34 bp):
TAAAATATAAAAAATATAAAAACTTATAAAAATA
Found at i:32708808 original size:35 final size:35
Alignment explanation
Indices: 32708752--32708824 Score: 62
Period size: 35 Copynumber: 2.1 Consensus size: 35
32708742 AAATTATAAA
*
32708752 ATATAAAAAATTTTAATAAATTATGAAAA-TATAAA
1 ATATAAAAAATTTTAA-AAATTATAAAAATTATAAA
* *
32708787 AT-TAAAAAACTTATTTAAAATTA-AAAAAGTATTAAA
1 ATATAAAAAA-TT-TTAAAAATTATAAAAATTA-TAAA
32708823 AT
1 AT
32708825 TCTTAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
34 11 0.34
35 12 0.38
36 9 0.28
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (35 bp):
ATATAAAAAATTTTAAAAATTATAAAAATTATAAA
Found at i:32708855 original size:21 final size:20
Alignment explanation
Indices: 32708829--32708869 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
32708819 TAAAATTCTT
32708829 AAAATAATAAAAA-ATTGAAAA
1 AAAAT-ATAAAAATATT-AAAA
32708850 AAAATATAAAAATATTAAAA
1 AAAATATAAAAATATTAAAA
32708870 TTGGTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAATATAAAAATATTAAAA
Found at i:32709308 original size:9 final size:9
Alignment explanation
Indices: 32709296--32709556 Score: 91
Period size: 9 Copynumber: 27.6 Consensus size: 9
32709286 TTTTATGATT
32709296 TTTTTATAA
1 TTTTTATAA
32709305 TTTTTATAA
1 TTTTTATAA
*
32709314 GTTTATATCAA
1 -TTTTTAT-AA
*
32709325 TTTTAATAA
1 TTTTTATAA
*
32709334 TTTTTA-ATT
1 TTTTTATA-A
32709343 TTTTTATAA
1 TTTTTATAA
*
32709352 TTTTTATGA
1 TTTTTATAA
32709361 TTTTTATAGAA
1 TTTTTAT--AA
* *
32709372 TTTTAATACG
1 TTTTTATA-A
32709382 TTTTTATAAA
1 TTTTTAT-AA
***
32709392 AAATTA-AA
1 TTTTTATAA
*
32709400 TATTTTAAATA
1 T-TTTTATA-A
*
32709411 TATTTTATTA
1 T-TTTTATAA
*
32709421 CTTTTATAA
1 TTTTTATAA
32709430 TTTTTTATAA
1 -TTTTTATAA
32709440 TTTATT-TGAA
1 TTT-TTAT-AA
*
32709450 TTTTGATAA
1 TTTTTATAA
*
32709459 TTTTAATAA
1 TTTTTATAA
* * *
32709468 TATTGAAAA
1 TTTTTATAA
* *
32709477 TATTTAAAA
1 TTTTTATAA
*
32709486 GTTTATATCAA
1 -TTTTTAT-AA
*
32709497 TTTTCAT-A
1 TTTTTATAA
32709505 TTTTT-TAA
1 TTTTTATAA
*
32709513 TATTTAATAA
1 T-TTTTATAA
* *
32709523 TTATTATAT
1 TTTTTATAA
32709532 TTTTTGATAA
1 TTTTT-ATAA
* *
32709542 ATTTTCTGAA
1 TTTTTAT-AA
32709552 TTTTT
1 TTTTT
32709557 TCCCCTTTTC
Statistics
Matches: 186, Mismatches: 44, Indels: 43
0.68 0.16 0.16
Matches are distributed among these distances:
7 1 0.01
8 10 0.05
9 90 0.48
10 65 0.35
11 20 0.11
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:32709308 original size:20 final size:20
Alignment explanation
Indices: 32709285--32709375 Score: 60
Period size: 20 Copynumber: 4.2 Consensus size: 20
32709275 TCAATTCAAG
32709285 TTTTTATGATTTTTTTATAA
1 TTTTTATGATTTTTTTATAA
*
32709305 TTTTTATAAGTTTATATCAATTTTAATAA
1 TTTTTAT--GATT-T-T----TTTA-TAA
32709334 TTTTTA--ATTTTTTTATAA
1 TTTTTATGATTTTTTTATAA
* *
32709352 TTTTTATGATTTTTATAGAA
1 TTTTTATGATTTTTTTATAA
32709372 TTTT
1 TTTT
32709376 AATACGTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 22
0.68 0.05 0.27
Matches are distributed among these distances:
18 9 0.16
19 4 0.07
20 21 0.38
22 3 0.05
23 2 0.04
24 2 0.04
25 2 0.04
28 4 0.07
29 9 0.16
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTATGATTTTTTTATAA
Found at i:32709364 original size:18 final size:18
Alignment explanation
Indices: 32709296--32709556 Score: 91
Period size: 19 Copynumber: 13.8 Consensus size: 18
32709286 TTTTATGATT
32709296 TTTTTATAATTTTTATAA
1 TTTTTATAATTTTTATAA
* *
32709314 GTTTATATCAATTTTAATAA
1 -TTTTTAT-AATTTTTATAA
*
32709334 TTTTTA-ATTTTTTTATAA
1 TTTTTATA-ATTTTTATAA
*
32709352 TTTTTATGATTTTTATAGAA
1 TTTTTATAATTTTTAT--AA
* *
32709372 TTTTAATACGTTTTTATAAA
1 TTTTTATA-ATTTTTAT-AA
*** *
32709392 AAATTA-AATATTTTAAATA
1 TTTTTATAAT-TTTTATA-A
* *
32709411 TATTTTATTACTTTTATAA
1 T-TTTTATAATTTTTATAA
32709430 TTTTTTATAATTTATT-TGAA
1 -TTTTTATAATTT-TTAT-AA
* *
32709450 TTTTGATAATTTTAATAA
1 TTTTTATAATTTTTATAA
* * * * *
32709468 TATTGAAAATATTTAAAA
1 TTTTTATAATTTTTATAA
* *
32709486 GTTTATATCAATTTTCAT-A
1 -TTTTTAT-AATTTTTATAA
*
32709505 TTTTT-TAATATTTAATAA
1 TTTTTATAAT-TTTTATAA
* *
32709523 TTATTATATTTTTTGATAA
1 TTTTTATAATTTTT-ATAA
* *
32709542 ATTTTCTGAATTTTT
1 TTTTTAT-AATTTTT
32709557 TCCCCTTTTC
Statistics
Matches: 173, Mismatches: 48, Indels: 41
0.66 0.18 0.16
Matches are distributed among these distances:
16 3 0.02
17 7 0.04
18 51 0.29
19 56 0.32
20 48 0.28
21 8 0.05
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:32710556 original size:22 final size:22
Alignment explanation
Indices: 32710531--32710572 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32710521 ACTTATATTG
* *
32710531 GACATAAAGTAAAGTACTTTTA
1 GACATAAAGCAAAATACTTTTA
32710553 GACATAAAGCAAAATACTTT
1 GACATAAAGCAAAATACTTT
32710573 AATTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (22 bp):
GACATAAAGCAAAATACTTTTA
Found at i:32715465 original size:22 final size:22
Alignment explanation
Indices: 32715440--32715481 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32715430 TTTAATAATT
* *
32715440 AAAGTATTTTGCTTTATGTCTA
1 AAAGTACTTTACTTTATGTCTA
32715462 AAAGTACTTTACTTTATGTC
1 AAAGTACTTTACTTTATGTC
32715482 CAATATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (22 bp):
AAAGTACTTTACTTTATGTCTA
Found at i:32723615 original size:31 final size:31
Alignment explanation
Indices: 32723579--32723644 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
32723569 TGATCAAGAG
*
32723579 TTGTCACCATTCATAGTAATAAATTATGCTT
1 TTGTCACCACTCATAGTAATAAATTATGCTT
*
32723610 TTGTCACCACTCATTGTAATAAATTATGCTT
1 TTGTCACCACTCATAGTAATAAATTATGCTT
32723641 TTGT
1 TTGT
32723645 TACTAAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.44
Consensus pattern (31 bp):
TTGTCACCACTCATAGTAATAAATTATGCTT
Found at i:32730611 original size:25 final size:25
Alignment explanation
Indices: 32730583--32730640 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
32730573 GGTCACCGAT
**
32730583 TTCAGCTCTTATGAGCTTCCTGTTA
1 TTCAGCTCGCATGAGCTTCCTGTTA
*
32730608 TTCAGCTCGCATGAGCTTCTTGTTA
1 TTCAGCTCGCATGAGCTTCCTGTTA
*
32730633 TTTAGCTC
1 TTCAGCTC
32730641 AGAAGAGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (25 bp):
TTCAGCTCGCATGAGCTTCCTGTTA
Found at i:32730648 original size:25 final size:25
Alignment explanation
Indices: 32730595--32730656 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
32730585 CAGCTCTTAT
*
32730595 GAGCTTCCTGTTATTCAGCTCGCAT
1 GAGCTTCCTGTTATTCAGCTCGCAA
* *
32730620 GAGCTTCTTGTTATTTAGCTCAG-AA
1 GAGCTTCCTGTTATTCAGCTC-GCAA
*
32730645 GAGCTTACTGTT
1 GAGCTTCCTGTT
32730657 TACGGCTCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (25 bp):
GAGCTTCCTGTTATTCAGCTCGCAA
Found at i:32730822 original size:33 final size:33
Alignment explanation
Indices: 32730780--32730853 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
32730770 TGTTATGAGA
*
32730780 TTATATGAGTTCGATATGAATTATTATTGGTAT
1 TTATATGAGTTCGATATGAACTATTATTGGTAT
*
32730813 TTATATGAGTTCGATGTGAACTATTATTGGTAT
1 TTATATGAGTTCGATATGAACTATTATTGGTAT
32730846 TTATATGA
1 TTATATGA
32730854 AAAACATGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.47
Consensus pattern (33 bp):
TTATATGAGTTCGATATGAACTATTATTGGTAT
Found at i:32732134 original size:9 final size:9
Alignment explanation
Indices: 32732120--32732154 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
32732110 AGTGCCAAAT
32732120 TCTTCTTTC
1 TCTTCTTTC
32732129 TCTTCTTTC
1 TCTTCTTTC
*
32732138 TCTTCTCCTC
1 TCTTCT-TTC
32732148 TCTTCTT
1 TCTTCTT
32732155 CTATTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (9 bp):
TCTTCTTTC
Found at i:32733658 original size:20 final size:20
Alignment explanation
Indices: 32733633--32733672 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32733623 TTGTTATAGG
32733633 CCAACTGTATTGAAATGGGC
1 CCAACTGTATTGAAATGGGC
* *
32733653 CCAACTGTGTTGATATGGGC
1 CCAACTGTATTGAAATGGGC
32733673 AAGACCCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (20 bp):
CCAACTGTATTGAAATGGGC
Found at i:32736563 original size:51 final size:52
Alignment explanation
Indices: 32736469--32736579 Score: 179
Period size: 51 Copynumber: 2.2 Consensus size: 52
32736459 GGATAGAAGT
* *
32736469 AATGAAAATGGAGAAATAAGAAACATTTGGAAATGATTATGGTTTTCTCCAA
1 AATGAAAATGGAGAAATAAGAAACATTTGGAAATGAATATGGTTTTCTCAAA
* *
32736521 AATGAAAATGGAGAAAT-AGAATCATTTGGAAATGAATGTGGTTTTCTCAAA
1 AATGAAAATGGAGAAATAAGAAACATTTGGAAATGAATATGGTTTTCTCAAA
32736572 AATGAAAA
1 AATGAAAA
32736580 CGAAAAAGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
51 38 0.69
52 17 0.31
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.28
Consensus pattern (52 bp):
AATGAAAATGGAGAAATAAGAAACATTTGGAAATGAATATGGTTTTCTCAAA
Found at i:32737947 original size:10 final size:10
Alignment explanation
Indices: 32737920--32737969 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
32737910 TTAAATACTA
32737920 AAAGATAAAT
1 AAAGATAAAT
*
32737930 ACAA-ATAATT
1 A-AAGATAAAT
*
32737940 AAATATAAAT
1 AAAGATAAAT
32737950 AAAGATAAAT
1 AAAGATAAAT
32737960 GAAA-ATAAAT
1 -AAAGATAAAT
32737970 TCTAAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:32739152 original size:20 final size:20
Alignment explanation
Indices: 32739127--32739167 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
32739117 TTAGGGTTAA
32739127 CTCTATTAATCATAATTATT
1 CTCTATTAATCATAATTATT
32739147 CTCTATTAATCATAATTATT
1 CTCTATTAATCATAATTATT
32739167 C
1 C
32739168 ATCCTAATAG
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:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (20 bp):
CTCTATTAATCATAATTATT
Found at i:32741469 original size:23 final size:19
Alignment explanation
Indices: 32741423--32741522 Score: 68
Period size: 20 Copynumber: 5.3 Consensus size: 19
32741413 GTTAATATCC
32741423 AAAATAAATAATAAATAAT
1 AAAATAAATAATAAATAAT
*
32741442 TAAATAAAATAATAAATATTGAT
1 AAAAT-AAATAATAAATA---AT
32741465 AAAATGAAAT-A-AAATAAT
1 AAAAT-AAATAATAAATAAT
* *
32741483 -AGAT-ACTAAT-AA-AAT
1 AAAATAAATAATAAATAAT
*
32741498 GAAATAAAATAATAAATAAT
1 AAAAT-AAATAATAAATAAT
32741518 AAAAT
1 AAAAT
32741523 TTAAGTAAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 21
0.68 0.09 0.23
Matches are distributed among these distances:
15 5 0.08
16 6 0.10
17 3 0.05
18 7 0.11
19 6 0.10
20 19 0.31
21 5 0.08
22 1 0.02
23 10 0.16
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (19 bp):
AAAATAAATAATAAATAAT
Found at i:32741476 original size:10 final size:9
Alignment explanation
Indices: 32741423--32741544 Score: 57
Period size: 8 Copynumber: 13.9 Consensus size: 9
32741413 GTTAATATCC
32741423 AAAATAAAT
1 AAAATAAAT
32741432 --AATAAAT
1 AAAATAAAT
*
32741439 -AATTAAAT
1 AAAATAAAT
32741447 AAAAT-AAT
1 AAAATAAAT
**
32741455 AAATATTGAT
1 AAA-ATAAAT
32741465 AAAATGAAAT
1 AAAAT-AAAT
32741475 AAAAT-AAT
1 AAAATAAAT
*
32741483 -AGATACTAAT
1 AAAATA--AAT
32741493 AAAATGAAAT
1 AAAAT-AAAT
32741503 AAAAT-AAT
1 AAAATAAAT
32741511 -AAAT-AAT
1 AAAATAAAT
*
32741518 AAAATTTAAGT
1 AAAA--TAAAT
*
32741529 AAAGTAAA-
1 AAAATAAAT
32741537 AAAATAAA
1 AAAATAAA
32741545 GGTTGGGTTG
Statistics
Matches: 88, Mismatches: 11, Indels: 29
0.69 0.09 0.23
Matches are distributed among these distances:
7 17 0.19
8 28 0.32
9 10 0.11
10 24 0.27
11 8 0.09
12 1 0.01
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (9 bp):
AAAATAAAT
Found at i:32741494 original size:28 final size:26
Alignment explanation
Indices: 32741425--32741522 Score: 110
Period size: 28 Copynumber: 3.6 Consensus size: 26
32741415 TAATATCCAA
*
32741425 AATAA-ATAATAAATAATTAAATAAAAT
1 AATAATATAAT-AA-AATGAAATAAAAT
*
32741452 AATAAATATTGATAAAATGAAATAAAAT
1 AAT-AATA-TAATAAAATGAAATAAAAT
32741480 AATAGATACTAATAAAATGAAATAAAAT
1 AATA-ATA-TAATAAAATGAAATAAAAT
32741508 AATAA-ATAATAAAAT
1 AATAATATAATAAAAT
32741523 TTAAGTAAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
25 9 0.14
26 1 0.02
27 5 0.08
28 42 0.67
29 3 0.05
30 3 0.05
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (26 bp):
AATAATATAATAAAATGAAATAAAAT
Found at i:32751159 original size:43 final size:43
Alignment explanation
Indices: 32751105--32751191 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
32751095 ATATCGTACA
* *
32751105 ATGCCAATGTCCCAGAC-GTGGTCTTACAT-GTAACCATATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATCG
*
32751148 ATGCCACTGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
32751191 A
1 A
32751192 AATCACATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 37 0.95
44 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
Found at i:32762980 original size:6 final size:6
Alignment explanation
Indices: 32762969--32762998 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
32762959 ATGATTCACC
*
32762969 ATACAA ATACAA ATACAA ATACAA ACACAA
1 ATACAA ATACAA ATACAA ATACAA ATACAA
32762999 TTGTACATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.67, C:0.20, G:0.00, T:0.13
Consensus pattern (6 bp):
ATACAA
Found at i:32764173 original size:32 final size:32
Alignment explanation
Indices: 32764137--32764200 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
32764127 GCATAAGAGG
32764137 ACTGAATCAAATTTTGCAGAAACCATAGCTAA
1 ACTGAATCAAATTTTGCAGAAACCATAGCTAA
32764169 ACTGAATCAAATTTTGCAGAAACCATAGCTAA
1 ACTGAATCAAATTTTGCAGAAACCATAGCTAA
32764201 CTTCAGTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (32 bp):
ACTGAATCAAATTTTGCAGAAACCATAGCTAA
Found at i:32767387 original size:15 final size:15
Alignment explanation
Indices: 32767367--32767397 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32767357 ATAAATGTTC
32767367 CGAGTTAGTTTTCTA
1 CGAGTTAGTTTTCTA
32767382 CGAGTTAGTTTTCTA
1 CGAGTTAGTTTTCTA
32767397 C
1 C
32767398 ATCTCTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (15 bp):
CGAGTTAGTTTTCTA
Found at i:32768933 original size:29 final size:27
Alignment explanation
Indices: 32768877--32768941 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
32768867 TAAATCTTAA
* * *
32768877 AATTATACATAAATTTTAATTTAATGTAT
1 AATTATATATAAACTTTAATCTAATG--T
**
32768906 AATTATATATAAACTTTAATCTGGTGT
1 AATTATATATAAACTTTAATCTAATGT
32768933 AATTATATA
1 AATTATATA
32768942 CGTGAAACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 10 0.32
29 21 0.68
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (27 bp):
AATTATATATAAACTTTAATCTAATGT
Found at i:32769140 original size:30 final size:30
Alignment explanation
Indices: 32769100--32769161 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
32769090 AATTTATATC
* *
32769100 TTTATAATTTTTAAATGATTAAATATAATT
1 TTTATAATTTTTAAAGGATAAAATATAATT
* **
32769130 TTTATTATTTTTAGGGGATAAAATATAATT
1 TTTATAATTTTTAAAGGATAAAATATAATT
32769160 TT
1 TT
32769162 ACTTTAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGATAAAATATAATT
Found at i:32771352 original size:16 final size:16
Alignment explanation
Indices: 32771331--32771365 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
32771321 ATGCGCAAAA
32771331 CCAACTGTCCATGCGG
1 CCAACTGTCCATGCGG
32771347 CCAACTGTCCATGCGG
1 CCAACTGTCCATGCGG
32771363 CCA
1 CCA
32771366 TCTTTTTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.20, C:0.40, G:0.23, T:0.17
Consensus pattern (16 bp):
CCAACTGTCCATGCGG
Found at i:32772456 original size:29 final size:30
Alignment explanation
Indices: 32772403--32772469 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
32772393 GAATTGAATC
*
32772403 AAATTAAAATTTCATTTATAAAATTACACA
1 AAATTAAAATTTCATATATAAAATTACACA
* *
32772433 AAATTAAAATTT-ATATATATAATTATACA
1 AAATTAAAATTTCATATATAAAATTACACA
32772462 ATAATTAA
1 A-AATTAA
32772470 GATTACTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATTAAAATTTCATATATAAAATTACACA
Found at i:32774907 original size:11 final size:11
Alignment explanation
Indices: 32774891--32774919 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
32774881 ATCTGAATCC
32774891 GTAAATTATCT
1 GTAAATTATCT
32774902 GTAAATTATCT
1 GTAAATTATCT
32774913 GTAAATT
1 GTAAATT
32774920 CTTCGAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (11 bp):
GTAAATTATCT
Found at i:32775280 original size:22 final size:22
Alignment explanation
Indices: 32775254--32775296 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
32775244 CATATGTCGG
**
32775254 ATATTTGAATCAGTAAAAATCT
1 ATATTTGAATCAACAAAAATCT
32775276 ATATTTGAATCAACAAAAATC
1 ATATTTGAATCAACAAAAATC
32775297 CAAATCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.33
Consensus pattern (22 bp):
ATATTTGAATCAACAAAAATCT
Found at i:32780480 original size:130 final size:129
Alignment explanation
Indices: 32780260--32780575 Score: 478
Period size: 130 Copynumber: 2.4 Consensus size: 129
32780250 AGCACAGTAA
* * * * *
32780260 GGCACGATTCTCCGAATTTCCAAACATTGAACATTGCCTT-GTTTT-AGAATTTAGAAAATATGA
1 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGAATTTTGAAAACATGA
*
32780323 GTGAAATTCTAAAGGAATATTCGATTATTTT-GAGCAAACGGGAAATTGCAACCCAGCACGATAG
66 GTGAAATTCCAAAGGAATATTCGATTATTTTGGA-CAAACGGGAAATTGCAACCCAGCACGATAG
* * *
32780387 GGCACGA-TCCCCGAATTGCCAAACATCGAACATTTCCTTCATTTTGAAGAATTTTTAAAGACAT
1 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTT-AAGAATTTTGAAA-ACAT
*
32780451 GAGTGAAATTCCAAAGGAATATTCGATTATTTTGGACAAACGGGATATTGCAACCCAGCACGATA
64 GAGTGAAATTCCAAAGGAATATTCGATTATTTTGGACAAACGGGAAATTGCAACCCAGCACGATA
32780516 G
129 G
32780517 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAATTTTGAA
1 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTT-AAGAATTTTGAA
32780576 TGAATAGTTA
Statistics
Matches: 169, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
126 28 0.17
127 11 0.07
129 10 0.06
130 71 0.42
131 49 0.29
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (129 bp):
GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGAATTTTGAAAACATGA
GTGAAATTCCAAAGGAATATTCGATTATTTTGGACAAACGGGAAATTGCAACCCAGCACGATAG
Found at i:32781567 original size:75 final size:75
Alignment explanation
Indices: 32781478--32781664 Score: 365
Period size: 75 Copynumber: 2.5 Consensus size: 75
32781468 AAATAGTAAC
32781478 TTTAAGAGAACTCAACGCATATACACATATGTAAAAAGAATTTTAAAACGATGATTTTATAAACA
1 TTTAAGAGAACTCAACGCATATACACATATGTAAAAAGAATTTTAAAACGATGATTTTATAAACA
32781543 AGATAAAGTT
66 AGATAAAGTT
32781553 TTTAAGAGAACTCAACGCATATACACATATGTAAAAAGAATTTTAAAACGATGATTTTATAAACA
1 TTTAAGAGAACTCAACGCATATACACATATGTAAAAAGAATTTTAAAACGATGATTTTATAAACA
32781618 AGATAAAGTT
66 AGATAAAGTT
*
32781628 TTTAAGAGAACTCAACGCATATACACATATATAAAAA
1 TTTAAGAGAACTCAACGCATATACACATATGTAAAAA
32781665 TGTTAGGAAC
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 111 1.00
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (75 bp):
TTTAAGAGAACTCAACGCATATACACATATGTAAAAAGAATTTTAAAACGATGATTTTATAAACA
AGATAAAGTT
Found at i:32783065 original size:18 final size:17
Alignment explanation
Indices: 32783016--32783066 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
32783006 ATTTGGACAG
32783016 TATTTATTTTG-TTTTA
1 TATTTATTTTGATTTTA
*
32783032 TATTTTTTTTAGATTTTA
1 TATTTATTTT-GATTTTA
32783050 TATTTATTTTGTATTTT
1 TATTTATTTTG-ATTTT
32783067 GGTGGACCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 9 0.30
17 2 0.07
18 19 0.63
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
TATTTATTTTGATTTTA
Found at i:32783876 original size:88 final size:88
Alignment explanation
Indices: 32783737--32784558 Score: 740
Period size: 88 Copynumber: 9.3 Consensus size: 88
32783727 TAATCTTCAG
* * * ** * *
32783737 TCTGCTCCACTACTGCTTAGGGAGATAGGATCTGTAATTTTCAGGCC-GTTACCCTACTGCTTAG
1 TCTGCTCCACTACTACTTAGGGAGACAAGATCTACAATCTTCA-GCCTGTTACCCTACTACTTAG
*
32783801 GGGGTTAAGG-TTCACTGTCTTCGA
65 GGGGTTAAGGCTT-ACCGTCTTCGA
* * * *
32783825 TCTGCTCCGCTACTGCTTAGGGCGACAAGATCTACAATCTTCAACCTGTTACCCTACTACTTAGG
1 TCTGCTCCACTACTACTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGG
* * *
32783890 GGGTCAAGGCTCACCGTCTTTGA
66 GGGTTAAGGCTTACCGTCTTCGA
* * * * * * * *
32783913 TCTGTTCCACTGCAACTTTGAGGAAACAAGATCTGCAATCTTCAGCTTGTTACTCTACTACTTAG
1 TCTGCTCCACTACTACTTAG-GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAG
* *
32783978 GGGGTTAAGGCTT-GCTTCTTCGA
65 GGGGTTAAGGCTTACCGTCTTCGA
* ** * *
32784001 TTTGCTCCACTACTGTTTAGGGAGACAAGATCTACAATATTCAGCCTGTTACCCTGCTACTTAGG
1 TCTGCTCCACTACTACTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGG
* * *
32784066 GGGTTAAGGCTTACCATTTTTGA
66 GGGTTAAGGCTTACCGTCTTCGA
* * * *
32784089 TCTGTTCCACTGCAACTTCAGGGCGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAG
1 TCTGCTCCACTACTACTT-AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAG
* * * * *
32784154 AGGGTCAAGGATCACCGTCTTTGA
65 GGGGTTAAGGCTTACCGTCTTCGA
* * * * * **
32784178 TCTGTTCCACTGCAACTTCGAGGAGACAAG-TCTGCAATCTTCAGCCTGTTACTTTACTACTTAG
1 TCTGCTCCACTACTACTTAG-GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAG
* *
32784242 GGGGTTAAGGCTT-GCTTCTTCGA
65 GGGGTTAAGGCTTACCGTCTTCGA
* * * * * * *
32784265 TTTGATCCACTACTATTTAGGGAGACAAGATCTATAATCTTCAACCTGTTA-CCTACTGCTTAGA
1 TCTGCTCCACTACTACTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGG
* * *
32784329 GGGTCAAGGCTCACCGTCTTTGA
66 GGGTTAAGGCTTACCGTCTTCGA
* * * * * * * * * * * * *
32784352 TTTGTTCCACTGCAACTTCGAAGAGACAAGACCTATAATATTCAACTTGTTACCCTGCTACTTAT
1 TCTGCTCCACTACTACTTAG-GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAG
***
32784417 GGGGTTAAGGCTT-GTTTCTTCGA
65 GGGGTTAAGGCTTACCGTCTTCGA
* ** * *
32784440 TGTGCTCCACTACTGTTTAGGGAGACAAGATCTACAATCTTTAACCTGTTACCCTACTACTTAGG
1 TCTGCTCCACTACTACTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGG
* *
32784505 GGGTTAAGGCTTTCCGTCTTTGA
66 GGGTTAAGGCTTACCGTCTTCGA
* * * *
32784528 TCAGTTCCACTGCAACTTCAGGGAGACAAGA
1 TCTGCTCCACTACTACTT-AGGGAGACAAGA
32784559 ACTGTGAATT
Statistics
Matches: 585, Mismatches: 137, Indels: 23
0.79 0.18 0.03
Matches are distributed among these distances:
86 28 0.05
87 163 0.28
88 226 0.39
89 168 0.29
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (88 bp):
TCTGCTCCACTACTACTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGG
GGGTTAAGGCTTACCGTCTTCGA
Found at i:32783918 original size:44 final size:44
Alignment explanation
Indices: 32783784--32783918 Score: 121
Period size: 44 Copynumber: 3.1 Consensus size: 44
32783774 TTTTCAGGCC
* * *
32783784 GTTACCCTACTGCTTAGGGGGTTAAGGTTCACTGTCTTCGATCT
1 GTTACCCTACTGCTTAGGGGGTCAAGGATCACAGTCTTCGATCT
* * * * * *
32783828 GCT-CCGCTACTGCTTAGGGCGACAA-GATCTACAATCTTCAACCT
1 GTTACC-CTACTGCTTAGGGGGTCAAGGATC-ACAGTCTTCGATCT
* * * *
32783872 GTTACCCTACTACTTAGGGGGTCAAGGCTCACCGTCTTTGATCT
1 GTTACCCTACTGCTTAGGGGGTCAAGGATCACAGTCTTCGATCT
32783916 GTT
1 GTT
32783919 CCACTGCAAC
Statistics
Matches: 68, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
43 5 0.07
44 58 0.85
45 5 0.07
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (44 bp):
GTTACCCTACTGCTTAGGGGGTCAAGGATCACAGTCTTCGATCT
Found at i:32784246 original size:264 final size:265
Alignment explanation
Indices: 32783739--32784516 Score: 935
Period size: 264 Copynumber: 3.0 Consensus size: 265
32783729 ATCTTCAGTC
* * * * *
32783739 TGCTCCACTACTGCTTAGGGAGATAGGATCTGTAATTTTCAGGCC-GTTACCCTACTGCTTAGGG
1 TGCTCCACTACTGTTTAGGGAGACAAGATCTATAATATTCA-GCCTGTTACCCTACTGCTTAGGG
* * * * * **
32783803 GGTTAAGG-TTCACTGTCTTCGATCTGCTCCGCTACTGCTT-AGGGCGACAAGATCTACAATCTT
65 GGTTAAGGCTT-ACCGTCTTTGATCTGTTCCACTGCAACTTCAGGGCGACAAGATCTACAATCTT
* *
32783866 CAACCTGTTACCCTACTACTTAGGGGGTCAAGGCTCACCGTCTTTGATCTGTTCCACTGCAACTT
129 CAACCTGTTACCCTACTACTTAGAGGGTCAAGGATCACCGTCTTTGATCTGTTCCACTGCAACTT
* *
32783931 TGAGGAAACAAGATCTGCAATCTTCAGCTTGTTACTCTACTACTTAGGGGGTTAAGGCTTGCTTC
194 CGAGGAAACAAGATCTGCAATCTTCAGCCTGTTACTCTACTACTTAGGGGGTTAAGGCTTGCTTC
32783996 TTCGATT
259 TTCGATT
* * *
32784003 TGCTCCACTACTGTTTAGGGAGACAAGATCTACAATATTCAGCCTGTTACCCTGCTACTTAGGGG
1 TGCTCCACTACTGTTTAGGGAGACAAGATCTATAATATTCAGCCTGTTACCCTACTGCTTAGGGG
* *
32784068 GTTAAGGCTTACCATTTTTGATCTGTTCCACTGCAACTTCAGGGCGACAAGATCTACAATCTTCA
66 GTTAAGGCTTACCGTCTTTGATCTGTTCCACTGCAACTTCAGGGCGACAAGATCTACAATCTTCA
*
32784133 GCCTGTTACCCTACTACTTAGAGGGTCAAGGATCACCGTCTTTGATCTGTTCCACTGCAACTTCG
131 ACCTGTTACCCTACTACTTAGAGGGTCAAGGATCACCGTCTTTGATCTGTTCCACTGCAACTTCG
* *
32784198 AGGAGACAAG-TCTGCAATCTTCAGCCTGTTACTTTACTACTTAGGGGGTTAAGGCTTGCTTCTT
196 AGGAAACAAGATCTGCAATCTTCAGCCTGTTACTCTACTACTTAGGGGGTTAAGGCTTGCTTCTT
32784262 CGATT
261 CGATT
* * * * *
32784267 TGATCCACTACTATTTAGGGAGACAAGATCTATAATCTTCAACCTGTTA-CCTACTGCTTAGAGG
1 TGCTCCACTACTGTTTAGGGAGACAAGATCTATAATATTCAGCCTGTTACCCTACTGCTTAGGGG
* * * * * * * *
32784331 GTCAAGGCTCACCGTCTTTGATTTGTTCCACTGCAACTTC-GAAGAGACAAGACCTATAATATTC
66 GTTAAGGCTTACCGTCTTTGATCTGTTCCACTGCAACTTCAG-GGCGACAAGATCTACAATCTTC
* * * * **** * * * * ***
32784395 AACTTGTTACCCTGCTACTTATG-GGGTTAAGGCT-TGTTTCTTCGATGTGCTCCACTACTGTTT
130 AACCTGTTACCCTACTACTTA-GAGGGTCAAGGATCACCGTCTTTGATCTGTTCCACTGCAACTT
* * * * * *
32784458 AG-GGAGACAAGATCTACAATCTTTAACCTGTTACCCTACTACTTAGGGGGTTAAGGCTT
194 CGAGGAAACAAGATCTGCAATCTTCAGCCTGTTACTCTACTACTTAGGGGGTTAAGGCTT
32784517 TCCGTCTTTG
Statistics
Matches: 444, Mismatches: 64, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
261 9 0.02
262 62 0.14
263 94 0.21
264 182 0.41
265 97 0.22
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (265 bp):
TGCTCCACTACTGTTTAGGGAGACAAGATCTATAATATTCAGCCTGTTACCCTACTGCTTAGGGG
GTTAAGGCTTACCGTCTTTGATCTGTTCCACTGCAACTTCAGGGCGACAAGATCTACAATCTTCA
ACCTGTTACCCTACTACTTAGAGGGTCAAGGATCACCGTCTTTGATCTGTTCCACTGCAACTTCG
AGGAAACAAGATCTGCAATCTTCAGCCTGTTACTCTACTACTTAGGGGGTTAAGGCTTGCTTCTT
CGATT
Found at i:32790065 original size:59 final size:59
Alignment explanation
Indices: 32789965--32790082 Score: 146
Period size: 59 Copynumber: 2.0 Consensus size: 59
32789955 ATGTTTTGGC
** *** *
32789965 ACTCTTTCATGTGAGAGCTATCTATGGGTAATATGTTTAGTGTAGTCAATGGCAGGACG
1 ACTCTTTCATGTGAGAGCTATCTACAGGTAATATACCTAGTGTAGACAATGGCAGGACG
* * * *
32790024 ACTCTTTCATGTGAGAGCTGTCTACAGGTAATCTACCTAGTGTGGACAATGGTAGGACG
1 ACTCTTTCATGTGAGAGCTATCTACAGGTAATATACCTAGTGTAGACAATGGCAGGACG
32790083 TTCAAGGCCG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (59 bp):
ACTCTTTCATGTGAGAGCTATCTACAGGTAATATACCTAGTGTAGACAATGGCAGGACG
Found at i:32795629 original size:53 final size:53
Alignment explanation
Indices: 32795559--32795678 Score: 186
Period size: 53 Copynumber: 2.3 Consensus size: 53
32795549 ATAAGTGCGC
* *
32795559 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
* * *
32795612 CCGTATAAGACCCTAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
*
32795665 CCGTAAAAGACCAT
1 CCGTATAAGACCAT
32795679 GTCTGGGATA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
Found at i:32795685 original size:53 final size:53
Alignment explanation
Indices: 32795565--32795709 Score: 184
Period size: 53 Copynumber: 2.7 Consensus size: 53
32795555 GCGCCCGTTT
** *
32795565 AAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTAT
1 AAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTAA
* *
32795618 AAGACCCTAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTAA
1 AAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTAA
* * *
32795671 AAGACCAT-GTCTGGGATATGACTTCGGTATGATATGTGA
1 AAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
32795710 ACCGTGTAAG
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 72 0.90
54 1 0.01
55 6 0.08
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (53 bp):
AAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTAA
Found at i:32798238 original size:84 final size:84
Alignment explanation
Indices: 32798089--32798255 Score: 280
Period size: 84 Copynumber: 2.0 Consensus size: 84
32798079 CAAAATTCTT
* * *
32798089 TTGTTTCAGACGAATGCAGCATCACATCCAGCACGATAGGACACGATCCTTTATACTCTCGAAAA
1 TTGTTTCAGACGAATGCAGCATCACATCCAACACGATAGGACACGATCCTTTATACCCTCAAAAA
*
32798154 CAATGATAAACTTTGACTC
66 CAACGATAAACTTTGACTC
* *
32798173 TTGTTTCAGAGGAATGCAGTATCACATCCAACACGATAGGACACGATCCTTTATACCCTCAAAAA
1 TTGTTTCAGACGAATGCAGCATCACATCCAACACGATAGGACACGATCCTTTATACCCTCAAAAA
32798238 CAACGATAAACTTTGACT
66 CAACGATAAACTTTGACT
32798256 TCCGAAAGTT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 77 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.26
Consensus pattern (84 bp):
TTGTTTCAGACGAATGCAGCATCACATCCAACACGATAGGACACGATCCTTTATACCCTCAAAAA
CAACGATAAACTTTGACTC
Found at i:32798612 original size:166 final size:165
Alignment explanation
Indices: 32798326--32798657 Score: 558
Period size: 166 Copynumber: 2.0 Consensus size: 165
32798316 ATCGAAACCC
* * * *
32798326 AGCACGGTAGGGCACGATTCCCTGAATTTCCAAATATTGAGCATTGCCTTGTTTTAGAATTTAGA
1 AGCACAGTAAGGCACGATTCCCTGAATTTCCAAACATTGAACATTGCCTTGTTTTAGAATTTAGA
*
32798391 AAACATGAGTGAAATTCTAAAGGAATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAGC
66 AAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGC
* *
32798456 ACGATAGGGCACGATTCTCCGAATTGCTAAACATCG
131 ACGATAGGGCACGA-TCCCCGAATTGCCAAACATCG
32798492 AGCACAGTAAGGCACGATTCTCC-GAATTTCCAAACATTGAACATTGCCTTGTTTTAGAATTTAG
1 AGCACAGTAAGGCACGATTC-CCTGAATTTCCAAACATTGAACATTGCCTTGTTTTAGAATTTAG
* *
32798556 AAAATATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGCAAACGGGAAATTGCAACCCAG
65 AAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAG
32798621 CACGATAGGGCACGATCCCCGAATTGCCAAACATCG
130 CACGATAGGGCACGATCCCCGAATTGCCAAACATCG
32798657 A
1 A
32798658 ACATTTCCTT
Statistics
Matches: 156, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
165 20 0.13
166 134 0.86
167 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (165 bp):
AGCACAGTAAGGCACGATTCCCTGAATTTCCAAACATTGAACATTGCCTTGTTTTAGAATTTAGA
AAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGC
ACGATAGGGCACGATCCCCGAATTGCCAAACATCG
Found at i:32798722 original size:130 final size:129
Alignment explanation
Indices: 32798502--32798817 Score: 460
Period size: 130 Copynumber: 2.4 Consensus size: 129
32798492 AGCACAGTAA
* * * * *
32798502 GGCACGATTCTCCGAATTTCCAAACATTGAACATTGCCTT-GTTTT-AGAATTTAGAAAATATGA
1 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGAATTTTGAAAACATGA
* *
32798565 GTGAAATTCTAAAGGAATATTCGATTATTTT-GAGCAAACGGGAAATTGCAACCCAGCACGATAG
66 GTGAAATTCCAAAGGAATATTCGATTATTTTGGA-CAAACGAGAAATTGCAACCCAGCACGATAG
* * *
32798629 GGCACGA-TCCCCGAATTGCCAAACATCGAACATTTCCTTCATTTTGAAGAATTTTTAAAGACAT
1 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTT-AAGAATTTTGAAA-ACAT
* *
32798693 GAGTGAAATTCCAAAGGAATATTCGATTATTTTGGACAAACGAGATATTGCAATCCAGCACGATA
64 GAGTGAAATTCCAAAGGAATATTCGATTATTTTGGACAAACGAGAAATTGCAACCCAGCACGATA
32798758 G
129 G
32798759 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAATTTTGAA
1 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTT-AAGAATTTTGAA
32798818 TGAATAGTTA
Statistics
Matches: 167, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
126 28 0.17
127 11 0.07
129 10 0.06
130 69 0.41
131 49 0.29
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (129 bp):
GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGAATTTTGAAAACATGA
GTGAAATTCCAAAGGAATATTCGATTATTTTGGACAAACGAGAAATTGCAACCCAGCACGATAG
Found at i:32805698 original size:12 final size:12
Alignment explanation
Indices: 32805681--32805713 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
32805671 TTCCCTGTAA
*
32805681 AATAGTAAAATT
1 AATAGTAAAAAT
32805693 AATAGTAAAAAT
1 AATAGTAAAAAT
32805705 AATAGTAAA
1 AATAGTAAA
32805714 TGGGAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:32806643 original size:10 final size:9
Alignment explanation
Indices: 32806628--32806683 Score: 58
Period size: 10 Copynumber: 5.7 Consensus size: 9
32806618 ATTCTAAAAG
32806628 ATAAATACAA
1 ATAAATA-AA
32806638 ATAAATAAA
1 ATAAATAAA
*
32806647 GATAATTAAAA
1 -ATAAAT-AAA
32806658 ATAAATAAA
1 ATAAATAAA
32806667 GATAAATGAAA
1 -ATAAAT-AAA
32806678 ATAAAT
1 ATAAAT
32806684 CCTAAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 5 0.12
10 29 0.73
11 6 0.15
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (9 bp):
ATAAATAAA
Found at i:32806647 original size:20 final size:19
Alignment explanation
Indices: 32806624--32806683 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 19
32806614 TAAAATTCTA
32806624 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
*
32806644 AAAGATAATTAAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
32806664 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
32806684 CCTAAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:32806663 original size:30 final size:31
Alignment explanation
Indices: 32806622--32806681 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
32806612 AATAAAATTC
32806622 TAAAAGATAAATACAA-ATAAAT-AAAGATAAT
1 TAAAAGATAAATA-AAGATAAATGAAA-ATAAT
32806653 TAAAA-ATAAATAAAGATAAATGAAAATAA
1 TAAAAGATAAATAAAGATAAATGAAAATAA
32806682 ATCCTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 2 0.07
30 17 0.63
31 8 0.30
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (31 bp):
TAAAAGATAAATAAAGATAAATGAAAATAAT
Found at i:32810447 original size:6 final size:6
Alignment explanation
Indices: 32810436--32810460 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
32810426 AAAACATAAA
32810436 TAATTT TAATTT TAATTT TAATTT T
1 TAATTT TAATTT TAATTT TAATTT T
32810461 TTTACAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TAATTT
Found at i:32810784 original size:22 final size:22
Alignment explanation
Indices: 32810759--32810800 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32810749 AGTTTAAAGC
*
32810759 AAATAAATTATTA-AAAAATCAA
1 AAATAAA-AATTATAAAAATCAA
32810781 AAATAAAAATTATAAAAATC
1 AAATAAAAATTATAAAAATC
32810801 TATCCAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATAAAAATTATAAAAATCAA
Found at i:32813376 original size:27 final size:27
Alignment explanation
Indices: 32813346--32813415 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 27
32813336 TTACAGATTT
*
32813346 TAAATAAATTTCTACCTTATAATTTCC
1 TAAAAAAATTTCTACCTTATAATTTCC
32813373 TAAACAAAAAATTTCTACCTTATAATTTCC
1 T--A-AAAAAATTTCTACCTTATAATTTCC
* *
32813403 TAAACAATTTTCT
1 TAAAAAAATTTCT
32813416 TTTGAATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 10 0.27
28 1 0.03
29 1 0.03
30 25 0.68
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.41
Consensus pattern (27 bp):
TAAAAAAATTTCTACCTTATAATTTCC
Found at i:32813385 original size:30 final size:30
Alignment explanation
Indices: 32813351--32813409 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
32813341 GATTTTAAAT
32813351 AAATTTCTACCTTATAATTTCCTAAACAAA
1 AAATTTCTACCTTATAATTTCCTAAACAAA
32813381 AAATTTCTACCTTATAATTTCCTAAACAA
1 AAATTTCTACCTTATAATTTCCTAAACAA
32813410 TTTTCTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.37
Consensus pattern (30 bp):
AAATTTCTACCTTATAATTTCCTAAACAAA
Found at i:32814486 original size:18 final size:18
Alignment explanation
Indices: 32814451--32814486 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32814441 GTTTATGATA
* *
32814451 TTTTATATTATGTTATTT
1 TTTTATATTATATAATTT
32814469 TTTTATATTATATAATTT
1 TTTTATATTATATAATTT
32814487 AAAATACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATATTATATAATTT
Found at i:32819666 original size:13 final size:14
Alignment explanation
Indices: 32819650--32819685 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
32819640 CAATCTCATA
32819650 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
32819663 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
32819676 TCTC-ATTTCA
1 TCTCAATTTCA
32819686 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:32819675 original size:18 final size:19
Alignment explanation
Indices: 32819637--32819677 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
32819627 TGGTTCATGT
32819637 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
32819656 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
32819674 TTTC
1 TTTC
32819678 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:32819814 original size:23 final size:23
Alignment explanation
Indices: 32819782--32819839 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
32819772 GAGGATTCCT
*
32819782 CCCAAGCACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
32819805 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
32819828 CCCAAACACACC
1 CCCAAACACACC
32819840 CGGAATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.45, C:0.43, G:0.05, T:0.07
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:32820232 original size:15 final size:15
Alignment explanation
Indices: 32820207--32820258 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
32820197 ATATATATAT
32820207 TAAATTTCAATCAATA
1 TAAA-TTCAATCAATA
*
32820223 TAAATTCAATCAAAA
1 TAAATTCAATCAATA
* *
32820238 TGATTTCAATCAATA
1 TAAATTCAATCAATA
32820253 TAAATT
1 TAAATT
32820259 TGATAAATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 26 0.87
16 4 0.13
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.37
Consensus pattern (15 bp):
TAAATTCAATCAATA
Found at i:32821239 original size:31 final size:32
Alignment explanation
Indices: 32821181--32821244 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
32821171 CATACATTTG
*
32821181 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
32821213 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
32821244 T
1 T
32821245 TATTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:32821776 original size:13 final size:14
Alignment explanation
Indices: 32821758--32821786 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
32821748 GATTAACTTC
32821758 ATAAATATTTT-TA
1 ATAAATATTTTCTA
32821771 ATAAATATTTTCTA
1 ATAAATATTTTCTA
32821785 AT
1 AT
32821787 TCATTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:32823368 original size:44 final size:44
Alignment explanation
Indices: 32822915--32823368 Score: 431
Period size: 44 Copynumber: 10.4 Consensus size: 44
32822905 TTCATTCTAA
* * * * *
32822915 TCCACTGCAACTTCAAAG-GTATAGGATTTATCGCTTCAATCTGC
1 TCCACTGCAACTTCAGAGAG-ATAAGATTTGTAGCTTTAATCTGC
*
32822959 TCCACTGCAACTTCATG-GAGATAAGATTTGTAGCTTCAATCTGC
1 TCCACTGCAACTTCA-GAGAGATAAGATTTGTAGCTTTAATCTGC
* * *
32823003 TCCACTGCAACTTCA-AGGAGATAAGATTTGCAACTTCAATCTGC
1 TCCACTGCAACTTCAGA-GAGATAAGATTTGTAGCTTTAATCTGC
* * * * *
32823047 TCCGCTGCAACTTCAGGGAGATTAGATTTGTGGCTTTAACCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTGC
* * *
32823091 TCCACTACAACTTCA-AGGAAATAAGATTAGTAGCTTTAATCTGC
1 TCCACTGCAACTTCAGA-GAGATAAGATTTGTAGCTTTAATCTGC
*
32823135 TCCACTGCAACTTCA-ATGAGATAAGATTAGTAGCTTTAATCTGC
1 TCCACTGCAACTTCAGA-GAGATAAGATTTGTAGCTTTAATCTGC
*** * * * *
32823179 TCCACAAAAAATTTCAGGGAGATAAG--GT-TCGCTTTAATCTGC
1 TCCAC-TGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTGC
* * * * * *
32823221 TCCACTGAAACTTCAGGGAGATAAAATTTGTAACTTCAATCTGT
1 TCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTGC
* * * * *
32823265 TCCACTACAACTTCAGGGAGATTAGATTTGTGGTTTTAATCTGC
1 TCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTGC
* * *
32823309 TCCACTACAACTTCAGAGAGATAAGATTTGCAGCTTTAATCCGAC
1 TCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTG-C
32823354 T-CACTGCAACTTCAG
1 TCCACTGCAACTTCAG
32823369 GGGTATAGGA
Statistics
Matches: 340, Mismatches: 58, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
41 16 0.05
42 18 0.05
43 1 0.00
44 288 0.85
45 17 0.05
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTGC
Found at i:32827694 original size:12 final size:13
Alignment explanation
Indices: 32827657--32827697 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
32827647 TAATAATAAC
32827657 AATTTACATTATT
1 AATTTACATTATT
**
32827670 AA-TTACAGCATT
1 AATTTACATTATT
32827682 AATTTA-ATTATT
1 AATTTACATTATT
32827694 AATT
1 AATT
32827698 GAATTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.49
Consensus pattern (13 bp):
AATTTACATTATT
Found at i:32832122 original size:10 final size:10
Alignment explanation
Indices: 32832107--32832136 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
32832097 CTAAATTCTA
32832107 AAAGATAAAT
1 AAAGATAAAT
32832117 AAAGATAAAT
1 AAAGATAAAT
*
32832127 AGAGATAAAT
1 AAAGATAAAT
32832137 GCTAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Done.