Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 116 of 335
Found at i:35518796 original size:23 final size:23
Alignment explanation
Indices: 35518765--35518837 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 23
35518755 CATAAATCTG
35518765 TTTAGAACACTTAAGTAATCATA
1 TTTAGAACACTTAAGTAATCATA
* *
35518788 TTATA-AACA-TAAATTAAATC-TA
1 TT-TAGAACACTTAAGT-AATCATA
*
35518810 TTTAGAACACTTAAGTAACCATAA
1 TTTAGAACACTTAAGTAATCAT-A
35518834 TTTA
1 TTTA
35518838 TTGTCAACTT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
21 2 0.05
22 15 0.38
23 15 0.38
24 7 0.18
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (23 bp):
TTTAGAACACTTAAGTAATCATA
Found at i:35525229 original size:41 final size:43
Alignment explanation
Indices: 35525047--35525269 Score: 202
Period size: 43 Copynumber: 5.2 Consensus size: 43
35525037 TCCCACAAAT
* * ** *
35525047 GCCGCTAAAGAACATGACCTTTAACAGCGTTTTTACTAAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTCTACTAAAAAC
** * * * * *
35525090 GGTGCTATAGAATATGACCTTTAGAGACGCTTCT-CATAAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTCTAC-TAAAAAC
* * * *
35525133 GCCGCTAAAGAATATGACCTTTAGTGGCGCTTTTACTAAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTCTACTAAAAAC
* * *
35525176 GCCACTATAGAACATAACCTTTAGCGGCACTTCT-C-AAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTCTACTAAAAAC
* *
35525217 GCCGCTAAAGAACATGACCTTTAGCGGCGA-TTTTACTAAAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGGC-ACTTCTACTAAAAAC
*
35525260 GCTGCTAAAG
1 GCCGCTAAAG
35525270 GTCATGTTCT
Statistics
Matches: 146, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
41 34 0.23
42 4 0.03
43 107 0.73
44 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCACTTCTACTAAAAAC
Found at i:35525254 original size:84 final size:85
Alignment explanation
Indices: 35525047--35525258 Score: 282
Period size: 86 Copynumber: 2.5 Consensus size: 85
35525037 TCCCACAAAT
* * * *** * *
35525047 GCCGCTAAAGAACATGACCTTTAACAGCGTTTTTACTAAAAACGGTGCTATAGAATATGACCTTT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGATTTTACTAAAAACGCCACTATAGAACATAACCTTT
*
35525112 AGAGACGCTTCTCATAAAAAC
66 AGAGACACTTCTCA-AAAAAC
* * *
35525133 GCCGCTAAAGAATATGACCTTTAGTGGCGCTTTTACTAAAAACGCCACTATAGAACATAACCTTT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGATTTTACTAAAAACGCCACTATAGAACATAACCTTT
* *
35525198 AGCGGCACTTCTC-AAAAAC
66 AGAGACACTTCTCAAAAAAC
35525217 GCCGCTAAAGAACATGACCTTTAGCGGCGATTTTACTAAAAA
1 GCCGCTAAAGAACATGACCTTTAGCGGCGATTTTACTAAAAA
35525259 TGCTGCTAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 45 0.41
86 65 0.59
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (85 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGATTTTACTAAAAACGCCACTATAGAACATAACCTTT
AGAGACACTTCTCAAAAAAC
Found at i:35525455 original size:43 final size:43
Alignment explanation
Indices: 35525407--35525582 Score: 155
Period size: 43 Copynumber: 4.1 Consensus size: 43
35525397 GTTTTCCCAC
* * *
35525407 AAACGCCTCTAAAGAACGTGACATTTAGCGGCGCTTCTCATAA
1 AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTCTCATAA
* * * *
35525450 AAACGCCACTAAAGAATATGACCTTTAGTGGCACTT-TTACTAA
1 AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTCTCA-TAA
* * * *
35525493 AAACGCCGCTATAGAACATGACCTTTTGCTGCGCTTCTC--AA
1 AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTCTCATAA
* * * *
35525534 AAATG-CAGCCAAAGAACATGACCTTTTGCGGCGCTT-TTACTAA
1 AAACGCCA-CTAAAGAACATGACCTTTAGCGGCGCTTCTCA-TAA
35525577 AAACGC
1 AAACGC
35525583 TGTTAAAAGT
Statistics
Matches: 104, Mismatches: 22, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
40 2 0.02
41 31 0.30
42 2 0.02
43 68 0.65
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTCTCATAA
Found at i:35525571 original size:84 final size:85
Alignment explanation
Indices: 35525407--35525582 Score: 212
Period size: 84 Copynumber: 2.1 Consensus size: 85
35525397 GTTTTCCCAC
* * * *
35525407 AAACGCCTCTAAAGAACGTGACATTTAGCGGCGCTTCTCATAAAAACGCCACTAAAGAATATGAC
1 AAACGCCGCTAAAGAACATGACATTTAGCGGCGCTTCTCA-AAAAACGCCACCAAAGAACATGAC
*
35525472 CTTTAGTGGCACTTTTACTAA
65 CTTTAGCGGCACTTTTACTAA
* * * * *
35525493 AAACGCCGCTATAGAACATGACCTTTTGCTGCGCTTCTC-AAAAATG-CAGCCAAAGAACATGAC
1 AAACGCCGCTAAAGAACATGACATTTAGCGGCGCTTCTCAAAAAACGCCA-CCAAAGAACATGAC
* *
35525556 CTTTTGCGGCGCTTTTACTAA
65 CTTTAGCGGCACTTTTACTAA
35525577 AAACGC
1 AAACGC
35525583 TGTTAAAAGT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
83 2 0.03
84 42 0.55
86 33 0.43
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGACATTTAGCGGCGCTTCTCAAAAAACGCCACCAAAGAACATGACC
TTTAGCGGCACTTTTACTAA
Found at i:35525937 original size:27 final size:23
Alignment explanation
Indices: 35525893--35525957 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 23
35525883 AAAATAGTTT
35525893 AAAAA-TT-ATAAAAA-TATTCAA
1 AAAAAGTTAATAAAAATTATT-AA
*
35525914 AAAAATGTATAATTAAAAATTATTAT
1 AAAAA-GT-TAA-TAAAAATTATTAA
35525940 AAAAAGTTAATAAAAATT
1 AAAAAGTTAATAAAAATT
35525958 CCAAAAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
21 5 0.14
23 9 0.24
24 4 0.11
25 3 0.08
26 12 0.32
27 4 0.11
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (23 bp):
AAAAAGTTAATAAAAATTATTAA
Found at i:35526235 original size:24 final size:24
Alignment explanation
Indices: 35526177--35526235 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
35526167 TATTTTTTAG
**
35526177 TATTTTATATTTGAGATTTATTTA
1 TATTTTATATTTGAGATTTATAAA
* * *
35526201 -ATCTCATTATTTGATATTTATAAA
1 TATTTTA-TATTTGAGATTTATAAA
35526225 TATTTTATATT
1 TATTTTATATT
35526236 CAATGTTGGT
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
23 4 0.15
24 18 0.69
25 4 0.15
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (24 bp):
TATTTTATATTTGAGATTTATAAA
Found at i:35527476 original size:43 final size:43
Alignment explanation
Indices: 35527415--35527503 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
35527405 CTCAAGGCAA
35527415 AGAAAGATGCAAACTCAACTTGGTTTTGATCACTTAGTATTAG
1 AGAAAGATGCAAACTCAACTTGGTTTTGATCACTTAGTATTAG
35527458 AGAAAGATGCAAACTCAACTTGGTTTTGATCACTTAGTATTAG
1 AGAAAGATGCAAACTCAACTTGGTTTTGATCACTTAGTATTAG
35527501 AGA
1 AGA
35527504 TTGAAATTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (43 bp):
AGAAAGATGCAAACTCAACTTGGTTTTGATCACTTAGTATTAG
Found at i:35530310 original size:77 final size:77
Alignment explanation
Indices: 35530143--35530326 Score: 176
Period size: 77 Copynumber: 2.4 Consensus size: 77
35530133 TTAAGAAATT
* * * * ***
35530143 AATAATTCCTAAACCATGTGAAAATTACTTAATTTCTTGAAGAATATTTAAAACTTTGAAAGGTG
1 AATAATTCCTAAATCATGTGAAAATTACTTAATTTCTTGAAGAATATTAAAAACCTTAAAAGCAC
* *
35530208 TCTGAAAATTTA
66 TCTAAAAATTGA
** *
35530220 AATAATTTATAAATCAT-TGGAAAATTACTTATATTT-TT-AAGAGTTATTAAAAACCTTAAAAG
1 AATAATTCCTAAATCATGT-GAAAATTACTTA-ATTTCTTGAAGA-ATATTAAAAACCTTAAAAG
*
35530282 CACTGTAAAAATTGA
63 CACTCTAAAAATTGA
* **
35530297 AATAATTCCTAAATTATGCAAAAATTACTT
1 AATAATTCCTAAATCATGTGAAAATTACTT
35530327 TCTTAGTATA
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
76 5 0.06
77 76 0.89
78 4 0.05
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (77 bp):
AATAATTCCTAAATCATGTGAAAATTACTTAATTTCTTGAAGAATATTAAAAACCTTAAAAGCAC
TCTAAAAATTGA
Found at i:35532495 original size:11 final size:10
Alignment explanation
Indices: 35532479--35532528 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 10
35532469 TAAAAAATAA
35532479 ATTTTTTATAT
1 ATTTTTTA-AT
*
35532490 ATTTTTTAAA
1 ATTTTTTAAT
35532500 AGTTTTTTAAT
1 A-TTTTTTAAT
*
35532511 ATTTTAT-AT
1 ATTTTTTAAT
35532520 ATTTTTTAA
1 ATTTTTTAA
35532529 AAATATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 8 0.24
10 8 0.24
11 17 0.52
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTTTTAAT
Found at i:35534552 original size:17 final size:17
Alignment explanation
Indices: 35534514--35534556 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
35534504 AATTTTATTT
*
35534514 ATTTATTTATTTTTAGC
1 ATTTTTTTATTTTTAGC
*
35534531 CTTTTTTTATTTTTAAG-
1 ATTTTTTTATTTTT-AGC
35534548 ATTTTTTTA
1 ATTTTTTTA
35534557 ATATAACACC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (17 bp):
ATTTTTTTATTTTTAGC
Found at i:35535632 original size:23 final size:22
Alignment explanation
Indices: 35535578--35535638 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
35535568 TGACACATAA
*
35535578 GTGCCTGAA-ACAACACACGAG
1 GTGCCTGAATACGACACACGAG
35535599 GTGCCTG-ATACGACACACGAG
1 GTGCCTGAATACGACACACGAG
35535620 GTGCCTGATATACGACACA
1 GTGCCTGA-ATACGACACA
35535639 TAAAGTGTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
23 10 0.28
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.15
Consensus pattern (22 bp):
GTGCCTGAATACGACACACGAG
Found at i:35538545 original size:54 final size:54
Alignment explanation
Indices: 35538459--35538602 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
35538449 TGGAGGAAGC
*
35538459 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATACATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATACATCT
*
35538513 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATACATCT
* *
35538567 GTTCTGGTGGCTTTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
35538603 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATACATCT
Found at i:35538598 original size:32 final size:27
Alignment explanation
Indices: 35538462--35538602 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
35538452 AGGAAGCGTC
* *
35538462 CTGGTGGCTATGCCACA-ATTATCTAAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
35538489 CTGGTGGCTCTGCCACATACATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
*
35538515 CCTGGTGGCTATGCCACA-ATTATCTGAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
*
35538543 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
35538570 CTGGTGGCTTTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
35538597 CTGGTG
1 CTGGTG
35538603 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
26 9 0.09
27 87 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:35538613 original size:27 final size:27
Alignment explanation
Indices: 35538462--35538620 Score: 136
Period size: 27 Copynumber: 5.9 Consensus size: 27
35538452 AGGAAGCGTC
*
35538462 CTGGTGGCTAT-GCCACAATTATCT-AAT
1 CTGGTGGCT-TCGCCACAA-TATCTGTAT
* *
35538489 CTGGTGGC-TCTGCCACATACATCTGT-C
1 CTGGTGGCTTC-GCCACA-ATATCTGTAT
35538516 CTGGTGGCTAT-GCCACAATTATCTG-AT
1 CTGGTGGCT-TCGCCACAA-TATCTGTAT
35538543 CTGGTGGC-TCTGCCACATATATCTGT-T
1 CTGGTGGCTTC-GCCACA-ATATCTGTAT
*
35538570 CTGGTGGCTTTGCCACAATATCTGTAT
1 CTGGTGGCTTCGCCACAATATCTGTAT
* *
35538597 CTGGTGACTTCGTCACAATATCTG
1 CTGGTGGCTTCGCCACAATATCTG
35538621 GCAGCCTCGC
Statistics
Matches: 109, Mismatches: 9, Indels: 28
0.75 0.06 0.19
Matches are distributed among these distances:
25 2 0.02
26 9 0.08
27 94 0.86
28 3 0.03
29 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTTCGCCACAATATCTGTAT
Found at i:35538614 original size:81 final size:80
Alignment explanation
Indices: 35538462--35538620 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 80
35538452 AGGAAGCGTC
*
35538462 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATACATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATACATCTGTCCTGGTGACTAT
35538527 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* ** * * *
35538543 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTTTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTAATCTGGTGGCTCTGCCACATACATCTGT-CCTGGTGACT
*
35538606 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
35538621 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
80 16 0.24
81 51 0.76
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATACATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:35539905 original size:3 final size:3
Alignment explanation
Indices: 35539848--35539894 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
35539838 TAAAAATCTC
35539848 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35539895 CACTATAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:35540055 original size:31 final size:34
Alignment explanation
Indices: 35540020--35540125 Score: 128
Period size: 35 Copynumber: 3.1 Consensus size: 34
35540010 TCATACAAAA
* *
35540020 ATCTTATAA-T-ATAATTAT-TTAATTAATAAAT
1 ATCTTATAACTAATAATTATAATAAATAATAAAT
*
35540051 ATCTTTTAACTTAATAATTATAATAAATAATAAAT
1 ATCTTATAAC-TAATAATTATAATAAATAATAAAT
* *
35540086 ATCTTTTTACTTAATAATTATAATAAATAATAAAT
1 ATCTTATAAC-TAATAATTATAATAAATAATAAAT
35540121 ATCTT
1 ATCTT
35540126 TTTACTTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
31 8 0.12
33 1 0.01
34 8 0.12
35 50 0.75
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (34 bp):
ATCTTATAACTAATAATTATAATAAATAATAAAT
Found at i:35540066 original size:19 final size:18
Alignment explanation
Indices: 35540037--35540102 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 18
35540027 AATATAATTA
35540037 TTTAATTAATAAATATCT
1 TTTAATTAATAAATATCT
*
35540055 TTTAACTTAAT-AAT-TAT
1 TTTAA-TTAATAAATATCT
** *
35540072 AATAAATAATAAATATCTT
1 TTTAATTAATAAATATC-T
*
35540091 TTTACTTAATAA
1 TTTAATTAATAA
35540103 TTATAATAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 7
0.69 0.18 0.14
Matches are distributed among these distances:
16 4 0.11
17 8 0.23
18 9 0.26
19 14 0.40
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAATTAATAAATATCT
Found at i:35540085 original size:35 final size:35
Alignment explanation
Indices: 35540052--35540134 Score: 157
Period size: 35 Copynumber: 2.4 Consensus size: 35
35540042 TTAATAAATA
*
35540052 TCTTTTAACTTAATAATTATAATAAATAATAAATA
1 TCTTTTTACTTAATAATTATAATAAATAATAAATA
35540087 TCTTTTTACTTAATAATTATAATAAATAATAAATA
1 TCTTTTTACTTAATAATTATAATAAATAATAAATA
35540122 TCTTTTTACTTAA
1 TCTTTTTACTTAA
35540135 ATAAAAAGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (35 bp):
TCTTTTTACTTAATAATTATAATAAATAATAAATA
Found at i:35544579 original size:319 final size:317
Alignment explanation
Indices: 35543994--35544628 Score: 1081
Period size: 319 Copynumber: 2.0 Consensus size: 317
35543984 GTATGCTATG
* * * *
35543994 GTTTGTTCACGTCCAGATTTATCATATGCAGTCATTGTAGTTAGCGGATTCATGGCGAATCCCGA
1 GTTTGTTCACGTCCAGATTTATCATATGCAGTCATTGCAGTTAGCAGATACATGGCAAATCCCGA
* *
35544059 TAAAGAACACTGGAAAGCAGTTCAGTGGATTTTAAGATACTTACGAGGTATTACTGATGTCTGCT
66 TAAAAAACACTGGAAAGCAGTTCAGTGGATTTTAAGATACTTACGAGATATTACTGATGTCTGCT
* *
35544124 TACAGTTTGGAAGAACTAGAGATGGAGTCATTGGATATGTTGATGTTGATTTTGTTGGAGACCTT
131 TACAGTTTGGAAGAACTAAAGATGGAGTCATTGGATATGTTGATGTTGATTTTGCTGGAGACCTT
*
35544189 GATAGAAGAAGATCTCTCACAGGTTGTGTCTTTACAATCAAAGGTTGTGCAATCAGTTAGAAAGA
196 GATAGAAGAAGATCTCTCACAGGTTATGTCTTTACAATCAAAGGTTGTGCAATCAGTTAGAAAGA
* *
35544254 AACTTTGCAAACTACAGTCGCTTTTTCTACCACTGAAGCTGAGTACATGGCGATTACTA
261 AACTTTGCAAACTACAGTCGCTTTGTCTACCAC--AAACTGAGTACATGGCGATTACTA
*
35544313 GTTTGTTTACGTCCAGATTTATCATATGCAGTCATTGCAGTTAGCAGATACATGGCAAATCCCGA
1 GTTTGTTCACGTCCAGATTTATCATATGCAGTCATTGCAGTTAGCAGATACATGGCAAATCCCGA
*
35544378 TAAAAAACACTGGAAAGCAGTTCAGTGGATTTTAAGATACTTACGAGATGTTACTGATGTCTGCT
66 TAAAAAACACTGGAAAGCAGTTCAGTGGATTTTAAGATACTTACGAGATATTACTGATGTCTGCT
*
35544443 TACAGTTTGGAAGAACTAAAGATGGAGTCATTGGATGTGTTGATGTTGATTTTGCTGGAGACCTT
131 TACAGTTTGGAAGAACTAAAGATGGAGTCATTGGATATGTTGATGTTGATTTTGCTGGAGACCTT
*** *
35544508 GATAGAAGAAGATCTCTCACAGGTTATGTCTTTACAATTGGAGGTTGTGCAATCAGTTAGAAAGC
196 GATAGAAGAAGATCTCTCACAGGTTATGTCTTTACAATCAAAGGTTGTGCAATCAGTTAGAAAGA
*
35544573 AACTTTGTAAACTACAGTCGCTTTGTCTACCACAAACTGAGTACATGGCGATTACT
261 AACTTTGCAAACTACAGTCGCTTTGTCTACCACAAACTGAGTACATGGCGATTACT
35544629 GAGGCTTGTA
Statistics
Matches: 297, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
317 22 0.07
319 275 0.93
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (317 bp):
GTTTGTTCACGTCCAGATTTATCATATGCAGTCATTGCAGTTAGCAGATACATGGCAAATCCCGA
TAAAAAACACTGGAAAGCAGTTCAGTGGATTTTAAGATACTTACGAGATATTACTGATGTCTGCT
TACAGTTTGGAAGAACTAAAGATGGAGTCATTGGATATGTTGATGTTGATTTTGCTGGAGACCTT
GATAGAAGAAGATCTCTCACAGGTTATGTCTTTACAATCAAAGGTTGTGCAATCAGTTAGAAAGA
AACTTTGCAAACTACAGTCGCTTTGTCTACCACAAACTGAGTACATGGCGATTACTA
Found at i:35545384 original size:16 final size:17
Alignment explanation
Indices: 35545349--35545386 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
35545339 ATCATTATTT
*
35545349 AAATAAAATACAGTAGTA
1 AAATAAAATA-AGAAGTA
35545367 AAATAAAAT-AGAAGTA
1 AAATAAAATAAGAAGTA
35545383 AAAT
1 AAAT
35545387 CTATATAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.21
Consensus pattern (17 bp):
AAATAAAATAAGAAGTA
Found at i:35545640 original size:5 final size:5
Alignment explanation
Indices: 35545630--35545669 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
35545620 CTGTGTGCTC
*
35545630 TTTAT TTTAT TTTAAT TTATTT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTT-AT TT-TAT TTTAT TTTAT TTTAT TTT
35545670 TCACAATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 23 0.74
6 7 0.23
7 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:35545656 original size:17 final size:17
Alignment explanation
Indices: 35545634--35545670 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
35545624 GTGCTCTTTA
35545634 TTTTATTTTAATTTATT
1 TTTTATTTTAATTTATT
*
35545651 TTTTATTTTATTTTATT
1 TTTTATTTTAATTTATT
35545668 TTT
1 TTT
35545671 CACAATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTATTTTAATTTATT
Found at i:35547348 original size:13 final size:13
Alignment explanation
Indices: 35547330--35547354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35547320 AAAAGCCAGC
35547330 CATTTTCGGTGGT
1 CATTTTCGGTGGT
35547343 CATTTTCGGTGG
1 CATTTTCGGTGG
35547355 CTTTCGCCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.32, T:0.44
Consensus pattern (13 bp):
CATTTTCGGTGGT
Found at i:35549124 original size:21 final size:21
Alignment explanation
Indices: 35549075--35549147 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
35549065 AGGAAATAAC
* *
35549075 ATGTGAACATTATAGGAATTCT
1 ATGTGAACA-CATAGGAATTAT
*
35549097 AATGTGAACACATAGGAGTTAT
1 -ATGTGAACACATAGGAATTAT
* *
35549119 ATGTGAACCCATAGAAATTAT
1 ATGTGAACACATAGGAATTAT
*
35549140 ATATGAAC
1 ATGTGAAC
35549148 CTTAACTACT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 25 0.58
22 9 0.21
23 9 0.21
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (21 bp):
ATGTGAACACATAGGAATTAT
Found at i:35553554 original size:20 final size:20
Alignment explanation
Indices: 35553516--35553554 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35553506 AATATTTTCT
***
35553516 TCATAAAAATAATTTAAAAA
1 TCATAAAAATAAAAAAAAAA
35553536 TCATAAAAATAAAAAAAAA
1 TCATAAAAATAAAAAAAAA
35553555 TTAAAATTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
TCATAAAAATAAAAAAAAAA
Found at i:35553615 original size:35 final size:34
Alignment explanation
Indices: 35553576--35553650 Score: 80
Period size: 36 Copynumber: 2.1 Consensus size: 34
35553566 ATAAACTAAC
35553576 TAAAATCATA-AAAAACTTATAAATAATATAAAATA
1 TAAAAT-ATATAAAAACTTATAAA-AATATAAAATA
* * * *
35553611 TAAAAATATATAATAAGTTATAAAATTATAAAATT
1 T-AAAATATATAAAAACTTATAAAAATATAAAATA
35553646 TAAAA
1 TAAAA
35553651 AAAATTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
34 4 0.12
35 14 0.41
36 16 0.47
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (34 bp):
TAAAATATATAAAAACTTATAAAAATATAAAATA
Found at i:35553618 original size:15 final size:16
Alignment explanation
Indices: 35553593--35553625 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
35553583 ATAAAAAACT
35553593 TATAAATAATATAAAA
1 TATAAATAATATAAAA
*
35553609 TATAAA-AATATATAA
1 TATAAATAATATAAAA
35553624 TA
1 TA
35553626 AGTTATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TATAAATAATATAAAA
Found at i:35553649 original size:7 final size:8
Alignment explanation
Indices: 35553587--35553650 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
35553577 AAAATCATAA
35553587 AAAACTTAT
1 AAAA-TTAT
*
35553596 AAATAATAT
1 AAA-ATTAT
35553605 AAAA-TAT
1 AAAATTAT
35553612 AAAAATATAT
1 -AAAAT-TAT
35553622 AATAAGTTAT
1 AA-AA-TTAT
35553632 AAAATTAT
1 AAAATTAT
35553640 AAAATT-T
1 AAAATTAT
35553647 AAAA
1 AAAA
35553651 AAAATTATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
7 8 0.17
8 15 0.31
9 13 0.27
10 11 0.23
11 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (8 bp):
AAAATTAT
Found at i:35553654 original size:19 final size:19
Alignment explanation
Indices: 35553632--35553755 Score: 64
Period size: 19 Copynumber: 6.6 Consensus size: 19
35553622 AATAAGTTAT
35553632 AAAATTATAAAATTTAAAA
1 AAAATTATAAAATTTAAAA
*
35553651 AAAATTATTAGAAATCTTGAAA
1 AAAATTA-TA-AAAT-TTAAAA
** *
35553673 GTAA-TA-AAAATGTAAAA
1 AAAATTATAAAATTTAAAA
**
35553690 AAAA-TATAAAA---AATT
1 AAAATTATAAAATTTAAAA
* *
35553705 AAAATTATTAAAA-TTATAT
1 AAAATTA-TAAAATTTAAAA
* *
35553724 AAACTTATAAAAATTATAAA
1 AAAATTATAAAATTTA-AAA
35553744 AAAATTATAAAA
1 AAAATTATAAAA
35553756 ACTTAAACTA
Statistics
Matches: 80, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
15 6 0.08
16 2 0.03
17 13 0.16
18 13 0.16
19 19 0.24
20 14 0.17
21 6 0.08
22 7 0.09
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATTATAAAATTTAAAA
Found at i:35553658 original size:27 final size:27
Alignment explanation
Indices: 35553602--35553658 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
35553592 TTATAAATAA
* * *
35553602 TATAAAATATAAAAATATATAATAAGT
1 TATAAAATATAAAAATATAAAAAAAAT
*
35553629 TATAAAAT-TATAAAATTTAAAAAAAAT
1 TATAAAATATA-AAAATATAAAAAAAAT
35553656 TAT
1 TAT
35553659 TAGAAATCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (27 bp):
TATAAAATATAAAAATATAAAAAAAAT
Found at i:35553700 original size:9 final size:9
Alignment explanation
Indices: 35553676--35553756 Score: 67
Period size: 9 Copynumber: 8.8 Consensus size: 9
35553666 CTTGAAAGTA
35553676 ATAAAAATGT
1 ATAAAAAT-T
* *
35553686 AAAAAAAAT
1 ATAAAAATT
35553695 ATAAAAA--
1 ATAAAAATT
*
35553702 ATTAAAATT
1 ATAAAAATT
*
35553711 ATTAAAATT
1 ATAAAAATT
*
35553720 ATATAAACTT
1 ATA-AAAATT
35553730 ATAAAAATT
1 ATAAAAATT
35553739 ATAAAAAAATT
1 AT--AAAAATT
35553750 ATAAAAA
1 ATAAAAA
35553757 CTTAAACTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
7 6 0.10
9 30 0.51
10 14 0.24
11 9 0.15
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:35553711 original size:54 final size:55
Alignment explanation
Indices: 35553651--35553762 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 55
35553641 AAATTTAAAA
*
35553651 AAAATTATTAGAAATCT-T-GAAAGTAATAAAAATGTA-AAAAAAA-TATAAAAAATT
1 AAAATTATTA-AAAT-TATAGAAACTAATAAAAAT-TATAAAAAAATTATAAAAAATT
* * *
35553705 AAAATTATTAAAATTATATAAACTTATAAAAATTATAAAAAAATTATAAAAACTT
1 AAAATTATTAAAATTATAGAAACTAATAAAAATTATAAAAAAATTATAAAAAATT
35553760 AAA
1 AAA
35553763 CTAAACCAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
52 1 0.02
53 7 0.14
54 29 0.58
55 13 0.26
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (55 bp):
AAAATTATTAAAATTATAGAAACTAATAAAAATTATAAAAAAATTATAAAAAATT
Found at i:35553748 original size:11 final size:11
Alignment explanation
Indices: 35553732--35553756 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
35553722 ATAAACTTAT
35553732 AAAAATTATAA
1 AAAAATTATAA
35553743 AAAAATTATAA
1 AAAAATTATAA
35553754 AAA
1 AAA
35553757 CTTAAACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:35553762 original size:19 final size:18
Alignment explanation
Indices: 35553676--35553762 Score: 63
Period size: 20 Copynumber: 4.7 Consensus size: 18
35553666 CTTGAAAGTA
*
35553676 ATAAAAATGTAAAAAAAAT
1 ATAAAAAT-TAAAAAAATT
35553695 ATAAAAAATT---AAAATT
1 AT-AAAAATTAAAAAAATT
* * *
35553711 ATTAAAATTATATAAACTT
1 ATAAAAATTA-AAAAAATT
35553730 ATAAAAATTATAAAAAAATT
1 ATAAAAA-T-TAAAAAAATT
35553750 ATAAAAACTTAAA
1 ATAAAAA-TTAAA
35553763 CTAAACCAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
15 6 0.11
16 7 0.13
19 18 0.33
20 21 0.39
21 2 0.04
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (18 bp):
ATAAAAATTAAAAAAATT
Found at i:35563213 original size:16 final size:15
Alignment explanation
Indices: 35563194--35563244 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
35563184 TTCATATTGG
35563194 TAATTTTTAATTTGAA
1 TAATTTTTAATTT-AA
*
35563210 TAA-TTTTAATTTAG
1 TAATTTTTAATTTAA
* *
35563224 TTATTTTTTATTTAAA
1 TAATTTTTAATTT-AA
35563240 TAATT
1 TAATT
35563245 CTCCTTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 3 0.11
15 17 0.61
16 8 0.29
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (15 bp):
TAATTTTTAATTTAA
Found at i:35563773 original size:47 final size:47
Alignment explanation
Indices: 35563704--35563797 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
35563694 GGTTAAAGTC
35563704 TACCAAAATATTATTGAAGGGACTCTTGAAGAAGCTTAGTCGACTTG
1 TACCAAAATATTATTGAAGGGACTCTTGAAGAAGCTTAGTCGACTTG
35563751 TACCAAAATATTATTGAAGGGACTCTTGAAGAAGCTTAGTCGACTTG
1 TACCAAAATATTATTGAAGGGACTCTTGAAGAAGCTTAGTCGACTTG
35563798 CAAAATATAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (47 bp):
TACCAAAATATTATTGAAGGGACTCTTGAAGAAGCTTAGTCGACTTG
Found at i:35565992 original size:15 final size:16
Alignment explanation
Indices: 35565958--35565996 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
35565948 AAATTAAACA
*
35565958 TTTTATTGAGATAATAT
1 TTTTATTAAGAT-ATAT
35565975 TTTTATTAAGAT-TAT
1 TTTTATTAAGATATAT
35565990 TTTTATT
1 TTTTATT
35565997 TAGTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
17 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTTATTAAGATATAT
Found at i:35576379 original size:36 final size:36
Alignment explanation
Indices: 35576311--35576382 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
35576301 TTTTCAACAC
* **
35576311 TTAATTTTTTCAGTTTATCAAACATATTCTAAAACT
1 TTAATTTTTTCAGTTTATCAAACACACCCTAAAACT
*
35576347 TTAATTTTTTTAGTTTATCAAACACACCCTAAAACT
1 TTAATTTTTTCAGTTTATCAAACACACCCTAAAACT
35576383 CTTGTCAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (36 bp):
TTAATTTTTTCAGTTTATCAAACACACCCTAAAACT
Found at i:35576705 original size:31 final size:31
Alignment explanation
Indices: 35576667--35576725 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
35576657 ATTTGGTTAG
**
35576667 TGAACTATTTGCAAGTTTTAATTTAAATCAC
1 TGAACTATTTAAAAGTTTTAATTTAAATCAC
**
35576698 TGAACTATTTAAAAGTTTTTCTTTAAAT
1 TGAACTATTTAAAAGTTTTAATTTAAAT
35576726 TATTGGATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (31 bp):
TGAACTATTTAAAAGTTTTAATTTAAATCAC
Found at i:35583211 original size:17 final size:16
Alignment explanation
Indices: 35583189--35583223 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
35583179 TATTCTAATT
35583189 TTATAAATCAAAAATAA
1 TTATAAA-CAAAAATAA
*
35583206 TTATAAAGAAAAATAA
1 TTATAAACAAAAATAA
35583222 TT
1 TT
35583224 TTATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
TTATAAACAAAAATAA
Found at i:35583243 original size:23 final size:21
Alignment explanation
Indices: 35583216--35583277 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
35583206 TTATAAAGAA
35583216 AAATAATTTTATTAAAAATATAT
1 AAATAATTTTA-TAAAAAT-TAT
*
35583239 CAATATATTTGTA-AAAAATTAT
1 AAATA-ATTT-TATAAAAATTAT
*
35583261 AAATAGTTTTAATAAAA
1 AAATAATTTT-ATAAAA
35583278 TAATATTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 1 0.03
21 4 0.12
22 11 0.34
23 10 0.31
24 4 0.12
25 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (21 bp):
AAATAATTTTATAAAAATTAT
Found at i:35586404 original size:99 final size:99
Alignment explanation
Indices: 35586233--35586415 Score: 366
Period size: 99 Copynumber: 1.8 Consensus size: 99
35586223 AAGGCAAACC
35586233 GTGCACCTGCCACACGTAGCAATTTGACATTTTCATTAGCTCGGCTCTAAAAAGATGCCTCAAGC
1 GTGCACCTGCCACACGTAGCAATTTGACATTTTCATTAGCTCGGCTCTAAAAAGATGCCTCAAGC
35586298 AATCTAACTGAAGAAAATATGCCTCAAGCAATCT
66 AATCTAACTGAAGAAAATATGCCTCAAGCAATCT
35586332 GTGCACCTGCCACACGTAGCAATTTGACATTTTCATTAGCTCGGCTCTAAAAAGATGCCTCAAGC
1 GTGCACCTGCCACACGTAGCAATTTGACATTTTCATTAGCTCGGCTCTAAAAAGATGCCTCAAGC
35586397 AATCTAACTGAAGAAAATA
66 AATCTAACTGAAGAAAATA
35586416 AGTAAAAAGT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 84 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (99 bp):
GTGCACCTGCCACACGTAGCAATTTGACATTTTCATTAGCTCGGCTCTAAAAAGATGCCTCAAGC
AATCTAACTGAAGAAAATATGCCTCAAGCAATCT
Found at i:35590613 original size:3 final size:3
Alignment explanation
Indices: 35590605--35590650 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
35590595 CTTTCAACTT
35590605 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
35590651 CTTCCAACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:35590982 original size:5 final size:5
Alignment explanation
Indices: 35590972--35590996 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
35590962 TACCCAGTAT
35590972 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
35590997 TGACAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:35594365 original size:31 final size:31
Alignment explanation
Indices: 35594324--35594383 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
35594314 CCTTTTCATA
*
35594324 TTTCATATTTCATAACACTGGGCCGAAGCTT
1 TTTCAAATTTCATAACACTGGGCCGAAGCTT
**
35594355 TTTCAAATTTCATATTACTGGGCCGAAGC
1 TTTCAAATTTCATAACACTGGGCCGAAGC
35594384 CTTTACTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCTT
Found at i:35594634 original size:24 final size:24
Alignment explanation
Indices: 35594581--35594750 Score: 220
Period size: 25 Copynumber: 7.0 Consensus size: 24
35594571 GCTTTATCAT
*
35594581 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* *
35594605 ATTAACTGGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
35594630 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
35594655 ATAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
35594680 ATAACTGGGGCATAAGCCCTTTCTC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
35594705 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
35594728 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
35594751 GCACTTCCTC
Statistics
Matches: 132, Mismatches: 7, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
23 20 0.15
24 34 0.26
25 78 0.59
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:35594822 original size:9 final size:9
Alignment explanation
Indices: 35594808--35594864 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
35594798 ATCTCATGTG
35594808 CATATCATA
1 CATATCATA
*
35594817 CATATCATGTG
1 CATATCA--TA
35594828 CATATCATA
1 CATATCATA
* *
35594837 CATGTCATGTG
1 CATATCA--TA
35594848 CATATCATA
1 CATATCATA
35594857 CATATCAT
1 CATATCAT
35594865 GTTTATTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:35594824 original size:20 final size:20
Alignment explanation
Indices: 35594796--35594866 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
35594786 GCATTTATGA
*
35594796 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
35594816 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
35594836 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
35594856 ACATATCATGT
1 ACATATCATGT
35594867 TTATTAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:35594831 original size:11 final size:11
Alignment explanation
Indices: 35594801--35594855 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
35594791 TATGAACATC
35594801 TCATGTGCATA
1 TCATGTGCATA
*
35594812 TCA--TACATA
1 TCATGTGCATA
35594821 TCATGTGCATA
1 TCATGTGCATA
* *
35594832 TCA--TACATG
1 TCATGTGCATA
35594841 TCATGTGCATA
1 TCATGTGCATA
35594852 TCAT
1 TCAT
35594856 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:35596248 original size:27 final size:27
Alignment explanation
Indices: 35596218--35596270 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
35596208 GGGTGTTTTG
35596218 GTAAATCTATAAACCAAGGGTATTTCA
1 GTAAATCTATAAACCAAGGGTATTTCA
* * * *
35596245 GTAATTTTGTAAACCAATGGTATTTC
1 GTAAATCTATAAACCAAGGGTATTTC
35596271 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (27 bp):
GTAAATCTATAAACCAAGGGTATTTCA
Found at i:35596276 original size:27 final size:27
Alignment explanation
Indices: 35596227--35596457 Score: 105
Period size: 27 Copynumber: 8.5 Consensus size: 27
35596217 GGTAAATCTA
35596227 TAAACCAAGGGTATTTC-AGTAATTTTG
1 TAAACCAAGGGTATTTCTA-TAATTTTG
*
35596254 TAAACCAATGGTATTTCTATAATTTT-
1 TAAACCAAGGGTATTTCTATAATTTTG
* *
35596280 TAGAAAGTCAAGGGTATTTCTATAACTTTG
1 T--AAA-CCAAGGGTATTTCTATAATTTTG
* * * *
35596310 TAAATCAGGGGTATTT-TGGTAATTTTA
1 TAAACCAAGGGTATTTCT-ATAATTTTG
* *** ** **
35596337 CAAATTGAGGGTATTTCGGTAATTTCA
1 TAAACCAAGGGTATTTCTATAATTTTG
* * *
35596364 CAAACCAAGGGTATTT-TGGTAATTTTA
1 TAAACCAAGGGTATTTCT-ATAATTTTG
* * * * *
35596391 CAAACTAGGGGTATTT-TGGTAATTTTA
1 TAAACCAAGGGTATTTCT-ATAATTTTG
* *
35596418 CAAACTAAGGGTATTT-TAGTAATTTTG
1 TAAACCAAGGGTATTTCTA-TAATTTTG
* *
35596445 TAAATCGAGGGTA
1 TAAACCAAGGGTA
35596458 AAACAGTAAT
Statistics
Matches: 167, Mismatches: 28, Indels: 18
0.78 0.13 0.08
Matches are distributed among these distances:
26 2 0.01
27 138 0.83
28 7 0.04
29 19 0.11
30 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
TAAACCAAGGGTATTTCTATAATTTTG
Found at i:35596376 original size:54 final size:54
Alignment explanation
Indices: 35596318--35596457 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
35596308 TGTAAATCAG
35596318 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * * *
35596372 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* ** *
35596426 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
35596458 AAACAGTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:35596465 original size:27 final size:27
Alignment explanation
Indices: 35596436--35596646 Score: 253
Period size: 27 Copynumber: 7.8 Consensus size: 27
35596426 GGGTATTTTA
* *
35596436 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
35596463 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
35596490 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
** *
35596517 GTAATTCTGTAAATTAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
35596544 GTAATTTTGTAAGTTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
35596571 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
35596598 GTAATTCTATAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
35596625 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
35596647 CTTTGGTAAT
Statistics
Matches: 158, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 157 0.99
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:35596467 original size:54 final size:53
Alignment explanation
Indices: 35596409--35596630 Score: 173
Period size: 54 Copynumber: 4.1 Consensus size: 53
35596399 GGGTATTTTG
***
35596409 GTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTTTA-AAACTAAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
* * * *
35596463 GTAATTCTGTAAATC-AAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATT-T-TAAAACTAAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
* * * *
35596517 GTAATTCTGT-AAATTAAGGGTAAAATGGTAATTTTGTAAGTTGAGGGTAAAAC-
1 GTAATT-T-TAAAACTAAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
* * ** * * * *
35596570 GATAATTATGTAAATC-AGGGGTAAAACGGTAATTCTATAAATCGGGGGTAAAACG
1 G-TAATT-T-TAAAACTAAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
35596625 GTAATT
1 GTAATT
35596631 CTGTAAATCG
Statistics
Matches: 138, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
53 3 0.02
54 126 0.91
55 7 0.05
56 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (53 bp):
GTAATTTTAAAACTAAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACA
Found at i:35596467 original size:81 final size:81
Alignment explanation
Indices: 35596316--35596468 Score: 180
Period size: 81 Copynumber: 1.9 Consensus size: 81
35596306 TTTGTAAATC
* * * ****
35596316 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAAC
*
35596381 GGTAATTTTACAAACT
66 AGTAATTTTACAAACT
* *** * *
35596397 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAAC
35596462 AGTAATT
66 AGTAATT
35596469 CTGTAAATCA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 58 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAAC
AGTAATTTTACAAACT
Found at i:35596654 original size:108 final size:108
Alignment explanation
Indices: 35596424--35596659 Score: 321
Period size: 108 Copynumber: 2.2 Consensus size: 108
35596414 TTTACAAACT
* * * *
35596424 AAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAT
1 AAGGGTAATTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAAC
*
35596489 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATT
66 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
** * * *
35596532 AAGGGTAAAATGGTAATTTTGTAAGTTGAGGGTAAAAC-GATAATTATGTAAATCAGGGGTAAAA
1 AAGGGTAATTTGGTAATTTTGTAAATCGAGGGTAAAACAG-TAATTATGTAAATCAAGGGTAAAA
* *
35596596 CGGTAATTCTATAAATCGGGGGTAAAACGGTAATTCTGTAAATC
65 CAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
** *
35596640 GGGGGTACTTTGGTAATTTT
1 AAGGGTAATTTGGTAATTTT
35596660 ACAAGTCGAA
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 1 0.01
108 109 0.99
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (108 bp):
AAGGGTAATTTGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAAC
AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
Found at i:35596657 original size:54 final size:54
Alignment explanation
Indices: 35596436--35596639 Score: 282
Period size: 54 Copynumber: 3.8 Consensus size: 54
35596426 GGGTATTTTA
* * * *
35596436 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
*
35596490 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATTAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
* * * * * * * *
35596544 GTAATTTTGTAAGTTGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
*
35596598 GTAATTCTATAAATCGGGGGTAAAACGGTAATTCTGTAAATC
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
35596640 GGGGGTACTT
Statistics
Matches: 129, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 129 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATG
Found at i:35596711 original size:26 final size:27
Alignment explanation
Indices: 35596652--35596741 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
35596642 GGGTACTTTG
*
35596652 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
35596679 GTAATTTTACAAATCG-AGGTTATTTCA
1 GTAATTTTACAAATCGAAGG-TATTTCA
* * *
35596706 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
35596733 GTAATTTTA
1 GTAATTTTA
35596742 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
26 4 0.07
27 49 0.89
28 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:35596755 original size:27 final size:27
Alignment explanation
Indices: 35596652--35596756 Score: 83
Period size: 27 Copynumber: 3.9 Consensus size: 27
35596642 GGGTACTTTG
* *
35596652 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
*
35596679 GTAATTTTACAAA-T-CGAGGTTATTTCA
1 GTAATTTTACAAACTAAGA-G-TATTTCA
* * *
35596706 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
35596733 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
35596757 CTAAACATGG
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
24 1 0.02
26 1 0.02
27 50 0.81
28 9 0.15
29 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:35599757 original size:23 final size:24
Alignment explanation
Indices: 35599711--35599765 Score: 94
Period size: 23 Copynumber: 2.3 Consensus size: 24
35599701 CAGCAACTAA
35599711 TAAATTTGTCCCAACTAAGACACAT
1 TAAA-TTGTCCCAACTAAGACACAT
35599736 TAAATTGTCCCAAC-AAGACACAT
1 TAAATTGTCCCAACTAAGACACAT
35599759 TAAATTG
1 TAAATTG
35599766 ATGCATGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 16 0.53
24 10 0.33
25 4 0.13
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (24 bp):
TAAATTGTCCCAACTAAGACACAT
Found at i:35603495 original size:21 final size:20
Alignment explanation
Indices: 35603473--35603523 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
35603463 ATTACAAAGA
35603473 AAAATCAAAATAATTTTAAG
1 AAAATCAAAATAATTTTAAG
* * *
35603493 AAATTTAAAATAATTTTTA-
1 AAAATCAAAATAATTTTAAG
*
35603512 AAATTCAAAATA
1 AAAATCAAAATA
35603524 TTTATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATCAAAATAATTTTAAG
Found at i:35603504 original size:20 final size:19
Alignment explanation
Indices: 35603472--35603542 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
35603462 AATTACAAAG
35603472 AAAAA-TCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
35603490 AAGAAATTTAAAATAATTTT
1 AA-AAATTCAAAATAATTTT
*
35603510 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
35603529 AAAATTTCCAAAAT
1 AAAAATT-CAAAAT
35603543 TTATATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 6 0.14
19 19 0.43
20 19 0.43
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:35603515 original size:19 final size:19
Alignment explanation
Indices: 35603479--35603535 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
35603469 AAGAAAAATC
*
35603479 AAAATAATTTTAAGAAATTT
1 AAAATAATTTTTA-AAATTT
*
35603499 AAAATAATTTTTAAAATTC
1 AAAATAATTTTTAAAATTT
*
35603518 AAAAT-ATTTATAAAATTT
1 AAAATAATTTTTAAAATTT
35603536 CCAAAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.33
19 10 0.30
20 12 0.36
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AAAATAATTTTTAAAATTT
Found at i:35603531 original size:18 final size:18
Alignment explanation
Indices: 35603493--35603547 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
35603483 TAATTTTAAG
* *
35603493 AAATTTAAAATAATTTTTA
1 AAATTCAAAAT-ATTTATA
35603512 AAATTCAAAATATTTATA
1 AAATTCAAAATATTTATA
*
35603530 AAATTTCCAAA-ATTTATA
1 AAA-TTCAAAATATTTATA
35603548 TTTTTTAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTCAAAATATTTATA
Found at i:35603735 original size:16 final size:16
Alignment explanation
Indices: 35603716--35603746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35603706 TTAAAAAAGT
35603716 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
35603732 TTTCAAATTTATATG
1 TTTCAAATATATATG
35603747 CTCTAACATG
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:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:35609433 original size:93 final size:93
Alignment explanation
Indices: 35609274--35609445 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
35609264 CGCCCATAAG
* * *
35609274 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35609339 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
35609367 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35609432 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
35609446 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:35609442 original size:46 final size:46
Alignment explanation
Indices: 35609267--35609442 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
35609257 TGTAACCCGC
* * *
35609267 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
35609313 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
35609363 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
35609406 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
35609443 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.58
47 29 0.27
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:35609461 original size:46 final size:45
Alignment explanation
Indices: 35609275--35609461 Score: 134
Period size: 46 Copynumber: 4.0 Consensus size: 45
35609265 GCCCATAAGC
* ** * *
35609275 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-C-TA-GT
* *
35609321 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGT
* * * *
35609368 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCTAGT
35609414 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGT
35609460 GA
1 GA
35609462 CAGGTCACTT
Statistics
Matches: 113, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 61 0.54
47 31 0.27
48 1 0.01
49 5 0.04
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGT
Found at i:35611841 original size:14 final size:14
Alignment explanation
Indices: 35611822--35611899 Score: 75
Period size: 14 Copynumber: 5.4 Consensus size: 14
35611812 CAAAGATAAC
*
35611822 AAGAAAACCGAATA
1 AAGAAATCCGAATA
*
35611836 AAGAAATCCAAGATA
1 AAGAAATCCGA-ATA
* *
35611851 GAGAAACCCGAATA
1 AAGAAATCCGAATA
35611865 AAGAAATCCAGAATA
1 AAGAAATCC-GAATA
* * *
35611880 AAGAGATCAGGATA
1 AAGAAATCCGAATA
35611894 AAGAAA
1 AAGAAA
35611900 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
14 28 0.55
15 23 0.45
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAATCCGAATA
Found at i:35614919 original size:92 final size:92
Alignment explanation
Indices: 35614808--35614977 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
35614798 CGCCCATAAG
* *
35614808 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35614873 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
35614900 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35614965 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35614978 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:35614974 original size:46 final size:46
Alignment explanation
Indices: 35614801--35614974 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
35614791 TGTAACCCGC
* * *
35614801 CCATAAG-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
35614846 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* * *
35614892 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
35614938 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35614975 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 9 0.08
46 90 0.82
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:35614993 original size:46 final size:46
Alignment explanation
Indices: 35614808--35614993 Score: 145
Period size: 46 Copynumber: 4.0 Consensus size: 46
35614798 CGCCCATAAG
* ** * *
35614808 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
35614854 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * * *
35614900 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
35614946 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
35614992 GA
1 GA
35614994 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 28
0.73 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 92 0.81
47 1 0.01
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:35626681 original size:1 final size:1
Alignment explanation
Indices: 35626675--35626699 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
35626665 TTTCCCTCTC
35626675 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
35626700 CCTTTCCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:35627117 original size:3 final size:3
Alignment explanation
Indices: 35627103--35627200 Score: 76
Period size: 3 Copynumber: 31.3 Consensus size: 3
35627093 CTATTTCCTG
* *
35627103 TTA TTA TCTA TTA TTA TTA TTTA TTA TTA -TA TAA TTG TTA TTCA -TA
1 TTA TTA T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT-A TTA
* *
35627149 TATA TTAA TTA -TA TGTA TTC TCTA TTA TTA TTA TTA TTA TTA GTA TTA
1 T-TA TT-A TTA TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
35627197 TTA T
1 TTA T
35627201 ATTTATGCAC
Statistics
Matches: 77, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
2 5 0.06
3 54 0.70
4 18 0.23
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:35627160 original size:17 final size:15
Alignment explanation
Indices: 35627111--35627200 Score: 68
Period size: 13 Copynumber: 6.2 Consensus size: 15
35627101 TGTTATTATC
35627111 TATTATTAT-TAT-T
1 TATTATTATATATAT
35627124 TATTATTATATA-AT
1 TATTATTATATATAT
*
35627138 TGTTATTCATATATAT
1 TATTATT-ATATATAT
*
35627154 TA--ATTATATGTAT
1 TATTATTATATATAT
*
35627167 TCTCTATTAT-TATTAT
1 TAT-TATTATATA-TAT
35627183 TATTATTAGTAT-TAT
1 TATTATTA-TATATAT
35627198 TAT
1 TAT
35627201 ATTTATGCAC
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
13 17 0.28
14 12 0.20
15 17 0.28
16 14 0.23
17 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTATTATATATAT
Found at i:35627479 original size:4 final size:4
Alignment explanation
Indices: 35627462--35627495 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
35627452 AATATTTGTA
*
35627462 TTAT TTAT TGAT TTAT TTAT TTAT TTAT TATAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-TAT T
35627496 ATTATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:35640191 original size:70 final size:70
Alignment explanation
Indices: 35639875--35640339 Score: 453
Period size: 70 Copynumber: 6.5 Consensus size: 70
35639865 GTTTTCCAAG
*
35639875 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
35639940 GTTCA
66 GTTCC
* ** * * * * *
35639945 AAAATCAATTCATATTGCGAGAAATGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTAGTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTAATTTCAATTT
*
35640010 ATGTTTC
64 ATGTTCC
* ** * * * * ** *
35640017 AAGAATTTTAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGATGTTTTTAATT
1 AA-AA--TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT
* *
35640082 CCTGTTGTTTCA
63 --T-ATG-TTCC
*
35640094 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
35640159 GTTCC
66 GTTCC
* *
35640164 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
35640229 GTTCC
66 GTTCC
** * ** * * * * *
35640234 AAAATCAACTCATATTGCGAGAAATGAATTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
**
35640299 GTTAG
66 GTTCC
** * * * *
35640304 AAAATTGACTCATCTTGCGAAAGATGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
35640340 TTTAACTTCT
Statistics
Matches: 327, Mismatches: 59, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
70 192 0.59
71 2 0.01
72 27 0.08
73 20 0.06
74 47 0.14
75 31 0.09
76 4 0.01
77 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTCC
Found at i:35640483 original size:73 final size:70
Alignment explanation
Indices: 35640358--35640539 Score: 168
Period size: 73 Copynumber: 2.5 Consensus size: 70
35640348 CTGTTTTTCA
* * * * ** *
35640358 AAAATCAACTCATATTGCGAGAGATGAGCTGAACCTCGGGGCACGCTGAGGTA-ATTCCAATTCT
1 AAAATCAACTCATATTGCGAGAG-TGAGTTGAGCCTTGCGGCACGCCAAGGTATATTCAAATTC-
35640422 TATTAAATC
64 TATT--ATC
** * *
35640431 TGAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGCGGCATGCCAAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTTGCGGCACGCCAAGGTATATTCAAATTCT
*
35640496 ATTTTC
65 ATTATC
* *
35640502 AAAAGTCAATTCATATTGCGAGGGGTGAGTTGAGCCTT
1 AAAA-TCAACTCATATTGCGA-GAGTGAGTTGAGCCTT
35640540 TAATTTCCGT
Statistics
Matches: 89, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
71 4 0.04
72 29 0.33
73 46 0.52
74 10 0.11
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTTGCGGCACGCCAAGGTATATTCAAATTCTA
TTATC
Found at i:35640622 original size:13 final size:13
Alignment explanation
Indices: 35640604--35640628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35640594 TGAGTTGAGC
35640604 CTTTTAATTTCTG
1 CTTTTAATTTCTG
35640617 CTTTTAATTTCT
1 CTTTTAATTTCT
35640629 ATGTTTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.04, T:0.64
Consensus pattern (13 bp):
CTTTTAATTTCTG
Found at i:35640636 original size:67 final size:67
Alignment explanation
Indices: 35640484--35640672 Score: 197
Period size: 67 Copynumber: 2.8 Consensus size: 67
35640474 TGCCAAGGTA
* * *
35640484 TTTTCAAATTCTA-TTTTCAAAAGTCAATTCATATTGCGAGGGGTGAGTTGAGCC-TTTAATTTC
1 TTTTCAAA-TCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
*
35640547 CGT
65 CGC
** *
35640550 TTTTCGAAATCTACTTTTCAATTATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TTTTC-AAATCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
*
35640615 TGC
65 CGC
* * * **
35640618 TTTT-AATTTCTA-TGTTTCAAAAATCAACCCATATTGCGAAAAATGAGTTGAGCCT
1 TTTTCAA-ATCTACT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
35640673 CAGTTCACCT
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
66 12 0.12
67 76 0.75
68 14 0.14
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (67 bp):
TTTTCAAATCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCC
GC
Found at i:35642527 original size:3 final size:3
Alignment explanation
Indices: 35642513--35642613 Score: 82
Period size: 3 Copynumber: 32.3 Consensus size: 3
35642503 CTATTTCCTG
* *
35642513 TTA TTA TCTA TTA TTA TTA TTTA TTA TTA TTA -TA TAA TTG TTA TTCA
1 TTA TTA T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* *
35642560 -TA TATA TTAA TTA -TA TGTA TTC TCTA TTA TTA TTA TTA TTA TTA GTA
1 TTA T-TA TT-A TTA TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
35642607 TTA TTA T
1 TTA TTA T
35642614 ATTTATGCAC
Statistics
Matches: 80, Mismatches: 8, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
2 5 0.06
3 57 0.71
4 18 0.22
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:35642531 original size:13 final size:12
Alignment explanation
Indices: 35642513--35642613 Score: 82
Period size: 13 Copynumber: 8.1 Consensus size: 12
35642503 CTATTTCCTG
35642513 TTATTATCTATTA
1 TTATTAT-TATTA
35642526 TTATTATTTATTA
1 TTATTA-TTATTA
*
35642539 TTATTA-TATAA
1 TTATTATTATTA
*
35642550 TTGTTATTCA-TA
1 TTATTATT-ATTA
35642562 TATATTAATTA-TA
1 T-TATT-ATTATTA
*
35642575 TGTATTCTCTATTA
1 T-TATTAT-TATTA
35642589 TTATTATTATTA
1 TTATTATTATTA
*
35642601 TTAGTATTATTA
1 TTATTATTATTA
35642613 T
1 T
35642614 ATTTATGCAC
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
11 9 0.12
12 21 0.29
13 36 0.49
14 7 0.10
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:35642892 original size:4 final size:4
Alignment explanation
Indices: 35642875--35642911 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
35642865 AATATTTGTA
*
35642875 TTAT TTAT TGAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
35642912 ATTATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:35648781 original size:2 final size:2
Alignment explanation
Indices: 35648776--35648800 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35648766 AAACACACAC
35648776 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
35648801 CACACATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35654839 original size:43 final size:43
Alignment explanation
Indices: 35654792--35654877 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
35654782 AAAAAAAAGA
*
35654792 GTGAAGGATAAAAAATTTGTAATGGTTTGAAAAACCTCAAAAC
1 GTGAACGATAAAAAATTTGTAATGGTTTGAAAAACCTCAAAAC
35654835 GTGAACGATAAAAAATTTGTAATGGTTTGAAAAACCTCAAAAC
1 GTGAACGATAAAAAATTTGTAATGGTTTGAAAAACCTCAAAAC
35654878 TAAGTATTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.26
Consensus pattern (43 bp):
GTGAACGATAAAAAATTTGTAATGGTTTGAAAAACCTCAAAAC
Found at i:35656324 original size:17 final size:18
Alignment explanation
Indices: 35656302--35656343 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
35656292 GATATTATTT
35656302 ATTAAATTAATTTTC-CA
1 ATTAAATTAATTTTCTCA
35656319 ATTAAA-TAATTTTCTCA
1 ATTAAATTAATTTTCTCA
*
35656336 AGTAAATT
1 ATTAAATT
35656344 TTAATTCCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 13 0.59
18 1 0.05
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATTTTCTCA
Found at i:35657457 original size:171 final size:172
Alignment explanation
Indices: 35657160--35657503 Score: 627
Period size: 171 Copynumber: 2.0 Consensus size: 172
35657150 CCTTAAAGGT
35657160 AGCTTGGGGGATACACTTGATTTCACTTGGATTAAATAAGAACTATTTTATTTCCTTTCCAAATT
1 AGCTTGGGGGATACACTTGATTTCACTTGGATTAAATAAGAACTATTTTATTTCCTTTCCAAATT
* * *
35657225 CATGCGTCAATAGCTACTGCTATTTCATTTCCTTGTTCTTGCAAAATTTATTTAATTGCTTTTCA
66 CATGCGTCAATAGCTACTGCAATTCCATTTCCTTGCTCTTGCAAAATTTATTTAATTGCTTTTCA
*
35657290 AGTCTCTTCCTTTCCCAATTTCCACCATTTTCATTTAAACTC
131 AGTCTCTTCCTTTCCCAATTTCCACCATTTTCATTCAAACTC
35657332 AGCTT-GGGGATACACTTGATTTCACTTGGATTAAATAAGAACTATTTTATTTCCTTTCCAAATT
1 AGCTTGGGGGATACACTTGATTTCACTTGGATTAAATAAGAACTATTTTATTTCCTTTCCAAATT
* *
35657396 CATGCGTCAATAGCTACTGCAATTCCATTTCCTTGCTCTTGCAAAATTTGTTTATTTGCTTTTCA
66 CATGCGTCAATAGCTACTGCAATTCCATTTCCTTGCTCTTGCAAAATTTATTTAATTGCTTTTCA
35657461 AGTCTCTTCCTTTCCCAATTTCCACCATTTTCATTCAAACTC
131 AGTCTCTTCCTTTCCCAATTTCCACCATTTTCATTCAAACTC
35657503 A
1 A
35657504 TTCCATAGCC
Statistics
Matches: 166, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
171 161 0.97
172 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.42
Consensus pattern (172 bp):
AGCTTGGGGGATACACTTGATTTCACTTGGATTAAATAAGAACTATTTTATTTCCTTTCCAAATT
CATGCGTCAATAGCTACTGCAATTCCATTTCCTTGCTCTTGCAAAATTTATTTAATTGCTTTTCA
AGTCTCTTCCTTTCCCAATTTCCACCATTTTCATTCAAACTC
Found at i:35659640 original size:30 final size:30
Alignment explanation
Indices: 35659604--35659661 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
35659594 AAGACGAATT
* *
35659604 CCACACGGGCTGAG-CACATGCCCGTGTGAG
1 CCACACGGGCT-AGCCACACGCCCATGTGAG
35659634 CCACACGGGCTAGCCACACGCCCATGTG
1 CCACACGGGCTAGCCACACGCCCATGTG
35659662 GCAGCCTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.21, C:0.38, G:0.29, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTAGCCACACGCCCATGTGAG
Found at i:35667505 original size:16 final size:16
Alignment explanation
Indices: 35667486--35667516 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
35667476 AAACTGAGAA
35667486 AAAAATAAAAATAAAT
1 AAAAATAAAAATAAAT
35667502 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
35667517 GAACACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:35678230 original size:23 final size:24
Alignment explanation
Indices: 35678180--35678231 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
35678170 TTGTTTTATT
* * *
35678180 TTTATTTTTATTTTTTTGCCCTTA
1 TTTATTGTTATTTTATTGCCATTA
35678204 -TTATTGTTATTTTATT-CCATTA
1 TTTATTGTTATTTTATTGCCATTA
35678226 TTTATT
1 TTTATT
35678232 TGTTTATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.17, C:0.10, G:0.04, T:0.69
Consensus pattern (24 bp):
TTTATTGTTATTTTATTGCCATTA
Found at i:35678282 original size:3 final size:3
Alignment explanation
Indices: 35678266--35678347 Score: 60
Period size: 3 Copynumber: 27.0 Consensus size: 3
35678256 TAAAATTTAG
* * *
35678266 ATT ATT CATC ATT ATT ATT ATT ATT ATT GTT ATT GTT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
35678312 GTT ATT -TAT ATT ATC ATGT -TC ATT ATT ATT ACT ATT
1 ATT ATT AT-T ATT ATT AT-T ATT ATT ATT ATT ATT ATT
35678348 TATGCATGTT
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
2 1 0.02
3 56 0.93
4 3 0.05
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:35678304 original size:18 final size:18
Alignment explanation
Indices: 35678277--35678347 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
35678267 TTATTCATCA
35678277 TTATTATTATTATTATTG
1 TTATTATTATTATTATTG
*
35678295 TTATTGTTATTATTATTG
1 TTATTATTATTATTATTG
*
35678313 TTATT-TATATTATCA-TG
1 TTATTAT-TATTATTATTG
*
35678330 TTCATTATTATTACTATT
1 TT-ATTATTATTATTATT
35678348 TATGCATGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
17 5 0.11
18 38 0.84
19 2 0.04
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (18 bp):
TTATTATTATTATTATTG
Found at i:35690262 original size:44 final size:44
Alignment explanation
Indices: 35690199--35690308 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
35690189 CATGGAAAAT
* ** * *
35690199 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGTTAAC
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAACCATTAAC
* *
35690243 CTTATCTCCTTAAAGTTGCAGTGGAACAGATTAAAACCATTAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAACCATTAAC
* * *
35690287 CTTATCTCTCTGAAGCTGCAGT
1 CTTATCTCCCTAAAGTTGCAGT
35690309 AGAGCAGGTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAACCATTAAC
Found at i:35690602 original size:44 final size:44
Alignment explanation
Indices: 35690546--35690808 Score: 224
Period size: 44 Copynumber: 5.9 Consensus size: 44
35690536 TGAAAATGGA
* * *
35690546 GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGCCAC
1 GAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAC
* *
35690590 GAATCTTATCTCCCTGAAGTTACAATGGAACAGATTAAAGCCAC
1 GAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAC
* * * * * *
35690634 -ACGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-AAA
1 GA-ATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAC
* * * * *
35690677 GAAAATCTTATCTCTCTAAAGTTGCAATAGAGCAGATTAAAGCTAT
1 G--AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAC
* * * * * * **
35690723 AAACCTTATCTCCATGAAATTGCAATGGAGTAGATTGAAGATAGC
1 GAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCA-C
* * * *
35690768 GAATCTCATTTCCCTGAAGTTGCAGTGGGGCAGATTAAAGC
1 GAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGC
35690809 TATAAGTCAC
Statistics
Matches: 169, Mismatches: 44, Indels: 11
0.75 0.20 0.05
Matches are distributed among these distances:
43 2 0.01
44 104 0.62
45 61 0.36
46 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (44 bp):
GAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAC
Found at i:35690731 original size:89 final size:87
Alignment explanation
Indices: 35690550--35690813 Score: 267
Period size: 89 Copynumber: 3.0 Consensus size: 87
35690540 AATGGAGAAT
* * * * *
35690550 CTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGCCACGAATCTTATCTCCCTGAAGTTACAA
1 CTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAG-AAAGAATCTTATCTCCCTGAAGTTGCAA
* * * ***
35690615 TGGAACAGATTAAAGCCACACGT
65 TGGAGCAGATTAAAGCTATAAAC
* * *
35690638 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGAAAATCTTATCTCTCTAAAGTTGCA
1 CTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGAAAG--AATCTTATCTCCCTGAAGTTGCA
*
35690703 ATAGAGCAGATTAAAGCTATAAAC
64 ATGGAGCAGATTAAAGCTATAAAC
* * * * * * *
35690727 CTTATCTCCATGAAATTGCAATGGAGTAGATTGAAGATAGCGAATCTCATTTCCCTGAAGTTGCA
1 CTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGA-A-AGAATCTTATCTCCCTGAAGTTGCA
* *
35690792 GTGGGGCAGATTAAAGCTATAA
64 ATGGAGCAGATTAAAGCTATAA
35690814 GTCACAAATC
Statistics
Matches: 145, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
87 2 0.01
88 34 0.23
89 107 0.74
90 1 0.01
91 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (87 bp):
CTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGAAAGAATCTTATCTCCCTGAAGTTGCAAT
GGAGCAGATTAAAGCTATAAAC
Found at i:35690758 original size:133 final size:133
Alignment explanation
Indices: 35690503--35690801 Score: 291
Period size: 133 Copynumber: 2.2 Consensus size: 133
35690493 GAAGTTATGA
* * * * * * * * *
35690503 ATCTCAACTCCCTAAAGTTACAGTGGAGTAAATTGAA-AATGGAGAATCTTATCTCCTTGAAGTT
1 ATCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAA-AGAAAATCTTATCTCCTTAAAGTT
* * * * * *
35690567 GCAGTGGAGCAGACTAAAGCCACGAATCTTATCTCCCTGAAGTTACAATGGAACAGATTAAAGCC
65 GCAATAGAGCAGACTAAAGCCACAAACCTTATCTCCATGAAATTACAATGGAACAGATTAAAG--
35690632 ACA-CG
128 ACAGCG
*
35690637 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGAAAATCTTATCT-CTCTAAAGTT
1 ATCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGAAAATCTTATCTCCT-TAAAGTT
* * * * ** * *
35690700 GCAATAGAGCAGATTAAAGCTATAAACCTTATCTCCATGAAATTGCAATGGAGTAGATTGAAGAT
65 GCAATAGAGCAGACTAAAGCCACAAACCTTATCTCCATGAAATTACAATGGAACAGATTAAAGAC
35690765 AGCG
130 AGCG
* *
35690769 AATCTCATTTCCCTGAAGTTGCAGTGGGGCAGA
1 -ATCTCATCTCCCTGAAGTTGCAGTGGAGCAGA
35690802 TTAAAGCTAT
Statistics
Matches: 133, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
131 2 0.02
132 4 0.03
133 97 0.73
134 30 0.23
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (133 bp):
ATCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGAAAATCTTATCTCCTTAAAGTTG
CAATAGAGCAGACTAAAGCCACAAACCTTATCTCCATGAAATTACAATGGAACAGATTAAAGACA
GCG
Found at i:35692380 original size:12 final size:12
Alignment explanation
Indices: 35692348--35692394 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
35692338 TTAAAAAATG
35692348 TTTTATTTAATA
1 TTTTATTTAATA
**
35692360 TTTCCTTTAATA
1 TTTTATTTAATA
*
35692372 TTTTATTT-ATT
1 TTTTATTTAATA
35692383 TATTTATTTAAT
1 T-TTTATTTAAT
35692395 CAAACTTACA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 3 0.11
12 23 0.82
13 2 0.07
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATTTAATA
Found at i:35692392 original size:24 final size:24
Alignment explanation
Indices: 35692348--35692394 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
35692338 TTAAAAAATG
*
35692348 TTTTATTTAATATTTCCTTTAATA
1 TTTTATTTAATATTTCATTTAATA
*
35692372 TTTTATTTATTTATTT-ATTTAAT
1 TTTTATTTA-ATATTTCATTTAAT
35692395 CAAACTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTATTTAATATTTCATTTAATA
Found at i:35692456 original size:6 final size:6
Alignment explanation
Indices: 35692445--35692472 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
35692435 AATTGGCTTG
35692445 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
35692473 TTCGCTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:35692503 original size:22 final size:22
Alignment explanation
Indices: 35692459--35692504 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
35692449 ATTTTTATTT
* * **
35692459 TTATTTTTATTTTTTTCGCTTA
1 TTATTGTTATTTTATTCAATTA
35692481 TTATTGTTATTTTATTCAATTA
1 TTATTGTTATTTTATTCAATTA
35692503 TT
1 TT
35692505 TATTTGTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (22 bp):
TTATTGTTATTTTATTCAATTA
Found at i:35692591 original size:12 final size:12
Alignment explanation
Indices: 35692544--35692585 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
35692534 AAAGTTTAGA
*
35692544 TTATTCATTATTA
1 TTATT-ATTATTG
35692557 TTATTATTATTG
1 TTATTATTATTG
35692569 TTATTATTATTG
1 TTATTATTATTG
35692581 TTATT
1 TTATT
35692586 TATATTATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 23 0.82
13 5 0.18
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:35692613 original size:3 final size:3
Alignment explanation
Indices: 35692543--35692585 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
35692533 CAAAGTTTAG
* *
35692543 ATT ATT CATT ATT ATT ATT ATT ATT GTT ATT ATT ATT GTT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
35692586 TATATTATCG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:35694214 original size:3 final size:3
Alignment explanation
Indices: 35694206--35694231 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35694196 TAACTAGATT
35694206 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
35694232 ATAAAGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:35697412 original size:16 final size:17
Alignment explanation
Indices: 35697393--35697424 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
35697383 TTTTAAAAAT
35697393 TAATATAAT-TAACTTG
1 TAATATAATATAACTTG
35697409 TAATATAATATAACTT
1 TAATATAATATAACTT
35697425 TTATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (17 bp):
TAATATAATATAACTTG
Found at i:35698916 original size:17 final size:17
Alignment explanation
Indices: 35698895--35698939 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
35698885 AGTTTTTCAC
35698895 ATATTATATATTTTAAA
1 ATATTATATATTTTAAA
* **
35698912 CTATTATCCATTTTAAA
1 ATATTATATATTTTAAA
*
35698929 ATTTTATATAT
1 ATATTATATAT
35698940 ATTATTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTATATATTTTAAA
Found at i:35699054 original size:27 final size:26
Alignment explanation
Indices: 35699017--35699086 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
35699007 TAAAAATTTG
*
35699017 TTTTGTATATTTTTTAT-TTAAATTTC
1 TTTTATATATTTTTTATCTTAAA-TTC
*
35699043 TTTTTATATATTATTTATCTTAAATTC
1 -TTTTATATATTTTTTATCTTAAATTC
*
35699070 TTTTATATGTTATTTTA
1 TTTTATATATT-TTTTA
35699087 AGGTGTCTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.27
27 22 0.59
28 5 0.14
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTTATATATTTTTTATCTTAAATTC
Found at i:35699153 original size:26 final size:26
Alignment explanation
Indices: 35698921--35699208 Score: 162
Period size: 26 Copynumber: 11.0 Consensus size: 26
35698911 ACTATTATCC
*
35698921 ATTTTAAAATT-TTATATATATTATTT
1 ATTTT-AAATTGTTTTATATATTATTT
* * * * *
35698947 ACTTTAAACTATTATATATAATATTT
1 ATTTTAAATTGTTTTATATATTATTT
* *
35698973 ATTTTGAATTATTATTTTTTATATATATCCTT
1 ATTTT-AA--ATTGTTTTATATAT-TAT--TT
* * *
35699005 -TTTAAAAATTTGTTTTGTATATTTTTT
1 ATTT-TAAA-TTGTTTTATATATTATTT
*
35699032 A-TTTAAATTTCTTTTTATATATTATTT
1 ATTTTAAA-TT-GTTTTATATATTATTT
* * *
35699059 ATCTTAAATT-CTTT-TATA-T-GTT
1 ATTTTAAATTGTTTTATATATTATTT
** *
35699081 ATTTTAAGGTGTCTTATATATTATTT
1 ATTTTAAATTGTTTTATATATTATTT
* * *
35699107 ATTTTAAGTTGCTTTGTATATTATTT
1 ATTTTAAATTGTTTTATATATTATTT
* * **
35699133 ATTTTAATTTGTTTTACATATTACGT
1 ATTTTAAATTGTTTTATATATTATTT
*
35699159 ATTTTAAATTG-TTT-TATACTATTT
1 ATTTTAAATTGTTTTATATATTATTT
* *
35699183 ACTTCAAATTGTTTTATATATTATTT
1 ATTTTAAATTGTTTTATATATTATTT
35699209 TGTTTCGTTT
Statistics
Matches: 201, Mismatches: 43, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
22 9 0.04
23 3 0.01
24 23 0.11
25 14 0.07
26 91 0.45
27 22 0.11
28 5 0.02
29 13 0.06
30 14 0.07
31 5 0.02
32 2 0.01
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (26 bp):
ATTTTAAATTGTTTTATATATTATTT
Found at i:35699154 original size:52 final size:51
Alignment explanation
Indices: 35699022--35699208 Score: 184
Period size: 50 Copynumber: 3.7 Consensus size: 51
35699012 ATTTGTTTTG
* * * *
35699022 TATATTTTTTATTTAAATTTCTTTTTATATATTATTTATCTTAAATT-CTTT
1 TATATTATTTATTTTAATTT-GTTTTATATATTATTTATTTTAAATTGCTTT
* ** * *
35699073 TATA-T-GTTATTTTAAGGTGTCTTATATATTATTTATTTTAAGTTGCTTT
1 TATATTATTTATTTTAATTTGTTTTATATATTATTTATTTTAAATTGCTTT
* **
35699122 GTATATTATTTATTTTAATTTGTTTTACATATTACGTATTTTAAATTG-TTT
1 -TATATTATTTATTTTAATTTGTTTTATATATTATTTATTTTAAATTGCTTT
* * * *
35699173 TATACTATTTACTTCAAATTGTTTTATATATTATTT
1 TATATTATTTATTTTAATTTGTTTTATATATTATTT
35699209 TGTTTCGTTT
Statistics
Matches: 109, Mismatches: 23, Indels: 9
0.77 0.16 0.06
Matches are distributed among these distances:
48 22 0.20
49 13 0.12
50 34 0.31
51 8 0.07
52 32 0.29
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.61
Consensus pattern (51 bp):
TATATTATTTATTTTAATTTGTTTTATATATTATTTATTTTAAATTGCTTT
Found at i:35700601 original size:2 final size:2
Alignment explanation
Indices: 35700549--35700585 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
35700539 AATGAAAAAA
*
35700549 AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35700586 AGAGAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:35704102 original size:17 final size:19
Alignment explanation
Indices: 35704080--35704114 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
35704070 CTAAAATAGT
35704080 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
35704097 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
35704115 TCTAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:35706229 original size:16 final size:16
Alignment explanation
Indices: 35706185--35706235 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
35706175 AGAAATATCT
35706185 TTTTATATTTTTTCA-A
1 TTTTATATTTTTT-ATA
* **
35706201 TTTTAAAGATTTTATA
1 TTTTATATTTTTTATA
35706217 TTTTATATTTTTTAT-
1 TTTTATATTTTTTATA
35706232 TTTT
1 TTTT
35706236 TTGTATAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 5 0.18
16 23 0.82
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTATATTTTTTATA
Found at i:35706467 original size:14 final size:15
Alignment explanation
Indices: 35706448--35706478 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
35706438 ATTTTTATAA
35706448 TTTTTAAT-ATTTAT
1 TTTTTAATAATTTAT
35706462 TTTTTAATAATTTAT
1 TTTTTAATAATTTAT
35706477 TT
1 TT
35706479 ACTTTAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTAATAATTTAT
Found at i:35706706 original size:18 final size:17
Alignment explanation
Indices: 35706668--35706712 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
35706658 GGAATTTTGC
35706668 TTATATTTTAAAATTAG
1 TTATATTTTAAAATTAG
35706685 TTATATTTTTAAAATT--
1 TTATA-TTTTAAAATTAG
*
35706701 TTTTATTTTAAA
1 TTATATTTTAAA
35706713 GAGTTTTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 7 0.27
16 4 0.15
17 5 0.19
18 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTATATTTTAAAATTAG
Found at i:35708558 original size:33 final size:33
Alignment explanation
Indices: 35708521--35708589 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
35708511 ATATTAAAGT
35708521 ATATACGTAATAATAGGAACGAAAAGTGTATAC
1 ATATACGTAATAATAGGAACGAAAAGTGTATAC
*
35708554 ATATACGTAATAATAGGAGCGAAAAGTGTATAC
1 ATATACGTAATAATAGGAACGAAAAGTGTATAC
35708587 ATA
1 ATA
35708590 ATAATACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.09, G:0.19, T:0.25
Consensus pattern (33 bp):
ATATACGTAATAATAGGAACGAAAAGTGTATAC
Found at i:35708586 original size:27 final size:27
Alignment explanation
Indices: 35708516--35708595 Score: 79
Period size: 33 Copynumber: 2.7 Consensus size: 27
35708506 TATATATATT
*
35708516 AAAGTATATACGTAATAATAGGAACGA
1 AAAGTGTATACGTAATAATAGGAACGA
*
35708543 AAAGTGTATACATATACGTAATAATAGGAGCGA
1 AAAGTG------TATACGTAATAATAGGAACGA
*
35708576 AAAGTGTATACATAATAATA
1 AAAGTGTATACGTAATAATA
35708596 CTAAATATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
27 18 0.41
33 26 0.59
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.25
Consensus pattern (27 bp):
AAAGTGTATACGTAATAATAGGAACGA
Found at i:35708965 original size:20 final size:19
Alignment explanation
Indices: 35708932--35708969 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
35708922 TATAACGATA
35708932 TATAAAAATAATATTATATT
1 TATAAAAATAATA-TATATT
35708952 TATAAAAAGT-ATATATAT
1 TATAAAAA-TAATATATAT
35708970 ACACGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 11 0.65
21 1 0.06
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TATAAAAATAATATATATT
Found at i:35709260 original size:26 final size:26
Alignment explanation
Indices: 35709231--35709396 Score: 124
Period size: 26 Copynumber: 6.8 Consensus size: 26
35709221 TGATATAGTG
*
35709231 TTAAAAATACT-TACATAATATAATTA
1 TTAAAAATA-TATAAATAATATAATTA
35709257 TTAAAAATATATAAATAATAT-A--A
1 TTAAAAATATATAAATAATATAATTA
* *
35709280 -T-AAAGTATATAAATAATATGA-TA
1 TTAAAAATATATAAATAATATAATTA
* ** *
35709303 TTAACAATGCATACATAATATAATTA
1 TTAAAAATATATAAATAATATAATTA
*
35709329 TTAAAAATATATACATAATAT-A--A
1 TTAAAAATATATAAATAATATAATTA
*
35709352 -T-AAAATATATAAATAATATGA-TA
1 TTAAAAATATATAAATAATATAATTA
* * *
35709375 TTAACAATACATACATAATATA
1 TTAAAAATATATAAATAATATA
35709397 GTTAAAAAAT
Statistics
Matches: 114, Mismatches: 16, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
21 34 0.30
22 4 0.04
23 4 0.04
24 2 0.02
25 32 0.28
26 38 0.33
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.35
Consensus pattern (26 bp):
TTAAAAATATATAAATAATATAATTA
Found at i:35709274 original size:21 final size:21
Alignment explanation
Indices: 35709245--35709368 Score: 74
Period size: 21 Copynumber: 5.4 Consensus size: 21
35709235 AAATACTTAC
35709245 ATAATATAATTATTAAAAATAT
1 ATAA-ATAATTATTAAAAATAT
35709267 ATAAATAA-TA-TAATAAAGTAT
1 ATAAATAATTATTAA-AAA-TAT
*
35709288 ATAAATAATATGATATTAACAATGCAT
1 ATAAAT-A-AT--TATTAAAAAT--AT
*
35709315 ACATAATATAATTATTAAAAATAT
1 ATA-AAT--AATTATTAAAAATAT
* *
35709339 ATACATAA-TATAATAAAATAT
1 ATAAATAATTATTA-AAAATAT
35709360 ATAAATAAT
1 ATAAATAAT
35709369 ATGATATTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
19 3 0.04
20 9 0.11
21 29 0.36
22 5 0.06
23 3 0.04
24 4 0.05
25 1 0.01
26 13 0.16
27 7 0.09
28 5 0.06
29 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.35
Consensus pattern (21 bp):
ATAAATAATTATTAAAAATAT
Done.