Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 99 of 333
Found at i:31564422 original size:15 final size:16
Alignment explanation
Indices: 31564395--31564424 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31564385 TCCTTGTCGC
31564395 TTTAAATTTATATATA
1 TTTAAATTTATATATA
31564411 TTTAAA-TTATATAT
1 TTTAAATTTATATAT
31564425 TGAAATGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAATTTATATATA
Found at i:31567808 original size:52 final size:51
Alignment explanation
Indices: 31567727--31567826 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 51
31567717 ACCTTTTCAT
* *
31567727 ATGTTAACTCTTTCAAGGTAACAACCTTTTCAAGCTTTTCATTTGATATTGG
1 ATGTTAACCCTTTCAAGGTAACAACCTTTTCAA-CCTTTCATTTGATATTGG
* * *
31567779 ATGTTAACCCTTTTAGGGTAACAATCTTTTCAACCTTTCATTTGATAT
1 ATGTTAACCCTTTCAAGGTAACAACCTTTTCAACCTTTCATTTGATAT
31567827 CCGTCTCGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 14 0.33
52 29 0.67
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (51 bp):
ATGTTAACCCTTTCAAGGTAACAACCTTTTCAACCTTTCATTTGATATTGG
Found at i:31571680 original size:16 final size:16
Alignment explanation
Indices: 31571659--31571690 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31571649 TAATGTGTTT
31571659 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
31571675 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
31571691 ATGCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:31571872 original size:45 final size:45
Alignment explanation
Indices: 31571804--31572022 Score: 321
Period size: 45 Copynumber: 4.9 Consensus size: 45
31571794 AAGAGGTGGA
** * * *
31571804 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
31571849 CAACATCATGCATAATCCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
31571894 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
31571939 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
31571984 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
31572023 CCATGGCCGA
Statistics
Matches: 158, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 158 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:31571960 original size:90 final size:90
Alignment explanation
Indices: 31571804--31572022 Score: 366
Period size: 90 Copynumber: 2.4 Consensus size: 90
31571794 AAGAGGTGGA
* *
31571804 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGACCAACATCATGCATAATCCAT
1 CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCATTTGACCAACATCATGCATAATCCAT
*
31571869 GGAAGAATTTGAGGAAGCATTTGGC
66 GGAAGAATTTAAGGAAGCATTTGGC
* * * *
31571894 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGACCAACATCATGCATAATTCAT
1 CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCATTTGACCAACATCATGCATAATCCAT
31571959 GGAAGAATTTAAGGAAGCATTTGGC
66 GGAAGAATTTAAGGAAGCATTTGGC
*
31571984 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCA
31572023 CCATGGCCGA
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 118 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (90 bp):
CAACATCATGCATAATTTATGGAACAAATTGAGGAAGCATTTGACCAACATCATGCATAATCCAT
GGAAGAATTTAAGGAAGCATTTGGC
Found at i:31572798 original size:19 final size:18
Alignment explanation
Indices: 31572774--31572818 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
31572764 ATTCGGTATT
31572774 AAAAAAAGAGAAATTCAAA
1 AAAAAAAGAGAAATT-AAA
** *
31572793 AAAAAAATTGGAATTAAA
1 AAAAAAAGAGAAATTAAA
31572811 AAAAAAAG
1 AAAAAAAG
31572819 TGATTGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.13
Consensus pattern (18 bp):
AAAAAAAGAGAAATTAAA
Found at i:31575791 original size:16 final size:16
Alignment explanation
Indices: 31575766--31575797 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31575756 TAATGTGTTT
31575766 TGCTGATGTTGTTTAA
1 TGCTGATGTTGTTTAA
*
31575782 TGCTGCTGTTGTTTAA
1 TGCTGATGTTGTTTAA
31575798 ATGCAGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.09, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGATGTTGTTTAA
Found at i:31575962 original size:45 final size:45
Alignment explanation
Indices: 31575911--31576174 Score: 411
Period size: 45 Copynumber: 5.9 Consensus size: 45
31575901 AAGAGGTGGA
** * * * *
31575911 CAACATCATGCATAATTTGTGGAACAAATTAAGAAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
31575956 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
31576001 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
31576046 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
31576091 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
31576136 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
31576175 CCATGGCCGA
Statistics
Matches: 204, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 204 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:31589525 original size:38 final size:39
Alignment explanation
Indices: 31589411--31589678 Score: 340
Period size: 38 Copynumber: 7.0 Consensus size: 39
31589401 GGATTTAATC
* *
31589411 GATATAGCT-ACTCGCTCGAATGCCTTC-GACATAG-CCG
1 GATATAG-TAACTCGCACGAATGCCTTCGGACTTAGCCCG
* *
31589448 GATATAGTAACTC-AATGAATGCCTTCGGACTTAGCCC-
1 GATATAGTAACTCGCACGAATGCCTTCGGACTTAGCCCG
31589485 GATATAGTAACTCGCACGAATGCCTTCGGGACTTAG-CC-
1 GATATAGTAACTCGCACGAATGCCTTC-GGACTTAGCCCG
*
31589523 GATATAGTAACTTGCACGAATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACGAATGCCTTC-GGACTTAGCCCG
31589563 GATATAGT-ACTCGCACGAATGCCTTCGGACTTAGCCCG
1 GATATAGTAACTCGCACGAATGCCTTCGGACTTAGCCCG
*
31589601 GATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCG
1 GATATAGTAACTCGCACGAATGCCTTCGGACTTAGCCCG
* * * *
31589640 GA-CTAGTCACTAGCGC-AATGCCTTCGGGACTTAGCCCG
1 GATATAGTAACTCGCACGAATGCCTTC-GGACTTAGCCCG
31589678 G
1 G
31589679 TTATCATCCA
Statistics
Matches: 209, Mismatches: 13, Indels: 17
0.87 0.05 0.07
Matches are distributed among these distances:
36 11 0.05
37 39 0.19
38 93 0.44
39 58 0.28
40 8 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
GATATAGTAACTCGCACGAATGCCTTCGGACTTAGCCCG
Found at i:31589595 original size:115 final size:115
Alignment explanation
Indices: 31589395--31589678 Score: 350
Period size: 115 Copynumber: 2.5 Consensus size: 115
31589385 TCCAGCAATA
* ** * * *
31589395 CCTTCGGGATTTAATCGATATAGCTACTCGCTCGAATGCCTTC--GACATAG-CCGGATATAGTA
1 CCTTCGGGACTTAGCCGATATAG-TACTAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTA
* *
31589457 ACTCAATGAATGCCTTCGGACTTAGCCC-GATATAGTAACTCGCACGAATG
65 ACTCAACGAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
31589507 CCTTCGGGACTTAGCCGATATAGTAACTTGCACGAATGCCTTCGGGACTTAGCCCGGATATAGT-
1 CCTTCGGGACTTAGCCGATATAGT-ACTAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTA
*
31589571 ACTCGCACGAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65 ACTC-AACGAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
31589623 CCTTC-GGACTTAGCCCGGA-CTAGTCACTAGCGC-AATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAG-CC-GATATAGT-ACTAGCACGAATGCCTTCGGGACTTAGCCCGG
31589679 TTATCATCCA
Statistics
Matches: 151, Mismatches: 13, Indels: 13
0.85 0.07 0.07
Matches are distributed among these distances:
111 1 0.01
112 36 0.24
114 10 0.07
115 64 0.42
116 38 0.25
117 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (115 bp):
CCTTCGGGACTTAGCCGATATAGTACTAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTAA
CTCAACGAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:31589678 original size:77 final size:76
Alignment explanation
Indices: 31589411--31589675 Score: 344
Period size: 77 Copynumber: 3.5 Consensus size: 76
31589401 GGATTTAATC
* * * *
31589411 GATATAGCTACTCGCTCGAATGCCTTC-GACATAGCCGGATATAGTAACTC-AATGAATGCCTTC
1 GATATAG-TACTCGCACGAATGCCTTCGGACTTAGCCGGATATAGTAACTCGCACGAATGCCTTC
31589474 GGACTTAGCCC-
65 GGACTTAGCCCG
*
31589485 GATATAGTAACTCGCACGAATGCCTTCGGGACTTAGCC-GATATAGTAACTTGCACGAATGCCTT
1 GATATAGT-ACTCGCACGAATGCCTTC-GGACTTAGCCGGATATAGTAACTCGCACGAATGCCTT
31589549 CGGGACTTAGCCCG
64 C-GGACTTAGCCCG
*
31589563 GATATAGTACTCGCACGAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC
1 GATATAGTACTCGCACGAATGCCTTCGGACTTAG-CCGGATATAGTAACTCGCACGAATGCCTTC
31589628 GGACTTAGCCCG
65 GGACTTAGCCCG
* * *
31589640 GA-CTAGTCACTAGCGC-AATGCCTTCGGGACTTAGCC
1 GATATAGT-ACTCGCACGAATGCCTTC-GGACTTAGCC
31589676 CGGTTATCAT
Statistics
Matches: 171, Mismatches: 10, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
73 1 0.01
74 24 0.14
75 12 0.07
76 42 0.25
77 59 0.35
78 33 0.19
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (76 bp):
GATATAGTACTCGCACGAATGCCTTCGGACTTAGCCGGATATAGTAACTCGCACGAATGCCTTCG
GACTTAGCCCG
Found at i:31597607 original size:40 final size:39
Alignment explanation
Indices: 31597493--31597688 Score: 262
Period size: 39 Copynumber: 5.1 Consensus size: 39
31597483 TCGGATTTAA
* *
31597493 CCGGATATAGCT-ACTCGCTCAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAATGCCTTCGGGACTTAGC
31597532 CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGC
31597571 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGC
31597611 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTA-C
1 CCGGATATAGTAACTCGCA-CAATGCCTTCGGGACTTAGC
* * *
31597650 CC-GA-ACTAGTCACTAGCGC-ATG-CTTC-GGACTTAGC
1 CCGGATA-TAGTAACTCGCACAATGCCTTCGGGACTTAGC
31597685 CCGG
1 CCGG
31597689 TTATCATCCA
Statistics
Matches: 146, Mismatches: 5, Indels: 15
0.88 0.03 0.09
Matches are distributed among these distances:
34 7 0.05
35 7 0.05
36 4 0.03
37 2 0.01
38 12 0.08
39 58 0.40
40 55 0.38
41 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGC
Found at i:31597611 original size:79 final size:78
Alignment explanation
Indices: 31597480--31597652 Score: 262
Period size: 79 Copynumber: 2.2 Consensus size: 78
31597470 AAGCCAAGTA
* * *
31597480 CCTTC-GGATTTAACCGGATATAGCTACTCGCTCAATGCCTTCGGGACATAGCCCGGATATAGTA
1 CCTTCGGGACTTACCCGGATATAGCTACTCGCACAATGCCTTCGGGACATAGCCCGGATATAGTA
31597544 ACTCGCA-CAATG
66 ACTCGCACCAATG
*
31597556 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTA-CCCGGATATAGCT-ACTCGCAC-AATGCCTTCGGGACATAGCCCGGATATA
31597620 GTAACTCGCACCAATG
63 GTAACTCGCACCAATG
31597636 CCTTCGGGACTTACCCG
1 CCTTCGGGACTTACCCG
31597653 AACTAGTCAC
Statistics
Matches: 88, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
76 5 0.06
77 7 0.08
78 17 0.19
79 41 0.47
80 18 0.20
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTTACCCGGATATAGCTACTCGCACAATGCCTTCGGGACATAGCCCGGATATAGTA
ACTCGCACCAATG
Found at i:31605361 original size:39 final size:40
Alignment explanation
Indices: 31605165--31605377 Score: 287
Period size: 40 Copynumber: 5.5 Consensus size: 40
31605155 AAGCCAAGTA
* * *
31605165 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
31605203 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
31605243 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
31605283 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
31605322 CCTTCGGGA-TTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
31605361 CCTTC-GGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
31605378 ATTATCATCC
Statistics
Matches: 160, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
37 1 0.01
38 35 0.22
39 47 0.29
40 77 0.48
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:31607375 original size:13 final size:13
Alignment explanation
Indices: 31607359--31607392 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
31607349 CTGCATGATG
*
31607359 TTTCTTTCTCTTC
1 TTTCTTTCTCGTC
*
31607372 TTTCCTTCTCGTC
1 TTTCTTTCTCGTC
31607385 TTTCTTTC
1 TTTCTTTC
31607393 ATTTTTTATC
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:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (13 bp):
TTTCTTTCTCGTC
Found at i:31609312 original size:79 final size:78
Alignment explanation
Indices: 31609210--31609432 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
31609200 GCTCCTCGTT
* *
31609210 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
31609275 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
31609290 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
31609353 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * *
31609368 AAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
31609431 GA
63 GA
31609433 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 46 0.37
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:31609327 original size:39 final size:40
Alignment explanation
Indices: 31609210--31609432 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
31609200 GCTCCTCGTT
* *
31609210 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
31609250 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
31609290 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
31609329 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
31609368 AAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
31609409 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31609433 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 64 0.39
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:31615504 original size:20 final size:18
Alignment explanation
Indices: 31615463--31615505 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
31615453 CAAATATATT
* *
31615463 TAAAAACATAAAAAATAT
1 TAAAAAAATAAAAAATAC
31615481 TAAAAAAATAAAAATGATAC
1 TAAAAAAATAAAAA--ATAC
31615501 TAAAA
1 TAAAA
31615506 CAATTCTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (18 bp):
TAAAAAAATAAAAAATAC
Found at i:31620966 original size:34 final size:34
Alignment explanation
Indices: 31620891--31620971 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
31620881 GCATGACTAT
* * *
31620891 TACTGATACTATGATGGGCTAAGGCCCTAATGCG
1 TACTGATACTGTAATGGGCTAAGGCCCTAATGCA
*
31620925 TACTGATACTGTAATGGGCTAA-GCCCTACTGCA
1 TACTGATACTGTAATGGGCTAAGGCCCTAATGCA
*
31620958 TATTTGATACTGTA
1 TA-CTGATACTGTA
31620972 TAGAGATAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
33 11 0.27
34 30 0.73
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (34 bp):
TACTGATACTGTAATGGGCTAAGGCCCTAATGCA
Found at i:31621286 original size:26 final size:26
Alignment explanation
Indices: 31621238--31621297 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
31621228 TTTTTATTGG
31621238 TTAAATATTTGGGTTGTAATTGGACTT
1 TTAAATATTTGGGTTGTAATTGG-CTT
* ** *
31621265 TTAAA-ATTTGGTTTGTTTTTGGGTT
1 TTAAATATTTGGGTTGTAATTGGCTT
31621290 TTAAATAT
1 TTAAATAT
31621298 CTTTACTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 7 0.25
26 16 0.57
27 5 0.18
ACGTcount: A:0.25, C:0.02, G:0.20, T:0.53
Consensus pattern (26 bp):
TTAAATATTTGGGTTGTAATTGGCTT
Found at i:31623943 original size:56 final size:56
Alignment explanation
Indices: 31623876--31623985 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 56
31623866 AAAATTAAGT
*
31623876 ATAAATTTTAAATAACTAATTCCAATTATAGTAAACATACACATTTGGGCCTTATG
1 ATAAATTTTAAATAACTAATTCCAATTATAGCAAACATACACATTTGGGCCTTATG
*
31623932 ATAAATTTTAAATAACTAATTCTAATTATAGCAAACATACACATTTGGGCCTTA
1 ATAAATTTTAAATAACTAATTCCAATTATAGCAAACATACACATTTGGGCCTTA
31623986 AATTGAGTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (56 bp):
ATAAATTTTAAATAACTAATTCCAATTATAGCAAACATACACATTTGGGCCTTATG
Found at i:31625981 original size:27 final size:27
Alignment explanation
Indices: 31625950--31626127 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31625940 TAAATTGTAC
31625950 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31625977 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31626003 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31626031 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31626059 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31626086 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31626113 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31626128 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31626064 original size:82 final size:81
Alignment explanation
Indices: 31625951--31626106 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31625941 AAATTGTACA
* *
31625951 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31626015 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31626032 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31626097 TGCGAGTTGA
65 TGCGAATTGA
31626107 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31626118 original size:82 final size:81
Alignment explanation
Indices: 31625947--31626127 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31625937 GATTAAATTG
* *
31625947 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31626012 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31626028 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31626092 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31626110 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31626128 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31634128 original size:27 final size:27
Alignment explanation
Indices: 31634097--31634274 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31634087 TAAATTGTAC
31634097 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31634124 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31634150 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31634178 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31634206 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31634233 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31634260 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31634275 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31634211 original size:82 final size:81
Alignment explanation
Indices: 31634098--31634253 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31634088 AAATTGTACA
* *
31634098 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31634162 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31634179 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31634244 TGCGAGTTGA
65 TGCGAATTGA
31634254 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31634265 original size:82 final size:81
Alignment explanation
Indices: 31634094--31634274 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31634084 GATTAAATTG
* *
31634094 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31634159 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31634175 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31634239 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31634257 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31634275 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31637103 original size:20 final size:20
Alignment explanation
Indices: 31637045--31637103 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
31637035 GGCACGATTG
* * * *
31637045 TGCAATCAAAGGTATCGAAG
1 TGCAAACAAAGGCATCAAAA
* * *
31637065 TGCAAATAAAGACACCAAAA
1 TGCAAACAAAGGCATCAAAA
31637085 TGCAAACAAAGGCATCAAA
1 TGCAAACAAAGGCATCAAA
31637104 GTGTAATCCC
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.51, C:0.19, G:0.17, T:0.14
Consensus pattern (20 bp):
TGCAAACAAAGGCATCAAAA
Found at i:31639980 original size:29 final size:29
Alignment explanation
Indices: 31639947--31640004 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
31639937 AAAATGATGG
31639947 AAAACTCTTTTTCTAGGGACCAAGTGATT
1 AAAACTCTTTTTCTAGGGACCAAGTGATT
31639976 AAAACTCTTTTTCTAGGGACCAAGTGATT
1 AAAACTCTTTTTCTAGGGACCAAGTGATT
31640005 GTTGTAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (29 bp):
AAAACTCTTTTTCTAGGGACCAAGTGATT
Found at i:31645878 original size:28 final size:28
Alignment explanation
Indices: 31645847--31645908 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
31645837 CTTCTTCATA
31645847 CATCTGTTTGGGTTTTATAATGCAACCT
1 CATCTGTTTGGGTTTTATAATGCAACCT
31645875 CATCTGTTTGGGTTTTATAATGCAACCT
1 CATCTGTTTGGGTTTTATAATGCAACCT
*
31645903 CTTCTG
1 CATCTG
31645909 ACGAGGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (28 bp):
CATCTGTTTGGGTTTTATAATGCAACCT
Found at i:31649420 original size:40 final size:40
Alignment explanation
Indices: 31649338--31649594 Score: 324
Period size: 40 Copynumber: 6.5 Consensus size: 40
31649328 AAGCCAAGTA
* * * *
31649338 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
31649376 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
31649416 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
31649456 CCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
31649496 CCTTCGGGACTTAGCCCAGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
31649536 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
31649576 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
31649595 TTATCATCCG
Statistics
Matches: 195, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
38 12 0.06
39 16 0.08
40 167 0.86
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:31657568 original size:40 final size:40
Alignment explanation
Indices: 31657521--31657742 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
31657511 CTACTCACTC
* *
31657521 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
31657561 AATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * * *
31657601 AATGCCTTCAGGACTTAGCCCGGATGTAATAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
31657641 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
31657681 AATGCCTTCGGGACTTAGCCC-GAAACTAGTCACT-GCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
31657720 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
31657743 TTATCATCCG
Statistics
Matches: 165, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 27 0.16
40 138 0.84
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:31658332 original size:31 final size:31
Alignment explanation
Indices: 31658296--31658358 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
31658286 TGTTATGCTC
31658296 ATACATCATGACTTAATCAAATCATAAACTA
1 ATACATCATGACTTAATCAAATCATAAACTA
31658327 ATACATCATGACTTAATCAAATCATAAACTA
1 ATACATCATGACTTAATCAAATCATAAACTA
31658358 A
1 A
31658359 GTCTCATTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.29
Consensus pattern (31 bp):
ATACATCATGACTTAATCAAATCATAAACTA
Found at i:31658343 original size:15 final size:15
Alignment explanation
Indices: 31658296--31658343 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
31658286 TGTTATGCTC
31658296 ATACATCATGACTTA
1 ATACATCATGACTTA
* *
31658311 ATCAAATCATAAAC-TA
1 AT-ACATCAT-GACTTA
31658327 ATACATCATGACTTA
1 ATACATCATGACTTA
31658342 AT
1 AT
31658344 CAAATCATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
14 2 0.08
15 12 0.46
16 10 0.38
17 2 0.08
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (15 bp):
ATACATCATGACTTA
Found at i:31661687 original size:27 final size:27
Alignment explanation
Indices: 31661657--31661711 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
31661647 AAATGGATTC
* *
31661657 CTTTTAAAGTTTGCCACGAAGGCTATT
1 CTTTCAAAGTTTGCCACAAAGGCTATT
* *
31661684 CTTTCATAGTTTTCCACAAAGGCTATT
1 CTTTCAAAGTTTGCCACAAAGGCTATT
31661711 C
1 C
31661712 CTTCCTTACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (27 bp):
CTTTCAAAGTTTGCCACAAAGGCTATT
Found at i:31667192 original size:49 final size:49
Alignment explanation
Indices: 31667069--31667251 Score: 233
Period size: 49 Copynumber: 3.7 Consensus size: 49
31667059 TCTATTGTGA
* * * *
31667069 GGTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCC-GAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGT-CCCGGATAA-T-T
* * *
31667120 GATCACGTGTGTAGTACTAAGTGCATGCTACTATGTGTCCCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTCCCGGATAATT
* *
31667169 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTCCCGGATAATT
* *
31667218 GGTCGCATGTGTAGTACTATGTGCAGGCTACTAT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTAT
31667252 CGTACCAGAT
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 76 0.66
50 4 0.03
51 36 0.31
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTCCCGGATAATT
Found at i:31688683 original size:8 final size:8
Alignment explanation
Indices: 31688670--31688707 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
31688660 AGTAAACCAG
31688670 AAAAAAAT
1 AAAAAAAT
31688678 -AAAAAAT
1 AAAAAAAT
31688685 AAAAAAAT
1 AAAAAAAT
*
31688693 AAAAAGAT
1 AAAAAAAT
31688701 AAAAAAA
1 AAAAAAA
31688708 GAATCCAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:31688691 original size:16 final size:16
Alignment explanation
Indices: 31688670--31688707 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
31688660 AGTAAACCAG
31688670 AAAAAAATAAAAA-AT
1 AAAAAAATAAAAAGAT
31688685 AAAAAAATAAAAAGAT
1 AAAAAAATAAAAAGAT
31688701 AAAAAAA
1 AAAAAAA
31688708 GAATCCAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAAATAAAAAGAT
Found at i:31689331 original size:24 final size:24
Alignment explanation
Indices: 31689304--31689349 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31689294 TTTTGAGTAA
* *
31689304 TTTAATTTTTTTCTTTTATATTCT
1 TTTAACTTTTCTCTTTTATATTCT
*
31689328 TTTAACTTTTCTCTTTTTTATT
1 TTTAACTTTTCTCTTTTATATT
31689350 TCCATTCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTAACTTTTCTCTTTTATATTCT
Found at i:31693407 original size:37 final size:37
Alignment explanation
Indices: 31693357--31693435 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31693347 TTATTACGAA
* * *
31693357 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31693394 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31693431 GTCTT
1 GTCTT
31693436 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31693632 original size:47 final size:47
Alignment explanation
Indices: 31693554--31693935 Score: 674
Period size: 47 Copynumber: 8.1 Consensus size: 47
31693544 CCCTTCGGGA
* * * * * *
31693554 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31693601 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31693648 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31693695 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31693742 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31693789 CTTATCACATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31693836 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31693883 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31693930 CTTATC
1 CTTATC
31693936 TGTAACACCC
Statistics
Matches: 321, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 321 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31694746 original size:37 final size:37
Alignment explanation
Indices: 31694696--31694774 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31694686 TTATTACGAA
* * *
31694696 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
31694733 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
31694770 GTCTT
1 GTCTT
31694775 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:31694971 original size:47 final size:47
Alignment explanation
Indices: 31694893--31695202 Score: 485
Period size: 47 Copynumber: 6.6 Consensus size: 47
31694883 CCCTTCGGGA
* * * * * *
31694893 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31694940 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31694987 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31695034 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31695081 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31695128 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31695177 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
31695203 CACAATTATC
Statistics
Matches: 243, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 198 0.81
49 45 0.19
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31700104 original size:290 final size:290
Alignment explanation
Indices: 31699582--31700111 Score: 909
Period size: 290 Copynumber: 1.8 Consensus size: 290
31699572 ACCAAAGTGT
*
31699582 AAAATGTGAATATTAAATGAGTTAAATTTGTTATTATAGATCAAGAGAAACGAGGTTTGGACCTA
1 AAAATGTGAATATTAAATGAGTTAAATTTGTTATTATAGATCAAGAAAAACGAGGTTTGGACCTA
*
31699647 GATCGGGGTAAAAACAAAGTGTTTGACAATTAGGTCCCATTTCTACTATTTTTGTACCGAGGCAA
66 GATCGGGGTAAAAACAAAATGTTTGACAATTAGGTCCCATTTCTACTATTTTTGTACCGAGGCAA
* *
31699712 GTTCGTATGTAAATAATGCATTGTTTTAATTATGTTTTAAATGCTTTATTATTGTATGAATTGTG
131 GTTCATATGTAAATAATACATTGTTTTAATTATGTTTTAAATGCTTTATTATTGTATGAATTGTG
* *
31699777 ATTGACCCTTGGATGTATTCGACAAAGTTTCAACAAGCGTGAAATTCTGGGAAAAATGTAATTTT
196 ATTGACCCTTGGACGTATTCGACAAAGTTTCAACAAGCATGAAATTCTGGGAAAAATGTAATTTT
31699842 TGCCATAGTGTAATTTTTGGGCTGAATTGA
261 TGCCATAGTGTAATTTTTGGGCTGAATTGA
* *
31699872 AAAATGTGAATATTAAATGAGTTAAATTTGTTATTATAGATCAAGAAAAATGAGTTTTGGACCTA
1 AAAATGTGAATATTAAATGAGTTAAATTTGTTATTATAGATCAAGAAAAACGAGGTTTGGACCTA
* * *
31699937 GATCAGGGG-AAAAACAAAATGTTTGACAATTAGTTCTCATTTCTACTATTTTTGTACCGAGGTA
66 GATC-GGGGTAAAAACAAAATGTTTGACAATTAGGTCCCATTTCTACTATTTTTGTACCGAGGCA
*
31700001 AGTTCATATGTAAATAATACATTTTTTTAATTATGTTTTAAATGCTTTATTATTGTATGAATTGT
130 AGTTCATATGTAAATAATACATTGTTTTAATTATGTTTTAAATGCTTTATTATTGTATGAATTGT
* * *
31700066 GATTGACCCTTGGACGTATTCGGCAAATTTTTAACAAGCATGAAAT
195 GATTGACCCTTGGACGTATTCGACAAAGTTTCAACAAGCATGAAAT
31700112 CCCGGTTGAA
Statistics
Matches: 224, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
290 220 0.98
291 4 0.02
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (290 bp):
AAAATGTGAATATTAAATGAGTTAAATTTGTTATTATAGATCAAGAAAAACGAGGTTTGGACCTA
GATCGGGGTAAAAACAAAATGTTTGACAATTAGGTCCCATTTCTACTATTTTTGTACCGAGGCAA
GTTCATATGTAAATAATACATTGTTTTAATTATGTTTTAAATGCTTTATTATTGTATGAATTGTG
ATTGACCCTTGGACGTATTCGACAAAGTTTCAACAAGCATGAAATTCTGGGAAAAATGTAATTTT
TGCCATAGTGTAATTTTTGGGCTGAATTGA
Found at i:31700228 original size:42 final size:42
Alignment explanation
Indices: 31700166--31700287 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
31700156 TTAGGGTTAC
* * * *
31700166 TGAGACTACGTGTAAAACCATATCTGGGATATGGCATCAATA
1 TGAGACTTCATGTAAGACCATATCTGAGATATGGCATCAATA
* * * *
31700208 TGAGACTTCATGTAAGACCATAGCTGAGCTATTGGCATCGATG
1 TGAGACTTCATGTAAGACCATATCTGAGATA-TGGCATCAATA
**
31700251 CAAGA-TTACATGTAAGACCATATCTGAGATATGGCAT
1 TGAGACTT-CATGTAAGACCATATCTGAGATATGGCAT
31700288 TGGTACAGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (42 bp):
TGAGACTTCATGTAAGACCATATCTGAGATATGGCATCAATA
Found at i:31707796 original size:47 final size:48
Alignment explanation
Indices: 31707727--31707988 Score: 258
Period size: 46 Copynumber: 5.6 Consensus size: 48
31707717 GTAAGGTGCG
*
31707727 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCGT-ATCTC-AAATC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATCTCGAAACC
* * * *
31707774 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGAAACC
* * * **
31707822 GATG-CATGTCCCAAACAT-GTCTTACATTGGCT-TACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCGAAACC
* * * *
31707868 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTC-AATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGAA-ACC
***
31707914 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCT-GTGTCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGAAACC
*
31707961 GATG-CATGTCCCAGACAT-GTTTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
31707989 AGCCCACAAA
Statistics
Matches: 184, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
45 11 0.06
46 77 0.42
47 71 0.39
48 25 0.14
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGAAACC
Found at i:31707923 original size:93 final size:92
Alignment explanation
Indices: 31707727--31707991 Score: 279
Period size: 93 Copynumber: 2.8 Consensus size: 92
31707717 GTAAGGTGCG
* * ***
31707727 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCGT-ATCTCAAATCGATGCCATGTCCCAGAC
1 GATG-CATGTCCCAAACATGGTCTTACACTGGCTC-TCATCTGAGGCCGATG-CATGTCCCAGAC
*
31707791 ATGGTCTTACACT-GACTATCATCTCGTAGCC
63 AT-GTCTTACACTAG-CTATCATCTCATAGCC
* *
31707822 GATGCATGTCCCAAACAT-GTCTTACATTGGCT-TACGTCTCGAGGCCGATGCATGTCCCAGACA
1 GATGCATGTCCCAAACATGGTCTTACACTGGCTCT-CATCT-GAGGCCGATGCATGTCCCAGACA
* * *
31707885 TGTCTTACACTAGCTCTCGTCTCA-ATGCT
64 TGTCTTACACTAGCTATCATCTCATA-GCC
* * *
31707914 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTGTGTCCGATGCATGTCCCAGACAT
1 GATG-CATGTCCCAAACATGGTCTTACACTGGCTCTCATCTGAGGCCGATGCATGTCCCAGACAT
*
31707979 GTTTTACACTAGC
65 GTCTTACACTAGC
31707992 CCACAAACAA
Statistics
Matches: 145, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
91 2 0.01
92 24 0.17
93 78 0.54
94 36 0.25
95 5 0.03
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTGAGGCCGATGCATGTCCCAGACATG
TCTTACACTAGCTATCATCTCATAGCC
Found at i:31710634 original size:14 final size:15
Alignment explanation
Indices: 31710607--31710636 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
31710597 AGGACTTAAG
31710607 GATTAATGCATAAAA
1 GATTAATGCATAAAA
31710622 GATTAAT-CATAAAA
1 GATTAATGCATAAAA
31710636 G
1 G
31710637 GTTATGTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
GATTAATGCATAAAA
Found at i:31717095 original size:47 final size:46
Alignment explanation
Indices: 31717021--31717196 Score: 180
Period size: 47 Copynumber: 3.8 Consensus size: 46
31717011 GGTACGGTGC
* *
31717021 CGATGCCATGT-CCAAACATGGTCTTACATTGGCTCATATCTCAAAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AAT
* *
31717067 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC--AAT
* * * *
31717115 CGATG-CATGTCCCAGACAT-GTCTTACACTAGATCTTGTCTCAAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAT
* *
31717159 GCCGATGCCATGTCCTAGACATGGTCTTATACTGGCTC
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
31717197 TCATAAAGTG
Statistics
Matches: 107, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
44 2 0.02
46 33 0.31
47 53 0.50
48 19 0.18
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAT
Found at i:31717164 original size:46 final size:46
Alignment explanation
Indices: 31717018--31717237 Score: 172
Period size: 47 Copynumber: 4.7 Consensus size: 46
31717008 GTGGGTACGG
* * *
31717018 TGCCGATGCCATGT-CCAAACATGGTCTTACATTGGCTCATATCTCAAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACT--TATCTC-AA
31717066 T--CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACT-T-ATCTC--AA
*
31717114 --CCGATG-CATGTCCCAGACAT-GTCTTACACTAGATCTTGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GA-CTTATCTCAA
* * * * *
31717158 TGCCGATGCCATGTCCTAGACATGGTCTTATACTGGC-TCTCATAAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTTATC-TCAA
*
31717204 GTGGCTGATG-CATGTCCCAGACAT-GTCTTACACT
1 -T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
31717238 AGCCCCCAAA
Statistics
Matches: 146, Mismatches: 13, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 46 0.32
47 70 0.48
48 25 0.17
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTTATCTCAA
Found at i:31717181 original size:94 final size:94
Alignment explanation
Indices: 31717067--31717239 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
31717057 TATCTCAAAT
***
31717067 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAACCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATAAAGTAACCGATGCATGTCCCAGAC
31717132 ATGTCTTACACTAGATCTTGTCTCAATGC
66 ATGTCTTACACTAGATCTTGTCTCAATGC
* * * * ** *
31717161 CGATGCCATGTCCTAGACATGGTCTTATACTGGCTCTCATAAAGTGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATAAAGTAACCGATGCATGTCCCAGAC
31717226 ATGTCTTACACTAG
66 ATGTCTTACACTAG
31717240 CCCCCAAACA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATAAAGTAACCGATGCATGTCCCAGAC
ATGTCTTACACTAGATCTTGTCTCAATGC
Found at i:31726286 original size:690 final size:691
Alignment explanation
Indices: 31724958--31726347 Score: 2595
Period size: 690 Copynumber: 2.0 Consensus size: 691
31724948 GCAACTAGTC
* *
31724958 AATTTAGTCGTTTTGCTTAAATTTCTACCGGTCTAGGCTTAAAGTCGATATTTCTTGATCTATAA
1 AATTTTGTCGTTTTGCTTAAATTTCCACCGGTCTAGGCTTAAAGTCGATATTTCTTGATCTATAA
*
31725023 TATCAAAATGAACTCATTTAATCACTAAATAAATTTAAGCAAGTAAAAATTCACATCTTCGATAA
66 TATCAAAACGAACTCATTTAATCACTAAATAAATTTAAGCAAGTAAAAATTCACATCTTCGATAA
*
31725088 AATGACCATTTTGCCCCTATACTTTGGCAAAATGACCATTTTACCCGTATGCTTGAAAATCAAAT
131 AATGACCATTTTGCCCCTATACTTTAGCAAAATGACCATTTTACCCGTATGCTTGAAAATCAAAT
*
31725153 TTTATTGAATTTATTCACATCTTAAGCCTAGATGAACTCTTTTTACTCTTATTTCCACCCCAAAT
196 TTTATTGAATTTATTCACATCTTAAGCCTAGATGAACTCTTTTTACTCTTATTTCAACCCCAAAT
31725218 ACTCTCTATTTCACACATTTATCATTCATTTTACAACTTGTGCAAAATAGTCCCTTTAGGTGCTT
261 ACTCTCTATTTCACACATTTATCATTCATTTTACAACTTGTGCAAAATAGTCCCTTTAGGTGCTT
31725283 TCATGGTAACACCTTTCACAAAAGTTGTCTATTACACAACTAAGACTCATATTCTTGCATAAAAT
326 TCATGGTAACACCTTTCACAAAAGTTGTCTATTACACAACTAAGACTCATATTCTTGCATAAAAT
31725348 TTTAGAAAACTCCCTAAATTATCTCATGGAAAAACCCTAGACTTTCAACCATTTTGCATGATACT
391 TTTAGAAAACTCCCTAAATTATCTCATGGAAAAACCCTAGACTTTCAACCATTTTGCATGATACT
* *
31725413 CCCCTCATTTGAAAGCTCATGCTTCAAGGGTCTTAAAAATGCAAAAATCATCAACAAAGGGTATG
456 CCCCTCATTTGAAACCTCATGCTTCAAGGGTCTAAAAAATGCAAAAATCATCAACAAAGGGTATG
*
31725478 GAAATCACTTACTTCTGAGTGCTTCAAGTTGCTAAAAATTTTAAGCTCTCAAACGACCCTTCAAT
521 GAAATCACTTACTTCTGAGTGCTTCAAGTTGCTAAAAATTTTAAGCTCTCAAACCACCCTTCAAT
* *
31725543 GGCTAATTTTTGGTGGAGAAAATAGATGAGAAAGGGATGATATCATCCTTCTTTTATTTATTTAT
586 GGCTAATATTTGGTGGAGAAAAGAGATGAGAAAGGGATGATATCATCCTTCTTTTATTTATTTAT
31725608 ATTTTAGTCAAAATAAGTCACCTGACCTACCAAATTTTGAA
651 ATTTTAGTCAAAATAAGTCACCTGACCTACCAAATTTTGAA
* *
31725649 AATTTTGTCGTTTTGCTTAGATTTCCGCCGGTCTAGGCTTAAAGTCGATATTTCTTGATCTATAA
1 AATTTTGTCGTTTTGCTTAAATTTCCACCGGTCTAGGCTTAAAGTCGATATTTCTTGATCTATAA
* * *
31725714 TATCAAAACGCACTTATTTAATCACTAAATAAATTTAAGCAAGTAAAAATTCACATCTTCGGTAA
66 TATCAAAACGAACTCATTTAATCACTAAATAAATTTAAGCAAGTAAAAATTCACATCTTCGATAA
31725779 AATGACCATTTTG-CCCTATACTTTAGCAAAATGACCATTTTACCCGTATGCTTGAAAATCAAAT
131 AATGACCATTTTGCCCCTATACTTTAGCAAAATGACCATTTTACCCGTATGCTTGAAAATCAAAT
*
31725843 TTTATTGAATTTATTCACATCTTCAGCCTAGATGAACTCTTTTTACTCTTATCTT-AACCCCAAA
196 TTTATTGAATTTATTCACATCTTAAGCCTAGATGAACTCTTTTTACTCTTAT-TTCAACCCCAAA
*
31725907 TACTCTCTATTTCACACATTTATCATTCATTTTACAACTTGTGCAAAATAGTCCCTTTAGGTGTT
260 TACTCTCTATTTCACACATTTATCATTCATTTTACAACTTGTGCAAAATAGTCCCTTTAGGTGCT
31725972 TTCATGGTAACACCTTTCACAAAAGTTGTCTATTACACAACTAAGACTCATATTCTTGCATAAAA
325 TTCATGGTAACACCTTTCACAAAAGTTGTCTATTACACAACTAAGACTCATATTCTTGCATAAAA
31726037 TTTTAGAAAACTCCCTAAATTATCTCATGGAAAAACCCTAGACTTTCAACCATTTTGCATGATAC
390 TTTTAGAAAACTCCCTAAATTATCTCATGGAAAAACCCTAGACTTTCAACCATTTTGCATGATAC
31726102 TCCCCTCATTTGAAACCTCATGCTTCAAGGGTCTAAAAAATGCAAAAATCATCAACAAAGGGTAT
455 TCCCCTCATTTGAAACCTCATGCTTCAAGGGTCTAAAAAATGCAAAAATCATCAACAAAGGGTAT
*
31726167 GGAAATCACTTACTTCTGAGTGCTTCAAGTTGCTAAAAATTTTAATCTCTCAAACCACCCTTCAA
520 GGAAATCACTTACTTCTGAGTGCTTCAAGTTGCTAAAAATTTTAAGCTCTCAAACCACCCTTCAA
31726232 TGGCTAATATTTGGTGGAGAAAAGAGATGAGAAAGGGATGATATCATCCTTCTTTTATTTATTTA
585 TGGCTAATATTTGGTGGAGAAAAGAGATGAGAAAGGGATGATATCATCCTTCTTTTATTTATTTA
31726297 TATTTTAGTCAAAATAAGTCACCTGACCTACCAAATTTTGAA
650 TATTTTAGTCAAAATAAGTCACCTGACCTACCAAATTTTGAA
31726339 AATTTTGTC
1 AATTTTGTC
31726348 TCCACTTTGA
Statistics
Matches: 680, Mismatches: 18, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
690 543 0.80
691 137 0.20
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (691 bp):
AATTTTGTCGTTTTGCTTAAATTTCCACCGGTCTAGGCTTAAAGTCGATATTTCTTGATCTATAA
TATCAAAACGAACTCATTTAATCACTAAATAAATTTAAGCAAGTAAAAATTCACATCTTCGATAA
AATGACCATTTTGCCCCTATACTTTAGCAAAATGACCATTTTACCCGTATGCTTGAAAATCAAAT
TTTATTGAATTTATTCACATCTTAAGCCTAGATGAACTCTTTTTACTCTTATTTCAACCCCAAAT
ACTCTCTATTTCACACATTTATCATTCATTTTACAACTTGTGCAAAATAGTCCCTTTAGGTGCTT
TCATGGTAACACCTTTCACAAAAGTTGTCTATTACACAACTAAGACTCATATTCTTGCATAAAAT
TTTAGAAAACTCCCTAAATTATCTCATGGAAAAACCCTAGACTTTCAACCATTTTGCATGATACT
CCCCTCATTTGAAACCTCATGCTTCAAGGGTCTAAAAAATGCAAAAATCATCAACAAAGGGTATG
GAAATCACTTACTTCTGAGTGCTTCAAGTTGCTAAAAATTTTAAGCTCTCAAACCACCCTTCAAT
GGCTAATATTTGGTGGAGAAAAGAGATGAGAAAGGGATGATATCATCCTTCTTTTATTTATTTAT
ATTTTAGTCAAAATAAGTCACCTGACCTACCAAATTTTGAA
Found at i:31729565 original size:40 final size:40
Alignment explanation
Indices: 31729460--31729605 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
31729450 GCTACTCGTT
*
31729460 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
31729500 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
31729540 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
31729581 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31729606 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.83
41 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:31737514 original size:40 final size:40
Alignment explanation
Indices: 31737477--31737569 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 40
31737467 GCTACTCGTT
* *
31737477 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATT-TAGTAACTCGCA
*
31737517 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
31737557 CAAATGCCTTCGG
1 CAAATGCCTTCGG
31737570 ATCTTAGTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 46 0.94
41 3 0.06
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCAGATTTAGTAACTCGCA
Found at i:31740572 original size:20 final size:20
Alignment explanation
Indices: 31740536--31740573 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31740526 GTTTAGTGAA
*
31740536 AAAAGTTTCCTAGGTTCTGT
1 AAAAGTTTCCTAAGTTCTGT
31740556 AAAAGTTT-CTAAAGTTCT
1 AAAAGTTTCCT-AAGTTCT
31740574 CAATTTAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (20 bp):
AAAAGTTTCCTAAGTTCTGT
Found at i:31751048 original size:51 final size:51
Alignment explanation
Indices: 31750972--31751104 Score: 239
Period size: 51 Copynumber: 2.6 Consensus size: 51
31750962 GGTTTTGCTT
31750972 GATAGCTATCATCATTTCTAATGTCTTTTTATAGGGAACATCACCAATATC
1 GATAGCTATCATCATTTCTAATGTCTTTTTATAGGGAACATCACCAATATC
*
31751023 GATAGCTATCATCATTTCTAATGTCTTTTTATCGGGAACATCACCAATATC
1 GATAGCTATCATCATTTCTAATGTCTTTTTATAGGGAACATCACCAATATC
* *
31751074 GATAGTTATCATCATATCTAATGTCTTTTTA
1 GATAGCTATCATCATTTCTAATGTCTTTTTA
31751105 GGGCCTTAGG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 79 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (51 bp):
GATAGCTATCATCATTTCTAATGTCTTTTTATAGGGAACATCACCAATATC
Found at i:31764809 original size:56 final size:56
Alignment explanation
Indices: 31764723--31764842 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
31764713 ACAAGGGATG
31764723 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
31764779 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
31764835 ATGGGCAA
1 ATGGGCAA
31764843 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:31766352 original size:47 final size:47
Alignment explanation
Indices: 31766298--31766896 Score: 848
Period size: 47 Copynumber: 12.6 Consensus size: 47
31766288 TATTTGAATA
* *
31766298 AATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31766345 AATGTGAAAGTGTATATATATGTCATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31766394 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31766443 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
31766492 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
31766539 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31766588 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31766635 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31766682 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31766729 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31766776 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
31766823 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31766870 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31766897 TCCCGAAGGG
Statistics
Matches: 521, Mismatches: 25, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 333 0.64
49 186 0.36
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:31766774 original size:22 final size:22
Alignment explanation
Indices: 31766747--31766868 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
31766737 CATGTGTATG
31766747 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
31766769 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
31766794 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
31766816 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
31766841 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
31766863 TGTGAT
1 TGTGAT
31766869 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:31769277 original size:39 final size:39
Alignment explanation
Indices: 31769181--31769360 Score: 163
Period size: 40 Copynumber: 4.5 Consensus size: 39
31769171 ATGATGTCCG
* * *
31769181 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCC
31769220 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
31769260 GTGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAATCC
1 G-GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
31769299 AGGTTAAGTCCCGAAGGCATTTGTACGAGTTACT-ATAACC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
31769339 GGGCTAAGTCCCGAAGAGCATT
1 -GGCTAAGTCCCGAAG-GCATT
31769361 CATGCTAGTG
Statistics
Matches: 117, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
39 35 0.30
40 66 0.56
41 16 0.14
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:31769381 original size:40 final size:40
Alignment explanation
Indices: 31769332--31769531 Score: 238
Period size: 40 Copynumber: 5.0 Consensus size: 40
31769322 TACGAGTTAC
*
31769332 TATAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
* * *
31769372 TGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAATGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
* * *
31769412 TGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
** ** * * *
31769452 TATATCCATGCTAAACCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
* * * *
31769492 TATATCCAGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
31769532 CGTGTATTCG
Statistics
Matches: 139, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
Found at i:31770885 original size:56 final size:56
Alignment explanation
Indices: 31770799--31770918 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
31770789 ACAAGGGATG
31770799 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
31770855 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
31770911 ATGGGCAA
1 ATGGGCAA
31770919 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:31772417 original size:47 final size:47
Alignment explanation
Indices: 31772363--31773008 Score: 924
Period size: 47 Copynumber: 13.6 Consensus size: 47
31772353 TATTTGAATA
*
31772363 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31772410 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31772459 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31772506 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31772555 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
31772604 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
31772651 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31772700 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31772747 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31772794 AATGTGAACA-TGTGTATGTGTGAGAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31772841 AATGTGAACA-TGTGTATGTGTGATAAGGCTGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31772888 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
31772935 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31772982 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
31773009 TCCCGAAGGG
Statistics
Matches: 565, Mismatches: 26, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 376 0.67
49 187 0.33
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:31772790 original size:94 final size:94
Alignment explanation
Indices: 31772363--31773008 Score: 924
Period size: 96 Copynumber: 6.8 Consensus size: 94
31772353 TATTTGAATA
*
31772363 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
* *
31772428 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31772459 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
* *
31772524 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
31772555 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
31772620 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
31772651 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
31772715 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31772747 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
* *
31772810 TGTGTGAGAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
31772841 AATGTGAACA-TGTGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACA-TGCATA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
31772904 TATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
31772935 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
31773000 TGTGATAAG
66 TGTGATAAG
31773009 TCCCGAAGGG
Statistics
Matches: 516, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
93 2 0.00
94 225 0.44
96 240 0.47
97 2 0.00
98 47 0.09
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:31777113 original size:42 final size:41
Alignment explanation
Indices: 31777023--31777166 Score: 121
Period size: 42 Copynumber: 3.4 Consensus size: 41
31777013 GTCCTAGATG
* * *
31777023 TGGTCTTACATGTAAA-CAAATATCGATGCCACTGTCCCAGACA
1 TGGTCTTACACG-AAATCAAATA-CGATG-CAATGTCCCAAACA
* *
31777066 AGGTCTTACACGAAATCAAATACGATGTCGATGTCCCAAACA
1 TGGTCTTACACGAAATCAAATACGATG-CAATGTCCCAAACA
* * *
31777108 TGGTCTTACACATAAATCATAAGT-CGATGCCAACGTCCCATACA
1 TGGTCTTACAC-GAAATCA-AA-TACGATG-CAATGTCCCAAACA
*
31777152 TGGTCTTACTCGAAA
1 TGGTCTTACACGAAA
31777167 ACACATATCG
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.35
43 25 0.30
44 28 0.34
45 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (41 bp):
TGGTCTTACACGAAATCAAATACGATGCAATGTCCCAAACA
Found at i:31777146 original size:44 final size:40
Alignment explanation
Indices: 31777044--31777166 Score: 120
Period size: 44 Copynumber: 2.9 Consensus size: 40
31777034 GTAAACAAAT
* *
31777044 ATCGATGCCACTGTCCCAGACAAGGTCTTACACGAAATCAA
1 ATCGATGCCAC-GTCCCAAACATGGTCTTACACGAAATCAA
* * *
31777085 ATACGATGTCGATGTCCCAAACATGGTCTTACACATAAATCATA
1 AT-CGATG-CCACGTCCCAAACATGGTCTTACAC-GAAATCA-A
* *
31777129 AGTCGATGCCAACGTCCCATACATGGTCTTACTCGAAA
1 A-TCGATGCC-ACGTCCCAAACATGGTCTTACACGAAA
31777167 ACACATATCG
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
41 2 0.03
42 24 0.36
43 12 0.18
44 27 0.41
45 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
ATCGATGCCACGTCCCAAACATGGTCTTACACGAAATCAA
Found at i:31784859 original size:68 final size:68
Alignment explanation
Indices: 31784747--31784881 Score: 261
Period size: 68 Copynumber: 2.0 Consensus size: 68
31784737 ACAAAGTAAG
31784747 TTTAAAAGCTTAGTAAGCCATATACAAATAAAATTACCAAATGAATCAACATCATTTCCATCAAT
1 TTTAAAAGCTTAGTAAGCCATATACAAATAAAATTACCAAATGAATCAACATCATTTCCATCAAT
31784812 AGC
66 AGC
*
31784815 TTTAAAAGCTTAGTAAGCCATATACAAATAAAATTACCACATGAATCAACATCATTTCCATCAAT
1 TTTAAAAGCTTAGTAAGCCATATACAAATAAAATTACCAAATGAATCAACATCATTTCCATCAAT
31784880 AG
66 AG
31784882 GAAAACAATG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.28
Consensus pattern (68 bp):
TTTAAAAGCTTAGTAAGCCATATACAAATAAAATTACCAAATGAATCAACATCATTTCCATCAAT
AGC
Found at i:31785193 original size:43 final size:43
Alignment explanation
Indices: 31785146--31785302 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
31785136 ATCACATATT
*
31785146 GATGCCGAAAG-CCTAG-CTATGGTCTTACTCGAAATCAAATAAC
1 GATGCC-AAAGTCCTAGAC-ATGGTCTTACTAGAAATCAAATAAC
* *
31785189 GATGCCAATGTCCTAGACATGGTCTTACTAGAAATCAAATAAT
1 GATGCCAAAGTCCTAGACATGGTCTTACTAGAAATCAAATAAC
* * *
31785232 GATG-CAAATGTCCTAGACATGGTCTTAC-ACATAATCACATAAT
1 GATGCCAAA-GTCCTAGACATGGTCTTACTAGA-AATCAAATAAC
* * * *
31785275 GATTCCAATGTCCCAGCCATGGTCTTAC
1 GATGCCAAAGTCCTAGACATGGTCTTAC
31785303 ACATAATCAC
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
42 8 0.08
43 87 0.88
44 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
GATGCCAAAGTCCTAGACATGGTCTTACTAGAAATCAAATAAC
Found at i:31785314 original size:43 final size:42
Alignment explanation
Indices: 31785164--31785311 Score: 188
Period size: 43 Copynumber: 3.4 Consensus size: 42
31785154 AAGCCTAGCT
* *
31785164 ATGGTCTTACTCGAAATCAAATAACGATGCCAATGTCCTAGAC
1 ATGGTCTTACAC-AAATCAAATAATGATGCCAATGTCCTAGAC
* *
31785207 ATGGTCTTACTAGAAATCAAATAATGATGCAAATGTCCTAGAC
1 ATGGTCTTAC-ACAAATCAAATAATGATGCCAATGTCCTAGAC
* * * *
31785250 ATGGTCTTACACATAATCACATAATGATTCCAATGTCCCAGCC
1 ATGGTCTTACACA-AATCAAATAATGATGCCAATGTCCTAGAC
31785293 ATGGTCTTACACATAATCA
1 ATGGTCTTACACA-AATCA
31785312 CATCTCGTTA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 2 0.02
43 91 0.98
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACAAATCAAATAATGATGCCAATGTCCTAGAC
Found at i:31791237 original size:27 final size:27
Alignment explanation
Indices: 31791207--31791311 Score: 138
Period size: 27 Copynumber: 3.9 Consensus size: 27
31791197 CCAATTTATG
* * *
31791207 AAATGAATGTTTTACCCTTATGTGGTA
1 AAATGACTGTTTTGCCCTTATATGGTA
*
31791234 AAATGACTATTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATATGGTA
**
31791261 GGATGACTGTTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATATGGTA
**
31791288 GGATGACTGTTTTGCCCTTATATG
1 AAATGACTGTTTTGCCCTTATATG
31791312 ATATATGTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATATGGTA
Found at i:31791279 original size:54 final size:54
Alignment explanation
Indices: 31791209--31791311 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
31791199 AATTTATGAA
*
31791209 ATGAATGTTTTACCCTTATGTGGTAAAATGACTATTTTGCCCTTATATGGTAGG
1 ATGAATGTTTTACCCTTATATGGTAAAATGACTATTTTGCCCTTATATGGTAGG
* * ** *
31791263 ATGACTGTTTTGCCCTTATATGGTAGGATGACTGTTTTGCCCTTATATG
1 ATGAATGTTTTACCCTTATATGGTAAAATGACTATTTTGCCCTTATATG
31791312 ATATATGTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (54 bp):
ATGAATGTTTTACCCTTATATGGTAAAATGACTATTTTGCCCTTATATGGTAGG
Found at i:31795366 original size:40 final size:40
Alignment explanation
Indices: 31795322--31795544 Score: 221
Period size: 40 Copynumber: 5.6 Consensus size: 40
31795312 GCTCCTCGTT
*
31795322 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
31795362 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
31795402 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
*
31795441 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAAT-TCGCA
* * * * *
31795481 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
31795522 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
31795545 AACATCATTC
Statistics
Matches: 158, Mismatches: 13, Indels: 24
0.81 0.07 0.12
Matches are distributed among these distances:
38 3 0.02
39 30 0.19
40 111 0.70
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:31795424 original size:79 final size:78
Alignment explanation
Indices: 31795322--31795544 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 78
31795312 GCTCCTCGTT
* *
31795322 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
31795387 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* *
31795402 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAGCCCG
*
31795465 GATTTAGTATCTCGCA
63 GATTTAGTAACTCGCA
* * * * *
31795481 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
31795545 AACATCATTC
Statistics
Matches: 123, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
78 6 0.05
79 64 0.52
80 40 0.33
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TTAGTAACTCGCA
Found at i:31795506 original size:119 final size:120
Alignment explanation
Indices: 31795322--31795544 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
31795312 GCTCCTCGTT
31795322 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
31795387 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
31795441 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAAC
* *
31795502 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
62 CCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCG
31795545 AACATCATTC
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 8 0.09
119 63 0.70
120 19 0.21
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:31802631 original size:40 final size:40
Alignment explanation
Indices: 31802587--31802810 Score: 205
Period size: 40 Copynumber: 5.6 Consensus size: 40
31802577 GCTCCTCGTT
*
31802587 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
31802627 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
31802667 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATATCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* *
31802706 CAAATGCCTTC-GAATCTTAGTCCGGATT-TAGT-ATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAAT-TCGCA
* * * * *
31802746 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
*
31802787 CAAA-GCCTTCGGGACTTATCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
31802811 AATCATTCAA
Statistics
Matches: 155, Mismatches: 17, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 109 0.70
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:31802689 original size:79 final size:78
Alignment explanation
Indices: 31802587--31802811 Score: 249
Period size: 79 Copynumber: 2.8 Consensus size: 78
31802577 GCTCCTCGTT
*
31802587 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
31802652 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * **
31802667 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATATCGCACAAATGCCTTC-GAATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCCG
*
31802730 GATTTAGTATCTCGCA
63 GATTTAGTAACTCGCA
* * * * * *
31802746 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTATCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAACCCG
31802810 GA
63 GA
31802812 ATCATTCAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
78 5 0.04
79 64 0.52
80 41 0.34
81 11 0.09
82 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAGTAACTCGCA
Found at i:31803255 original size:34 final size:34
Alignment explanation
Indices: 31803216--31803285 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
31803206 TGCAACTGAG
*
31803216 TTCATTTATTAAACCGTTCTCAAATGCTATCACA
1 TTCATTTATTAAACCATTCTCAAATGCTATCACA
31803250 TTCATTTATTAAACCATTCTCAAATGCTATCACA
1 TTCATTTATTAAACCATTCTCAAATGCTATCACA
31803284 TT
1 TT
31803286 GTCAATTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (34 bp):
TTCATTTATTAAACCATTCTCAAATGCTATCACA
Found at i:31807702 original size:34 final size:34
Alignment explanation
Indices: 31807663--31807732 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
31807653 TGCAACTGAG
31807663 TTCATTTATTAAACCATTCTCAAATGCTATCACA
1 TTCATTTATTAAACCATTCTCAAATGCTATCACA
31807697 TTCATTTATTAAACCATTCTCAAATGCTATCACA
1 TTCATTTATTAAACCATTCTCAAATGCTATCACA
31807731 TT
1 TT
31807733 ATCAATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (34 bp):
TTCATTTATTAAACCATTCTCAAATGCTATCACA
Found at i:31812115 original size:34 final size:34
Alignment explanation
Indices: 31812076--31812145 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
31812066 TGCAACTGAG
31812076 TTCATTTATTAAACCATTCTCAAATGCTATCACA
1 TTCATTTATTAAACCATTCTCAAATGCTATCACA
31812110 TTCATTTATTAAACCATTCTCAAATGCTATCACA
1 TTCATTTATTAAACCATTCTCAAATGCTATCACA
31812144 TT
1 TT
31812146 GTCAATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (34 bp):
TTCATTTATTAAACCATTCTCAAATGCTATCACA
Found at i:31816519 original size:32 final size:33
Alignment explanation
Indices: 31816475--31816539 Score: 123
Period size: 32 Copynumber: 2.0 Consensus size: 33
31816465 TGCAACTGAG
31816475 TTCATTTATTAAACCATTCTCAAATGCTATCAC
1 TTCATTTATTAAACCATTCTCAAATGCTATCAC
31816508 TTCA-TTATTAAACCATTCTCAAATGCTATCAC
1 TTCATTTATTAAACCATTCTCAAATGCTATCAC
31816540 ATTGTCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (33 bp):
TTCATTTATTAAACCATTCTCAAATGCTATCAC
Found at i:31820976 original size:34 final size:34
Alignment explanation
Indices: 31820938--31821005 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
31820928 CTGCAACTGA
31820938 GTTCATTTATTAAACCATTCTCAAATGCTATCAC
1 GTTCATTTATTAAACCATTCTCAAATGCTATCAC
31820972 GTTCATTTATTAAACCATTCTCAAATGCTATCAC
1 GTTCATTTATTAAACCATTCTCAAATGCTATCAC
31821006 ATTGTCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (34 bp):
GTTCATTTATTAAACCATTCTCAAATGCTATCAC
Found at i:31828600 original size:157 final size:157
Alignment explanation
Indices: 31828314--31828633 Score: 615
Period size: 157 Copynumber: 2.0 Consensus size: 157
31828304 CCTTTGTCTC
* *
31828314 TGAAAGAGAAAGATGCTATTTGGGTTGTCATTGATTGATTAGCGAAATCAACATATTTCATCCTG
1 TGAAAGAGAAAGATGCTATTTGGGTTGTCATTGATTGATTAACGAAATCAACACATTTCATCCTG
31828379 GTACATACTAACTTTTTACTTGATAAATTGGTTGAGTTGTATATTTCTAAAATCATTAGATTGCA
66 GTACATACTAACTTTTTACTTGATAAATTGGTTGAGTTGTATATTTCTAAAATCATTAGATTGCA
31828444 CGGGGTACCAGTTTTGATTATTTCGAA
131 CGGGGTACCAGTTTTGATTATTTCGAA
31828471 TGAAAGAGAAAGATGCTATTTGGGTTGTCATTGATTGATTAACGAAATCAACACATTTCATCCTG
1 TGAAAGAGAAAGATGCTATTTGGGTTGTCATTGATTGATTAACGAAATCAACACATTTCATCCTG
31828536 GTACATACTAACTTTTTACTTGATAAATTGGTTGAGTTGTATATTTCTAAAATCATTAGATTGCA
66 GTACATACTAACTTTTTACTTGATAAATTGGTTGAGTTGTATATTTCTAAAATCATTAGATTGCA
31828601 CGGGGTACCAGTTTTGATTATTTCGAA
131 CGGGGTACCAGTTTTGATTATTTCGAA
31828628 T-AAAGA
1 TGAAAGA
31828634 TTCGAAATTC
Statistics
Matches: 161, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
156 5 0.03
157 156 0.97
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (157 bp):
TGAAAGAGAAAGATGCTATTTGGGTTGTCATTGATTGATTAACGAAATCAACACATTTCATCCTG
GTACATACTAACTTTTTACTTGATAAATTGGTTGAGTTGTATATTTCTAAAATCATTAGATTGCA
CGGGGTACCAGTTTTGATTATTTCGAA
Found at i:31834997 original size:47 final size:47
Alignment explanation
Indices: 31834943--31835107 Score: 240
Period size: 47 Copynumber: 3.5 Consensus size: 47
31834933 TATTTGAATA
*
31834943 AATGTGAAAGTGTATATATGTGATAACGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31834990 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
31835037 AATGTGAAAGTGCATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31835084 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
31835108 GAGTCCCGAA
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 106 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:31837454 original size:43 final size:43
Alignment explanation
Indices: 31837356--31837639 Score: 310
Period size: 43 Copynumber: 6.7 Consensus size: 43
31837346 AAAAAACTCT
*
31837356 GCTATAGAACATGACCTTTAGCGGCG-TTTCTCACAA-AAA-TCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTT-T-ACAACAAACGCC
* *
31837398 GCTATAGACCATGACATTTAGCGGCGCTTTTACAACAAACGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
* * *
31837441 GCTATTGAACATGACCTTTAGTGGCGCTTTTACAAGAAACGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
** * *
31837484 ATTATAGAACATGGCCTTTAGCGGCGCTTTTACCACAAACGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
* *
31837527 GCTATAGAACATGGCCTTTAGCGGCGCTTTTACTACAAACGCC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
* * * * ** *
31837570 GCTATAGAACGTTAGCTTTAGCGGCACTTCCA-AACAAA--AC
1 GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
* * *
31837610 GCTAAAGAACAAGACTTTTAGCGGCGCTTT
1 GCTATAGAACATGACCTTTAGCGGCGCTTT
31837640 AGTGAAAAAC
Statistics
Matches: 204, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
40 23 0.11
41 4 0.02
42 33 0.16
43 144 0.71
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
GCTATAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCC
Found at i:31838074 original size:21 final size:21
Alignment explanation
Indices: 31838048--31838093 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
31838038 TACTCTACTT
* *
31838048 TGCTTCTCTCGCTGCTGCCTC
1 TGCTTCCCTCACTGCTGCCTC
31838069 TGCTTCCCTCACTGCTGCCTC
1 TGCTTCCCTCACTGCTGCCTC
31838090 TGCT
1 TGCT
31838094 CTATGTTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.43, G:0.17, T:0.37
Consensus pattern (21 bp):
TGCTTCCCTCACTGCTGCCTC
Found at i:31842565 original size:9 final size:9
Alignment explanation
Indices: 31842546--31842662 Score: 73
Period size: 9 Copynumber: 13.2 Consensus size: 9
31842536 TGTATTACAC
*
31842546 AAGTTAAGT
1 AAGTTATGT
*
31842555 AAGTTTTGT
1 AAGTTATGT
31842564 AAGTTATGT
1 AAGTTATGT
31842573 AAGTTATG-
1 AAGTTATGT
* *
31842581 ATA-TGATAT
1 A-AGTTATGT
*
31842590 ACATTTATGT
1 A-AGTTATGT
31842600 AAGTTATGT
1 AAGTTATGT
31842609 AAGTTATGAT
1 AAGTTATG-T
* * *
31842619 ATGATATAT
1 AAGTTATGT
*
31842628 -ATTTATGT
1 AAGTTATGT
31842636 -A-TTATGT
1 AAGTTATGT
*
31842643 AAGTTTTGT
1 AAGTTATGT
*
31842652 AAGTTTTGT
1 AAGTTATGT
31842661 AA
1 AA
31842663 TGTAACGTCC
Statistics
Matches: 85, Mismatches: 17, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
7 6 0.07
8 10 0.12
9 58 0.68
10 11 0.13
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (9 bp):
AAGTTATGT
Found at i:31842603 original size:36 final size:36
Alignment explanation
Indices: 31842561--31842647 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
31842551 AAGTAAGTTT
31842561 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
*
31842597 TGTAAGTTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTA
31842633 TGT-A-TTATGTAAGTT
1 TGTAAGTTATGTAAGTT
31842648 TTGTAAGTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 11 0.22
35 1 0.02
36 38 0.76
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (36 bp):
TGTAAGTTATGTAAGTTATGATATGATATACATTTA
Found at i:31844086 original size:47 final size:49
Alignment explanation
Indices: 31843964--31844142 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 49
31843954 TGTAACCCGC
* *
31843964 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
* *
31844010 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* *
31844060 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
*
31844103 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
31844143 TCAACCATCC
Statistics
Matches: 113, Mismatches: 9, Indels: 19
0.80 0.06 0.13
Matches are distributed among these distances:
43 7 0.06
44 2 0.02
45 2 0.02
46 62 0.55
47 29 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:31844130 original size:93 final size:93
Alignment explanation
Indices: 31843971--31844142 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
31843961 CGCCCATAAG
* * * *
31843971 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
31844036 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
31844064 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
31844129 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
31844143 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:31846556 original size:15 final size:15
Alignment explanation
Indices: 31846527--31846576 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
31846517 CAAAGATAAC
*
31846527 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
31846541 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
31846556 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
31846571 AAGAAA
1 AAGAAA
31846577 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31846585 original size:15 final size:15
Alignment explanation
Indices: 31846538--31846585 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
31846528 AGAAAACCGA
31846538 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
31846552 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
31846568 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31846583 ATA
1 ATA
31846586 CGATACTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31849668 original size:93 final size:93
Alignment explanation
Indices: 31849509--31849680 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
31849499 CGCCCATAAG
* * *
31849509 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
31849574 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
31849602 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
31849667 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
31849681 TGAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:31849677 original size:46 final size:46
Alignment explanation
Indices: 31849502--31849677 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
31849492 TGTAACCCGC
* * **
31849502 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
* * *
31849548 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACAT
*
31849598 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
*
31849641 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31849678 TGCTGAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 7 0.06
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
Found at i:31850999 original size:27 final size:27
Alignment explanation
Indices: 31850968--31851022 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
31850958 AGGATATTAC
31850968 ATGTAAGTTATGATATGATATATATTT
1 ATGTAAGTTATGATATGATATATATTT
*
31850995 ATGTAAGTTATTATATGATATATATTT
1 ATGTAAGTTATGATATGATATATATTT
31851022 A
1 A
31851023 ACATTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (27 bp):
ATGTAAGTTATGATATGATATATATTT
Found at i:31851365 original size:14 final size:14
Alignment explanation
Indices: 31851346--31851392 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
31851336 CATGGAAAAT
31851346 ATTATTTTAATTAA
1 ATTATTTTAATTAA
31851360 ATTATTTTAATTAA
1 ATTATTTTAATTAA
* *
31851374 ATAATATTTAAATAA
1 ATTAT-TTTAATTAA
31851389 ATTA
1 ATTA
31851393 ATCCAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTATTTTAATTAA
Found at i:31851375 original size:177 final size:175
Alignment explanation
Indices: 31851184--31851828 Score: 786
Period size: 177 Copynumber: 3.7 Consensus size: 175
31851174 TGAAAAAAAT
* * *
31851184 TTATTTTTATTAAATAATATTTAAATAAATTAATCTAAATTATATAATTTAAAAAATTGTTTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
* *
31851249 AAAATTTGAAAATCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAAGAAAAATAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAA-AAAAATAA
*
31851314 AATTTGACAATGCGAAAAATCACATGGAAAATATTATTTTAATTAAA
130 AATTTGACGATGCGAAAAATCACATGGAAAATATTATTTTAA-TAAA
*
31851361 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTTAAAAATTGTGTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
* * * * *
31851426 AAAAGTTGAAAACCGTATAAGTTAAAATTTTAACTTTGTTCCATGGAAAAAAAGAATAAAAATAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAA-AAAAATAA
* * *
31851491 AATTAGACGATGCGGAAAATCAGATGGGAAAAAAATATTTTTATTAAATAATATTTAAATAAA
130 AATTTGACGATGCGAAAAATCACAT-GG----AAA-A----TA-T---T-AT-TTT-AATAAA
* *
31851554 TTATTTTAATTAAATAATATTTAAATAAATTAATTCAAATTATATAATTTAAAAATTTGTGTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
*
31851619 AAAAGTTGAAAACTGTATAAGATGAAATGTCAACTTTGTTCCATGG-AAAAAAT---AAAATAAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAAAAAAATAAA
*
31851680 ATTTGATGATGCGAAAAATCACAT-G--AA-A--A----AA-AAA
131 ATTTGACGATGCGAAAAATCACATGGAAAATATTATTTTAATAAA
*
31851714 -TATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTATGTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
* *
31851778 AAAAGTTGAAAGCCGTATAAGATGAAA--TCAACTTTGTTCCATGAAAAAAAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAA
31851829 AATTGAACCT
Statistics
Matches: 415, Mismatches: 35, Indels: 55
0.82 0.07 0.11
Matches are distributed among these distances:
157 16 0.04
158 6 0.01
159 86 0.21
160 3 0.01
161 2 0.00
167 1 0.00
174 1 0.00
177 139 0.33
178 2 0.00
179 1 0.00
180 1 0.00
182 3 0.01
183 1 0.00
186 1 0.00
187 2 0.00
188 29 0.07
191 1 0.00
192 8 0.02
193 110 0.27
194 2 0.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (175 bp):
TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAAAAAAATAAA
ATTTGACGATGCGAAAAATCACATGGAAAATATTATTTTAATAAA
Found at i:31851539 original size:13 final size:13
Alignment explanation
Indices: 31851523--31851583 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 13
31851513 GATGGGAAAA
*
31851523 AAATATTTTTATT
1 AAATATTTTAATT
*
31851536 AAATAATATTTAAAT
1 AAAT-AT-TTTAATT
31851551 AAATTATTTTAATT
1 AAA-TATTTTAATT
*
31851565 AAATAATATTTAAAT
1 AAAT-AT-TTTAATT
31851580 AAAT
1 AAAT
31851584 TAATTCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 5 0.13
14 13 0.33
15 20 0.51
16 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATTTTAATT
Found at i:31851543 original size:16 final size:16
Alignment explanation
Indices: 31851524--31851575 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 16
31851514 ATGGGAAAAA
*
31851524 AATATTTTTATTAAAT
1 AATATTTTAATTAAAT
*
31851540 AATA-TTTAAATAAAT
1 AATATTTTAATTAAAT
31851555 --TATTTTAATTAAAT
1 AATATTTTAATTAAAT
31851569 AATATTT
1 AATATTT
31851576 AAATAAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 9 0.30
16 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATTTTAATTAAAT
Found at i:31851558 original size:29 final size:29
Alignment explanation
Indices: 31851526--31851585 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
31851516 GGGAAAAAAA
*
31851526 TATTTTTATTAAATAATATTTAAATAAAT
1 TATTTTAATTAAATAATATTTAAATAAAT
31851555 TATTTTAATTAAATAATATTTAAATAAAT
1 TATTTTAATTAAATAATATTTAAATAAAT
31851584 TA
1 TA
31851586 ATTCAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TATTTTAATTAAATAATATTTAAATAAAT
Found at i:31851582 original size:15 final size:15
Alignment explanation
Indices: 31851535--31851583 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
31851525 ATATTTTTAT
31851535 TAAATAATATTTAAA
1 TAAATAATATTTAAA
* *
31851550 TAAATTAT-TTTAAT
1 TAAATAATATTTAAA
31851564 TAAATAATATTTAAA
1 TAAATAATATTTAAA
31851579 TAAAT
1 TAAAT
31851584 TAATTCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATAATATTTAAA
Found at i:31856021 original size:43 final size:44
Alignment explanation
Indices: 31855974--31856057 Score: 118
Period size: 43 Copynumber: 1.9 Consensus size: 44
31855964 AGGGATTTCA
31855974 AATTGAGG-AAAAAGGGGTGATTACTTT-CGGATTTCAGATTTTG
1 AATTG-GGAAAAAAGGGGTGATTACTTTACGGATTTCAGATTTTG
* * *
31856017 AATTGGGAAAAAATGGGTGATTACTTTATGGATTTCGGATT
1 AATTGGGAAAAAAGGGGTGATTACTTTACGGATTTCAGATT
31856058 AGGGAAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 2 0.06
43 23 0.64
44 11 0.31
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (44 bp):
AATTGGGAAAAAAGGGGTGATTACTTTACGGATTTCAGATTTTG
Found at i:31856673 original size:7 final size:7
Alignment explanation
Indices: 31856661--31856802 Score: 112
Period size: 7 Copynumber: 19.7 Consensus size: 7
31856651 TTGATCTTCT
31856661 CTAAACC
1 CTAAACC
31856668 CTAAACC
1 CTAAACC
31856675 CTAAACC
1 CTAAACC
31856682 C-AAA-C
1 CTAAACC
31856687 CTCAAGACC
1 CT-AA-ACC
31856696 CTAAACC
1 CTAAACC
31856703 C-AAA-C
1 CTAAACC
31856708 CTCAAGACC
1 CT-AA-ACC
31856717 CTAAACC
1 CTAAACC
31856724 CATAAACC
1 C-TAAACC
*
31856732 TCGAAACC
1 -CTAAACC
* *
31856740 ATAAACT
1 CTAAACC
*
31856747 CAAAACC
1 CTAAACC
*
31856754 ATAAACC
1 CTAAACC
31856761 CTAAAACC
1 CT-AAACC
*
31856769 CAGAAACC
1 C-TAAACC
*
31856777 CTAAACT
1 CTAAACC
31856784 CTAAACC
1 CTAAACC
*
31856791 ATAAACC
1 CTAAACC
31856798 CTAAA
1 CTAAA
31856803 TTACTTAGTT
Statistics
Matches: 107, Mismatches: 16, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.04
6 6 0.06
7 61 0.57
8 29 0.27
9 7 0.07
ACGTcount: A:0.47, C:0.37, G:0.03, T:0.13
Consensus pattern (7 bp):
CTAAACC
Found at i:31856739 original size:37 final size:34
Alignment explanation
Indices: 31856698--31856802 Score: 104
Period size: 37 Copynumber: 2.9 Consensus size: 34
31856688 TCAAGACCCT
*
31856698 AAACCCAAACCTCAAGACCCTAAACCCATAAACCTC-G
1 AAACCCAAA-CTCAA-ACCATAAACCC-TAAACC-CAG
*
31856735 AAACCATAAACTCAAAACCATAAACCCTAAAACCCAG
1 AAACC-CAAACTC-AAACCATAAACCCT-AAACCCAG
31856772 AAACCCTAAACTCTAAACCATAAACCCTAAA
1 AAACCC-AAACTC-AAACCATAAACCCTAAA
31856803 TTACTTAGTT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
36 5 0.08
37 49 0.83
38 5 0.08
ACGTcount: A:0.50, C:0.35, G:0.03, T:0.12
Consensus pattern (34 bp):
AAACCCAAACTCAAACCATAAACCCTAAACCCAG
Found at i:31857288 original size:41 final size:41
Alignment explanation
Indices: 31857231--31857347 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 41
31857221 AGTTAAATAA
* * * *
31857231 TAATGCTTGACTTTTTGCGGCGTTTGTTA-CATAAATGCCGC
1 TAATGCTGGACCTTTTGCGGTGTTT-TTATCATAAACGCCGC
* *
31857272 TAATTCTGGACCTTTTGCGGTGTTTTTATCATAAACGCTGC
1 TAATGCTGGACCTTTTGCGGTGTTTTTATCATAAACGCCGC
*
31857313 TAATGCTGGACCTTTTGCGGTGTTTTTCTCATAAA
1 TAATGCTGGACCTTTTGCGGTGTTTTTATCATAAA
31857348 AGTTGCTATA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.04
41 64 0.96
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (41 bp):
TAATGCTGGACCTTTTGCGGTGTTTTTATCATAAACGCCGC
Found at i:31859233 original size:39 final size:39
Alignment explanation
Indices: 31859162--31859292 Score: 194
Period size: 39 Copynumber: 3.3 Consensus size: 39
31859152 GCTCCTCGTT
* * *
31859162 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGTA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
31859202 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
31859241 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
31859280 CAAATGCCTTCGG
1 CAAATGCCTTCGG
31859293 ATCTTAGTCC
Statistics
Matches: 86, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
38 2 0.02
39 69 0.80
40 15 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:31864005 original size:18 final size:18
Alignment explanation
Indices: 31863982--31864019 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
31863972 ACCAAAGAAA
31863982 AATTAATATG-ACAAAATT
1 AATTAATATGTA-AAAATT
31864000 AATTAATATGTAAAAATT
1 AATTAATATGTAAAAATT
31864018 AA
1 AA
31864020 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTAATATGTAAAAATT
Found at i:31867234 original size:17 final size:17
Alignment explanation
Indices: 31867212--31867245 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
31867202 TGACGACTCT
31867212 TGACAATTTGAATTGTG
1 TGACAATTTGAATTGTG
31867229 TGACAATTTGAATTGTG
1 TGACAATTTGAATTGTG
31867246 ATTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (17 bp):
TGACAATTTGAATTGTG
Found at i:31870733 original size:41 final size:42
Alignment explanation
Indices: 31870645--31870747 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 42
31870635 AATACTCGAT
* * * *
31870645 ATCTCGCACACCAAGTGCCAATACATAGCTGAAGTTATTATA
1 ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTACA
*
31870687 ATCTCGCACACTAAGTGCC-TTACATAGCCGAAGCTATCT-CA
1 ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTAT-TACA
*
31870728 GTCTCGCACACTAAGTGCCA
1 ATCTCGCACACTAAGTGCCA
31870748 TATTGTTACA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 34 0.64
42 19 0.36
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTACA
Found at i:31872383 original size:48 final size:48
Alignment explanation
Indices: 31872116--31872385 Score: 310
Period size: 48 Copynumber: 5.6 Consensus size: 48
31872106 TAAGGTACCA
* *
31872116 ATGCCATGTCCTC-GACATGGTCTTACATGAATC-CACATATCATCGCCG
1 ATGCCATGTCC-CAGACATGGTCTTACA-CAAGCACACATATCATCGCCG
* * * * *
31872164 TTGCCATGTCCCAGACATGGTATTACACTAGCATACATATCATCGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* ** * *
31872212 ACGCCATGTCCCAGACATGGTCTTACACTGGAACACATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* * * * *
31872260 ATGCCATGCCCCAGACATGGTCTTACACAGGCACATATATCATTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* * *
31872308 ATGCCATGTCCCAAACATGGTCTTACACAAGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* *
31872356 ATGCCATGTCTCAGACACGGTCTTACACAA
1 ATGCCATGTCCCAGACATGGTCTTACACAA
31872386 AATCTCATTT
Statistics
Matches: 190, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
47 3 0.02
48 187 0.98
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
Found at i:31883829 original size:50 final size:50
Alignment explanation
Indices: 31883757--31884003 Score: 262
Period size: 50 Copynumber: 4.9 Consensus size: 50
31883747 AAGACAGTTT
*
31883757 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * * *
31883807 TAGGTCGCTTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * * **
31883856 CTTCGATCACGTGTGTAGTATTAAGTGCAAGCTACTACGTGTATCAGACGGA
1 --TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * *
31883908 TAAGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * * *
31883958 TGGGTAACATGTGTAGTAGTAAATGCAGGCTACTATGTGTACCAGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
31884004 GAGCTTTGGT
Statistics
Matches: 156, Mismatches: 38, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
49 3 0.02
50 117 0.75
51 35 0.22
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
Found at i:31883890 original size:101 final size:101
Alignment explanation
Indices: 31883761--31883942 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 101
31883751 CAGTTTTAGG
* * ** * *
31883761 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTCGCT-TGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACGGATAAGTC-ATGTGTGTAGTA
31883825 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
65 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
* *
31883862 TCACGTGTGTAGTATTAAGTGCAAGCTACTACGTGTATCAGACGGATAAGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACGGATAAGTCATGTGTGTAGTAC
31883927 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
31883943 CGTGTACTAG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 1 0.01
101 71 0.99
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGACGGATAAGTCATGTGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
Found at i:31888284 original size:48 final size:48
Alignment explanation
Indices: 31887921--31888286 Score: 468
Period size: 48 Copynumber: 7.6 Consensus size: 48
31887911 TAAGGTATCA
* * **
31887921 ATGCCATGTCCCTGACATGGTCTTACATGAATC-CACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACACATATCATCACCG
31887969 ATGCCATGTCCCAGACATGGTCTTACACTA-GCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACAC-AGGCACACATATCATCACCG
* * **
31888017 ATGCCATATCCCAAACATGGTCTTACATTGGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* ** * *
31888065 ATTCCATGTCTTAGACATGGTCTTACATAGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* * * *
31888113 ATGCCATGTCCCAGACATTGTCTTACACAGGCATAGATATCATCACCA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* * * * *
31888161 ATGCCATGTCCCAAACTTGGTCTTTCACATGG-ACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACA-GGCACACATATCATCACCG
* *
31888209 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
31888257 ATGCCATGTCCCAGACATGGTCTTACACAG
1 ATGCCATGTCCCAGACATGGTCTTACACAG
31888287 AAGCTCATTT
Statistics
Matches: 277, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
47 3 0.01
48 272 0.98
49 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
Found at i:31890437 original size:45 final size:44
Alignment explanation
Indices: 31890307--31890439 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 44
31890297 ATGCTATCTC
* *
31890307 ATATCGATGCC-ACTGTCCGAAACATGGTCTTACAC-GAA-TCAT
1 ATATCGATGCCAAC-GTCCCAAACATGGTCTTACACAGAACACAT
* * *
31890349 ATA-CGATGCCAATGTCCCATACATGGTCTTACACATGACCACAT
1 ATATCGATGCCAACGTCCCAAACATGGTCTTACACA-GAACACAT
* *
31890393 ATATCGATGCCAACGTCCCAGACATGGTCTTACACAAAAACACAT
1 ATATCGATGCCAACGTCCCAAACATGGTCTTACAC-AGAACACAT
31890438 AT
1 AT
31890440 CGGATCCTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
41 26 0.34
42 4 0.05
43 2 0.03
44 6 0.08
45 37 0.49
46 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (44 bp):
ATATCGATGCCAACGTCCCAAACATGGTCTTACACAGAACACAT
Found at i:31891032 original size:15 final size:15
Alignment explanation
Indices: 31891020--31891050 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31891010 TCAAACATTC
31891020 CAATACAAAACATAT
1 CAATACAAAACATAT
*
31891035 CAATCCAAAACATAT
1 CAATACAAAACATAT
31891050 C
1 C
31891051 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:31893932 original size:13 final size:13
Alignment explanation
Indices: 31893914--31893961 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
31893904 AAATTGAAGT
*
31893914 CACACGGCTAATG
1 CACACGGCCAATG
31893927 CACACGGCCAATG
1 CACACGGCCAATG
31893940 CACACGGCCAATG
1 CACACGGCCAATG
*
31893953 CACATGGCC
1 CACACGGCC
31893962 GTGTGCTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.29, C:0.38, G:0.23, T:0.10
Consensus pattern (13 bp):
CACACGGCCAATG
Found at i:31895097 original size:42 final size:42
Alignment explanation
Indices: 31894978--31895139 Score: 207
Period size: 42 Copynumber: 3.8 Consensus size: 42
31894968 TACTGTACCA
* * *
31894978 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * *
31895020 ATGCCAATAGCCCAGCTATGGTCTTACACGGAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * * *
31895063 ATTCCATATCCTAGATATGGTCTTACATGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* *
31895105 ATGCCATATCCTAGATATGATCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
31895140 TAATAACCCT
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 68 0.66
43 35 0.34
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
Found at i:31895108 original size:85 final size:84
Alignment explanation
Indices: 31894981--31895139 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 84
31894971 TGTACCAATG
* * *
31894981 CCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCCCAGCTATGGTCTTA
1 CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCC-ATAGCCCAGATATGATCTTA
31895046 CACGGAGTCTCATATCGATT
65 CACGGAGTCTCATATCGATT
* * * * *
31895066 CCATATCCTAGATATGGTCTTACATGTAGTCTCATATTGATGCCATATCCTAGATATGATCTTAC
1 CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCATAGCCCAGATATGATCTTAC
*
31895131 ACGTAGTCT
66 ACGGAGTCT
31895140 TAATAACCCT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 25 0.38
85 40 0.62
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (84 bp):
CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCATAGCCCAGATATGATCTTAC
ACGGAGTCTCATATCGATT
Found at i:31902675 original size:41 final size:40
Alignment explanation
Indices: 31902604--31902741 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 40
31902594 GATATCTCCT
* *
31902604 ACACTAAGTGCCAATACATAGCTGAAGCTATTATAATCTCAC
1 ACACTAAGTGCC-ATACATAGCCGAAGCTATT-TAATCTCGC
* * * *
31902646 ACACTAAGTGCCTTACATAGCCAAAGCTATCTCAGTCTCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTAT-TTAATCTCGC
*
31902687 ACACTAAGTGCCATATATAGCCGAAGCTATTCTGAA--TCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATT-T-AATCTCGC
31902727 ACACTAAGTGCCATA
1 ACACTAAGTGCCATA
31902742 TATATATATC
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
40 20 0.24
41 48 0.59
42 14 0.17
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATTTAATCTCGC
Found at i:31906679 original size:46 final size:46
Alignment explanation
Indices: 31906573--31906777 Score: 193
Period size: 46 Copynumber: 4.4 Consensus size: 46
31906563 GGGCCATTTG
* * *
31906573 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCATTGAGA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCGTCGAC-TAGAGA
* * * * *
31906621 TGAGTGCTAGTGTAAGACATGTCTGGGAAAT-GCATCGGCCTAGAGA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGGCGTC-GACTAGAGA
*
31906667 TGTA-AGCCAGTGTAAGACATGTCTGAGACAT-GCGTCGACTACGAGA
1 TG-AGAGCCAGTGTAAGACATGTCTGGGACATGGCGTCGACTA-GAGA
* * * *
31906713 TGATAGTCAGTGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCGTCGACTAGAGA
*
31906760 T-ATAAGCCAGTGTAAGAC
1 TGA-GAGCCAGTGTAAGAC
31906778 CGTGTCTAGG
Statistics
Matches: 133, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
45 5 0.04
46 58 0.44
47 46 0.35
48 24 0.18
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
TGAGAGCCAGTGTAAGACATGTCTGGGACATGGCGTCGACTAGAGA
Found at i:31906741 original size:93 final size:93
Alignment explanation
Indices: 31906581--31906777 Score: 233
Period size: 93 Copynumber: 2.1 Consensus size: 93
31906571 TGTGAGAGCT
* * *
31906581 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCATTGAGATGAGTGCTAGTGTAAGACATGTCTG
1 AGTGTAAGA-CATGTCTGAGACATGGCGTCGACATCGAGATGAGTGCTAGTGTAAGACATGTCTG
* *
31906646 GGAAAT-GCATCGGCCTAGAGATGTAAGCC
65 GGAAATGGCATC-GACTAGAGATATAAGCC
31906675 AGTGTAAGACATGTCTGAGACAT-GCGTCGAC-TACGAGATGA-TAG-TCAGTGTAAGACCATGT
1 AGTGTAAGACATGTCTGAGACATGGCGTCGACAT-CGAGATGAGT-GCT-AGTGTAAGA-CATGT
* * *
31906736 CTGGGACATGGCTTCGACTTGAGATATAAGCC
62 CTGGGAAATGGCATCGACTAGAGATATAAGCC
31906768 AGTGTAAGAC
1 AGTGTAAGAC
31906778 CGTGTCTAGG
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
91 3 0.03
92 24 0.27
93 50 0.56
94 13 0.14
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGAGACATGGCGTCGACATCGAGATGAGTGCTAGTGTAAGACATGTCTGG
GAAATGGCATCGACTAGAGATATAAGCC
Done.