Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 19 of 125
Found at i:3333048 original size:226 final size:230
Alignment explanation
Indices: 3332623--3333204 Score: 647
Period size: 226 Copynumber: 2.5 Consensus size: 230
3332613 TCGAGATCAT
* * *
3332623 AAATAAATGACTGGACTGATGTTGCAAGTCTGAAGATGATCTGACCTGAGTTGAGATCAAATGAC
1 AAATAAATGACCGAACTGATGTTGCAAGTCTG-AGATGATCTGACCTGAGTCGAGATCAAATGAC
* *
3332688 TGGGATGATGTTGTGAGTCAAAAGGTGACTAAGA-TCGAGTCAAGGTTAAAAATAAATGACCGAA
65 TGGGATGATGTTGTGAGTCAAAATGTGACCAAGACT-GAGTCAAGGTTAAAAATAAATGACCGAA
* ** * * * * * *
3332752 CTGATGTCATGAGTCTTAAGATGATTTGACCTGAGTCAAGATCAAATAATTGGGACGATGCCATG
129 CTAATGTCACAAGTCTTAAGATGATCTGACCTAAGTCAAGATCAAATAACTGAGACAATGCCACG
* * * ** *
3332817 AGTC-AAA-AGA-TGACTAAGATTGAGTTAA-GTCAA
194 AGTCAAAATAAAGTGACCAAAATCAAGTCAAGGTCAA
* *
3332850 AAATAAATGACCGAACTGATGTTGCAAGTCTGAGATGATCTGACTTGAGTCAAGATCAAATGACT
1 AAATAAATGACCGAACTGATGTTGCAAGTCTGAGATGATCTGACCTGAGTCGAGATCAAATGACT
* *
3332915 GAGATGATGTTGTGAGTCAAAATGTGACCAAGACTGAGTCAAGGTTGAAAATAAATGACC-AGAC
66 GGGATGATGTTGTGAGTCAAAATGTGACCAAGACTGAGTCAAGGTTAAAAATAAATGACCGA-AC
* * * **
3332979 TAATGTCACAAGT-TTGAAGATTATCTGACCTAAGTCGAGATCAAATGACTGAGACAATGTTACG
130 TAATGTCACAAGTCTT-AAGATGATCTGACCTAAGTCAAGATCAAATAACTGAGACAATGCCACG
*
3333043 AGTCAAAATAAAGTGACCAAAATCAAGTCAAGGTTAA
194 AGTCAAAATAAAGTGACCAAAATCAAGTCAAGGTCAA
* * ** * ** * *
3333080 AAATAAATTATCGAACTGATGTCACGAGTCCACAAATGATCTTACCTGAGTCGAGATCAAATGAC
1 AAATAAATGACCGAACTGATGTTGCAAGT-CTGAGATGATCTGACCTGAGTCGAGATCAAATGAC
* * * * *
3333145 TGGGATGATGCTATGAGTCAAAATAAAGTGATCAAAACTGAGTCAAGGTCAAAAATAAAT
65 TGGGATGATGTTGTGAGTCAAAAT---GTGACCAAGACTGAGTCAAGGTTAAAAATAAAT
3333205 AATCAAGATT
Statistics
Matches: 296, Mismatches: 48, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
225 3 0.01
226 137 0.46
227 34 0.11
228 2 0.01
229 13 0.04
230 28 0.09
231 50 0.17
234 29 0.10
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (230 bp):
AAATAAATGACCGAACTGATGTTGCAAGTCTGAGATGATCTGACCTGAGTCGAGATCAAATGACT
GGGATGATGTTGTGAGTCAAAATGTGACCAAGACTGAGTCAAGGTTAAAAATAAATGACCGAACT
AATGTCACAAGTCTTAAGATGATCTGACCTAAGTCAAGATCAAATAACTGAGACAATGCCACGAG
TCAAAATAAAGTGACCAAAATCAAGTCAAGGTCAA
Found at i:3333084 original size:117 final size:117
Alignment explanation
Indices: 3332623--3333204 Score: 548
Period size: 114 Copynumber: 5.1 Consensus size: 117
3332613 TCGAGATCAT
* * ** * *
3332623 AAATAAATGACTGGACTGATGTTGCAAGTCTGAAGATGATCTGACCTGAGTTGAGATCAAATGAC
1 AAATAAATGACCGAACTGATGTCACAAGTTTGAAGATGATCTGACCTGAGTCGAGATCAAATGAC
* * *
3332688 TGGGATGATGTTGTGAGTC--AA-AAGGTGACTAAGATCGAGTCAAGGTTAA
66 TGGGATGATGTTATGAGTCAAAATAAAGTGACCAAGATCGAGTCAAGGTTAA
** * * *
3332737 AAATAAATGACCGAACTGATGTCATGAGTCTT-AAGATGATTTGACCTGAGTCAAGATCAAATAA
1 AAATAAATGACCGAACTGATGTCACAAGT-TTGAAGATGATCTGACCTGAGTCGAGATCAAATGA
* * ** * * * * *
3332801 TTGGGACGATGCCATGAGTC-AAA-AGA-TGACTAAGATTGAGTTAA-GTCAA
65 CTGGGATGATGTTATGAGTCAAAATAAAGTGACCAAGATCGAGTCAAGGTTAA
** * * *
3332850 AAATAAATGACCGAACTGATGTTGCAAGTCTG-AGATGATCTGACTTGAGTCAAGATCAAATGAC
1 AAATAAATGACCGAACTGATGTCACAAGTTTGAAGATGATCTGACCTGAGTCGAGATCAAATGAC
* * *
3332914 TGAGATGATGTTGTGAGTCAAAAT---GTGACCAAGA-CTGAGTCAAGGTTGA
66 TGGGATGATGTTATGAGTCAAAATAAAGTGACCAAGATC-GAGTCAAGGTTAA
* * *
3332963 AAATAAATGACC-AGACTAATGTCACAAGTTTGAAGATTATCTGACCTAAGTCGAGATCAAATGA
1 AAATAAATGACCGA-ACTGATGTCACAAGTTTGAAGATGATCTGACCTGAGTCGAGATCAAATGA
* ** * * *
3333027 CTGAGACAATGTTACGAGTCAAAATAAAGTGACCAAAATCAAGTCAAGGTTAA
65 CTGGGATGATGTTATGAGTCAAAATAAAGTGACCAAGATCGAGTCAAGGTTAA
* * * ** * *
3333080 AAATAAATTATCGAACTGATGTCACGAG-TCCACAAATGATCTTACCTGAGTCGAGATCAAATGA
1 AAATAAATGACCGAACTGATGTCACAAGTTTGA-AGATGATCTGACCTGAGTCGAGATCAAATGA
* * * *
3333144 CTGGGATGATGCTATGAGTCAAAATAAAGTGATCAA-AACTGAGTCAAGGTCAA
65 CTGGGATGATGTTATGAGTCAAAATAAAGTGACCAAGATC-GAGTCAAGGTTAA
3333197 AAATAAAT
1 AAATAAAT
3333205 AATCAAGATT
Statistics
Matches: 377, Mismatches: 74, Indels: 31
0.78 0.15 0.06
Matches are distributed among these distances:
112 58 0.15
113 61 0.16
114 130 0.34
115 4 0.01
116 4 0.01
117 118 0.31
118 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (117 bp):
AAATAAATGACCGAACTGATGTCACAAGTTTGAAGATGATCTGACCTGAGTCGAGATCAAATGAC
TGGGATGATGTTATGAGTCAAAATAAAGTGACCAAGATCGAGTCAAGGTTAA
Found at i:3333547 original size:41 final size:41
Alignment explanation
Indices: 3333442--3333585 Score: 139
Period size: 41 Copynumber: 3.5 Consensus size: 41
3333432 TTTGGTAGAG
* * * *
3333442 AAACTATTCTTCATCAACCTAGAGGCACATTTTTGGT-AAA
1 AAACTATTTTTCATCAGCCTGGAGGCACATTTTTTGTCAAA
* * * * *
3333482 AAAATCATCTTTAATTAGCTTGGAGGCACATTTTTTGTCAAA
1 AAACT-ATTTTTCATCAGCCTGGAGGCACATTTTTTGTCAAA
* * *
3333524 AAACTATTTTTCATCAGCCTGGAGGCATA-TCTTTGGCAAA
1 AAACTATTTTTCATCAGCCTGGAGGCACATTTTTTGTCAAA
*
3333564 GAAACTATTTTTCATTAGCCTG
1 -AAACTATTTTTCATCAGCCTG
3333586 ATGGTTTATC
Statistics
Matches: 83, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
40 13 0.16
41 63 0.76
42 7 0.08
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (41 bp):
AAACTATTTTTCATCAGCCTGGAGGCACATTTTTTGTCAAA
Found at i:3334136 original size:48 final size:51
Alignment explanation
Indices: 3334060--3334166 Score: 148
Period size: 48 Copynumber: 2.2 Consensus size: 51
3334050 GAACCCTTTC
** *
3334060 TTTTGGATTTAAGTTGCCCTTTCGGGTTTTCAACTTGAAC-CT-TTTTTTT
1 TTTTGGATTTAAGCCGCCCTTTCAGGTTTTCAACTTGAACTCTCTTTTTTT
* *
3334109 TTTTGG-TTTAAGCCGCCTTTTCAGGTTTTCACCTTGAACTCTCTTTTTTT
1 TTTTGGATTTAAGCCGCCCTTTCAGGTTTTCAACTTGAACTCTCTTTTTTT
3334159 TTTTGGAT
1 TTTTGGAT
3334167 CAAGCAAAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
48 28 0.56
49 8 0.16
50 13 0.26
51 1 0.02
ACGTcount: A:0.13, C:0.18, G:0.16, T:0.53
Consensus pattern (51 bp):
TTTTGGATTTAAGCCGCCCTTTCAGGTTTTCAACTTGAACTCTCTTTTTTT
Found at i:3334159 original size:47 final size:48
Alignment explanation
Indices: 3334046--3334159 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 48
3334036 AAAGTTTTTG
* ** *
3334046 ACTTGAAC-C-CTTTCTTTTGGATTTAAGTTGCCCTTTCGGGTTTTCA
1 ACTTGAACTCTCTTTTTTTTGGATTTAAGCCGCCCTTTCAGGTTTTCA
* * *
3334092 ACTTGAACCTTTTTTTTTTTTGG-TTTAAGCCGCCTTTTCAGGTTTTCA
1 ACTTGAA-CTCTCTTTTTTTTGGATTTAAGCCGCCCTTTCAGGTTTTCA
*
3334140 CCTTGAACTCTCTTTTTTTT
1 ACTTGAACTCTCTTTTTTTT
3334160 TTTGGATCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
46 7 0.13
47 12 0.22
48 27 0.49
49 9 0.16
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.51
Consensus pattern (48 bp):
ACTTGAACTCTCTTTTTTTTGGATTTAAGCCGCCCTTTCAGGTTTTCA
Found at i:3337677 original size:5 final size:5
Alignment explanation
Indices: 3337667--3337693 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
3337657 TTGATGATGA
3337667 AATGG AATGG AATGG AATGG AATGG AA
1 AATGG AATGG AATGG AATGG AATGG AA
3337694 GAAATGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.37, T:0.19
Consensus pattern (5 bp):
AATGG
Found at i:3344437 original size:21 final size:21
Alignment explanation
Indices: 3344412--3344452 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3344402 TTAGAGGATA
3344412 AAAACTATTTTTGT-TTATTTG
1 AAAACTATTTTT-TATTATTTG
3344433 AAAACTATTTTTTATTATTT
1 AAAACTATTTTTTATTATTT
3344453 TTTTATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
AAAACTATTTTTTATTATTTG
Found at i:3345541 original size:3 final size:3
Alignment explanation
Indices: 3345535--3345631 Score: 92
Period size: 3 Copynumber: 32.7 Consensus size: 3
3345525 AAAAAATGAA
*
3345535 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AA- AAGA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
* * * * * *
3345579 GA- AAC ACAG AAA AAT AAA AAT AAA AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3345624 AAT AAT AA
1 AAT AAT AA
3345632 AATTTATAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
2 5 0.06
3 70 0.89
4 4 0.05
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:3349631 original size:36 final size:35
Alignment explanation
Indices: 3349585--3349652 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
3349575 TATTTTTAAC
* ** *
3349585 TATTTAATTTAAATGTGGTATATATTTGAAAATTT
1 TATTTAATTTAAATATCCTACATATTTGAAAATTT
3349620 TATTTGAATTTAAATATCCTACATATTTGAAAA
1 TATTT-AATTTAAATATCCTACATATTTGAAAA
3349653 AGATGAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 5 0.18
36 23 0.82
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (35 bp):
TATTTAATTTAAATATCCTACATATTTGAAAATTT
Found at i:3349926 original size:6 final size:6
Alignment explanation
Indices: 3349911--3349962 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
3349901 TCCATGTATG
* *
3349911 TTATAA TTATAT TTATA- -TATAT ATATAT TTATAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
3349957 TTATAT
1 TTATAT
3349963 GATTGTGCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 4 0.10
6 38 0.90
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TTATAT
Found at i:3349942 original size:22 final size:22
Alignment explanation
Indices: 3349912--3349956 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3349902 CCATGTATGT
3349912 TATAATTATATTTATATATATA
1 TATAATTATATTTATATATATA
* *
3349934 TATATTTATATTTATATTTATA
1 TATAATTATATTTATATATATA
3349956 T
1 T
3349957 TTATATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATAATTATATTTATATATATA
Found at i:3351628 original size:26 final size:27
Alignment explanation
Indices: 3351564--3351629 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 27
3351554 TGTGATTTTC
3351564 TTATATG-ATT-AATTATTATTTGTGA
1 TTATATGTATTAAATTATTATTTGTGA
*
3351589 TTACATGTATTAAATT-TTATATT-TGA
1 TTATATGTATTAAATTATTAT-TTGTGA
3351615 TTATATGTATTAAAT
1 TTATATGTATTAAAT
3351630 CATGTACATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 6 0.17
26 24 0.67
27 6 0.17
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.55
Consensus pattern (27 bp):
TTATATGTATTAAATTATTATTTGTGA
Found at i:3358504 original size:22 final size:22
Alignment explanation
Indices: 3358473--3358548 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
3358463 AAATTATTTG
*
3358473 TAAGATCTCTAGGCATAATCTT
1 TAAGACCTCTAGGCATAATCTT
** *
3358495 TAAGACCTCTAGATATTAT-TT
1 TAAGACCTCTAGGCATAATCTT
*
3358516 ATAAAGATCTCTAGGCATAATCTT
1 -T-AAGACCTCTAGGCATAATCTT
*
3358540 TAAAACCTC
1 TAAGACCTC
3358549 CAAGCATGAT
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
21 2 0.05
22 22 0.54
23 15 0.37
24 2 0.05
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (22 bp):
TAAGACCTCTAGGCATAATCTT
Found at i:3358543 original size:23 final size:23
Alignment explanation
Indices: 3358474--3358543 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
3358464 AATTATTTGT
3358474 AAGATCTCTAGGCATAATCTTT-
1 AAGATCTCTAGGCATAATCTTTA
* ** *
3358496 AAGACCTCTAGATATTAT-TTATA
1 AAGATCTCTAGGCATAATCTT-TA
3358519 AAGATCTCTAGGCATAATCTTTA
1 AAGATCTCTAGGCATAATCTTTA
3358542 AA
1 AA
3358544 ACCTCCAAGC
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
21 2 0.05
22 15 0.41
23 18 0.49
24 2 0.05
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (23 bp):
AAGATCTCTAGGCATAATCTTTA
Found at i:3358752 original size:2 final size:2
Alignment explanation
Indices: 3358745--3358772 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3358735 TTTAACATCC
3358745 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3358773 GTAAAAGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3359820 original size:18 final size:18
Alignment explanation
Indices: 3359797--3359843 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
3359787 TAAATAATGG
3359797 ATATACGGCGGTTGACGT
1 ATATACGGCGGTTGACGT
3359815 ATATACGGCGGTTGACGT
1 ATATACGGCGGTTGACGT
3359833 ATATACGGCGG
1 ATATACGGCGG
3359844 ATAACGCCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (18 bp):
ATATACGGCGGTTGACGT
Found at i:3365008 original size:26 final size:25
Alignment explanation
Indices: 3364960--3365008 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
3364950 CTTTTTTACT
* *
3364960 TTTTTAATTAATAAATTACTTATAC
1 TTTTTAATTAATAAAATAATTATAC
3364985 TTTTTAATTAATAAAAATAATTAT
1 TTTTTAATTAAT-AAAATAATTAT
3365009 TTTTTACCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTTAATTAATAAAATAATTATAC
Found at i:3365013 original size:25 final size:25
Alignment explanation
Indices: 3364959--3365013 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
3364949 ACTTTTTTAC
* *
3364959 TTTTTTAATTAATAAATTACTTATA
1 TTTTTTAATTAATAAAATAATTATA
*
3364984 CTTTTTAATTAATAAAAATAATTAT-
1 TTTTTTAATTAAT-AAAATAATTATA
3365009 TTTTT
1 TTTTT
3365014 ACCCTAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTTTTAATTAATAAAATAATTATA
Found at i:3368543 original size:51 final size:51
Alignment explanation
Indices: 3368438--3368577 Score: 135
Period size: 51 Copynumber: 2.7 Consensus size: 51
3368428 AAAAATTTTA
* * * *
3368438 TTTAAGATCTCGTCAAAAAGTTGAGATGATTCTAAAATTTGTTTAAAATTT
1 TTTAAGATCTCGTCAAAAAGTCGAGATAATTCTAAAATTTGCTTAAAATAT
3368489 TTTAAGATCTCGTCAAAAAGTCGAGATAA-TCTTACAAA-TTGCTTAATAA-AT
1 TTTAAGATCTCGTCAAAAAGTCGAGATAATTC-TA-AAATTTGCTTAA-AATAT
* * * * *
3368540 TTTAGGATATCATCAAAGAGTCGAAAT-ATTCCTAAAAT
1 TTTAAGATCTCGTCAAAAAGTCGAGATAATT-CTAAAAT
3368578 CATTTTTAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
50 6 0.08
51 62 0.84
52 6 0.08
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (51 bp):
TTTAAGATCTCGTCAAAAAGTCGAGATAATTCTAAAATTTGCTTAAAATAT
Found at i:3384228 original size:23 final size:22
Alignment explanation
Indices: 3384191--3384234 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
3384181 TAAAATTTTA
*
3384191 ATAAAAATTATATATAAATTTG
1 ATAAAAATTAAATATAAATTTG
*
3384213 ATAAAAATTAAAATATATATTT
1 ATAAAAATT-AAATATAAATTT
3384235 AATATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAAAAATTAAATATAAATTTG
Found at i:3386744 original size:43 final size:43
Alignment explanation
Indices: 3386696--3386780 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
3386686 CCCCAAGGGT
* * *
3386696 GGTGATGCTTAAGGGACGGGGAGAGTTATTCCCAATTGTGCAA
1 GGTGATGCTTAAGAGACGGGAAGAGCTATTCCCAATTGTGCAA
3386739 GGTGATGCTTAAGAGACGGGAAGAGCTATTCCCAATTGTGCA
1 GGTGATGCTTAAGAGACGGGAAGAGCTATTCCCAATTGTGCA
3386781 CCCTAAGGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (43 bp):
GGTGATGCTTAAGAGACGGGAAGAGCTATTCCCAATTGTGCAA
Found at i:3391488 original size:15 final size:17
Alignment explanation
Indices: 3391468--3391500 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
3391458 AATTCATTAC
3391468 TTAAATA-AA-AAAATT
1 TTAAATATAATAAAATT
3391483 TTAAATATAATAAAATT
1 TTAAATATAATAAAATT
3391500 T
1 T
3391501 ATTCATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAATATAATAAAATT
Found at i:3392461 original size:20 final size:21
Alignment explanation
Indices: 3392425--3392476 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
3392415 CTCGAAATTA
3392425 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
3392447 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
3392468 AT-AAATATT
1 ATAAAATATT
3392477 TAAAAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:3392467 original size:21 final size:22
Alignment explanation
Indices: 3392425--3392476 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
3392415 CTCGAAATTA
3392425 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
3392447 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
3392468 AT-AAATATT
1 ATAAAATATT
3392477 TAAAAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:3392484 original size:30 final size:30
Alignment explanation
Indices: 3392449--3392509 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
3392439 TTTAAAATAT
* * *
3392449 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATTATTATATAAATATAAATAATTA
*
3392479 AAAATATTATTATATAAATATATATAATTA
1 AAAATATTATTATATAAATATAAATAATTA
3392509 A
1 A
3392510 TTAATTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATTATTATATAAATATAAATAATTA
Found at i:3403760 original size:4 final size:4
Alignment explanation
Indices: 3403751--3403781 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
3403741 GAATGTGTAT
*
3403751 ATGA ATGA ATGA ATGA ATGA ATAA ATGA ATG
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATG
3403782 CATAAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (4 bp):
ATGA
Found at i:3403766 original size:12 final size:12
Alignment explanation
Indices: 3403751--3403790 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
3403741 GAATGTGTAT
*
3403751 ATGAATGAATGA
1 ATGAATGAATAA
3403763 ATGAATGAATAA
1 ATGAATGAATAA
*
3403775 ATGAATGCATAA
1 ATGAATGAATAA
3403787 ATGA
1 ATGA
3403791 CAAATATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.53, C:0.03, G:0.20, T:0.25
Consensus pattern (12 bp):
ATGAATGAATAA
Found at i:3405216 original size:15 final size:15
Alignment explanation
Indices: 3405183--3405215 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3405173 CTCCATTTTC
*
3405183 TTTTCTTTTTTTACT
1 TTTTCTTTCTTTACT
3405198 TTTTCTTTCTTT-CT
1 TTTTCTTTCTTTACT
3405212 TTTT
1 TTTT
3405216 TTTGAACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTCTTTACT
Found at i:3405218 original size:24 final size:23
Alignment explanation
Indices: 3405178--3405239 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
3405168 TTTTTCTCCA
*
3405178 TTTTCTTTTCTTTTTTT-ACTTTT
1 TTTTCTTTT-TTTTTTTAACTCTT
3405201 TCTTTCTTTCTTTTTTTTGAACTCTT
1 T-TTTCTTT-TTTTTTTT-AACTCTT
3405227 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
3405240 CCTTCTAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
23 1 0.03
24 19 0.56
25 8 0.24
26 6 0.18
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTCTTTTTTTTTTTAACTCTT
Found at i:3406199 original size:15 final size:15
Alignment explanation
Indices: 3406176--3406210 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3406166 AAATATTTTT
*
3406176 TTAAGGAAATCAAAA
1 TTAAAGAAATCAAAA
*
3406191 TTAAAGAAATCAAAT
1 TTAAAGAAATCAAAA
3406206 TTAAA
1 TTAAA
3406211 TATTAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.26
Consensus pattern (15 bp):
TTAAAGAAATCAAAA
Found at i:3407567 original size:15 final size:15
Alignment explanation
Indices: 3407544--3407587 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
3407534 AGTTCTAGTT
*
3407544 TAATATTAATAGTAA
1 TAATATTAATAATAA
3407559 TAAT-TT--TAATAA
1 TAATATTAATAATAA
3407571 TAATATTAATAATAA
1 TAATATTAATAATAA
3407586 TA
1 TA
3407588 TCGATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 9 0.36
13 2 0.08
14 2 0.08
15 12 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
TAATATTAATAATAA
Found at i:3407568 original size:21 final size:21
Alignment explanation
Indices: 3407542--3407583 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3407532 TCAGTTCTAG
*
3407542 TTTAATATTAATAGTAATAAT
1 TTTAATAATAATAGTAATAAT
*
3407563 TTTAATAATAATATTAATAAT
1 TTTAATAATAATAGTAATAAT
3407584 AATATCGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTAATAATAATAGTAATAAT
Found at i:3407571 original size:12 final size:12
Alignment explanation
Indices: 3407556--3407588 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
3407546 ATATTAATAG
*
3407556 TAATAATTTTAA
1 TAATAATATTAA
3407568 TAATAATATTAA
1 TAATAATATTAA
3407580 TAATAATAT
1 TAATAATAT
3407589 CGATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:3408656 original size:18 final size:19
Alignment explanation
Indices: 3408635--3408684 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
3408625 GAATTTTTAA
*
3408635 ATTTTTTTATATATTG-TT
1 ATTTTTTTATATATTGAGT
3408653 ATTTTTGTTAT-T-TTGAGT
1 ATTTTT-TTATATATTGAGT
3408671 ATTTTTTT-TATATT
1 ATTTTTTTATATATT
3408685 CATGCATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 1 0.04
17 6 0.22
18 16 0.59
19 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (19 bp):
ATTTTTTTATATATTGAGT
Found at i:3408806 original size:17 final size:17
Alignment explanation
Indices: 3408767--3408842 Score: 52
Period size: 17 Copynumber: 4.6 Consensus size: 17
3408757 AATAGAATAG
*
3408767 AATAAAAAAAT-AAAAT
1 AATAAAATAATAAAAAT
*
3408783 -A-AAAATATTAAAAAT
1 AATAAAATAATAAAAAT
* *
3408798 GATAAAATAATAATAAT
1 AATAAAATAATAAAAAT
* *
3408815 AATAAACTAA-AAATTAT
1 AATAAAATAATAAA-AAT
3408832 AATAAGAATAA
1 AATAA-AATAA
3408843 AATAATTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
14 6 0.13
15 6 0.13
16 3 0.07
17 27 0.59
18 4 0.09
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (17 bp):
AATAAAATAATAAAAAT
Found at i:3408820 original size:26 final size:24
Alignment explanation
Indices: 3408739--3408844 Score: 66
Period size: 23 Copynumber: 4.6 Consensus size: 24
3408729 ATTTTTAGTC
* *
3408739 ATAATAA-AATGAAAATAAAATAGA
1 ATAATAATAATAAAAATAAAA-ATA
*
3408763 AT-AGAATAA-AAAAAT-AAAAT-
1 ATAATAATAATAAAAATAAAAATA
*
3408783 A-AA-AATATTAAAAATGATAAAATA
1 ATAATAATAATAAAAAT-A-AAAATA
* *
3408807 ATAATAATAAT-AAACTAAAAATT
1 ATAATAATAATAAAAATAAAAATA
*
3408830 ATAATAAGAATAAAA
1 ATAATAATAATAAAA
3408845 TAATTTTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
19 4 0.06
20 8 0.12
21 1 0.02
22 3 0.05
23 28 0.44
24 9 0.14
25 6 0.09
26 5 0.08
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.24
Consensus pattern (24 bp):
ATAATAATAATAAAAATAAAAATA
Found at i:3409228 original size:14 final size:14
Alignment explanation
Indices: 3409183--3409228 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
3409173 TCAAAACTTT
*
3409183 AACCCTACAATCCA
1 AACCCTAAAATCCA
* *
3409197 AACCTCTAAATTCAA
1 AACC-CTAAAATCCA
3409212 AACCCTAAAATCCA
1 AACCCTAAAATCCA
3409226 AAC
1 AAC
3409229 ATCAAAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCCTAAAATCCA
Found at i:3409281 original size:16 final size:16
Alignment explanation
Indices: 3409248--3409301 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
3409238 TTCGAAACCT
* *
3409248 AAACCC-AAAATTTTA
1 AAACCCTAAAAATTCA
3409263 AAACCCTAAAAATTCA
1 AAACCCTAAAAATTCA
*
3409279 AAACCCCATAAAATTC-
1 AAACCCTA-AAAATTCA
3409295 AAACCCT
1 AAACCCT
3409302 TAATCCAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 6 0.18
16 20 0.61
17 7 0.21
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (16 bp):
AAACCCTAAAAATTCA
Found at i:3409322 original size:14 final size:15
Alignment explanation
Indices: 3409303--3409340 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
3409293 TCAAACCCTT
*
3409303 AATCCAAATCC-TAA
1 AATCCAAAACCTTAA
3409317 AATCCAAAACCTTAA
1 AATCCAAAACCTTAA
*
3409332 AATCTAAAA
1 AATCCAAAA
3409341 TTCTAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (15 bp):
AATCCAAAACCTTAA
Found at i:3415621 original size:14 final size:16
Alignment explanation
Indices: 3415596--3415628 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
3415586 AAAAAAAAAA
3415596 GAAATCTTTCATT-TT
1 GAAATCTTTCATTATT
3415611 GAAAT-TTTCATTATT
1 GAAATCTTTCATTATT
3415626 GAA
1 GAA
3415629 GAGAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (16 bp):
GAAATCTTTCATTATT
Found at i:3421839 original size:24 final size:25
Alignment explanation
Indices: 3421812--3421866 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
3421802 CCTTGGAGAG
3421812 AAAGAGGAG-GCA-AGAAAAAAAAAA
1 AAAGAGGAGAG-AGAGAAAAAAAAAA
* *
3421836 AAAGA-GAGAGAGAGAGAGAAAAAA
1 AAAGAGGAGAGAGAGAAAAAAAAAA
3421860 AAAGAGG
1 AAAGAGG
3421867 CTAAGCACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.15
24 21 0.81
25 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (25 bp):
AAAGAGGAGAGAGAGAAAAAAAAAA
Found at i:3422223 original size:6 final size:6
Alignment explanation
Indices: 3422208--3422257 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
3422198 TATAATTAAC
* * * * *
3422208 TATATA TATGTA TATGTA TGTATG TATGTA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
3422256 TA
1 TA
3422258 GAGAGAGAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (6 bp):
TATATA
Found at i:3422243 original size:4 final size:4
Alignment explanation
Indices: 3422208--3422257 Score: 55
Period size: 4 Copynumber: 12.5 Consensus size: 4
3422198 TATAATTAAC
* * * * *
3422208 TATA TATA TGTA TATG TATG TATG TATG TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
3422256 TA
1 TA
3422258 GAGAGAGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:3422262 original size:2 final size:2
Alignment explanation
Indices: 3422257--3422284 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3422247 ATATATATAT
3422257 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3422285 GCAAATGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3424170 original size:3 final size:3
Alignment explanation
Indices: 3424162--3424193 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3424152 AATTGTATAA
3424162 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
3424194 ATGTTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:3426645 original size:80 final size:80
Alignment explanation
Indices: 3426512--3426673 Score: 306
Period size: 80 Copynumber: 2.0 Consensus size: 80
3426502 TGAGCCTTGT
*
3426512 AAATTCACTTAATTAATGGAGGACTTAGTCTTGAAATTATCATTAGTATCGTTATCATACTATGA
1 AAATTCACTTAATTAATGGAGAACTTAGTCTTGAAATTATCATTAGTATCGTTATCATACTATGA
3426577 ACTTATAATAACAAC
66 ACTTATAATAACAAC
3426592 AAATTCACTTAATTAATGGAGAACTTAGTCTTGAAATTATCATTAGTATCGTTATCATACTATGA
1 AAATTCACTTAATTAATGGAGAACTTAGTCTTGAAATTATCATTAGTATCGTTATCATACTATGA
*
3426657 ACTTATAATAAGAAC
66 ACTTATAATAACAAC
3426672 AA
1 AA
3426674 TAACAAACTA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (80 bp):
AAATTCACTTAATTAATGGAGAACTTAGTCTTGAAATTATCATTAGTATCGTTATCATACTATGA
ACTTATAATAACAAC
Found at i:3427559 original size:52 final size:52
Alignment explanation
Indices: 3427492--3427636 Score: 191
Period size: 52 Copynumber: 2.8 Consensus size: 52
3427482 TATAACCATA
* * * *
3427492 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCACTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * *
3427544 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCACTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * *
3427596 TAAACTTACCTATTAAGAATCATTTTTCTCTTAGAATTCTT
1 CAAACTTGCCTATTAAGAATCACTTTCCTCTTAGAATTCTT
3427637 TTTTTGTAAG
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 81 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCACTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:3427704 original size:11 final size:11
Alignment explanation
Indices: 3427673--3427704 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
3427663 GCAATATTTG
*
3427673 ACAAATCTCAA
1 ACAAATCTCTA
3427684 ACAAATCTCTA
1 ACAAATCTCTA
3427695 ACAAATCTCT
1 ACAAATCTCT
3427705 TATGAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (11 bp):
ACAAATCTCTA
Found at i:3427947 original size:23 final size:23
Alignment explanation
Indices: 3427917--3427977 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
3427907 TAAGCTTATT
3427917 TCTTCCCATGTCTTAAAC-CAAGC
1 TCTTCCCATGTCTTAAACTCAA-C
* *
3427940 TCTTCCCATATCTTGAACTGTCAAC
1 TCTTCCCATGTCTTAAAC--TCAAC
3427965 TCTTCCCATGTCT
1 TCTTCCCATGTCT
3427978 CGAACCATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 16 0.50
25 13 0.41
26 3 0.09
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.36
Consensus pattern (23 bp):
TCTTCCCATGTCTTAAACTCAAC
Found at i:3427971 original size:25 final size:24
Alignment explanation
Indices: 3427917--3428019 Score: 93
Period size: 25 Copynumber: 4.2 Consensus size: 24
3427907 TAAGCTTATT
* *
3427917 TCTTCCCATGTCTTAAAC--CAAGC
1 TCTTCCCATATCTTGAACTTCAA-C
3427940 TCTTCCCATATCTTGAACTGTCAAC
1 TCTTCCCATATCTTGAACT-TCAAC
* * *
3427965 TCTTCCCATGTCTCGAACCATCAAC
1 TCTTCCCATATCTTGAA-CTTCAAC
* *
3427990 TCTTTCCACATCTTGAATCTTCAAC
1 TCTTCCCATATCTTGAA-CTTCAAC
3428015 TCTTC
1 TCTTC
3428020 TCACGTTTCG
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
23 16 0.25
25 44 0.69
26 4 0.06
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.35
Consensus pattern (24 bp):
TCTTCCCATATCTTGAACTTCAAC
Found at i:3428014 original size:50 final size:50
Alignment explanation
Indices: 3427917--3428040 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
3427907 TAAGCTTATT
** * *
3427917 TCTTCCCATGTCTTAAACCA--AGCTCTTCCCATATCTTGAACTGTCAAC
1 TCTTCCCATGTCTCGAACCATCAACTCTTCCCACATCTTGAACTGTCAAC
*
3427965 TCTTCCCATGTCTCGAACCATCAACTCTTTCCACATCTTGAATCT-TCAAC
1 TCTTCCCATGTCTCGAACCATCAACTCTTCCCACATCTTGAA-CTGTCAAC
* * * *
3428015 TCTTCTCACGTTTCGAACCTTCAACT
1 TCTTCCCATGTCTCGAACCATCAACT
3428041 TTGATACCAC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 18 0.28
50 44 0.69
51 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.35
Consensus pattern (50 bp):
TCTTCCCATGTCTCGAACCATCAACTCTTCCCACATCTTGAACTGTCAAC
Found at i:3428036 original size:25 final size:25
Alignment explanation
Indices: 3427960--3428040 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
3427950 TCTTGAACTG
* * * *
3427960 TCAACTCTTCCCATGTCTCGAACCA
1 TCAACTCTTCTCACGTTTCGAACCT
* *
3427985 TCAACTCTT-TCCACATCTT-GAATCT
1 TCAACTCTTCT-CACGT-TTCGAACCT
3428010 TCAACTCTTCTCACGTTTCGAACCT
1 TCAACTCTTCTCACGTTTCGAACCT
3428035 TCAACT
1 TCAACT
3428041 TTGATACCAC
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
24 2 0.05
25 40 0.91
26 2 0.05
ACGTcount: A:0.23, C:0.36, G:0.06, T:0.35
Consensus pattern (25 bp):
TCAACTCTTCTCACGTTTCGAACCT
Found at i:3428080 original size:31 final size:31
Alignment explanation
Indices: 3428042--3428118 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
3428032 CCTTCAACTT
* *
3428042 TGATACCACTTGTTGAGGAACACCACAGCTC
1 TGATACCACTTGTTGAGAAACACCACAGATC
* *
3428073 TGATACCACTTATTGAGAAATACCACAGATC
1 TGATACCACTTGTTGAGAAACACCACAGATC
* *
3428104 GGATACCATTTGTTG
1 TGATACCACTTGTTG
3428119 GGCTAAAAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (31 bp):
TGATACCACTTGTTGAGAAACACCACAGATC
Found at i:3428672 original size:52 final size:52
Alignment explanation
Indices: 3428605--3428761 Score: 206
Period size: 52 Copynumber: 3.0 Consensus size: 52
3428595 TATAACCATA
* * * *
3428605 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCACTTTCCTCTTAGAATTCTTCTCTTGTAAGT
* * *
3428657 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCACTTTCCTCTTAGAATTCTTCTCTTGTAAGT
* * * * *
3428709 TAAACTTACCTATTAAGAATCATTTTTCTCTTAGAATTCTTCTTTTGTAAGT
1 CAAACTTGCCTATTAAGAATCACTTTCCTCTTAGAATTCTTCTCTTGTAAGT
3428761 C
1 C
3428762 TTCTTATCCA
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 90 1.00
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCACTTTCCTCTTAGAATTCTTCTCTTGTAAGT
Found at i:3428817 original size:11 final size:11
Alignment explanation
Indices: 3428786--3428817 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
3428776 GCAATATTTG
*
3428786 ACAAATCTCAA
1 ACAAATCTCTA
3428797 ACAAATCTCTA
1 ACAAATCTCTA
3428808 ACAAATCTCT
1 ACAAATCTCT
3428818 TATGAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (11 bp):
ACAAATCTCTA
Found at i:3429062 original size:23 final size:23
Alignment explanation
Indices: 3429032--3429092 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
3429022 TAAGCTTATT
3429032 TCTTCCCATGTCTTAAAC-CAAGC
1 TCTTCCCATGTCTTAAACTCAA-C
* *
3429055 TCTTCCCATATCTTGAACTGTCAAC
1 TCTTCCCATGTCTTAAAC--TCAAC
3429080 TCTTCCCATGTCT
1 TCTTCCCATGTCT
3429093 CGAACCATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 16 0.50
25 13 0.41
26 3 0.09
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.36
Consensus pattern (23 bp):
TCTTCCCATGTCTTAAACTCAAC
Found at i:3429086 original size:25 final size:24
Alignment explanation
Indices: 3429032--3429134 Score: 93
Period size: 25 Copynumber: 4.2 Consensus size: 24
3429022 TAAGCTTATT
* *
3429032 TCTTCCCATGTCTTAAAC--CAAGC
1 TCTTCCCATATCTTGAACTTCAA-C
3429055 TCTTCCCATATCTTGAACTGTCAAC
1 TCTTCCCATATCTTGAACT-TCAAC
* * *
3429080 TCTTCCCATGTCTCGAACCATCAAC
1 TCTTCCCATATCTTGAA-CTTCAAC
* *
3429105 TCTTTCCACATCTTGAATCTTCAAC
1 TCTTCCCATATCTTGAA-CTTCAAC
3429130 TCTTC
1 TCTTC
3429135 TCACGTTTCG
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
23 16 0.25
25 44 0.69
26 4 0.06
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.35
Consensus pattern (24 bp):
TCTTCCCATATCTTGAACTTCAAC
Found at i:3429129 original size:50 final size:50
Alignment explanation
Indices: 3429032--3429155 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
3429022 TAAGCTTATT
** * *
3429032 TCTTCCCATGTCTTAAACCA--AGCTCTTCCCATATCTTGAACTGTCAAC
1 TCTTCCCATGTCTCGAACCATCAACTCTTCCCACATCTTGAACTGTCAAC
*
3429080 TCTTCCCATGTCTCGAACCATCAACTCTTTCCACATCTTGAATCT-TCAAC
1 TCTTCCCATGTCTCGAACCATCAACTCTTCCCACATCTTGAA-CTGTCAAC
* * * *
3429130 TCTTCTCACGTTTCGAACCTTCAACT
1 TCTTCCCATGTCTCGAACCATCAACT
3429156 TTGATACCAC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 18 0.28
50 44 0.69
51 2 0.03
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.35
Consensus pattern (50 bp):
TCTTCCCATGTCTCGAACCATCAACTCTTCCCACATCTTGAACTGTCAAC
Found at i:3429151 original size:25 final size:25
Alignment explanation
Indices: 3429075--3429155 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
3429065 TCTTGAACTG
* * * *
3429075 TCAACTCTTCCCATGTCTCGAACCA
1 TCAACTCTTCTCACGTTTCGAACCT
* *
3429100 TCAACTCTT-TCCACATCTT-GAATCT
1 TCAACTCTTCT-CACGT-TTCGAACCT
3429125 TCAACTCTTCTCACGTTTCGAACCT
1 TCAACTCTTCTCACGTTTCGAACCT
3429150 TCAACT
1 TCAACT
3429156 TTGATACCAC
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
24 2 0.05
25 40 0.91
26 2 0.05
ACGTcount: A:0.23, C:0.36, G:0.06, T:0.35
Consensus pattern (25 bp):
TCAACTCTTCTCACGTTTCGAACCT
Found at i:3429195 original size:31 final size:31
Alignment explanation
Indices: 3429157--3429233 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
3429147 CCTTCAACTT
* *
3429157 TGATACCACTTGTTGAGGAACACCACAGCTC
1 TGATACCACTTGTTGAGAAACACCACAGATC
* *
3429188 TGATACCACTTATTGAGAAATACCACAGATC
1 TGATACCACTTGTTGAGAAACACCACAGATC
*
3429219 TGATACCATTTGTTG
1 TGATACCACTTGTTG
3429234 GGCTAAAAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (31 bp):
TGATACCACTTGTTGAGAAACACCACAGATC
Found at i:3429872 original size:52 final size:52
Alignment explanation
Indices: 3429720--3429876 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
3429710 TATAACCATA
* * * * * * *
3429720 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGC
1 CAAACTTACCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
* *
3429772 CAAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
* * *
3429824 TAAACTTACCTATTAAGAATCAT-TTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATC-TCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
3429876 C
1 C
3429877 TTCTTGTCCA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 90 0.99
53 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:3429932 original size:11 final size:11
Alignment explanation
Indices: 3429901--3429932 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
3429891 GCAATATCTG
*
3429901 ACAAATCTCAA
1 ACAAATCTCTA
3429912 ACAAATCTCTA
1 ACAAATCTCTA
3429923 ACAAATCTCT
1 ACAAATCTCT
3429933 TATGAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (11 bp):
ACAAATCTCTA
Found at i:3430774 original size:2 final size:2
Alignment explanation
Indices: 3430731--3430758 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3430721 AAATGAAGTA
3430731 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3430759 GCATGCATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3439366 original size:2 final size:2
Alignment explanation
Indices: 3439361--3439386 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3439351 TTTCTAATTG
3439361 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3439387 CTGAGTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3439971 original size:21 final size:21
Alignment explanation
Indices: 3439947--3440009 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
3439937 GGAGACCATG
* *
3439947 GAAGAAGAGGT-GGAGTATGAA
1 GAAGAAGAGGTAGAAG-AGGAA
**
3439968 GAAGTGGAGGTAGAAGAGGAA
1 GAAGAAGAGGTAGAAGAGGAA
3439989 GAAGAAGA-G--GAAGAGGAA
1 GAAGAAGAGGTAGAAGAGGAA
3440007 GAA
1 GAA
3440010 ATAGAAGAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 12 0.34
20 1 0.03
21 19 0.54
22 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.44, T:0.08
Consensus pattern (21 bp):
GAAGAAGAGGTAGAAGAGGAA
Found at i:3439994 original size:12 final size:12
Alignment explanation
Indices: 3439965--3440044 Score: 54
Period size: 12 Copynumber: 6.7 Consensus size: 12
3439955 GGTGGAGTAT
* *
3439965 GAAGAAGTGGAG
1 GAAGAAGAGGAA
*
3439977 GTAGAAGAGGAA
1 GAAGAAGAGGAA
3439989 GAAGAAGAGGAA
1 GAAGAAGAGGAA
* *
3440001 GAGGAAGA-AATA
1 GAAGAAGAGGA-A
* **
3440013 GAAGAGGAGGTG
1 GAAGAAGAGGAA
**
3440025 GAAGAAGAGGCT
1 GAAGAAGAGGAA
3440037 GAAGAAGA
1 GAAGAAGA
3440045 AGATCAGGAT
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
11 1 0.02
12 51 0.98
ACGTcount: A:0.49, C:0.01, G:0.44, T:0.06
Consensus pattern (12 bp):
GAAGAAGAGGAA
Found at i:3440016 original size:15 final size:17
Alignment explanation
Indices: 3439978--3440020 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
3439968 GAAGTGGAGG
3439978 TAGAAGAGGAAGAAGAA
1 TAGAAGAGGAAGAAGAA
*
3439995 GAGGAAGAGGAAG-A-AA
1 TA-GAAGAGGAAGAAGAA
3440011 TAGAAGAGGA
1 TAGAAGAGGA
3440021 GGTGGAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 8 0.35
16 3 0.13
17 2 0.09
18 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.40, T:0.05
Consensus pattern (17 bp):
TAGAAGAGGAAGAAGAA
Found at i:3440731 original size:2 final size:2
Alignment explanation
Indices: 3440724--3440749 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3440714 CTTTGCTGCT
3440724 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
3440750 AGGGTAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:3442474 original size:6 final size:6
Alignment explanation
Indices: 3442458--3442490 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
3442448 GATTGTTTGT
*
3442458 ATTTTC TTTTTC ATTTTC ATTTTC ATTTTC ATT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATT
3442491 CTACCTCTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTC
Found at i:3443777 original size:18 final size:21
Alignment explanation
Indices: 3443754--3443792 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 21
3443744 CATTCCGAAA
3443754 TTAATA-AAA-TATT-ATTTT
1 TTAATATAAATTATTAATTTT
3443772 TTAATATAAATTATTAATTTT
1 TTAATATAAATTATTAATTTT
3443793 ACTTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 4 0.22
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAATATAAATTATTAATTTT
Found at i:3447503 original size:13 final size:13
Alignment explanation
Indices: 3447485--3447509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3447475 TTTCCCTATC
3447485 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
3447498 TCTTTTTTTTTT
1 TCTTTTTTTTTT
3447510 GGGATGAGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:3448724 original size:32 final size:31
Alignment explanation
Indices: 3448648--3448724 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 31
3448638 TATTTTTATC
3448648 AATTAAAATAAAATTTTATATAATATCAATAA
1 AATT-AAATAAAATTTTATATAATATCAATAA
*
3448680 AATT-AATAAAAATTTTCACT-TAATAT-ATGTAA
1 AATTAAAT-AAAATTTT-A-TATAATATCA-ATAA
3448712 AATTAAATAAAAT
1 AATTAAATAAAAT
3448725 AATTTTTTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 3 0.08
31 9 0.23
32 23 0.59
33 4 0.10
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (31 bp):
AATTAAATAAAATTTTATATAATATCAATAA
Found at i:3448905 original size:29 final size:30
Alignment explanation
Indices: 3448842--3448916 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
3448832 AGATTTTATT
*
3448842 TATTAAAAATTAAATTGAATTAAAATAAAA
1 TATTAAAAATTAAATTGAATTAAAACAAAA
* * * *
3448872 AATTAAAGATTTAATTG-ATTATAACAAAA
1 TATTAAAAATTAAATTGAATTAAAACAAAA
3448901 TATTAAAAATTCAAAT
1 TATTAAAAATT-AAAT
3448917 AATTATTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
29 19 0.53
30 17 0.47
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (30 bp):
TATTAAAAATTAAATTGAATTAAAACAAAA
Found at i:3451062 original size:23 final size:23
Alignment explanation
Indices: 3451036--3451087 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
3451026 TTATGAGTTA
3451036 TGACATAGTCAGATTCTAGTTTT
1 TGACATAGTCAGATTCTAGTTTT
3451059 TGACATAGTCAGATTCTAGTTTT
1 TGACATAGTCAGATTCTAGTTTT
3451082 TGACAT
1 TGACAT
3451088 TGTCTGCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.42
Consensus pattern (23 bp):
TGACATAGTCAGATTCTAGTTTT
Found at i:3460147 original size:21 final size:23
Alignment explanation
Indices: 3460122--3460180 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 23
3460112 TAAATAACAC
3460122 ATAAGATAATTTTTTTAA-A-AA
1 ATAAGATAATTTTTTTAATATAA
*
3460143 ATAAGATAGTTTCTTTTAATTATAA
1 ATAAGATAATTT-TTTTAA-TATAA
*
3460168 ATTAGATAATTTT
1 ATAAGATAATTTT
3460181 AAATTTATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 11 0.35
22 6 0.19
24 2 0.06
25 12 0.39
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (23 bp):
ATAAGATAATTTTTTTAATATAA
Found at i:3460299 original size:21 final size:21
Alignment explanation
Indices: 3460274--3460324 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
3460264 TGAAATATAT
* **
3460274 ATTTTATTTTTTTAGTAAATA
1 ATTTTATTTGTTTACAAAATA
*
3460295 ATTTTAGTTGTTTACAAAATA
1 ATTTTATTTGTTTACAAAATA
*
3460316 ACTTTATTT
1 ATTTTATTT
3460325 AAAAAAATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (21 bp):
ATTTTATTTGTTTACAAAATA
Found at i:3461175 original size:18 final size:17
Alignment explanation
Indices: 3461150--3461183 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
3461140 TGATAAATCA
3461150 ATATTTATAAATTTTAT
1 ATATTTATAAATTTTAT
3461167 ATATGTTATAAATTTTA
1 ATAT-TTATAAATTTTA
3461184 AAAATTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATATTTATAAATTTTAT
Found at i:3464479 original size:43 final size:42
Alignment explanation
Indices: 3464432--3464533 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 42
3464422 ATTTGAAGAA
*
3464432 ACTATATAA-ATTAATAGTTAAAAAAATAAACCGTATAATTTAT
1 ACTATA-AATATTAA-AATTAAAAAAATAAACCGTATAATTTAT
* ** *
3464475 ACTATAAATTTTTAAAATTTTAAAATTAAACCGTATAATTTAT
1 ACTATAAA-TATTAAAATTAAAAAAATAAACCGTATAATTTAT
*
3464518 ATTATAAACTATTAAA
1 ACTATAAA-TATTAAA
3464534 TTATGTCATT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.04
43 43 0.88
44 4 0.08
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (42 bp):
ACTATAAATATTAAAATTAAAAAAATAAACCGTATAATTTAT
Found at i:3464481 original size:21 final size:21
Alignment explanation
Indices: 3464457--3464526 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
3464447 AGTTAAAAAA
*
3464457 ATAAACCGTATAATTTATACT
1 ATAAACCGTATAATTTATAAT
*** * *
3464478 ATAAATTTTTAAAATTT-TAAA
1 ATAAA-CCGTATAATTTATAAT
*
3464499 ATTAAACCGTATAATTTATATT
1 A-TAAACCGTATAATTTATAAT
3464521 ATAAAC
1 ATAAAC
3464527 TATTAAATTA
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
21 20 0.59
22 14 0.41
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (21 bp):
ATAAACCGTATAATTTATAAT
Found at i:3475945 original size:21 final size:22
Alignment explanation
Indices: 3475921--3475962 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
3475911 CACAATCACA
3475921 TTATTAGAAAAT-ATTAATTAT
1 TTATTAGAAAATAATTAATTAT
*
3475942 TTATTATAAAATAATTAATTA
1 TTATTAGAAAATAATTAATTA
3475963 ATCTATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TTATTAGAAAATAATTAATTAT
Found at i:3477388 original size:8 final size:8
Alignment explanation
Indices: 3477375--3477411 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
3477365 ATTATACTGC
3477375 TTAAAATT
1 TTAAAATT
3477383 TTAAAATT
1 TTAAAATT
3477391 TT--AATT
1 TTAAAATT
3477397 TTAAAAGTT
1 TTAAAA-TT
3477406 TTAAAA
1 TTAAAA
3477412 GTGATTAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.23
8 12 0.46
9 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (8 bp):
TTAAAATT
Found at i:3477396 original size:14 final size:15
Alignment explanation
Indices: 3477379--3477409 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
3477369 TACTGCTTAA
3477379 AATTTTAAAA-TTTT
1 AATTTTAAAAGTTTT
3477393 AATTTTAAAAGTTTT
1 AATTTTAAAAGTTTT
3477408 AA
1 AA
3477410 AAGTGATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
AATTTTAAAAGTTTT
Found at i:3480425 original size:15 final size:14
Alignment explanation
Indices: 3480405--3480442 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
3480395 AGAGTATTAA
3480405 AAATTATTTCTTTCG
1 AAATTATTT-TTTCG
3480420 AAATTA--TTTTCG
1 AAATTATTTTTTCG
3480432 AAATTATTTTT
1 AAATTATTTTT
3480443 GTTTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 3 0.14
15 6 0.29
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (14 bp):
AAATTATTTTTTCG
Found at i:3480432 original size:12 final size:12
Alignment explanation
Indices: 3480415--3480441 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3480405 AAATTATTTC
3480415 TTTCGAAATTAT
1 TTTCGAAATTAT
3480427 TTTCGAAATTAT
1 TTTCGAAATTAT
3480439 TTT
1 TTT
3480442 TGTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (12 bp):
TTTCGAAATTAT
Found at i:3481044 original size:62 final size:63
Alignment explanation
Indices: 3480954--3481072 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 63
3480944 AATGCGTATC
* * *
3480954 AAATTTAGATCTTTAGACTTTTGGATTTTAGGGTTTGGGATTTTGGATTTTAGGGGTTTTTAG
1 AAATTTAGATCTTTAGACTTTTGGATTTTAAGGTTTGAGATTTTGGATTTTAAGGGTTTTTAG
* * *
3481017 AAATTTGGATTTTTAG-GTTTTGGATTTTAAGGTTTGAGATTTTGGATTTTAAGGGT
1 AAATTTAGATCTTTAGACTTTTGGATTTTAAGGTTTGAGATTTTGGATTTTAAGGGT
3481073 AAGGTTTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
62 36 0.72
63 14 0.28
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.50
Consensus pattern (63 bp):
AAATTTAGATCTTTAGACTTTTGGATTTTAAGGTTTGAGATTTTGGATTTTAAGGGTTTTTAG
Found at i:3481059 original size:15 final size:15
Alignment explanation
Indices: 3481020--3481051 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3481010 TTTTTAGAAA
*
3481020 TTTGGATTTTTAGGT
1 TTTGGATTTTAAGGT
3481035 TTTGGATTTTAAGGT
1 TTTGGATTTTAAGGT
3481050 TT
1 TT
3481052 GAGATTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.25, T:0.59
Consensus pattern (15 bp):
TTTGGATTTTAAGGT
Found at i:3481123 original size:28 final size:28
Alignment explanation
Indices: 3481092--3481273 Score: 115
Period size: 28 Copynumber: 6.4 Consensus size: 28
3481082 AGTTTCAGAT
3481092 TTTGGGGTTT-AGGTTTTTGATTTTAAGG
1 TTTGGGGTTTGAGG-TTTTGATTTTAAGG
* * *
3481120 TTTGAGATTTGAGGTTTTGATTTTAGGG
1 TTTGGGGTTTGAGGTTTTGATTTTAAGG
* * * * *
3481148 TTTGAGATTTGAAGTTTT-AGTTTTATGA
1 TTTGGGGTTTGAGGTTTTGA-TTTTAAGG
* * * *
3481176 TTTAGAGGATTT-AGGGTTTAATTTTAGGG
1 TTT-G-GGGTTTGAGGTTTTGATTTTAAGG
*
3481205 TTTGGAGGTTTGAGGTTTAG-TTTT-AGG
1 TTTGG-GGTTTGAGGTTTTGATTTTAAGG
**
3481232 ATTTAAAGGTTT-AGAGTTTTGATTTTAAGG
1 -TTT-GGGGTTTGAG-GTTTTGATTTTAAGG
3481262 TTTGGGGTTTGA
1 TTTGGGGTTTGA
3481274 TTTTAGGGTT
Statistics
Matches: 120, Mismatches: 21, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
27 6 0.05
28 74 0.62
29 31 0.26
30 9 0.08
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.49
Consensus pattern (28 bp):
TTTGGGGTTTGAGGTTTTGATTTTAAGG
Found at i:3481149 original size:14 final size:14
Alignment explanation
Indices: 3481099--3481150 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
3481089 GATTTTGGGG
*
3481099 TTTAGGTTTTTGAT
1 TTTAGGGTTTTGAT
* *
3481113 TTTAAGGTTTGAGAT
1 TTTAGGGTTT-TGAT
*
3481128 TTGA-GGTTTTGAT
1 TTTAGGGTTTTGAT
3481141 TTTAGGGTTT
1 TTTAGGGTTT
3481151 GAGATTTGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 6 0.20
14 18 0.60
15 6 0.20
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:3481164 original size:14 final size:14
Alignment explanation
Indices: 3481117--3481164 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
3481107 TTTGATTTTA
3481117 AGGTTTGAGATTTG
1 AGGTTTGAGATTTG
* *
3481131 AGGTTT-TGATTTT
1 AGGTTTGAGATTTG
3481144 AGGGTTTGAGATTTG
1 A-GGTTTGAGATTTG
*
3481159 AAGTTT
1 AGGTTT
3481165 TAGTTTTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
13 6 0.22
14 15 0.56
15 6 0.22
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (14 bp):
AGGTTTGAGATTTG
Found at i:3481165 original size:57 final size:58
Alignment explanation
Indices: 3481112--3481266 Score: 158
Period size: 57 Copynumber: 2.7 Consensus size: 58
3481102 AGGTTTTTGA
* * *
3481112 TTTTAAGGTTT-GA-GATTTGAGGTTTTGATTTTAGGGTTT-GAGATTTGAAGTTTTAG
1 TTTTAAGATTTAGAGGATTT-AGGGTTTAATTTTAGGGTTTGGAGATTTGAAGTTTTAG
* * *
3481168 TTTTATGATTTAGAGGATTTAGGGTTTAATTTTAGGGTTTGGAGGTTTG-AGGTTTAG
1 TTTTAAGATTTAGAGGATTTAGGGTTTAATTTTAGGGTTTGGAGATTTGAAGTTTTAG
* * * * *
3481225 TTTTAGGATTTAAAGG-TTTAGAGTTTTGATTTTAAGGTTTGG
1 TTTTAAGATTTAGAGGATTTAG-GGTTTAATTTTAGGGTTTGG
3481267 GGTTTGATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
56 14 0.17
57 58 0.69
58 12 0.14
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (58 bp):
TTTTAAGATTTAGAGGATTTAGGGTTTAATTTTAGGGTTTGGAGATTTGAAGTTTTAG
Found at i:3481271 original size:21 final size:20
Alignment explanation
Indices: 3481231--3481284 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
3481221 TTAGTTTTAG
*
3481231 GATTTAAAGGTTTAGAGTTTT
1 GATTTTAAGGTTTAGAG-TTT
* *
3481252 GATTTTAAGGTTTGGGGTTT
1 GATTTTAAGGTTTAGAGTTT
*
3481272 GATTTTAGGGTTT
1 GATTTTAAGGTTT
3481285 CAATTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (20 bp):
GATTTTAAGGTTTAGAGTTT
Found at i:3481314 original size:14 final size:14
Alignment explanation
Indices: 3481266--3481327 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
3481256 TTAAGGTTTG
3481266 GGGTTTG-ATTTTA
1 GGGTTTGAATTTTA
*
3481279 GGGTTTCAATTTTTA
1 GGGTTTGAA-TTTTA
* * *
3481294 AGTTTTGAAATTTA
1 GGGTTTGAATTTTA
*
3481308 GGGTTTGGATTTTA
1 GGGTTTGAATTTTA
3481322 GGGTTT
1 GGGTTT
3481328 AAAGAAAACG
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
13 6 0.16
14 21 0.55
15 11 0.29
ACGTcount: A:0.19, C:0.02, G:0.27, T:0.52
Consensus pattern (14 bp):
GGGTTTGAATTTTA
Found at i:3481601 original size:16 final size:16
Alignment explanation
Indices: 3481580--3481616 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
3481570 GCCCACAACC
*
3481580 CATCCCATACCCTGTT
1 CATCCCATACCCTATT
3481596 CATCCCATACCCTATT
1 CATCCCATACCCTATT
3481612 CATCC
1 CATCC
3481617 TACCCTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.46, G:0.03, T:0.30
Consensus pattern (16 bp):
CATCCCATACCCTATT
Found at i:3482941 original size:16 final size:15
Alignment explanation
Indices: 3482925--3483073 Score: 99
Period size: 15 Copynumber: 9.8 Consensus size: 15
3482915 TTAGGTTTCT
3482925 AAAACCCCTAAAATC
1 AAAACCCCTAAAATC
*
3482940 TAAAACCTCATAAAATC
1 -AAAACC-CCTAAAATC
*
3482957 CAAACCCCTAAAAATC
1 AAAACCCCT-AAAATC
* * *
3482973 TAAAATCTCTTAAATC
1 -AAAACCCCTAAAATC
** *
3482989 CGAACCCCTAAATTC
1 AAAACCCCTAAAATC
* *
3483004 CAAACTCCTAAAATTC
1 AAAACCCCTAAAA-TC
3483020 -AAACCCC-AAAATCC
1 AAAACCCCTAAAAT-C
*
3483034 AAAATCCCTAAAATC
1 AAAACCCCTAAAATC
* *
3483049 CAAACCCAT-AAATC
1 AAAACCCCTAAAATC
3483063 AAAA-CCCTAAA
1 AAAACCCCTAAA
3483074 CCACAAAACC
Statistics
Matches: 102, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
13 4 0.04
14 15 0.15
15 40 0.39
16 29 0.28
17 14 0.14
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.19
Consensus pattern (15 bp):
AAAACCCCTAAAATC
Found at i:3483015 original size:15 final size:14
Alignment explanation
Indices: 3482930--3483124 Score: 100
Period size: 16 Copynumber: 13.5 Consensus size: 14
3482920 TTTCTAAAAC
*
3482930 CCCTAAAATCTAAAA
1 CCCTAAAATC-CAAA
3482945 CCTCATAAAATCCAAA
1 CC-C-TAAAATCCAAA
*
3482961 CCCCTAAAAATCTAAAA
1 -CCCT-AAAATC-CAAA
* * *
3482978 TCTCTTAAATCCGAAC
1 -CCCTAAAATCC-AAA
*
3482994 CCCTAAATTCCAAA
1 CCCTAAAATCCAAA
*
3483008 CTCCTAAAATTCAAA
1 C-CCTAAAATCCAAA
*
3483023 CCCCAAAATCCAAAA
1 CCCTAAAATCC-AAA
3483038 TCCCTAAAATCCAAA
1 -CCCTAAAATCCAAA
*
3483053 CCC-ATAAATCAAAA
1 CCCTA-AAATCCAAA
3483067 CCCT-AAA-CC--A
1 CCCTAAAATCCAAA
*
3483077 --C-AAAACCCAAA
1 CCCTAAAATCCAAA
3483088 CCCTAAAATCTTCAAA
1 CCCTAAAATC--CAAA
* *
3483104 CTCTAAAATCAAAA
1 CCCTAAAATCCAAA
3483118 CCCTAAA
1 CCCTAAA
3483125 CCTTCCATAT
Statistics
Matches: 138, Mismatches: 22, Indels: 41
0.69 0.11 0.20
Matches are distributed among these distances:
8 4 0.03
9 2 0.01
10 1 0.01
11 1 0.01
12 1 0.01
13 5 0.04
14 39 0.28
15 29 0.21
16 41 0.30
17 15 0.11
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.18
Consensus pattern (14 bp):
CCCTAAAATCCAAA
Found at i:3483044 original size:30 final size:31
Alignment explanation
Indices: 3482926--3483073 Score: 146
Period size: 30 Copynumber: 4.9 Consensus size: 31
3482916 TAGGTTTCTA
*
3482926 AAACCCCTAAAATCTAAAA-CCTCATAAAATCC
1 AAACCCCTAAAATCCAAAATCC-C-TAAAATCC
* * *
3482958 AAACCCCTAAAAATCTAAAATCTCTTAAATCC
1 AAACCCCT-AAAATCCAAAATCCCTAAAATCC
* * * *
3482990 GAACCCCTAAATTCCAAACT-CCTAAAATTC
1 AAACCCCTAAAATCCAAAATCCCTAAAATCC
3483020 AAACCCC-AAAATCCAAAATCCCTAAAATCC
1 AAACCCCTAAAATCCAAAATCCCTAAAATCC
*
3483050 AAACCCAT-AAAT-CAAAA-CCCTAAA
1 AAACCCCTAAAATCCAAAATCCCTAAA
3483074 CCACAAAACC
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
28 7 0.07
29 15 0.15
30 32 0.33
31 9 0.09
32 22 0.22
33 12 0.12
34 1 0.01
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.19
Consensus pattern (31 bp):
AAACCCCTAAAATCCAAAATCCCTAAAATCC
Found at i:3483075 original size:51 final size:50
Alignment explanation
Indices: 3483020--3483126 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 50
3483010 CCTAAAATTC
*
3483020 AAACCCCAAAATCCAAAATCCCTAAAATC-CAAACCC-ATAAATCAAAACCCT
1 AAACCACAAAA-CCAAAA-CCCTAAAATCTCAAACCCTA-AAATCAAAACCCT
* *
3483071 AAACCACAAAACCCAAACCCTAAAATCTTCAAACTCTAAAATCAAAACCCT
1 AAACCACAAAACCAAAACCCTAAAATC-TCAAACCCTAAAATCAAAACCCT
3483122 AAACC
1 AAACC
3483127 TTCCATATCC
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
49 10 0.20
50 5 0.10
51 34 0.68
52 1 0.02
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (50 bp):
AAACCACAAAACCAAAACCCTAAAATCTCAAACCCTAAAATCAAAACCCT
Found at i:3484281 original size:31 final size:30
Alignment explanation
Indices: 3484232--3484313 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 30
3484222 TCATATATTT
* **
3484232 CTTTTTTATAAAAATTTATTATTAATAATAC
1 CTTTTTTATTAATTTTTATTATT-ATAATAC
* * *
3484263 CTTTTTTATTAATTTTTATTCTTTTTATAC
1 CTTTTTTATTAATTTTTATTATTATAATAC
*
3484293 CATTTTTAAATTAATTTTTAT
1 C-TTTTT-TATTAATTTTTAT
3484314 GTAATAATTC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 6 0.14
31 24 0.57
32 12 0.29
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (30 bp):
CTTTTTTATTAATTTTTATTATTATAATAC
Found at i:3485812 original size:28 final size:28
Alignment explanation
Indices: 3485779--3485833 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
3485769 TTAATAATTT
3485779 TAATATAAAAGA-CTCGAACAAAATTCGG
1 TAATATAAAAGACCT-GAACAAAATTCGG
3485807 TAATATAAAAGACCTGAACAAAATTCG
1 TAATATAAAAGACCTGAACAAAATTCG
3485834 ATGTCTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.22
Consensus pattern (28 bp):
TAATATAAAAGACCTGAACAAAATTCGG
Found at i:3486209 original size:108 final size:108
Alignment explanation
Indices: 3486020--3486237 Score: 409
Period size: 108 Copynumber: 2.0 Consensus size: 108
3486010 TATAATAATT
* *
3486020 TATTTGTTAATTAATTGCTGCTATTTGGATTGAGGGAAATAATTCAAATATTTCATTTAAAAAAG
1 TATTTGTTAATCAATTGCTGCTATTTGGATTAAGGGAAATAATTCAAATATTTCATTTAAAAAAG
3486085 ATCATATTATAGTTCAAACTCATTTATGAAGACAACATAAAGA
66 ATCATATTATAGTTCAAACTCATTTATGAAGACAACATAAAGA
3486128 TATTTGTTAATCAATTGCTGCTATTTGGATTAAGGGAAATAATTCAAATATTTCATTTAAAAAAG
1 TATTTGTTAATCAATTGCTGCTATTTGGATTAAGGGAAATAATTCAAATATTTCATTTAAAAAAG
*
3486193 ATCATATTATAGTTCAAACTCATTTATGAATACAACATAAAGA
66 ATCATATTATAGTTCAAACTCATTTATGAAGACAACATAAAGA
3486236 TA
1 TA
3486238 AATATTATTT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (108 bp):
TATTTGTTAATCAATTGCTGCTATTTGGATTAAGGGAAATAATTCAAATATTTCATTTAAAAAAG
ATCATATTATAGTTCAAACTCATTTATGAAGACAACATAAAGA
Found at i:3487150 original size:21 final size:21
Alignment explanation
Indices: 3487126--3487204 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
3487116 TTAGTAGATA
*
3487126 ATTATAACTTAATAATTAATC
1 ATTATAATTTAATAATTAATC
* *
3487147 ATTAAAAATTTAA-ATTTAATC
1 ATT-ATAATTTAATAATTAATC
* *
3487168 AGTATAATTTAAT-AGTAATC
1 ATTATAATTTAATAATTAATC
*
3487188 ATCGATAATTTAATAAT
1 AT-TATAATTTAATAAT
3487205 AAATTAATGA
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
20 14 0.32
21 22 0.50
22 8 0.18
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (21 bp):
ATTATAATTTAATAATTAATC
Found at i:3487269 original size:19 final size:19
Alignment explanation
Indices: 3487245--3487282 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3487235 TATAACTTTT
3487245 TAATAA-ATAAGCAATAATA
1 TAATAATATAAGC-ATAATA
*
3487264 TAATAATATATGCATAATA
1 TAATAATATAAGCATAATA
3487283 CTTTAATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (19 bp):
TAATAATATAAGCATAATA
Found at i:3487425 original size:22 final size:21
Alignment explanation
Indices: 3487357--3487426 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
3487347 AGTTTAATAA
*
3487357 AAATAAGTGATAACTTCATAGT
1 AAATAA-TGATAACTTAATAGT
* * * * *
3487379 TAATTATGGATAATTTAGTAAT
1 AAATAAT-GATAACTTAATAGT
3487401 AAATGAATGATAACTTAATAGT
1 AAAT-AATGATAACTTAATAGT
3487423 AAAT
1 AAAT
3487427 TAGTAAAAAT
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
21 1 0.03
22 32 0.91
23 2 0.06
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (21 bp):
AAATAATGATAACTTAATAGT
Found at i:3487438 original size:44 final size:44
Alignment explanation
Indices: 3487349--3487900 Score: 114
Period size: 44 Copynumber: 12.8 Consensus size: 44
3487339 TTAAGGAAAG
* * * *
3487349 TTTAATAA-AAAT-AAGTGATAACTTCATAGTTAATTATGGATAA
1 TTTAATAATAAATGAA-TGATAACTTAATAGTAAATTATGAAAAA
*
3487392 TTTAGTAATAAATGAATGATAACTTAATAGTAAATTA-GTAAAAA
1 TTTAATAATAAATGAATGATAACTTAATAGTAAATTATG-AAAAA
* * * ** ** * ***
3487436 TTTAATACTAAATTAGTTTTAGTTTAATAAT-AATTA--ATTGA
1 TTTAATAATAAATGAATGATAACTTAATAGTAAATTATGAAAAA
* ** * * * ** *
3487477 --TAGTAGGAAAT-CATAACTAATTTAATAGTAAACAAATGATAAA
1 TTTAATAATAAATGAATGA-TAACTTAATAGTAAA-TTATGAAAAA
* * * * * *
3487520 -TTAGTAGTAAAT-AATTGATAATTTAATAGTTAATCATTAAAAA
1 TTTAATAATAAATGAA-TGATAACTTAATAGTAAATTATGAAAAA
* * * *
3487563 CTTAA-AAGTAAATTAAT-AGAACTTAATAGTAAATTAT-AGATAA
1 TTTAATAA-TAAATGAATGATAACTTAATAGTAAATTATGA-AAAA
* * * * * * ** * * *
3487606 TATAATAGTTAATTAGTAATAACTTTTTAATAAATTATGCATAA
1 TTTAATAATAAATGAATGATAACTTAATAGTAAATTATGAAAAA
* * * * * *
3487650 TTTAAT-ATAAATCAATAATAACTTAGTAATGAATCAT-AAATAA
1 TTTAATAATAAATGAATGATAACTTAATAGTAAATTATGAAA-AA
* * * * * *
3487693 TTTAGTGATAAATTGGA-GA-AAATTTATGGTAAATTAT-AAAAA
1 TTTAATAATAAA-TGAATGATAACTTAATAGTAAATTATGAAAAA
* *
3487735 TTTAAGTAATAAATAAATGATAACATAATAGTAAATTTATG-AAAA
1 TTTAA-TAATAAATGAATGATAACTTAATAGTAAA-TTATGAAAAA
* * * * * *
3487780 TATAATAAT-AATCATTGATAATTTATTAGTAAA-T-T-AATAA
1 TTTAATAATAAATGAATGATAACTTAATAGTAAATTATGAAAAA
* * * * * *
3487820 CTTAACAATAAAT-TATTACTAACATAATAGTAAATTACT-AATAA
1 TTTAATAATAAATGAATGA-TAACTTAATAGTAAATTA-TGAAAAA
* * *
3487864 TTTAATTATAAATTAATGATAA-TCTAGTAGTAAATTA
1 TTTAATAATAAATGAATGATAACT-TAATAGTAAATTA
3487901 GTTAATCATT
Statistics
Matches: 368, Mismatches: 108, Indels: 65
0.68 0.20 0.12
Matches are distributed among these distances:
38 1 0.00
39 18 0.05
40 14 0.04
41 19 0.05
42 11 0.03
43 123 0.33
44 159 0.43
45 23 0.06
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (44 bp):
TTTAATAATAAATGAATGATAACTTAATAGTAAATTATGAAAAA
Found at i:3487586 original size:21 final size:20
Alignment explanation
Indices: 3487561--3487602 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
3487551 AATCATTAAA
3487561 AACTTAAAAGTAAATTAATAG
1 AACTTAAAAGTAAATT-ATAG
*
3487582 AACTTAATAGTAAATTATAG
1 AACTTAAAAGTAAATTATAG
3487602 A
1 A
3487603 TAATATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (20 bp):
AACTTAAAAGTAAATTATAG
Found at i:3487869 original size:22 final size:21
Alignment explanation
Indices: 3487484--3487900 Score: 109
Period size: 22 Copynumber: 19.3 Consensus size: 21
3487474 TGATAGTAGG
*
3487484 AAATCATAACTAATTTAATAGT
1 AAATTATAA-TAATTTAATAGT
** * * *
3487506 AAACAAATGATAAATTAGTAGT
1 AAA-TTATAATAATTTAATAGT
* *
3487528 AAATAATTGATAATTTAATAGT
1 AAATTA-TAATAATTTAATAGT
* * * * *
3487550 TAATCATTAAAAACTTAAAAGT
1 AAATTA-TAATAATTTAATAGT
* *
3487572 AAATTA-ATAGAACTTAATAGT
1 AAATTATA-ATAATTTAATAGT
*
3487593 AAATTATAGATAATATAATAGT
1 AAATTATA-ATAATTTAATAGT
* * *
3487615 TAATTAGTAATAACTTT-TTAAT
1 AAATTA-TAATAA-TTTAATAGT
*
3487637 AAATTATGCATAATTTAATA-T
1 AAATTAT-AATAATTTAATAGT
* * * *
3487658 AAATCAATAATAACTTAGTAAT
1 AAAT-TATAATAATTTAATAGT
* * *
3487680 GAATCATAAATAATTTAGT-GAT
1 AAATTAT-AATAATTTAATAG-T
* *
3487702 AAATTGGAGAA-AATTT-ATGGT
1 AAATT--ATAATAATTTAATAGT
* *
3487723 AAATTATAAAAATTTAAGTAAT
1 AAATTATAATAATTTAA-TAGT
* * **
3487745 AAATAAATGATAACATAATAGT
1 AAAT-TATAATAATTTAATAGT
* *
3487767 AAATTTATGAA-AATATAATAAT
1 AAA-TTAT-AATAATTTAATAGT
* * *
3487789 -AATCATTGATAATTTATTAGT
1 AAATTA-TAATAATTTAATAGT
* * *
3487810 AAA-T-TAATAACTTAACAAT
1 AAATTATAATAATTTAATAGT
* **
3487829 AAATTATTACTAACATAATAGT
1 AAATTA-TAATAATTTAATAGT
3487851 AAATTACTAATAATTTAATTA-T
1 AAATTA-TAATAATTTAA-TAGT
* * *
3487873 AAATTAATGATAATCTAGTAGT
1 AAATT-ATAATAATTTAATAGT
3487895 AAATTA
1 AAATTA
3487901 GTTAATCATT
Statistics
Matches: 289, Mismatches: 76, Indels: 61
0.68 0.18 0.14
Matches are distributed among these distances:
19 16 0.06
20 10 0.03
21 61 0.21
22 179 0.62
23 22 0.08
24 1 0.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.37
Consensus pattern (21 bp):
AAATTATAATAATTTAATAGT
Found at i:3488287 original size:22 final size:22
Alignment explanation
Indices: 3488262--3488324 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
3488252 AGTTAATAAT
3488262 TAATAATATAATTA-TAAATTAA
1 TAATAATATAA-TAGTAAATTAA
* *
3488284 TAATAATTTAATAGTAAATTAG
1 TAATAATATAATAGTAAATTAA
*
3488306 T-ATAATTTAATAGTAAATT
1 TAATAATATAATAGTAAATT
3488325 GATTTTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 20 0.53
22 18 0.47
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
TAATAATATAATAGTAAATTAA
Found at i:3488312 original size:21 final size:21
Alignment explanation
Indices: 3488276--3488452 Score: 99
Period size: 22 Copynumber: 8.1 Consensus size: 21
3488266 AATATAATTA
3488276 TAAATTAATAATAATTTAATAG
1 TAAATTAAT-ATAATTTAATAG
*
3488298 TAAATTAGTATAATTTAATAG
1 TAAATTAATATAATTTAATAG
* * *
3488319 TAAATTGATTTTAATTTAGTAG
1 TAAATT-AATATAATTTAATAG
* * *
3488341 T-AATTAATTAATAAACTTAGTAA
1 TAAATTAA-T-AT-AATTTAATAG
* *
3488364 TAAATT-ATCAATAACTTAGTAG
1 TAAATTAAT--ATAATTTAATAG
* *
3488386 TAAATCAATGATAATTTAGTAG
1 TAAATTAAT-ATAATTTAATAG
* * *
3488408 TTAATT-ATCAAAAATTTAAAAG
1 TAAATTAAT--ATAATTTAATAG
* *
3488430 TAGATTAATATAATTTAGTAG
1 TAAATTAATATAATTTAATAG
3488451 TA
1 TA
3488453 GTTAATAATC
Statistics
Matches: 123, Mismatches: 23, Indels: 19
0.75 0.14 0.12
Matches are distributed among these distances:
20 1 0.01
21 36 0.29
22 65 0.53
23 17 0.14
24 4 0.03
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (21 bp):
TAAATTAATATAATTTAATAG
Found at i:3488316 original size:29 final size:27
Alignment explanation
Indices: 3488254--3488317 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 27
3488244 AAATTAGTAG
3488254 TTAATAATTAATAATATAATTATAAAT
1 TTAATAATTAATAATATAATTATAAAT
*
3488281 TAATAATAATTTAATAGTA-AATTAGTATAAT
1 T--TAATAA-TTAATAATATAATTA-TA-AAT
3488312 TTAATA
1 TTAATA
3488318 GTAAATTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
27 1 0.03
29 16 0.52
30 10 0.32
31 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
TTAATAATTAATAATATAATTATAAAT
Found at i:3488467 original size:25 final size:25
Alignment explanation
Indices: 3488402--3488476 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
3488392 AATGATAATT
* *
3488402 TAGTAGTTAATTATCAAAAATTTAA
1 TAGTAGTTAATAATCAATAATTTAA
* * *
3488427 AAGTAG--ATTAAT--ATAATTTAG
1 TAGTAGTTAATAATCAATAATTTAA
*
3488448 TAGTAGTTAATAATCAATAACTTAA
1 TAGTAGTTAATAATCAATAATTTAA
3488473 TAGT
1 TAGT
3488477 TAAATAACTT
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
21 12 0.32
23 9 0.24
25 16 0.43
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.39
Consensus pattern (25 bp):
TAGTAGTTAATAATCAATAATTTAA
Found at i:3488525 original size:21 final size:22
Alignment explanation
Indices: 3488480--3488535 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
3488470 TAATAGTTAA
3488480 ATAACTTAATAATAAATTATGG
1 ATAACTTAATAATAAATTATGG
*
3488502 ATAATTTAAT-ATAAATTA-GTG
1 ATAACTTAATAATAAATTATG-G
*
3488523 ATAACTTGATAAT
1 ATAACTTAATAAT
3488536 GAATAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 17 0.59
22 11 0.38
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (22 bp):
ATAACTTAATAATAAATTATGG
Found at i:3488614 original size:8 final size:8
Alignment explanation
Indices: 3488601--3488643 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
3488591 AACTAAGTAG
3488601 TAATATAA
1 TAATATAA
3488609 TAATATAA
1 TAATATAA
3488617 TAATAGTTAA
1 TAATA--TAA
*
3488627 T-ACATAA
1 TAATATAA
3488634 TAATATAA
1 TAATATAA
3488642 TA
1 TA
3488644 GTAAATCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 4 0.13
8 20 0.67
9 2 0.07
10 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (8 bp):
TAATATAA
Found at i:3488658 original size:22 final size:21
Alignment explanation
Indices: 3488564--3488717 Score: 100
Period size: 22 Copynumber: 7.0 Consensus size: 21
3488554 TAATAAATCT
**
3488564 ATAATAATTTTGTAGTAAATA
1 ATAATAATTTAATAGTAAATA
*
3488585 ATTGAA-AA-CTAAGTAGTAATATA
1 A-T-AATAATTTAA-TAGTAA-ATA
* *
3488608 ATAAT-ATAATAATAGTTAATA
1 ATAATAAT-TTAATAGTAAATA
*
3488629 CATAATAATATAATAGTAAATCA
1 -ATAATAATTTAATAGTAAAT-A
*
3488652 ATTATAATTTAGATA-TAAATTA
1 ATAATAATTTA-ATAGTAAA-TA
*
3488674 TTAATAATTTAATAGTAAATCA
1 ATAATAATTTAATAGTAAAT-A
* *
3488696 CTAATAATTTAATTGTAAATA
1 ATAATAATTTAATAGTAAATA
3488717 A
1 A
3488718 GTGGTAATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
21 13 0.12
22 77 0.73
23 16 0.15
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.38
Consensus pattern (21 bp):
ATAATAATTTAATAGTAAATA
Found at i:3488658 original size:25 final size:25
Alignment explanation
Indices: 3488603--3488659 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
3488593 CTAAGTAGTA
* *
3488603 ATATAATAATATAATAATAGTTAAT
1 ATATAATAATATAATAATAATCAAT
* *
3488628 ACATAATAATATAATAGTAAATCAAT
1 ATATAATAATATAATAAT-AATCAAT
3488654 -TATAAT
1 ATATAAT
3488660 TTAGATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (25 bp):
ATATAATAATATAATAATAATCAAT
Found at i:3488679 original size:66 final size:67
Alignment explanation
Indices: 3488616--3488745 Score: 151
Period size: 66 Copynumber: 2.0 Consensus size: 67
3488606 TAATAATATA
* *
3488616 ATAATAGTTAAT-ACATAATAATATAATAGTAAATCAA-TTATAATTTAG-ATATAAATTA-TTA
1 ATAATAGTAAATCAC-TAATAATATAATAGTAAAT-AAGTGATAATTTAGTAT-TAAATTAGTTA
3488677 ATAAT
63 ATAAT
* * * *
3488682 TTAATAGTAAATCACTAATAATTTAATTGTAAATAAGTGGTAATTTAGTATTAAATTAGTTAAT
1 ATAATAGTAAATCACTAATAATATAATAGTAAATAAGTGATAATTTAGTATTAAATTAGTTAAT
3488746 TTTTGATAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
65 2 0.04
66 43 0.80
67 9 0.17
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (67 bp):
ATAATAGTAAATCACTAATAATATAATAGTAAATAAGTGATAATTTAGTATTAAATTAGTTAATA
AT
Found at i:3488726 original size:44 final size:44
Alignment explanation
Indices: 3488631--3488737 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 44
3488621 AGTTAATACA
* * * *
3488631 TAATAATATAATAGTAAATCAATTATAATTTAGATATAAATTAT
1 TAATAATTTAATAGTAAATCAATAATAATTTAGATATAAATAAG
* *
3488675 TAATAATTTAATAGTAAATCACTAATAATTTA-ATTGTAAATAAG
1 TAATAATTTAATAGTAAATCAATAATAATTTAGA-TATAAATAAG
** * *
3488719 TGGTAATTTAGTATTAAAT
1 TAATAATTTAATAGTAAAT
3488738 TAGTTAATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.02
44 51 0.98
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (44 bp):
TAATAATTTAATAGTAAATCAATAATAATTTAGATATAAATAAG
Found at i:3488776 original size:22 final size:22
Alignment explanation
Indices: 3488751--3488850 Score: 52
Period size: 22 Copynumber: 4.8 Consensus size: 22
3488741 TTAATTTTTG
3488751 ATAACTTTATAATAAATTATCA
1 ATAACTTTATAATAAATTATCA
* * * * *
3488773 ATAAATTAATAGT-CAGT-T--
1 ATAACTTTATAATAAATTATCA
*
3488791 A-AACTTTGTAATAAATTATCA
1 ATAACTTTATAATAAATTATCA
* *
3488812 GTAAC-TTAGTAATAACTTATCA
1 ATAACTTTA-TAATAAATTATCA
*
3488834 ACAA-TTTACTAATAAAT
1 ATAACTTTA-TAATAAAT
3488851 CTTTTATAAC
Statistics
Matches: 53, Mismatches: 18, Indels: 14
0.62 0.21 0.16
Matches are distributed among these distances:
17 7 0.13
18 3 0.06
19 1 0.02
20 1 0.02
21 4 0.08
22 37 0.70
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (22 bp):
ATAACTTTATAATAAATTATCA
Found at i:3488906 original size:66 final size:66
Alignment explanation
Indices: 3488836--3488961 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
3488826 ACTTATCAAC
* *
3488836 AATTTACTAATAAATCT-TTTATAACTTAATAGTAAATCATTCATAA-ATTAATAATAAATCAAT
1 AATTTACTAATAAAT-TATTAATAACTTAACAGTAAATCATTCATAACA-TAATAATAAATCAAT
3488899 ACT
64 ACT
* * * * *
3488902 AATTTAGTAGTAAATTATTAATAATTTAACAGTACATCATTGATAACATAATAATAAATC
1 AATTTACTAATAAATTATTAATAACTTAACAGTAAATCATTCATAACATAATAATAAATC
3488962 GTTGATAACA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
65 1 0.02
66 49 0.96
67 1 0.02
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (66 bp):
AATTTACTAATAAATTATTAATAACTTAACAGTAAATCATTCATAACATAATAATAAATCAATAC
T
Found at i:3488926 original size:22 final size:22
Alignment explanation
Indices: 3488799--3488930 Score: 77
Period size: 22 Copynumber: 6.0 Consensus size: 22
3488789 TTAAACTTTG
* * * *
3488799 TAATAAATTATCAGTAACTTAG
1 TAATAAATTATTAATAATTTAA
* * * *
3488821 TAATAACTTATCAACAATTTAC
1 TAATAAATTATTAATAATTTAA
* *
3488843 TAATAAATCT-TTTATAACTTAA
1 TAATAAAT-TATTAATAATTTAA
* * * *
3488865 TAGTAAATCATTCATAAATTAA
1 TAATAAATTATTAATAATTTAA
* * * *
3488887 TAATAAATCAATACTAATTTAG
1 TAATAAATTATTAATAATTTAA
*
3488909 TAGTAAATTATTAATAATTTAA
1 TAATAAATTATTAATAATTTAA
3488931 CAGTACATCA
Statistics
Matches: 82, Mismatches: 26, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
22 81 0.99
23 1 0.01
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (22 bp):
TAATAAATTATTAATAATTTAA
Found at i:3488935 original size:22 final size:22
Alignment explanation
Indices: 3488836--3488961 Score: 90
Period size: 22 Copynumber: 5.7 Consensus size: 22
3488826 ACTTATCAAC
* * * *
3488836 AATTTACTAATAAATCTTTTAT
1 AATTTAATAGTAAATCATTAAT
* *
3488858 AACTTAATAGTAAATCATTCAT
1 AATTTAATAGTAAATCATTAAT
* * * *
3488880 AAATTAATAATAAATCAATACT
1 AATTTAATAGTAAATCATTAAT
* *
3488902 AATTTAGTAGTAAATTATTAAT
1 AATTTAATAGTAAATCATTAAT
* * *
3488924 AATTTAACAGTACATCATTGAT
1 AATTTAATAGTAAATCATTAAT
** *
3488946 AACATAATAATAAATC
1 AATTTAATAGTAAATC
3488962 GTTGATAACA
Statistics
Matches: 78, Mismatches: 26, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 78 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (22 bp):
AATTTAATAGTAAATCATTAAT
Done.