Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 200 of 770
Found at i:59839552 original size:40 final size:40
Alignment explanation
Indices: 59839497--59839780 Score: 411
Period size: 40 Copynumber: 7.2 Consensus size: 40
59839487 AACATTGGAA
59839497 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59839537 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59839577 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59839617 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
59839657 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
59839697 ----AT--GGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
59839730 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
59839771 CTATATCCGG
1 ATATATCCGG
59839781 TTAAATCCCG
Statistics
Matches: 221, Mismatches: 15, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
33 1 0.00
34 26 0.12
36 2 0.01
38 2 0.01
40 190 0.86
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:59847831 original size:40 final size:40
Alignment explanation
Indices: 59847726--59847961 Score: 343
Period size: 40 Copynumber: 6.0 Consensus size: 40
59847716 GGCTATCTCG
59847726 TAAGACCCG-AGGCATTCGTGCGAGTTGATATATCCGGGC
1 TAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGC
59847765 TAAGACCCGAA-GCATTCGTGCGAGTTGATATATCCGGGC
1 TAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGC
59847804 TAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGC
1 TAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGC
59847844 TAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGC
1 TAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGC
* * * * * * *
59847884 TAAGACCCGAAGGCCTTTGTGCAAG-TCACCAAATCCGGGT
1 TAAGACCCGAAGGCATTCGTGCGAGTTGA-TATATCCGGGC
* * * *
59847924 TATGACCCGAAGGCAATCGTGCGAGTCGCTATATCCGG
1 TAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGG
59847962 TTAAATCCCG
Statistics
Matches: 176, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 50 0.28
40 126 0.72
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGC
Found at i:59856129 original size:30 final size:31
Alignment explanation
Indices: 59856095--59856157 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
59856085 CCTTTTCATA
59856095 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
59856125 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
59856156 TT
1 TT
59856158 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:59856400 original size:24 final size:24
Alignment explanation
Indices: 59856349--59856491 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
59856339 GCTTTATCAT
*
59856349 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
59856374 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
59856398 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
59856421 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
59856445 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
59856469 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
59856492 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:59856428 original size:47 final size:48
Alignment explanation
Indices: 59856349--59856490 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
59856339 GCTTTATCAT
* *
59856349 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
59856398 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
59856445 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
59856491 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:59856449 original size:71 final size:72
Alignment explanation
Indices: 59856348--59856491 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
59856338 TGCTTTATCA
*
59856348 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
59856413 GCCCTTT
66 GCCCTTT
* * **
59856420 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
59856483 AGCCCTTT
65 AGCCCTTT
59856491 T
1 T
59856492 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:59856566 original size:20 final size:20
Alignment explanation
Indices: 59856541--59856601 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
59856531 TTATGATTAC
59856541 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59856561 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
59856581 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
59856601 A
1 A
59856602 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59856675 original size:25 final size:25
Alignment explanation
Indices: 59856643--59856690 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59856633 CATAATAAAC
* * *
59856643 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
59856668 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
59856691 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:59859522 original size:46 final size:46
Alignment explanation
Indices: 59859472--59859644 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
59859462 TGGTTGAGCA
59859472 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
59859518 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
59859563 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
59859611 CCCGAGCTCATTGAGTTGAGTCCGATTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59859645 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 57 0.55
47 28 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:59868549 original size:6 final size:6
Alignment explanation
Indices: 59868538--59868568 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
59868528 TCATCTTTTA
*
59868538 TTTATT TTTATT TTTATT TTTATC TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
59868569 CCCCTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:59871433 original size:25 final size:25
Alignment explanation
Indices: 59871383--59871433 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
59871373 TGTGTAACAA
* *
59871383 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
59871408 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
59871433 C
1 C
59871434 GACTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:59876551 original size:40 final size:40
Alignment explanation
Indices: 59876498--59876656 Score: 264
Period size: 40 Copynumber: 4.0 Consensus size: 40
59876488 TTGAGAGTTA
59876498 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
59876538 TATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
59876578 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
59876618 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
59876657 ATGTGTATTC
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:59876870 original size:25 final size:25
Alignment explanation
Indices: 59876820--59876870 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
59876810 TGTGTAACAA
* *
59876820 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
59876845 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
59876870 C
1 C
59876871 GACTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:59890201 original size:13 final size:14
Alignment explanation
Indices: 59890171--59890204 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
59890161 AGTCTGAATC
*
59890171 TATATTTGATTATA
1 TATATGTGATTATA
59890185 TATATGTGATT-TA
1 TATATGTGATTATA
59890198 TATATGT
1 TATATGT
59890205 TTTCATGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (14 bp):
TATATGTGATTATA
Found at i:59893871 original size:17 final size:17
Alignment explanation
Indices: 59893825--59893871 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
59893815 CGGTAAAATA
*
59893825 TTTTTACGAAAACAAAGG
1 TTTTT-CGAAAATAAAGG
*
59893843 TTTATC-ACAAATAAAGG
1 TTTTTCGA-AAATAAAGG
59893860 TTTTTCGAAAAT
1 TTTTTCGAAAAT
59893872 GCAAACTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 1 0.04
17 18 0.75
18 5 0.21
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (17 bp):
TTTTTCGAAAATAAAGG
Found at i:59896076 original size:13 final size:15
Alignment explanation
Indices: 59896058--59896101 Score: 60
Period size: 13 Copynumber: 3.2 Consensus size: 15
59896048 ATTTCATTTT
59896058 ATTGCTTTC-C-TTA
1 ATTGCTTTCTCTTTA
59896071 ATTGCTTTCTCTTTA
1 ATTGCTTTCTCTTTA
59896086 A-TGCTTTCT-TTTA
1 ATTGCTTTCTCTTTA
59896099 ATT
1 ATT
59896102 CCATGCATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 14 0.50
14 10 0.36
15 4 0.14
ACGTcount: A:0.16, C:0.18, G:0.07, T:0.59
Consensus pattern (15 bp):
ATTGCTTTCTCTTTA
Found at i:59899759 original size:24 final size:24
Alignment explanation
Indices: 59899732--59899778 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
59899722 TTATACCATG
* * *
59899732 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
59899756 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59899779 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:59899847 original size:20 final size:20
Alignment explanation
Indices: 59899822--59899880 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
59899812 TAAATATGGT
59899822 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
59899842 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
59899862 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
59899881 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:59899862 original size:11 final size:11
Alignment explanation
Indices: 59899826--59899880 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
59899816 TATGGTATGT
59899826 ATGATATGCAC
1 ATGATATGCAC
* *
59899837 ATGAAATG--T
1 ATGATATGCAC
59899846 ATGATATGCAC
1 ATGATATGCAC
*
59899857 ATGATATG--T
1 ATGATATGCAC
59899866 ATGATATGCAC
1 ATGATATGCAC
59899877 ATGA
1 ATGA
59899881 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59899958 original size:24 final size:24
Alignment explanation
Indices: 59899931--59900049 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
59899921 GAGGAAGTGA
*
59899931 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
59899955 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
59899978 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
59900002 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
59900026 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59900050 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:59900000 original size:47 final size:48
Alignment explanation
Indices: 59899931--59900049 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
59899921 GAGGAAGTGA
59899931 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
59899978 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
59900026 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59900050 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:59900325 original size:30 final size:31
Alignment explanation
Indices: 59900240--59900364 Score: 234
Period size: 31 Copynumber: 4.1 Consensus size: 31
59900230 CGTTTACAGT
59900240 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59900271 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59900302 AAAGGCTTCGGCCCAGT-ATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
59900332 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
59900363 AA
1 AA
59900365 TATGAAAAGG
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
30 30 0.33
31 62 0.67
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59900331 original size:61 final size:62
Alignment explanation
Indices: 59900240--59900364 Score: 234
Period size: 61 Copynumber: 2.0 Consensus size: 62
59900230 CGTTTACAGT
59900240 AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAATATGA
*
59900302 AAAGGCTTCGGCCCAGT-ATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAATATGA
59900363 AA
1 AA
59900365 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 45 0.73
62 17 0.27
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (62 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:59904469 original size:20 final size:20
Alignment explanation
Indices: 59904444--59904502 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
59904434 TAAATATGGT
59904444 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
59904464 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
59904484 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
59904503 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:59904484 original size:11 final size:11
Alignment explanation
Indices: 59904448--59904502 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
59904438 TATGGTATGT
59904448 ATGATATGCAC
1 ATGATATGCAC
* *
59904459 ATGAAATG--T
1 ATGATATGCAC
59904468 ATGATATGCAC
1 ATGATATGCAC
*
59904479 ATGATATG--T
1 ATGATATGCAC
59904488 ATGATATGCAC
1 ATGATATGCAC
59904499 ATGA
1 ATGA
59904503 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:59904580 original size:24 final size:24
Alignment explanation
Indices: 59904553--59904671 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
59904543 GAGGAAGTGA
*
59904553 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
59904577 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
59904600 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
59904624 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
59904648 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59904672 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:59904622 original size:47 final size:48
Alignment explanation
Indices: 59904553--59904671 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
59904543 GAGGAAGTGA
59904553 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
59904600 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
59904648 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
59904672 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:59904925 original size:20 final size:20
Alignment explanation
Indices: 59904900--59904940 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
59904890 ATGAAAAGGC
59904900 TTCGGCCCAGTAATATGAAA
1 TTCGGCCCAGTAATATGAAA
59904920 TTCGGCCCAGTAATATGAAA
1 TTCGGCCCAGTAATATGAAA
59904940 T
1 T
59904941 ATGAAAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (20 bp):
TTCGGCCCAGTAATATGAAA
Found at i:59904928 original size:51 final size:51
Alignment explanation
Indices: 59904869--59904971 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
59904859 CAGTAAAGGC
59904869 TTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAA
1 TTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAA
*
59904920 TTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAAA
1 TTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAA
59904971 T
1 T
59904972 ATGAAATATG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (51 bp):
TTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTAATATGAAA
Found at i:59907033 original size:13 final size:14
Alignment explanation
Indices: 59907001--59907033 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
59906991 ATTGCTTTCC
59907001 TTAATTGCCTTCTCT
1 TTAA-TGCCTTCTCT
59907016 TTAATGCCTTCT-T
1 TTAATGCCTTCTCT
59907029 TTAAT
1 TTAAT
59907034 TCATTGCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 8 0.44
15 4 0.22
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.55
Consensus pattern (14 bp):
TTAATGCCTTCTCT
Found at i:59908505 original size:19 final size:19
Alignment explanation
Indices: 59908483--59908522 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
59908473 TTTAAACTTT
* *
59908483 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCAATTCTA
59908502 ATTAAACTTTTCAATTCTA
1 ATTAAACTTTTCAATTCTA
59908521 AT
1 AT
59908523 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTAAACTTTTCAATTCTA
Found at i:59913140 original size:16 final size:17
Alignment explanation
Indices: 59913109--59913142 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
59913099 TTTTGGGCTT
59913109 AATGGGCCAAAACGGGCC
1 AATGGGCC-AAACGGGCC
59913127 AATGGGCC-AACGGGCC
1 AATGGGCCAAACGGGCC
59913143 CACTTTGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.29, G:0.35, T:0.06
Consensus pattern (17 bp):
AATGGGCCAAACGGGCC
Found at i:59917558 original size:31 final size:31
Alignment explanation
Indices: 59917520--59917583 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
59917510 ATGCATCGCG
59917520 ACAGCTTAAACCACATAAAGTTAACTATCTT
1 ACAGCTTAAACCACATAAAGTTAACTATCTT
59917551 ACAGCTTAAACCACATAAAGTTAACTATCTT
1 ACAGCTTAAACCACATAAAGTTAACTATCTT
59917582 AC
1 AC
59917584 TCATGATCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.28
Consensus pattern (31 bp):
ACAGCTTAAACCACATAAAGTTAACTATCTT
Found at i:59924208 original size:17 final size:17
Alignment explanation
Indices: 59924161--59924208 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
59924151 TCGGTAAAAT
*
59924161 GTTTTTACGAAAACAAAG
1 GTTTTT-CGAAAATAAAG
*
59924179 GTTTATT-GCAAATAAAG
1 GTTT-TTCGAAAATAAAG
59924196 GTTTTTCGAAAAT
1 GTTTTTCGAAAAT
59924209 GCAAACCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.08
17 17 0.68
18 4 0.16
19 2 0.08
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (17 bp):
GTTTTTCGAAAATAAAG
Found at i:59931013 original size:28 final size:27
Alignment explanation
Indices: 59930982--59931059 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
59930972 TTCATATAGC
* **
59930982 CCATTAAGCCCAATCACATTTATGTGG
1 CCATTAGGCCCAATCACATTTATACGG
* *
59931009 TCCATTAGGCCCAAATCAAATTCATACGG
1 -CCATTAGGCCC-AATCACATTTATACGG
59931038 CCATTAGGCCCAATCACATTTA
1 CCATTAGGCCCAATCACATTTA
59931060 CAGTCATGCT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 9 0.21
28 21 0.50
29 12 0.29
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (27 bp):
CCATTAGGCCCAATCACATTTATACGG
Found at i:59936374 original size:25 final size:22
Alignment explanation
Indices: 59936322--59936393 Score: 69
Period size: 25 Copynumber: 3.1 Consensus size: 22
59936312 TGTAGTTGTA
59936322 ATATATATTTAATCCTT-TTTTAT
1 ATATATATTTAAT--TTATTTTAT
59936345 ATATATATTTAATTTATTTTAAAT
1 ATATATATTTAATTTATTTT--AT
59936369 ACTATATATATT-ATTTATTTT-T
1 A-TATATAT-TTAATTTATTTTAT
59936391 ATA
1 ATA
59936394 AACACTAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
21 4 0.09
22 6 0.14
23 13 0.30
24 3 0.07
25 16 0.36
26 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATATATTTAATTTATTTTAT
Found at i:59936442 original size:17 final size:15
Alignment explanation
Indices: 59936418--59936549 Score: 52
Period size: 15 Copynumber: 9.1 Consensus size: 15
59936408 GTAAAAATAG
59936418 TATA-TATATTATTTA
1 TATATTATATTA-TTA
59936433 TCATATTATATTATTA
1 T-ATATTATATTATTA
59936449 TATA-T-T-TTATT-
1 TATATTATATTATTA
* *
59936460 TATA-AATTTTATTA
1 TATATTATATTATTA
* *
59936474 TATGTTATA-TATTT
1 TATATTATATTATTA
*
59936488 TACTATATATATTATTCCT
1 TA-TAT-TATATTATT--A
*
59936507 TACATTAT-TT-TTA
1 TATATTATATTATTA
*
59936520 T-T-TTATTATAATTA
1 TATATTA-TATTATTA
*
59936534 TATATTATTTTATTA
1 TATATTATATTATTA
59936549 T
1 T
59936550 TCATTAATTA
Statistics
Matches: 89, Mismatches: 12, Indels: 32
0.67 0.09 0.24
Matches are distributed among these distances:
11 7 0.08
12 7 0.08
13 8 0.09
14 14 0.16
15 18 0.20
16 16 0.18
17 14 0.16
18 2 0.02
19 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (15 bp):
TATATTATATTATTA
Found at i:59936462 original size:21 final size:21
Alignment explanation
Indices: 59936438--59936547 Score: 57
Period size: 23 Copynumber: 5.0 Consensus size: 21
59936428 ATTTATCATA
59936438 TTATATTATTATATATTTTAT
1 TTATATTATTATATATTTTAT
*
59936459 TTATAAATT-TTATTATATGTTAT
1 TTAT--ATTATTA-TATATTTTAT
* * **
59936482 ATATTTTACTATATATATTATTCC
1 TTATATTA-T-TATATATT-TTAT
* *
59936506 TTACATTATT-TTTATTTTA-
1 TTATATTATTATATATTTTAT
59936525 TTATAATTA-TATATTATTTTAT
1 TTAT-ATTATTATA-TATTTTAT
59936547 T
1 T
59936548 ATTCATTAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 21
0.66 0.13 0.21
Matches are distributed among these distances:
19 4 0.06
20 7 0.11
21 18 0.28
22 5 0.08
23 22 0.34
24 9 0.14
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (21 bp):
TTATATTATTATATATTTTAT
Found at i:59942819 original size:19 final size:19
Alignment explanation
Indices: 59942795--59942833 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
59942785 TGAACAATTG
59942795 TGCAAACAACCAGCTCGTA
1 TGCAAACAACCAGCTCGTA
59942814 TGCAAACAACCAGCTCGTA
1 TGCAAACAACCAGCTCGTA
59942833 T
1 T
59942834 ATCAGTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.18
Consensus pattern (19 bp):
TGCAAACAACCAGCTCGTA
Found at i:59948720 original size:67 final size:67
Alignment explanation
Indices: 59948603--59948733 Score: 208
Period size: 67 Copynumber: 2.0 Consensus size: 67
59948593 TTGGTGTCTC
* * * *
59948603 TGTATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGTGTCTCTATATTGACAGAGAGCAGATT
1 TGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTATCTATATTGACAGAGAGCAGATT
59948668 GA
66 GA
* *
59948670 TGTATTGACAGAGAGCAGATTAAAGATAGCAGATTTGGCGTATCTGTATTGACAGAGAGCAGAT
1 TGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTATCTATATTGACAGAGAGCAGAT
59948734 CGAAGATAGC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (67 bp):
TGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTATCTATATTGACAGAGAGCAGATT
GA
Found at i:59948833 original size:21 final size:21
Alignment explanation
Indices: 59948807--59948853 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
59948797 GTCTCTGTAT
59948807 TGACAGAGGGCAGATCGAAGA
1 TGACAGAGGGCAGATCGAAGA
59948828 TGACAGAGGGCAGATCGAAGA
1 TGACAGAGGGCAGATCGAAGA
59948849 TGACA
1 TGACA
59948854 AATTTGGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.36, T:0.11
Consensus pattern (21 bp):
TGACAGAGGGCAGATCGAAGA
Found at i:59948834 original size:44 final size:44
Alignment explanation
Indices: 59948670--59948828 Score: 239
Period size: 44 Copynumber: 3.6 Consensus size: 44
59948660 AGCAGATTGA
* *
59948670 TGTATTGACAGAGAGCAGATTAAAGATAGCAGATTTGGCGTATC
1 TGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTC
*
59948714 TGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTC
1 TGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTC
* *
59948758 TGTATTGATAGAGGGCAGATCAAAGA-AGACAGATTTGGCGTCTC
1 TGTATTGACAGAGAGCAGATCAAAGATAG-CAGATTTGGCGTCTC
* *
59948802 TGTATTGACAGAGGGCAGATCGAAGAT
1 TGTATTGACAGAGAGCAGATCAAAGAT
59948829 GACAGAGGGC
Statistics
Matches: 105, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
43 2 0.02
44 103 0.98
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (44 bp):
TGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTC
Found at i:59948862 original size:109 final size:109
Alignment explanation
Indices: 59948719--59948916 Score: 353
Period size: 109 Copynumber: 1.8 Consensus size: 109
59948709 GTATCTGTAT
*
59948719 TGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGATAGAGGGCAGATCAAAGA
1 TGACAGAGAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTGATAGAGGGCAGATCAAAGA
59948784 AGACAGATTTGGCGTCTCTGTATTGACAGAGGGCAGATCGAAGA
66 AGACAGATTTGGCGTCTCTGTATTGACAGAGGGCAGATCGAAGA
*
59948828 TGACAGAGGGCAGATCGAAGAT-GACAAATTTGGCGTCTCTGTATTGATAGAGGGCAGATCAAAG
1 TGACAGAGAGCAGATCGAAGATAG-CAAATTTGGCGTCTCTGTATTGATAGAGGGCAGATCAAAG
*
59948892 ATGACAGATTTGGCGTCTCTGTATT
65 AAGACAGATTTGGCGTCTCTGTATT
59948917 AGCCGGGGAG
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
108 1 0.01
109 84 0.99
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (109 bp):
TGACAGAGAGCAGATCGAAGATAGCAAATTTGGCGTCTCTGTATTGATAGAGGGCAGATCAAAGA
AGACAGATTTGGCGTCTCTGTATTGACAGAGGGCAGATCGAAGA
Found at i:59948871 original size:65 final size:65
Alignment explanation
Indices: 59948767--59948899 Score: 221
Period size: 65 Copynumber: 2.0 Consensus size: 65
59948757 CTGTATTGAT
* *
59948767 AGAGGGCAGATCAAAGAAGACAGATTTGGCGTCTCTGTATTGACAGAGGGCAGATCGAAGATGAC
1 AGAGGGCAGATCAAAGAAGACAAATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAGATGAC
* * *
59948832 AGAGGGCAGATCGAAGATGACAAATTTGGCGTCTCTGTATTGATAGAGGGCAGATCAAAGATGAC
1 AGAGGGCAGATCAAAGAAGACAAATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAGATGAC
59948897 AGA
1 AGA
59948900 TTTGGCGTCT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.20
Consensus pattern (65 bp):
AGAGGGCAGATCAAAGAAGACAAATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAGATGAC
Found at i:59948882 original size:44 final size:44
Alignment explanation
Indices: 59948832--59948916 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
59948822 CGAAGATGAC
*
59948832 AGAGGGCAGATCGAAGATGACAAATTTGGCGTCTCTGTATTGAT
1 AGAGGGCAGATCAAAGATGACAAATTTGGCGTCTCTGTATTGAT
*
59948876 AGAGGGCAGATCAAAGATGACAGATTTGGCGTCTCTGTATT
1 AGAGGGCAGATCAAAGATGACAAATTTGGCGTCTCTGTATT
59948917 AGCCGGGGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (44 bp):
AGAGGGCAGATCAAAGATGACAAATTTGGCGTCTCTGTATTGAT
Found at i:59948906 original size:153 final size:155
Alignment explanation
Indices: 59948589--59948942 Score: 459
Period size: 153 Copynumber: 2.3 Consensus size: 155
59948579 TCTAGAAGGT
* * *
59948589 AGATTTGGTGTCTCTGTATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGTGTCTCTATATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAGATAGCAGATTTGGCGTCTCTATATTG
* * * *
59948654 ACAGAGAGCAGATTGATGTATTGACAGAGAGCAGATTAAAGATAGCAGATTTGGCGTATCTGTAT
66 ACAGAGAGCAGATCGAAGTATTGACAGAGAGCAGATCAAAGATAGCAAATTTGGCGTATCTGTAT
*
59948719 TGACAGAGAGCAGATCGAAGATAGC
131 TGACAGAGAGCAGATCAAAGATAGC
* *
59948744 AGATTTGGCGTCTCTGTATTGATAGAGGGCAGATCAAAGA-AGACAGATTTGGCGTCTCTGTATT
1 AGATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAGATAG-CAGATTTGGCGTCTCTATATT
* * * *
59948808 GACAGAGGGCAGATCGAAG-A-TGACAGAGGGCAGATCGAAGAT-GACAAATTTGGCGTCTCTGT
65 GACAGAGAGCAGATCGAAGTATTGACAGAGAGCAGATCAAAGATAG-CAAATTTGGCGTATCTGT
* *
59948870 ATTGATAGAGGGCAGATCAAAGAT-GAC
129 ATTGACAGAGAGCAGATCAAAGATAG-C
* *
59948897 AGATTTGGCGTCTCTGTATT-AGCCGGGGAGCAGATCAAAGATAGCA
1 AGATTTGGCGTCTCTGTATTGA-CAGAGG-GCAGATCAAAGATAGCA
59948943 AATCTGACAT
Statistics
Matches: 174, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
152 3 0.02
153 80 0.46
154 17 0.10
155 74 0.43
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (155 bp):
AGATTTGGCGTCTCTGTATTGACAGAGGGCAGATCAAAGATAGCAGATTTGGCGTCTCTATATTG
ACAGAGAGCAGATCGAAGTATTGACAGAGAGCAGATCAAAGATAGCAAATTTGGCGTATCTGTAT
TGACAGAGAGCAGATCAAAGATAGC
Found at i:59950468 original size:15 final size:15
Alignment explanation
Indices: 59950450--59950492 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
59950440 AAAAATAGTA
*
59950450 TATATATTTTTTATT
1 TATATATTATTTATT
*
59950465 TATATATTATTTATCA
1 TATATATTATTTAT-T
59950481 TATTATATTATT
1 TA-TATATTATT
59950493 CTATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.54
16 2 0.08
17 9 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
TATATATTATTTATT
Found at i:59950503 original size:17 final size:16
Alignment explanation
Indices: 59950452--59950507 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
59950442 AAATAGTATA
59950452 TATATT-TTT-TATTT
1 TATATTATTTATATTT
*
59950466 ATATATTATTTATCATAT
1 -TATATTATTTAT-ATTT
59950484 TATATTATTCTATATTT
1 TATATTATT-TATATTT
59950501 TAT-TTAT
1 TATATTAT
59950508 AAATTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 6 0.17
16 7 0.20
17 16 0.46
18 6 0.17
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTATTTATATTT
Found at i:59950504 original size:15 final size:15
Alignment explanation
Indices: 59950452--59950504 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
59950442 AAATAGTATA
59950452 TATATTTT-TTATT-
1 TATATTTTATTATTC
*
59950465 TATATATTATT-TATC
1 TATATTTTATTAT-TC
*
59950480 -ATATTATATTATTC
1 TATATTTTATTATTC
59950494 TATATTTTATT
1 TATATTTTATT
59950505 TATAAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 8 0.26
14 13 0.42
15 10 0.32
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTTTATTATTC
Found at i:59950602 original size:22 final size:22
Alignment explanation
Indices: 59950552--59950602 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
59950542 TATTATTCCT
* *
59950552 TACATTATTTTTTATTTTATTA
1 TACATTATATATTATTTTATTA
*
59950574 TAAATTATATATTATTTTATTA
1 TACATTATATATTATTTTATTA
*
59950596 TTCATTA
1 TACATTA
59950603 ATTACGTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (22 bp):
TACATTATATATTATTTTATTA
Found at i:59952854 original size:303 final size:303
Alignment explanation
Indices: 59952307--59952889 Score: 1103
Period size: 303 Copynumber: 1.9 Consensus size: 303
59952297 ATTTAAAAAG
59952307 CTAATTTAACTTGTTTCTACTTACCCAATTCATTACATTAATATCCTTGACCTATTCACATATAC
1 CTAATTTAACTTGTTTCTACTTACCCAATTCATTACATTAATATCCTTGACCTATTCACATATAC
59952372 ATAACATAATTATTTCACTCCAACATTAAACCGATATAGTAAACCATTCACAAGACAAAACATAT
66 ATAACATAATTATTTCACTCCAACATTAAACCGATATAGTAAACCATTCACAAGACAAAACATAT
* *
59952437 TTCGTTAAACCCTTACCACATTCGAACTTAGCCATACAACATTTAATACCAATTCACAATTTAAT
131 TTCGCTAAACCCTTACCACATTCGAACTTAGCCATACAAAATTTAATACCAATTCACAATTTAAT
59952502 GCTTATATTATCATAACAACCAATTTCATATTTATATCATCTATACATAGCAATAGCCGAATCAA
196 GCTTATATTATCATAACAACCAATTTCATATTTATATCATCTATACATAGCAATAGCCGAATCAA
59952567 CTAAACATGTTAAGGAAAGATATATAAACCATAATCATTTCAT
261 CTAAACATGTTAAGGAAAGATATATAAACCATAATCATTTCAT
59952610 CTAATTTAACTTGTTTCTACTTACCCAATTCATTACATTAATATCCTTGACCTATTCACATATAC
1 CTAATTTAACTTGTTTCTACTTACCCAATTCATTACATTAATATCCTTGACCTATTCACATATAC
* *
59952675 ATAACATAATTATTTCACTCCAACATTAAACCGATTTAGTAAACTATTCACAAGACAAAACATAT
66 ATAACATAATTATTTCACTCCAACATTAAACCGATATAGTAAACCATTCACAAGACAAAACATAT
* *
59952740 TTCGCTAAACCCTTACCATATTTGAACTTAGCCATACAAAATTTAATACCAATTCACAATTTAAT
131 TTCGCTAAACCCTTACCACATTCGAACTTAGCCATACAAAATTTAATACCAATTCACAATTTAAT
59952805 GCTTATATTATCATAACAACCAATTTCATATTTATATCATCTATACATAGCAATAGCCGAATCAA
196 GCTTATATTATCATAACAACCAATTTCATATTTATATCATCTATACATAGCAATAGCCGAATCAA
*
59952870 CTAAGCATGTTAAGGAAAGA
261 CTAAACATGTTAAGGAAAGA
59952890 CCTACCATCA
Statistics
Matches: 273, Mismatches: 7, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
303 273 1.00
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (303 bp):
CTAATTTAACTTGTTTCTACTTACCCAATTCATTACATTAATATCCTTGACCTATTCACATATAC
ATAACATAATTATTTCACTCCAACATTAAACCGATATAGTAAACCATTCACAAGACAAAACATAT
TTCGCTAAACCCTTACCACATTCGAACTTAGCCATACAAAATTTAATACCAATTCACAATTTAAT
GCTTATATTATCATAACAACCAATTTCATATTTATATCATCTATACATAGCAATAGCCGAATCAA
CTAAACATGTTAAGGAAAGATATATAAACCATAATCATTTCAT
Found at i:59952977 original size:16 final size:16
Alignment explanation
Indices: 59952953--59952984 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59952943 AAATTCGAGA
59952953 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
59952969 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
59952985 GCATTACACA
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:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:59981888 original size:41 final size:41
Alignment explanation
Indices: 59981843--59981960 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
59981833 TGAAAGATAA
59981843 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
59981884 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59981914 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59981955 ATGTAG
1 ATGTAG
59981961 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:59981899 original size:71 final size:71
Alignment explanation
Indices: 59981811--59981974 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59981801 GAGATGTATC
59981811 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59981876 AGGACA
66 AGGACA
59981882 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59981947 AGGACA
66 AGGACA
59981953 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
59981975 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:59989459 original size:41 final size:41
Alignment explanation
Indices: 59989414--59989531 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
59989404 TGAAAGATAA
59989414 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
59989455 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59989485 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
59989526 ATGTAG
1 ATGTAG
59989532 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:59989470 original size:71 final size:71
Alignment explanation
Indices: 59989382--59989545 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59989372 GAGATGTATC
59989382 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59989447 AGGACA
66 AGGACA
59989453 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
59989518 AGGACA
66 AGGACA
59989524 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
59989546 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:59994506 original size:19 final size:19
Alignment explanation
Indices: 59994472--59994508 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59994462 TTCATCATAA
*
59994472 TAAAACAAAATAATAAAAG
1 TAAAACAAAACAATAAAAG
*
59994491 TAAAACAAAACCATAAAA
1 TAAAACAAAACAATAAAA
59994509 ATAATTAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.11, G:0.03, T:0.14
Consensus pattern (19 bp):
TAAAACAAAACAATAAAAG
Found at i:59995012 original size:55 final size:56
Alignment explanation
Indices: 59994947--59995061 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
59994937 AGCATGGCTG
* *
59994947 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
59995003 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
59995058 CCAG
1 CCAG
59995062 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:59995024 original size:27 final size:27
Alignment explanation
Indices: 59994972--59995061 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
59994962 GTGACAGAGT
59994972 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
59995001 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
59995028 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
59995056 CACCAG
1 CACCAG
59995062 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:59997957 original size:45 final size:45
Alignment explanation
Indices: 59997826--59997949 Score: 185
Period size: 45 Copynumber: 2.8 Consensus size: 45
59997816 TACCAGAAAT
* * **
59997826 GAGTAAGACCATAGCTAAAAGACACTATGGCATCATGATTTGGAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAGAC
* * *
59997871 GAGTAAGCCCATAGCAGAAAGACGCTATGGTATCATGATTCAGAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAGAC
59997916 GAGTAAGACCATAGCTGAAAGACGCTATGGCATC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATC
59997950 GCAATTCAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAGAC
Found at i:59997967 original size:45 final size:45
Alignment explanation
Indices: 59997826--59998028 Score: 172
Period size: 45 Copynumber: 4.5 Consensus size: 45
59997816 TACCAGAAAT
* * ***
59997826 GAGTAAGACCATAGCTAAAAGACACTATGGCATCATGATTTGGAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
* * * *
59997871 GAGTAAGCCCATAGCAGAAAGACGCTATGGTATCATGATTCAGAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
*** *
59997916 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCGCAATTCAAAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
* * * ** * * * *
59997961 GTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGAT-TCAAAC
* * *
59998007 GTGTAAGACCATGGTTGAAAGA
1 GAGTAAGACCATAGCTGAAAGA
59998029 TACCATGGCA
Statistics
Matches: 131, Mismatches: 26, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
45 104 0.79
46 27 0.21
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
Found at i:59998017 original size:46 final size:46
Alignment explanation
Indices: 59997957--59998181 Score: 326
Period size: 46 Copynumber: 4.9 Consensus size: 46
59997947 ATCGCAATTC
* *
59997957 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
* *
59998003 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
* *
59998049 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
* *
59998095 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACTTGACA-G
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
* * * *
59998140 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
59998182 TCGAAGATAA
Statistics
Matches: 167, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.01
46 166 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG
Found at i:60009010 original size:38 final size:38
Alignment explanation
Indices: 60008968--60009045 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
60008958 CACACAGAGT
60008968 AAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATTAAAC
1 AAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATTAAAC
60009006 AAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATTAAAC
1 AAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATTAAAC
60009044 AA
1 AA
60009046 CTCACTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (38 bp):
AAGCTAACTTAGCTTAGTAAGCCTTAAGCAAATTAAAC
Found at i:60013076 original size:17 final size:17
Alignment explanation
Indices: 60013054--60013086 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
60013044 GATATGATAC
60013054 TAAAAT-TACTAAAAAAT
1 TAAAATATA-TAAAAAAT
60013071 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
60013087 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:60013384 original size:23 final size:22
Alignment explanation
Indices: 60013341--60013398 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
60013331 AAAAGGTATC
* *
60013341 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
60013362 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
60013385 TACATATCATATCT
1 TACAAATCATATCT
60013399 AATATTGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:60013432 original size:35 final size:36
Alignment explanation
Indices: 60013389--60013459 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
60013379 TAAGATTACA
*
60013389 TATCATATCTAATATTGCA-ATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
60013424 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
60013460 CATATCATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 18 0.53
36 16 0.47
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:60013448 original size:19 final size:19
Alignment explanation
Indices: 60013377--60013467 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
60013367 AATCATATCT
*
60013377 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
60013396 TCTAATATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
60013414 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
60013431 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
60013450 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
60013468 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 15 0.23
19 35 0.53
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:60013932 original size:44 final size:45
Alignment explanation
Indices: 60013822--60014015 Score: 255
Period size: 45 Copynumber: 4.3 Consensus size: 45
60013812 TGATATATGC
* * *
60013822 TATCTTTGATCTGCTCCCTGTCTAATACAGAGATACCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* *
60013867 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* *
60013912 T-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* * * * *
60013956 TATCTCCGATTTGCTCCCCATCTAATACAGGGATGCCAAATCTAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
* *
60014001 CATCTTGGATCTGCT
1 TATCTTCGATCTGCT
60014016 TCGATGTAAA
Statistics
Matches: 130, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 40 0.31
45 90 0.69
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
Found at i:60013950 original size:89 final size:89
Alignment explanation
Indices: 60013830--60013998 Score: 266
Period size: 89 Copynumber: 1.9 Consensus size: 89
60013820 GCTATCTTTG
* * * *
60013830 ATCTGCTCCCTGTCTAATACAGAGATACCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGATACCAAATCTATTATCTCCGATCTGCTCCCCATCTAATAC
60013895 AGAGACGCCAAATCTGCTTCTTCA
66 AGAGACGCCAAATCTGCTTCTTCA
* *
60013919 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATTATCTCCGATTTGCTCCCCATCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGATACCAAATCTATTATCTCCGATCTGCTCCCCATCTAATAC
* *
60013984 AGGGATGCCAAATCT
66 AGAGACGCCAAATCT
60013999 ATCATCTTGG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGATACCAAATCTATTATCTCCGATCTGCTCCCCATCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:60014160 original size:78 final size:78
Alignment explanation
Indices: 60014029--60014245 Score: 301
Period size: 78 Copynumber: 2.8 Consensus size: 78
60014019 ATGTAAACAC
* * * * *
60014029 ATGAAGGTCAGAGCTACTATGTCTTCGATCTGCTCTCCGTCTAATACAAAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGCCTTCGATCTGCTCTCCGTCTAATATAGAGATGCCAAATCATCT
60014094 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
60014107 ATGAAGGTCCA-ATCTGTTGTGCCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAGTCATC
1 ATGAAGGT-CAGATCTGCTATGCCTTCGATCTGCTCTCCGTCTAATATAGAGATGCCAAATCATC
60014171 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * *
60014185 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATC
1 ATGAAGGTCAGATCTGCTATGCCTTCGATCTGCTCTCCGTCTAATATAGAGATGCCAAATC
60014246 TATTTCTTCG
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
77 2 0.02
78 116 0.97
79 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGCCTTCGATCTGCTCTCCGTCTAATATAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:60014469 original size:297 final size:298
Alignment explanation
Indices: 60014129--60014762 Score: 1117
Period size: 297 Copynumber: 2.1 Consensus size: 298
60014119 TCTGTTGTGC
* * * *
60014129 CTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAGTCATCTTGGATCTGCTTCAATGAAGGTC
1 CTTCGATCTACTCTCCGTCGAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
60014194 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATCTATTTCTTCGATT
66 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATCTATTTCTTCGATT
*
60014259 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAG-
131 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCACCGTAAACACGTGAAAGC
* * *
60014323 CAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTAC
196 CAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAAAGCAAGGATACCAAATCATCTTAGATCTAC
* *
60014388 TTCGATGTGGAAACATCCGAAGGTTAGATCTGCTATGT
261 TTCGATGTGAAAACATCCGAAGGTTAGATCTACTATGT
60014426 CTTCGATCTACTCTCCGTCGAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
1 CTTCGATCTACTCTCCGTCGAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
* * *
60014491 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTTGATT
66 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATCTATTTCTTCGATT
*
60014556 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTTACCGTAAACACGTGAAAGC
131 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCACCGTAAACACGTGAAAGC
60014621 CAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAAAGCAAGGATACCAAATCATCTTAGATCTAC
196 CAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAAAGCAAGGATACCAAATCATCTTAGATCTAC
60014686 TTCGATGTGAAAACATCCGAAGGTTAGATCTACTATGT
261 TTCGATGTGAAAACATCCGAAGGTTAGATCTACTATGT
* *
60014724 CTTCGATCTACTCTCCGTCGAATATGGAGATGCTAAATC
1 CTTCGATCTACTCTCCGTCGAATATAGAGATGCCAAATC
60014763 TGTTTCTTTG
Statistics
Matches: 320, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
297 185 0.58
298 135 0.42
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (298 bp):
CTTCGATCTACTCTCCGTCGAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATACCAAATCTATTTCTTCGATT
TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCACCGTAAACACGTGAAAGC
CAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAAAGCAAGGATACCAAATCATCTTAGATCTAC
TTCGATGTGAAAACATCCGAAGGTTAGATCTACTATGT
Found at i:60015969 original size:19 final size:19
Alignment explanation
Indices: 60015925--60015962 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
60015915 TTTCCTCTAA
60015925 AGTCCTTCTGAATAGGGAG
1 AGTCCTTCTGAATAGGGAG
60015944 AGTCCTTCTGAATAGGGAG
1 AGTCCTTCTGAATAGGGAG
60015963 GATCCTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (19 bp):
AGTCCTTCTGAATAGGGAG
Found at i:60028044 original size:27 final size:28
Alignment explanation
Indices: 60027954--60028049 Score: 169
Period size: 27 Copynumber: 3.5 Consensus size: 28
60027944 TTTAAAACCC
*
60027954 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
60027981 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
60028009 TAGGGGTAATTT-GGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
60028036 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
60028050 TGATCTACGC
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
27 34 0.52
28 32 0.48
ACGTcount: A:0.19, C:0.09, G:0.27, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:60029684 original size:20 final size:20
Alignment explanation
Indices: 60029661--60029698 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60029651 CACATCCAAA
*
60029661 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
60029681 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
60029699 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:60030649 original size:47 final size:47
Alignment explanation
Indices: 60030548--60030738 Score: 262
Period size: 46 Copynumber: 4.1 Consensus size: 47
60030538 TGATGTCATA
* * *
60030548 GTATCTTTCAACTATGGTTTTACTCATTTT-CTGTCATGTTTCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
* *
60030594 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
* *
60030641 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
* * * *
60030687 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
60030733 GTATCT
1 GTATCT
60030739 GTGACACCCC
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 94 0.71
47 39 0.29
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (47 bp):
GTATCTTTCAACCATGGTCTTACTCATTTTCCTGTCATGTTGCCATG
Found at i:60030715 original size:93 final size:92
Alignment explanation
Indices: 60030548--60030738 Score: 267
Period size: 93 Copynumber: 2.1 Consensus size: 92
60030538 TGATGTCATA
* * * *
60030548 GTATCTTTCAACTATGGTTTTACTCATTTTCTGTCATGTTTCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAACCATGGTC
** * * *
60030613 TTATTCATTTTCCCGTCATGTTGCCATG
66 TTACACA-TTTCACATCAGGTTGCCATG
60030641 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCAGGTTGCCATGGTATCTTTCAACCATGGT
*
60030705 CTTACACATTTCATATCAGGTTGCCATG
65 CTTACACATTTCACATCAGGTTGCCATG
60030733 GTATCT
1 GTATCT
60030739 GTGACACCCC
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
92 26 0.30
93 61 0.70
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (92 bp):
GTATCTTTCAACCATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAACCATGGTC
TTACACATTTCACATCAGGTTGCCATG
Found at i:60031583 original size:17 final size:18
Alignment explanation
Indices: 60031541--60031589 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
60031531 AGTTGAAAAG
60031541 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
60031560 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
60031577 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
60031590 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:60032478 original size:40 final size:40
Alignment explanation
Indices: 60032412--60032578 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
60032402 AAATTGAATG
* * *
60032412 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
60032451 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
60032491 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
60032531 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
60032571 ATATCCGG
1 ATATCCGG
60032579 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:60037859 original size:27 final size:28
Alignment explanation
Indices: 60037803--60037872 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
60037793 AAATTTGTAC
60037803 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
60037831 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
60037858 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
60037873 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:60037883 original size:27 final size:27
Alignment explanation
Indices: 60037803--60037884 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
60037793 AAATTTGTAC
* *
60037803 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
60037831 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
60037858 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
60037885 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:60045603 original size:10 final size:10
Alignment explanation
Indices: 60045571--60045596 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
60045561 AAATTAATTA
60045571 GGAGCTGAAT
1 GGAGCTGAAT
60045581 GGAGCTGAAT
1 GGAGCTGAAT
60045591 GGAGCT
1 GGAGCT
60045597 AGATGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.42, T:0.19
Consensus pattern (10 bp):
GGAGCTGAAT
Found at i:60047322 original size:33 final size:33
Alignment explanation
Indices: 60047280--60047346 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
60047270 CAAGGTGTGA
60047280 AGCTCTTTCAAAAACTAAGTCGTCGACAATCTT
1 AGCTCTTTCAAAAACTAAGTCGTCGACAATCTT
*
60047313 AGCTCTTTCAAAAACTAAGTCTTCGACAATCTT
1 AGCTCTTTCAAAAACTAAGTCGTCGACAATCTT
60047346 A
1 A
60047347 TCAATAACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (33 bp):
AGCTCTTTCAAAAACTAAGTCGTCGACAATCTT
Found at i:60048449 original size:16 final size:16
Alignment explanation
Indices: 60048428--60048460 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60048418 GTGAGTCTTC
*
60048428 CTTGCTAGTGCCTTGG
1 CTTGCTAATGCCTTGG
60048444 CTTGCTAATGCCTTGG
1 CTTGCTAATGCCTTGG
60048460 C
1 C
60048461 CCCATTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.27, G:0.27, T:0.36
Consensus pattern (16 bp):
CTTGCTAATGCCTTGG
Found at i:60059377 original size:43 final size:40
Alignment explanation
Indices: 60059330--60059445 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 40
60059320 TCCTAGACGT
60059330 GGTCTTACATGTAATCACATGTCGATGCCACTGACCCAGACAG
1 GGTCTTACATG-AATCACAT-TCGATGCCA-TGACCCAGACAG
* * * *
60059373 GGTCTTACACGAATCACAATTACGATGCCGATGTCCTAGACAT
1 GGTCTTACATGAATCAC-ATT-CGATGCC-ATGACCCAGACAG
*
60059416 GGTCTTACTTGAAATCACATATCGATGCCA
1 GGTCTTACATG-AATCACAT-TCGATGCCA
60059446 ACGTCCAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
42 8 0.13
43 46 0.74
44 8 0.13
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (40 bp):
GGTCTTACATGAATCACATTCGATGCCATGACCCAGACAG
Found at i:60059936 original size:21 final size:21
Alignment explanation
Indices: 60059912--60059956 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
60059902 TTTGCATAAA
60059912 ACAAAAAAACTTACAAAATTT
1 ACAAAAAAACTTACAAAATTT
*
60059933 ACAAAAAAACTTACAAGATTT
1 ACAAAAAAACTTACAAAATTT
60059954 ACA
1 ACA
60059957 CATAGCAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (21 bp):
ACAAAAAAACTTACAAAATTT
Found at i:60065909 original size:87 final size:87
Alignment explanation
Indices: 60065763--60065934 Score: 326
Period size: 87 Copynumber: 2.0 Consensus size: 87
60065753 AAATATTATC
* *
60065763 TCAATGGCATTGATAATTTATTAAGTCATTGCCAAGCCATACTTATGAAATTTAATTACCAAACA
1 TCAATGGCATTGATAATTTATTAAGTCATAGCCAAGCAATACTTATGAAATTTAATTACCAAACA
60065828 TTTATCTATACATAAATTATTA
66 TTTATCTATACATAAATTATTA
60065850 TCAATGGCATTGATAATTTATTAAGTCATAGCCAAGCAATACTTATGAAATTTAATTACCAAACA
1 TCAATGGCATTGATAATTTATTAAGTCATAGCCAAGCAATACTTATGAAATTTAATTACCAAACA
60065915 TTTATCTATACATAAATTAT
66 TTTATCTATACATAAATTAT
60065935 AACATTTCTA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (87 bp):
TCAATGGCATTGATAATTTATTAAGTCATAGCCAAGCAATACTTATGAAATTTAATTACCAAACA
TTTATCTATACATAAATTATTA
Found at i:60067458 original size:12 final size:11
Alignment explanation
Indices: 60067443--60067489 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 11
60067433 GTATTTTATT
60067443 ATATATTATAAC
1 ATATATT-TAAC
60067455 ATATA-TTAAC
1 ATATATTTAAC
60067465 ATATTATTTAAC
1 ATA-TATTTAAC
60067477 TTATATATTTAAC
1 --ATATATTTAAC
60067490 CTTTATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.23
11 3 0.10
12 10 0.32
13 8 0.26
14 3 0.10
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATATTTAAC
Found at i:60067495 original size:24 final size:24
Alignment explanation
Indices: 60067446--60067504 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
60067436 TTTTATTATA
*
60067446 TATTATAA-CATATATTAACATAT
1 TATTATAATTATATATTAACATAT
*
60067469 TATT-TAACTTATATATTTAACCT-T
1 TATTATAA-TTATATA-TTAACATAT
60067493 TATTATAATTAT
1 TATTATAATTAT
60067505 GAAACCATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 3 0.10
23 4 0.13
24 14 0.47
25 9 0.30
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTATAATTATATATTAACATAT
Found at i:60070908 original size:49 final size:49
Alignment explanation
Indices: 60070834--60070977 Score: 182
Period size: 49 Copynumber: 2.9 Consensus size: 49
60070824 GCCGAAGCTA
60070834 TCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACAG-
1 TCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACC-ACAGT
* * * * * * *
60070883 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCATAGT
1 TCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCACAGT
*
60070932 TTTCGGATACGCATAGTAGCCTACACTTAGTACTACACATGCGACC
1 TCT-GG-TACGCATAGTAGCCTACACTTAGTACTACACATGCGACC
60070978 TCACAATAGA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
48 3 0.04
49 40 0.51
50 2 0.03
51 33 0.42
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCACAGT
Found at i:60074370 original size:50 final size:50
Alignment explanation
Indices: 60074144--60074371 Score: 248
Period size: 50 Copynumber: 4.6 Consensus size: 50
60074134 CTGATACGCA
* * * *
60074144 TAGTAGCCTGCACTTGGTACTACACATGCGAC-CAACAATCTGGCACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTACACG
* * * * *
60074193 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CTCAACAGTATGGTACACG
* * * * *
60074243 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCGA-AGTCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGT-A-TG-GTACACG
* *
60074294 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAATAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTACACG
60074344 TAGTAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
60074372 TGTACTCACA
Statistics
Matches: 153, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 28 0.18
50 76 0.50
51 39 0.25
52 3 0.02
53 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTACACG
Found at i:60084901 original size:26 final size:25
Alignment explanation
Indices: 60084872--60084923 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
60084862 TAAGAAGAAA
60084872 TTTTCTAATTAAGATTTAAAATGTTTT
1 TTTTCTAATTAA-ATTTAAAAT-TTTT
* *
60084899 TTTTCTAGTTTAATTTAAAATTTTT
1 TTTTCTAATTAAATTTAAAATTTTT
60084924 ATATTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 4 0.17
26 9 0.39
27 10 0.43
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.60
Consensus pattern (25 bp):
TTTTCTAATTAAATTTAAAATTTTT
Found at i:60085155 original size:56 final size:56
Alignment explanation
Indices: 60085087--60085205 Score: 220
Period size: 56 Copynumber: 2.1 Consensus size: 56
60085077 AGAAACCTTA
*
60085087 AATTTTTGCTACATGTTGCCTTAGTTTTCCCTATATAAACCCTTCTTCATTCTACT
1 AATTTTTGCTACATGTTGCCCTAGTTTTCCCTATATAAACCCTTCTTCATTCTACT
*
60085143 AATTTTTGCTACATGTTGCCCTAGTTTTCCCTATATAAACCTTTCTTCATTCTACT
1 AATTTTTGCTACATGTTGCCCTAGTTTTCCCTATATAAACCCTTCTTCATTCTACT
60085199 AATTTTT
1 AATTTTT
60085206 ATATCCTTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.48
Consensus pattern (56 bp):
AATTTTTGCTACATGTTGCCCTAGTTTTCCCTATATAAACCCTTCTTCATTCTACT
Found at i:60086245 original size:2 final size:2
Alignment explanation
Indices: 60086238--60086272 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
60086228 TAGACTAGCC
*
60086238 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60086273 CATGTCACGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:60087573 original size:68 final size:65
Alignment explanation
Indices: 60087359--60087611 Score: 203
Period size: 68 Copynumber: 3.8 Consensus size: 65
60087349 ATATAGTTCG
* * * * *
60087359 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCA-ATTTA-TCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCGT
60087421 A
65 A
* * * * * * *
60087422 GCTCTCTTGTCTTCATGGTGTCCTTCACCTGGAACCACACATGCGACCTAGCTACATATA-TCCC
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATTCTC
60087486 GTA
63 GTA
* *
60087489 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCTC
60087554 GTA
63 GTA
* * * ** *
60087557 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA
60087612 CTATCTGTAT
Statistics
Matches: 152, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.11
64 28 0.18
65 2 0.01
66 24 0.16
67 31 0.20
68 48 0.32
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCGTA
Found at i:60090899 original size:31 final size:31
Alignment explanation
Indices: 60090864--60090935 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
60090854 CACACGGGCA
* * * *
60090864 TGTGGACCTACACGGGCAGGATACATGGATG
1 TGTGGACCCACACAGACAGGACACATGGATG
* *
60090895 TGTGGACCCACACAGACAGGCCACATGGGTG
1 TGTGGACCCACACAGACAGGACACATGGATG
*
60090926 TGTGGGCCCA
1 TGTGGACCCA
60090936 TTTAACTGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.24, C:0.25, G:0.35, T:0.17
Consensus pattern (31 bp):
TGTGGACCCACACAGACAGGACACATGGATG
Found at i:60092261 original size:25 final size:26
Alignment explanation
Indices: 60092222--60092289 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 26
60092212 TGAAATCACT
* * *
60092222 AAAAATACTGTAGATAGTATATTTTG
1 AAAACTACTGTAGATAGTATACTGTG
60092248 -AAACTACTGTAGATAGTATACTGTG
1 AAAACTACTGTAGATAGTATACTGTG
*
60092273 AAAAC-ACTCTAGATAGT
1 AAAACTACTGTAGATAGT
60092290 GTATACTGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.32
Consensus pattern (26 bp):
AAAACTACTGTAGATAGTATACTGTG
Found at i:60096741 original size:34 final size:31
Alignment explanation
Indices: 60096681--60096743 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 31
60096671 TAGAAAATAT
*
60096681 TTTTGTTCGACTCTAAGAGAGAGAGTTTGAG
1 TTTTGTTAGACTCTAAGAGAGAGAGTTTGAG
*
60096712 TTTTGTTAGACGTCTAAGCAGTGGAGAGTTTG
1 TTTTGTTAGAC-TCTAAG-AG-AGAGAGTTTG
60096744 GTGGAGAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 10 0.37
32 6 0.22
33 2 0.07
34 9 0.33
ACGTcount: A:0.24, C:0.10, G:0.30, T:0.37
Consensus pattern (31 bp):
TTTTGTTAGACTCTAAGAGAGAGAGTTTGAG
Found at i:60098983 original size:43 final size:42
Alignment explanation
Indices: 60098935--60099022 Score: 149
Period size: 43 Copynumber: 2.1 Consensus size: 42
60098925 CTTTTTCTTA
*
60098935 AATGATGTTTAGTGTATCTTTAACGAAAATAAGTAATGCCTTT
1 AATGATGTTTAGTATATCTTTAACGAAAATAAGTAATG-CTTT
*
60098978 AATGATGTTTAGTATATTTTTAACGAAAATAAGTAATGCTTT
1 AATGATGTTTAGTATATCTTTAACGAAAATAAGTAATGCTTT
60099020 AAT
1 AAT
60099023 ATGGGTAGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 7 0.16
43 36 0.84
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.41
Consensus pattern (42 bp):
AATGATGTTTAGTATATCTTTAACGAAAATAAGTAATGCTTT
Found at i:60099020 original size:21 final size:21
Alignment explanation
Indices: 60098952--60099021 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
60098942 TTTAGTGTAT
60098952 CTTTAACGAAAATAAGTAATG
1 CTTTAACGAAAATAAGTAATG
* *** *
60098973 CCTTTAATGATGTTTAGTATAT-
1 -CTTTAACGAAAATAAGTA-ATG
*
60098995 TTTTAACGAAAATAAGTAATG
1 CTTTAACGAAAATAAGTAATG
60099016 CTTTAA
1 CTTTAA
60099022 TATGGGTAGC
Statistics
Matches: 34, Mismatches: 12, Indels: 5
0.67 0.24 0.10
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 13 0.38
23 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (21 bp):
CTTTAACGAAAATAAGTAATG
Found at i:60099118 original size:56 final size:56
Alignment explanation
Indices: 60099032--60099144 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
60099022 TATGGGTAGC
* *
60099032 AATCCCTTTGCATAACACGTTCATCAATTATGTCGTTTAATTGAAAAACAAATTTA
1 AATCCCTTTCCATAACACGTTCATCAATTATGTCGTTTAATTGAAAAACAAAATTA
* *
60099088 AATCCCTTTCCATAACACGTTCATCAATTATGTGGTTTTATTGAAAAACAAAATTA
1 AATCCCTTTCCATAACACGTTCATCAATTATGTCGTTTAATTGAAAAACAAAATTA
60099144 A
1 A
60099145 TTCATGGAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (56 bp):
AATCCCTTTCCATAACACGTTCATCAATTATGTCGTTTAATTGAAAAACAAAATTA
Found at i:60099650 original size:3 final size:3
Alignment explanation
Indices: 60099642--60099666 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
60099632 AACAATTCCT
60099642 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
60099667 GGTAAAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:60100993 original size:29 final size:29
Alignment explanation
Indices: 60100947--60101018 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
60100937 TTCCATTATA
* * *
60100947 CAATGTATTAGACTTTTTTTTTATGGCTG
1 CAATGCATTAGACATTTTTTTTATGACTG
60100976 CAATGCATTAGACA-TTTTTTTATGACTG
1 CAATGCATTAGACATTTTTTTTATGACTG
*
60101004 CATTGCATTAGACAT
1 CAATGCATTAGACAT
60101019 AAACTTCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 26 0.68
29 12 0.32
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.44
Consensus pattern (29 bp):
CAATGCATTAGACATTTTTTTTATGACTG
Found at i:60103445 original size:46 final size:46
Alignment explanation
Indices: 60103364--60103485 Score: 131
Period size: 46 Copynumber: 2.6 Consensus size: 46
60103354 CGTAGCTGAT
* * *
60103364 GCATGTCCCAGACATATCTTACACTGGCTTACGTCTT-GTGGCCAAA
1 GCATGTCCCAGACATGTCTTACACTAGCCTACGTCTTAGT-GCCAAA
** * *
60103410 GCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTTAGTTTCGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-CTACGTCTTAGTGCCAAA
60103456 GCCATGTCCCAGACATGGTCTTACACTAGC
1 G-CATGTCCCAGACAT-GTCTTACACTAGC
60103486 TCTCATAATG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 35 0.54
47 17 0.26
48 13 0.20
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTAGCCTACGTCTTAGTGCCAAA
Found at i:60105602 original size:40 final size:40
Alignment explanation
Indices: 60105547--60105658 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 40
60105537 TATTCGGATG
60105547 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
*
60105587 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* ** *
60105627 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGC
1 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGC
60105659 GGGTTATTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.02
40 64 0.98
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
Found at i:60105670 original size:40 final size:40
Alignment explanation
Indices: 60105563--60105734 Score: 186
Period size: 40 Copynumber: 4.3 Consensus size: 40
60105553 GGACTAAGAT
* * * **
60105563 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGTTAAG-TC
*
60105603 CCGAAGGCAATT-GTGCTAGTTACTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGAGTTACTATAACCGGGTTAAGTC
* *
60105643 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGTTAAGTC
* * * * *
60105683 CCAAAGGTATTCGTGCGGGTTATTATAATCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGTTAAGTC
*
60105723 CCAAAGGCATTC
1 CCGAAGGCATTC
60105735 ATTCTAGTTG
Statistics
Matches: 119, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
39 4 0.03
40 112 0.94
41 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTATAACCGGGTTAAGTC
Found at i:60110844 original size:40 final size:40
Alignment explanation
Indices: 60110737--60110942 Score: 260
Period size: 40 Copynumber: 5.2 Consensus size: 40
60110727 TCTTCGGAAT
* ** *
60110737 TTAG-CCGGATATAACCACAAGCAC-ATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
60110775 TTAG-CCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
60110814 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
60110854 TTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
60110894 TTAGCCCGAATATAATC-ACTAGCATAAATGCCTTCGAGG-C
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCG-GGTC
60110934 TTAGCCCGG
1 TTAGCCCGG
60110943 GTATCATTCA
Statistics
Matches: 148, Mismatches: 16, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 19 0.13
39 17 0.11
40 109 0.74
41 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:60118906 original size:79 final size:80
Alignment explanation
Indices: 60118813--60119019 Score: 328
Period size: 80 Copynumber: 2.6 Consensus size: 80
60118803 TCTTCGGAAT
* *
60118813 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
60118876 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
60118891 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
60118956 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * *
60118971 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGG
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGG
60119020 GTATCATTCA
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
78 4 0.03
79 40 0.34
80 73 0.62
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:60118921 original size:40 final size:40
Alignment explanation
Indices: 60118813--60119019 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
60118803 TCTTCGGAAT
* ** *
60118813 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
60118852 TTAACCCGG-TATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
60118891 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
60118931 TTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
60118971 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
60119011 TTAGCCCGG
1 TTAGCCCGG
60119020 GTATCATTCA
Statistics
Matches: 150, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 36 0.24
40 113 0.75
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:60125141 original size:40 final size:40
Alignment explanation
Indices: 60125086--60125173 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
60125076 TATTCGGATG
*
60125086 ATATCCGGACTAAGATCCAAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCAAAGGCAATTGTGCTAGTTACT
* *
60125126 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCAAAGGCAATTGTGCTAGTTACT
*
60125166 ATAACCGG
1 ATATCCGG
60125174 GTTAAGTCCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCAAAGGCAATTGTGCTAGTTACT
Found at i:60125186 original size:40 final size:40
Alignment explanation
Indices: 60125105--60125278 Score: 217
Period size: 40 Copynumber: 4.3 Consensus size: 40
60125095 CTAAGATCCA
* * * **
60125105 AAGGCATTTGTGCTAGTTACTATATCCGGACTAAGAT-CCG
1 AAGGCATTCGTGCTAGTTATTATAACCGGGTTAAG-TCCCG
60125145 AAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTCCCG
1 AAGGC-ATTCGTGCTAGTTATTATAACCGGGTTAAGTCCCG
** *
60125185 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTTCCG
1 AAGGCATTCGTGCTAGTTATTATAACCGGGTTAAGTCCCG
* **
60125225 AAGGTATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
1 AAGGCATTCGTGCTAGTTATTATAACCGGGTTAAGTCCCG
60125265 AAGGCATTCGTGCT
1 AAGGCATTCGTGCT
60125279 GGTTGTTACA
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 4 0.03
40 113 0.94
41 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (40 bp):
AAGGCATTCGTGCTAGTTATTATAACCGGGTTAAGTCCCG
Found at i:60130097 original size:47 final size:46
Alignment explanation
Indices: 60129958--60130101 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
60129948 AGGGCTACTA
* * * * *
60129958 TAAGACATGTCTGGGACATGCATCGGCCTCAAGACAT-A-AGCCAGTG
1 TAAGACATGTCAGAGACATGCATCGG-CT-ACGAAATGATAGTCAGTG
* * * *
60130004 TAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTTAGTG
1 TAAGACATGTCAGAGACATGCATCGGCTACGAAATGATAGTCAGTG
*
60130050 TAAGACCATGTCAGAGACATGGCATCGGCT-TGAAAT-ATGAGTCAGTG
1 TAAGA-CATGTCAGAGACAT-GCATCGGCTACGAAATGAT-AGTCAGTG
60130097 TAAGA
1 TAAGA
60130102 TCGTGTCTAG
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
44 5 0.06
45 3 0.04
46 39 0.46
47 28 0.33
48 9 0.11
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (46 bp):
TAAGACATGTCAGAGACATGCATCGGCTACGAAATGATAGTCAGTG
Found at i:60130120 original size:47 final size:47
Alignment explanation
Indices: 60129958--60130121 Score: 135
Period size: 47 Copynumber: 3.5 Consensus size: 47
60129948 AGGGCTACTA
* * * *
60129958 TAAGACATGTCTGGGACAT-GCATCGGCCTCAAGACAT-A-AGCCAGTG
1 TAAGACATGTCTAGGACATGGCATCGG-CT-ACGAAATGATAGTCAGTG
* * *
60130004 TAAGACATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTTAGTG
1 TAAGACATGTCTAGGACATGGCATCGGCTACGAAATGATAGTCAGTG
*
60130050 TAAGACCATGTC-AGAGACATGGCATCGGCT-TGAAAT-ATGAGTCAGTG
1 TAAGA-CATGTCTAG-GACATGGCATCGGCTACGAAATGAT-AGTCAGTG
* *
60130097 TAAGATCGTGTCTAGGACGTGGCAT
1 TAAGA-CATGTCTAGGACATGGCAT
60130122 TGGTACCTTA
Statistics
Matches: 100, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
44 5 0.05
45 3 0.03
46 40 0.40
47 41 0.41
48 11 0.11
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
TAAGACATGTCTAGGACATGGCATCGGCTACGAAATGATAGTCAGTG
Found at i:60131428 original size:12 final size:13
Alignment explanation
Indices: 60131411--60131442 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
60131401 ATAGCACATT
60131411 TCAAAAC-ATGCA
1 TCAAAACTATGCA
60131423 TCAAAACTATGCA
1 TCAAAACTATGCA
60131436 -CAAAACT
1 TCAAAACT
60131443 TAAGATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:60131992 original size:85 final size:86
Alignment explanation
Indices: 60131887--60132221 Score: 250
Period size: 88 Copynumber: 3.9 Consensus size: 86
60131877 CACAGACAAG
** * * * *
60131887 TACAATGCCGACGTCTCAGACGTGGTCTTACATGT-AA-TTCAGTATCAATGCCTTTGTCCCAGA
1 TACAATGCCGACGTCTCAGACACGATCTTACACGTAAATTTCAAT-TCAATGCCTGTGTCCCAGA
60131950 CA-GAGTCTTATAAGGAAATAGA
65 CACG-GTCTTATAAGGAAATAGA
*
60131972 TACAATGCCGACGTCTCAGACACGATCTTACACGTAAATTTCAATTCGATGCCTGTGTCCCAGAC
1 TACAATGCCGACGTCTCAGACACGATCTTACACGTAAATTTCAATTCAATGCCTGTGTCCCAGAC
* * *
60132037 ACGGTCTTACACGTAAATTTCA-A
66 ACGGTCTTATAAGGAAA--T-AGA
* * * * * * * * *
60132060 TTCGATGCCTATGTCCCAGACACGGTCTTACACGTAAATTTCAAATCGATGCATGTGTCCCAGAC
1 TACAATGCCGACGTCTCAGACACGATCTTACACGTAAATTTCAATTCAATGCCTGTGTCCCAGAC
* * * * *
60132125 ACAGTCTTACACGTAAATTTCAAA
66 ACGGTCTTATAAGGAAA--T-AGA
* * * * * * * *
60132149 T-CGATGCCTG-TGTCCCAGACACGGTTTTACACATAAATTTCAATCCGATGCCTGTGTCCCAGA
1 TACAATGCC-GACGTCTCAGACACGATCTTACACGTAAATTTCAATTCAATGCCTGTGTCCCAGA
*
60132212 CACGATCTTA
65 CACGGTCTTA
60132222 CACGTAAATT
Statistics
Matches: 215, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
85 31 0.14
86 32 0.15
87 6 0.03
88 143 0.67
89 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (86 bp):
TACAATGCCGACGTCTCAGACACGATCTTACACGTAAATTTCAATTCAATGCCTGTGTCCCAGAC
ACGGTCTTATAAGGAAATAGA
Found at i:60132036 original size:44 final size:44
Alignment explanation
Indices: 60131988--60132235 Score: 390
Period size: 44 Copynumber: 5.6 Consensus size: 44
60131978 GCCGACGTCT
60131988 CAGACACGATCTTACACGTAAATTTCAATTCGATGCCTGTGTCC
1 CAGACACGATCTTACACGTAAATTTCAATTCGATGCCTGTGTCC
* *
60132032 CAGACACGGTCTTACACGTAAATTTCAATTCGATGCCTATGTCC
1 CAGACACGATCTTACACGTAAATTTCAATTCGATGCCTGTGTCC
* * *
60132076 CAGACACGGTCTTACACGTAAATTTCAAATCGATGCATGTGTCC
1 CAGACACGATCTTACACGTAAATTTCAATTCGATGCCTGTGTCC
*
60132120 CAGACAC-AGTCTTACACGTAAATTTCAAATCGATGCCTGTGTCC
1 CAGACACGA-TCTTACACGTAAATTTCAATTCGATGCCTGTGTCC
* * * *
60132164 CAGACACGGTTTTACACATAAATTTCAATCCGATGCCTGTGTCC
1 CAGACACGATCTTACACGTAAATTTCAATTCGATGCCTGTGTCC
60132208 CAGACACGATCTTACACGTAAATTTCAA
1 CAGACACGATCTTACACGTAAATTTCAA
60132236 ATCAATACCA
Statistics
Matches: 187, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
44 187 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
CAGACACGATCTTACACGTAAATTTCAATTCGATGCCTGTGTCC
Found at i:60132144 original size:132 final size:132
Alignment explanation
Indices: 60131988--60132238 Score: 432
Period size: 132 Copynumber: 1.9 Consensus size: 132
60131978 GCCGACGTCT
* *
60131988 CAGACACGATCTTACACGTAAATTTCAATTCGATGCCTGTGTCCCAGACACGGTCTTACACGTAA
1 CAGACACGATCTTACACGTAAATTTCAAATCGATGCCTGTGTCCCAGACACGGTCTTACACATAA
* *
60132053 ATTTCAATTCGATGCCTATGTCCCAGACACGGTCTTACACGTAAATTTCAAATCGATGCATGTGT
66 ATTTCAATCCGATGCCTATGTCCCAGACACGATCTTACACGTAAATTTCAAATCGATGCATGTGT
60132118 CC
131 CC
*
60132120 CAGACAC-AGTCTTACACGTAAATTTCAAATCGATGCCTGTGTCCCAGACACGGTTTTACACATA
1 CAGACACGA-TCTTACACGTAAATTTCAAATCGATGCCTGTGTCCCAGACACGGTCTTACACATA
*
60132184 AATTTCAATCCGATGCCTGTGTCCCAGACACGATCTTACACGTAAATTTCAAATC
65 AATTTCAATCCGATGCCTATGTCCCAGACACGATCTTACACGTAAATTTCAAATC
60132239 AATACCAACG
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
131 1 0.01
132 111 0.99
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (132 bp):
CAGACACGATCTTACACGTAAATTTCAAATCGATGCCTGTGTCCCAGACACGGTCTTACACATAA
ATTTCAATCCGATGCCTATGTCCCAGACACGATCTTACACGTAAATTTCAAATCGATGCATGTGT
CC
Found at i:60135686 original size:2 final size:2
Alignment explanation
Indices: 60135679--60135703 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60135669 GAGACTAGTC
60135679 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
60135704 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60137741 original size:30 final size:30
Alignment explanation
Indices: 60137707--60137767 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60137697 TCCTTAACTC
60137707 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
60137737 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
60137767 A
1 A
60137768 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:60142532 original size:44 final size:44
Alignment explanation
Indices: 60142492--60142744 Score: 339
Period size: 44 Copynumber: 5.8 Consensus size: 44
60142482 ACAATGTCGA
* * * *
60142492 TGTCCTAGACACAGTCTTACACGTAAATTTCAATTCAATGTCTA
1 TGTCCCAGACACGGTCTTACACGTAAATTTCAATTCAATGCCTG
*
60142536 TGTCCCAGACACGGTCTTACATGTAAATTTCAATTCAATGCCTG
1 TGTCCCAGACACGGTCTTACACGTAAATTTCAATTCAATGCCTG
* * *
60142580 TGTCCCAGACATGGTCTTACATGTAAATTTCAAATCAATGCCTG
1 TGTCCCAGACACGGTCTTACACGTAAATTTCAATTCAATGCCTG
* * * *
60142624 TGTCTCAGACACGATCTTACACATAAATTTCAAATT-GATGCCTG
1 TGTCCCAGACACGGTCTTACACGTAAATTTC-AATTCAATGCCTG
* * *
60142668 TGTCCCAGATACGGTCTTACACGTAAAATTT-AATTCGATGCATG
1 TGTCCCAGACACGGTCTTACACGT-AAATTTCAATTCAATGCCTG
60142712 TGTCCCAGACACGGTCTTACACGTAAATTTCAA
1 TGTCCCAGACACGGTCTTACACGTAAATTTCAA
60142745 ATTAATACCA
Statistics
Matches: 185, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
43 10 0.05
44 166 0.90
45 9 0.05
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (44 bp):
TGTCCCAGACACGGTCTTACACGTAAATTTCAATTCAATGCCTG
Found at i:60144414 original size:20 final size:22
Alignment explanation
Indices: 60144376--60144415 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
60144366 TTGGAATGCT
60144376 CACACGGGAGTGTTGCCCCTCC
1 CACACGGGAGTGTTGCCCCTCC
60144398 CACACGGG-GTG-TGCCCCT
1 CACACGGGAGTGTTGCCCCT
60144416 ATGTTAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.12, C:0.40, G:0.30, T:0.17
Consensus pattern (22 bp):
CACACGGGAGTGTTGCCCCTCC
Done.