Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 98 of 199
Found at i:33643978 original size:114 final size:115
Alignment explanation
Indices: 33643440--33643978 Score: 331
Period size: 114 Copynumber: 4.7 Consensus size: 115
33643430 GTTTCGGTAA
* * * * ** * * *
33643440 AAGCGCCACTAATACTATGC-TTCAGCGGCGTTTTC-CCATGTGCGTCACTAATTCCAGTATACA
1 AAGCGCCGCTAATACTATACATT-ACCGGCGTTTTCTTCATAAGCGCCACTAATTGCAATATACA
* ** * * * *
33643503 TCAAGAACTAAACATTGTGTTTTGGTTAAGATA-CTTTGCGGCGCGTT-ACAC-
65 TCAAG-ACCAAACGCTGCGTTTTGATTAACATATC-TTGCGGCGC-TTAACGCT
* * *
33643554 AAACGCCGCTAATGA-TATACTTTAGCGGCG-TTT-TTCATCAAGCGCCACTAATT-CTAATACT
1 AAGCGCCGCTAAT-ACTATACATTACCGGCGTTTTCTTCAT-AAGCGCCACTAATTGC-AATA-T
* * * * ** * * * *
33643615 -CCTCAAGACCAAACTCTACGTTTTGGTTAAGGTAT-TTGGAGGCGCTTACCACA
62 ACATCAAGACCAAACGCTGCGTTTTGATTAACATATCTT-GCGGCGCTTAACGCT
* * * * * * ** *
33643668 AAACGCTGCT-ATAACTATCCTTTACTGGCGTTTTCCTT-A-AA-CACCACTAATTATAGTATAC
1 AAGCGCCGCTAAT-ACTATACATTACCGGCGTTTT-CTTCATAAGCGCCACTAATTGCAATATAC
* * * *
33643729 ATCAAGACCAAAATGGTGCGTTTTGATTAAGATATCTTGCGGCGTTTAACGCT
64 ATCAAGACC-AAACGCTGCGTTTTGATTAACATATCTTGCGGCGCTTAACGCT
** * *
33643782 CTGCGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTAATTGCAATATACAT
1 AAGCGCCGCTAATACTATACATTACCGGCGTTTTCTTCATAAGCGCCACTAATTGCAATATACAT
* * * * * *
33643847 CAAGACTAAACTCTGCGTTTTGGTTAACATCTTTTGCGGCGCTT-CCGCT
66 CAAGACCAAACGCTGCGTTTTGATTAACATATCTTGCGGCGCTTAACGCT
* * *
33643896 AAGCGCCGCTAATACTGTACATTACCGGCG-TTTGTTCATAAGTGCCACTAA-TGCCAATATACA
1 AAGCGCCGCTAATACTATACATTACCGGCGTTTTCTTCATAAGCGCCACTAATTG-CAATATACA
33643959 TCAAGACCAGAACGCTGCGT
65 TCAAGACCA-AACGCTGCGT
33643979 GTTAGTCTTA
Statistics
Matches: 333, Mismatches: 68, Indels: 48
0.74 0.15 0.11
Matches are distributed among these distances:
112 7 0.02
113 100 0.30
114 157 0.47
115 42 0.13
116 25 0.08
117 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (115 bp):
AAGCGCCGCTAATACTATACATTACCGGCGTTTTCTTCATAAGCGCCACTAATTGCAATATACAT
CAAGACCAAACGCTGCGTTTTGATTAACATATCTTGCGGCGCTTAACGCT
Found at i:33657200 original size:23 final size:23
Alignment explanation
Indices: 33657174--33657222 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
33657164 TGAAAAGTTA
* *
33657174 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAAAGACTTGAAGAT
33657197 GAAGAGTGAAAAGACTTGAAGAT
1 GAAGAGTGAAAAGACTTGAAGAT
33657220 GAA
1 GAA
33657223 AAGTTACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.31, T:0.18
Consensus pattern (23 bp):
GAAGAGTGAAAAGACTTGAAGAT
Found at i:33661702 original size:23 final size:23
Alignment explanation
Indices: 33661676--33661724 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
33661666 TGAAAAGTTA
*
33661676 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAAGAT
33661699 GAAGAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAAGAT
33661722 GAA
1 GAA
33661725 AAGTTACACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.33, T:0.18
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAAGAT
Found at i:33662557 original size:23 final size:22
Alignment explanation
Indices: 33662527--33662569 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
33662517 CTTAGTTAAC
33662527 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
33662550 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
33662570 TTTTGAGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:33670043 original size:16 final size:16
Alignment explanation
Indices: 33670022--33670054 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33670012 CTATACCTAC
33670022 ATTTACTCATGAATGA
1 ATTTACTCATGAATGA
33670038 ATTTACTCATGAATGA
1 ATTTACTCATGAATGA
33670054 A
1 A
33670055 ATGAATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (16 bp):
ATTTACTCATGAATGA
Found at i:33675061 original size:29 final size:29
Alignment explanation
Indices: 33675003--33675069 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
33674993 CTTCAAGCAA
* **
33675003 TAGGTAAAAGAGTATCTGCAGGCTGCATT
1 TAGGTAAAAGAGTATCTACAAACTGCATT
33675032 TAGGTAAAAGAGTATCTACAAACT-CTATT
1 TAGGTAAAAGAGTATCTACAAACTGC-ATT
33675061 TAGGTAAAA
1 TAGGTAAAA
33675070 CACTCAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 1 0.03
29 33 0.97
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (29 bp):
TAGGTAAAAGAGTATCTACAAACTGCATT
Found at i:33675482 original size:9 final size:9
Alignment explanation
Indices: 33675465--33675545 Score: 74
Period size: 9 Copynumber: 9.0 Consensus size: 9
33675455 CACCCCACCC
*
33675465 ATCGATTAA
1 ATCGGTTAA
33675474 ATCGGTTAA
1 ATCGGTTAA
*
33675483 GTCGGTTAA
1 ATCGGTTAA
* *
33675492 TTTGGTTAA
1 ATCGGTTAA
*
33675501 ATTGGTTAA
1 ATCGGTTAA
* *
33675510 ATTGAG-CAA
1 ATCG-GTTAA
33675519 ATCGGTTAA
1 ATCGGTTAA
*
33675528 ATAGGTTAA
1 ATCGGTTAA
33675537 ATCGGTTAA
1 ATCGGTTAA
33675546 TTTTTAACCA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
8 1 0.02
9 58 0.97
10 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (9 bp):
ATCGGTTAA
Found at i:33675498 original size:18 final size:18
Alignment explanation
Indices: 33675465--33675545 Score: 83
Period size: 18 Copynumber: 4.5 Consensus size: 18
33675455 CACCCCACCC
* *
33675465 ATCGATTAAATCGGTTAA
1 ATCGGTTAAATTGGTTAA
* *
33675483 GTCGGTTAATTTGGTTAA
1 ATCGGTTAAATTGGTTAA
* *
33675501 ATTGGTTAAATTGAG-CAA
1 ATCGGTTAAATTG-GTTAA
*
33675519 ATCGGTTAAATAGGTTAA
1 ATCGGTTAAATTGGTTAA
33675537 ATCGGTTAA
1 ATCGGTTAA
33675546 TTTTTAACCA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
17 1 0.02
18 48 0.96
19 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (18 bp):
ATCGGTTAAATTGGTTAA
Found at i:33677095 original size:27 final size:27
Alignment explanation
Indices: 33677055--33677422 Score: 373
Period size: 27 Copynumber: 13.6 Consensus size: 27
33677045 CTTGGGCCAG
*
33677055 AAAATTACCGAAATACCCTCGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* * ** *
33677082 AAAATTACCAAAATACCCTTAAAGAGT
1 AAAATTATCGAAATACCCTCGAAGGGT
33677109 AAAATTATCGAAATACACC-CGAAGGGT
1 AAAATTATCGAAATAC-CCTCGAAGGGT
* * * *
33677136 TAAATTATCAAAATACCCTCAAAAGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* *
33677163 AAAATTATTGAAATA-CCTTGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* * * * *
33677189 AAAATTACCAAAATGCCCCCCAAAGGGT
1 AAAATTATCGAAAT-ACCCTCGAAGGGT
* *
33677217 AAAATTATCGAAATACCTTTGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
** *
33677244 AAAATTATCGAAATACTTTCGAAAGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* *
33677271 AAAAATATTGAAATACCCTCGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* * *
33677298 AAAATTATTGAAATACCCTCGAGGGGA
1 AAAATTATCGAAATACCCTCGAAGGGT
33677325 AAAATTATCGAAATACCCTCGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* *
33677352 AAAACTATCGAAATACCCTCTAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* * **
33677379 GAAATTA-CTAAAATACCCTAAAAGGGT
1 AAAATTATC-GAAATACCCTCGAAGGGT
* *
33677406 AAAATGACCGAAATACC
1 AAAATTATCGAAATACC
33677423 GCTATAGGGT
Statistics
Matches: 278, Mismatches: 57, Indels: 12
0.80 0.16 0.03
Matches are distributed among these distances:
26 22 0.08
27 233 0.84
28 23 0.08
ACGTcount: A:0.44, C:0.17, G:0.16, T:0.23
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGAAGGGT
Found at i:33677715 original size:26 final size:26
Alignment explanation
Indices: 33677658--33677715 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
33677648 GTTATGCTGT
* *
33677658 GATATTGTTACTGACAGCTCTGCTGC
1 GATATTATTACTGACAGCTCTACTGC
* *
33677684 -ATTATTATTACTGGCAGCTTTACTGC
1 GA-TATTATTACTGACAGCTCTACTGC
33677710 GATATT
1 GATATT
33677716 GGTGTGTTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
25 1 0.04
26 24 0.92
27 1 0.04
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (26 bp):
GATATTATTACTGACAGCTCTACTGC
Found at i:33677883 original size:30 final size:29
Alignment explanation
Indices: 33677830--33677915 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 29
33677820 GATTACTATT
33677830 TTGGGCTAAGGCCCACA-CTGTTACTGAA
1 TTGGGCTAAGGCCCACACCTGTTACTGAA
*
33677858 TTGGGCTAAGGCCCACACTCTGTTACTGTA
1 TTGGGCTAAGGCCCACAC-CTGTTACTGAA
* * *
33677888 TTGGGCTATGACCCACACACTGCTACTG
1 TTGGGCTAAGGCCCACAC-CTGTTACTG
33677916 TATAAGGCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 17 0.33
30 34 0.67
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (29 bp):
TTGGGCTAAGGCCCACACCTGTTACTGAA
Found at i:33684520 original size:27 final size:27
Alignment explanation
Indices: 33684490--33684844 Score: 349
Period size: 27 Copynumber: 12.9 Consensus size: 27
33684480 CGAATACTCC
* *
33684490 AAGGGTAAAATTATCGAAGTACCTTCG
1 AAGGGTAAAATTATCGAAATACCCTCG
*
33684517 AAGGGTAAAATTATCGAAATACCCTCA
1 AAGGGTAAAATTATCGAAATACCCTCG
* * *
33684544 AAGGATAAAATTATTGAAATACCCTAG
1 AAGGGTAAAATTATCGAAATACCCTCG
*
33684571 AAGGGTAAAATTATCGATATACCCTCG
1 AAGGGTAAAATTATCGAAATACCCTCG
* * *
33684598 AAGGGTAAAATTATCGATATATCCTCA
1 AAGGGTAAAATTATCGAAATACCCTCG
* * * *
33684625 AAGGATAAAATGACCAAAATACCCTCG
1 AAGGGTAAAATTATCGAAATACCCTCG
* *
33684652 AAGGGTAAAATAATCGAAATACCC-CT
1 AAGGGTAAAATTATCGAAATACCCTCG
* **
33684678 ATAGGGTAAAATGATTAAAATACCCTCG
1 A-AGGGTAAAATTATCGAAATACCCTCG
* *
33684706 AAGGGTAAAATAATTGAAATACCCTCGAAGGG
1 AAGGGTAAAATTATCGAAATACCCTC-----G
* *
33684738 TAAGGGTAAAATTATCGATATACCCTTG
1 -AAGGGTAAAATTATCGAAATACCCTCG
*
33684766 AAGGGTAAAATTA-CGGAAATACCC-CTA
1 AAGGGTAAAATTATC-GAAATACCCTC-G
*
33684793 AAGGGTAAAATTAAT-AAAATACCCTCG
1 AAGGGTAAAATT-ATCGAAATACCCTCG
* *
33684820 AAGGGTAAAATGATCGAAACACCCT
1 AAGGGTAAAATTATCGAAATACCCT
33684845 TATAAGGTAA
Statistics
Matches: 271, Mismatches: 43, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.02
27 238 0.88
28 5 0.02
32 1 0.00
33 22 0.08
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (27 bp):
AAGGGTAAAATTATCGAAATACCCTCG
Found at i:33684748 original size:33 final size:33
Alignment explanation
Indices: 33684706--33684773 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
33684696 AATACCCTCG
*
33684706 AAGGGTAAAATAATTGAAATACCCTCGAAGGGT
1 AAGGGTAAAATAATCGAAATACCCTCGAAGGGT
* * *
33684739 AAGGGTAAAATTATCGATATACCCTTGAAGGGT
1 AAGGGTAAAATAATCGAAATACCCTCGAAGGGT
33684772 AA
1 AA
33684774 AATTACGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (33 bp):
AAGGGTAAAATAATCGAAATACCCTCGAAGGGT
Found at i:33684854 original size:141 final size:141
Alignment explanation
Indices: 33684598--33684857 Score: 321
Period size: 141 Copynumber: 1.8 Consensus size: 141
33684588 TATACCCTCG
* *
33684598 AAGGGTAAAATTATCGATATATCCTCAAAGGATAAAATGACCAAAATACCCTCGAAGGGTAAAAT
1 AAGGGTAAAATTATCGATATACCCTCAAAGGATAAAATGACCAAAATACCCTCAAAGGGTAAAAT
* * * * *
33684663 AATCGAAATACCCCTATAGGGTAAAATGATTAAAATACCCTCGAAGGGTAAAATAATTGAAATAC
66 AATCAAAATACCCCGATAGGGTAAAATGATCAAAACACCCTCGAAAGGTAAAATAATTGAAATAC
33684728 CCTCGAAGGGT
131 CCTCGAAGGGT
** * * **
33684739 AAGGGTAAAATTATCGATATACCCTTGAAGGGTAAAATTACGGAAATACCC-CTAAAGGGTAAAA
1 AAGGGTAAAATTATCGATATACCCTCAAAGGATAAAATGACCAAAATACCCTC-AAAGGGTAAAA
* *
33684803 TTAAT-AAAATACCCTCGA-AGGGTAAAATGATCGAAACACCCT-TATAAGGTAAAAT
65 -TAATCAAAATACCC-CGATAGGGTAAAATGATCAAAACACCCTCGA-AAGGTAAAAT
33684858 GACTGTTATG
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
140 2 0.02
141 92 0.92
142 6 0.06
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (141 bp):
AAGGGTAAAATTATCGATATACCCTCAAAGGATAAAATGACCAAAATACCCTCAAAGGGTAAAAT
AATCAAAATACCCCGATAGGGTAAAATGATCAAAACACCCTCGAAAGGTAAAATAATTGAAATAC
CCTCGAAGGGT
Found at i:33684964 original size:31 final size:31
Alignment explanation
Indices: 33684929--33684989 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
33684919 GTTACCGAAT
33684929 ATGACATACTGCATGGGGTTAGGATTCTGAC
1 ATGACATACTGCATGGGGTTAGGATTCTGAC
*
33684960 ATGACGTACTGCATGGGGTTAGGATTCTGA
1 ATGACATACTGCATGGGGTTAGGATTCTGA
33684990 TATGGGGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.30
Consensus pattern (31 bp):
ATGACATACTGCATGGGGTTAGGATTCTGAC
Found at i:33685057 original size:26 final size:26
Alignment explanation
Indices: 33685028--33685085 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
33685018 TATGCCACAT
*
33685028 ATACTAATACTGGC-GTCTATGCTGTG
1 ATACTAATACTGGCAG-CTATACTGTG
*
33685054 ATACTGATACTGGCAGCTATACTGTG
1 ATACTAATACTGGCAGCTATACTGTG
33685080 ATACTA
1 ATACTA
33685086 TTATTGGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (26 bp):
ATACTAATACTGGCAGCTATACTGTG
Found at i:33685136 original size:26 final size:26
Alignment explanation
Indices: 33685035--33685136 Score: 66
Period size: 26 Copynumber: 3.9 Consensus size: 26
33685025 CATATACTAA
* *
33685035 TACTGGC-GTCTATGCTGTGATACTGA-
1 TACTGGCAG-CTATGCTGCGATA-TTAT
* * *
33685061 TACTGGCAGCTATACTGTGATACTAT
1 TACTGGCAGCTATGCTGCGATATTAT
* * * *
33685087 TATTGGAAACTCTGCTGC-ATTATTAT
1 TACTGGCAGCTATGCTGCGA-TATTAT
*
33685113 TACTGGCAGCTTTGCTGCGATATT
1 TACTGGCAGCTATGCTGCGATATT
33685137 GATGTGTTGT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
25 2 0.03
26 54 0.93
27 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (26 bp):
TACTGGCAGCTATGCTGCGATATTAT
Found at i:33685308 original size:30 final size:30
Alignment explanation
Indices: 33685244--33685311 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
33685234 TTGTATTGAT
* ** *
33685244 TACTGAATTGGGCTAAGGCCCACACTTTGT
1 TACTGTATTGGGCTAAGGCCCACACACTGC
*
33685274 TACTGTATTGGGCTATGGCCCACACACTGC
1 TACTGTATTGGGCTAAGGCCCACACACTGC
33685304 TACTGTAT
1 TACTGTAT
33685312 AAGGCTCAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (30 bp):
TACTGTATTGGGCTAAGGCCCACACACTGC
Found at i:33693879 original size:10 final size:10
Alignment explanation
Indices: 33693864--33693910 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
33693854 TAATATGTTG
33693864 AATTTTAATT
1 AATTTTAATT
*
33693874 AATTTTATATCA
1 AATTTTA-AT-T
33693886 AATTTTAATT
1 AATTTTAATT
*
33693896 AATTTTTATT
1 AATTTTAATT
33693906 -ATTTT
1 AATTTT
33693911 CGACAGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 5 0.16
10 16 0.50
11 4 0.12
12 7 0.22
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
AATTTTAATT
Found at i:33702361 original size:183 final size:183
Alignment explanation
Indices: 33702047--33702425 Score: 659
Period size: 183 Copynumber: 2.1 Consensus size: 183
33702037 CTAAATTGTA
* *
33702047 AAAAGTGAAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAT
1 AAAAGGGAAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAG
* * *
33702112 GTCTTTATATGGTAATTATACCATTGGTTAAGTTATGGACAAAAATGGATATGAGATAAGTGAAA
66 GCCTTTATATGGTAATTAGACCATTGGTTAAGTTATGGACAAAAATGGACATGAGATAAGTGAAA
*
33702177 TAGGAAATTTTTAAGTTAGAGGCATTTTGGTAATTCGGTAATTAAAATGAATT
131 TAGGAAATTTTTAAGTTAGAGGCATTTTGGTAATTCGATAATTAAAATGAATT
*
33702230 AAAAGGGAAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTACATTGGAG
1 AAAAGGGAAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAG
* *
33702295 GCCTTTATATGGTAATTAGACCATTGGTTAAGTTATGGACAAAAGTGGGCATGAGATAAGTGAAA
66 GCCTTTATATGGTAATTAGACCATTGGTTAAGTTATGGACAAAAATGGACATGAGATAAGTGAAA
* *
33702360 TAGGAAATTTTTAATTTAGGGGCATTTTGGTAATTCGATAATTAAAATGAATT
131 TAGGAAATTTTTAAGTTAGAGGCATTTTGGTAATTCGATAATTAAAATGAATT
33702413 AAAAGGGAAAAAG
1 AAAAGGGAAAAAG
33702426 ATGGCAAATT
Statistics
Matches: 185, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 185 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (183 bp):
AAAAGGGAAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAG
GCCTTTATATGGTAATTAGACCATTGGTTAAGTTATGGACAAAAATGGACATGAGATAAGTGAAA
TAGGAAATTTTTAAGTTAGAGGCATTTTGGTAATTCGATAATTAAAATGAATT
Found at i:33703366 original size:50 final size:49
Alignment explanation
Indices: 33703312--33703498 Score: 178
Period size: 50 Copynumber: 3.8 Consensus size: 49
33703302 CATTAAGATT
* *
33703312 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAC
* * * * *
33703362 ATGAGAGGTCCCCTGTAAGACCATGTTTTGGACATGGCATGGGCACTGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC-GAC
** * * * * *
33703412 ATGAGAACTCCCATGTAAGACCATATCTGAGATATGACATTGGTA-GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-AC
* * **
33703461 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
33703499 TTTGACATGT
Statistics
Matches: 109, Mismatches: 26, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
48 1 0.01
49 32 0.29
50 76 0.70
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGAC
Found at i:33705901 original size:24 final size:28
Alignment explanation
Indices: 33705846--33705907 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
33705836 TGACATTCAC
33705846 TCTCTCAAATATTTCACATACAAAAAACA
1 TCTCTCAAATATTT-ACATACAAAAAACA
33705875 TCTCTCAAATATTT-CA-A-AAAAAA-A
1 TCTCTCAAATATTTACATACAAAAAACA
33705899 TCTCTCAAA
1 TCTCTCAAA
33705908 AAAAATGTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
24 10 0.30
25 6 0.18
26 1 0.03
27 2 0.06
29 14 0.42
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (28 bp):
TCTCTCAAATATTTACATACAAAAAACA
Found at i:33717339 original size:67 final size:72
Alignment explanation
Indices: 33717266--33717406 Score: 202
Period size: 74 Copynumber: 2.0 Consensus size: 72
33717256 CTAACCTAAA
33717266 ACCTCACATACAC-AAGCA-T-AA-AA-TAAATTTACTTGACAATTTTTAACAATTCAAAAAGTT
1 ACCTCACATACACTAAGCACTAAACAAGTAAATTTACTTGACAATTTTTAACAATTCAAAAAGTT
33717326 AAAATTT
66 AAAATTT
* * *
33717333 ACCTCACATACACTTAATCACTAAACCAAGTCAATTTACTTGACAATTTTTAACAATTCAAAAGG
1 ACCTCACATACAC-TAAGCACTAAA-CAAGTAAATTTACTTGACAATTTTTAACAATTCAAAAAG
33717398 TTAAAATTT
64 TTAAAATTT
33717407 TAGGGCGTTA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
67 13 0.20
69 4 0.06
70 1 0.02
71 2 0.03
73 2 0.03
74 42 0.66
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (72 bp):
ACCTCACATACACTAAGCACTAAACAAGTAAATTTACTTGACAATTTTTAACAATTCAAAAAGTT
AAAATTT
Found at i:33717406 original size:37 final size:37
Alignment explanation
Indices: 33717290--33717406 Score: 98
Period size: 37 Copynumber: 3.2 Consensus size: 37
33717280 AGCATAAAAT
33717290 AAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
1 AAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
* * *** *
33717327 AAATTTACCTCACATACACTTAATC-ACT-AAACCAAG-T-
1 AAATTTACTTGACA-ATTTTTAA-CAATTCAAA--AAGTTA
* *
33717364 CAATTTACTTGACAATTTTTAACAATTCAAAAGGTTA
1 AAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
33717401 AAATTT
1 AAATTT
33717407 TAGGGCGTTA
Statistics
Matches: 57, Mismatches: 15, Indels: 16
0.65 0.17 0.18
Matches are distributed among these distances:
35 3 0.05
36 8 0.14
37 34 0.60
38 8 0.14
39 4 0.07
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (37 bp):
AAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
Found at i:33717615 original size:12 final size:12
Alignment explanation
Indices: 33717589--33717627 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
33717579 TATTCTATAT
*
33717589 AAATAAAAT-AA
1 AAATATAATAAA
33717600 AAATATAATAAA
1 AAATATAATAAA
33717612 AAATATTAATAAA
1 AAATA-TAATAAA
33717625 AAA
1 AAA
33717628 AATTATCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.32
12 7 0.28
13 10 0.40
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATAATAAA
Found at i:33717627 original size:13 final size:13
Alignment explanation
Indices: 33717598--33717632 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
33717588 TAAATAAAAT
33717598 AAAAATA-TAATA
1 AAAAATATTAATA
33717610 AAAAATATTAATA
1 AAAAATATTAATA
*
33717623 AAAAAAATTA
1 AAAAATATTA
33717633 TCACTTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAATATTAATA
Found at i:33720010 original size:22 final size:22
Alignment explanation
Indices: 33719982--33720030 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
33719972 CCCCGACCCA
33719982 CCACCCATGTGGGTCCCTAGAC
1 CCACCCATGTGGGTCCCTAGAC
*
33720004 CCACCCATGTGGGTCCGTAGAC
1 CCACCCATGTGGGTCCCTAGAC
33720026 CCACC
1 CCACC
33720031 TAATCTCGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.18, C:0.43, G:0.22, T:0.16
Consensus pattern (22 bp):
CCACCCATGTGGGTCCCTAGAC
Found at i:33721210 original size:15 final size:15
Alignment explanation
Indices: 33721192--33721244 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
33721182 AAAGTATTTT
33721192 TTTAATTTTATTTAA
1 TTTAATTTTATTTAA
* *
33721207 TTTAATTATATTCAA
1 TTTAATTTTATTTAA
** *
33721222 AATATTTTTATTTAAA
1 TTTAATTTTATTT-AA
33721238 TTTAATT
1 TTTAATT
33721245 ATAAAGTATA
Statistics
Matches: 27, Mismatches: 10, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
15 21 0.78
16 6 0.22
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTAATTTTATTTAA
Found at i:33722159 original size:28 final size:29
Alignment explanation
Indices: 33722108--33722164 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
33722098 TAATGTTTGG
*
33722108 AATTTTTTTAAAAAAATCATAATT-TTTT
1 AATTTTTTTAAAAAAATCACAATTGTTTT
*
33722136 AATTTTTTTAATAGAAAT-ACAATTGTTTT
1 AATTTTTTTAA-AAAAATCACAATTGTTTT
33722165 TTAAATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (29 bp):
AATTTTTTTAAAAAAATCACAATTGTTTT
Found at i:33727599 original size:14 final size:14
Alignment explanation
Indices: 33727569--33727634 Score: 50
Period size: 14 Copynumber: 4.8 Consensus size: 14
33727559 CACACATGTA
*
33727569 GTTCACACCT-AGAG
1 GTTCACACATAAG-G
33727583 GTTCACACATAAGG
1 GTTCACACATAAGG
*
33727597 GTTCACTCAAGTAA-G
1 GTTCACAC-A-TAAGG
33727612 G-TCACACAT-AGG
1 GTTCACACATAAGG
*
33727624 GTTCATACATA
1 GTTCACACATA
33727635 TAGATTTTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 1 0.02
12 3 0.07
13 8 0.19
14 22 0.52
15 5 0.12
16 3 0.07
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (14 bp):
GTTCACACATAAGG
Found at i:33727599 original size:41 final size:41
Alignment explanation
Indices: 33727554--33727634 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
33727544 TACATAAGTG
* * *
33727554 GGGTTCACACATGT-AGTTCACACCTAGAGGTTCACACATAA
1 GGGTTCACACAAGTAAGGTCACACATAG-GGTTCACACATAA
* *
33727595 GGGTTCACTCAAGTAAGGTCACACATAGGGTTCATACATA
1 GGGTTCACACAAGTAAGGTCACACATAGGGTTCACACATA
33727635 TAGATTTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 23 0.68
42 11 0.32
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (41 bp):
GGGTTCACACAAGTAAGGTCACACATAGGGTTCACACATAA
Found at i:33729290 original size:23 final size:23
Alignment explanation
Indices: 33729262--33729341 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 23
33729252 ACATGATATA
33729262 TCCTATAGGGTTCGCATAACATT
1 TCCTATAGGGTTCGCATAACATT
* *
33729285 TACTAT-GGGATTCGCATAACAGT
1 TCCTATAGGG-TTCGCATAACATT
* * * *
33729308 TCCTATACGGTTCACATGATATT
1 TCCTATAGGGTTCGCATAACATT
33729331 TCCTATAGGGT
1 TCCTATAGGGT
33729342 AAACATATAC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 3 0.07
23 41 0.89
24 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (23 bp):
TCCTATAGGGTTCGCATAACATT
Found at i:33729385 original size:23 final size:23
Alignment explanation
Indices: 33729354--33729415 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
33729344 ACATATACCC
33729354 ACTA-AGGGTTCACACAAAAATT
1 ACTATAGGGTTCACACAAAAATT
* * *
33729376 ACTATGGGGTTCTCATC-ACAATT
1 ACTATAGGGTTCACA-CAAAAATT
*
33729399 CCTATAGGGTTCACACA
1 ACTATAGGGTTCACACA
33729416 TTCAGGTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
22 5 0.16
23 25 0.81
24 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (23 bp):
ACTATAGGGTTCACACAAAAATT
Found at i:33729639 original size:23 final size:23
Alignment explanation
Indices: 33729613--33729668 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
33729603 ATAATAGTTC
33729613 CTATAGGGTTCACATAACA-ATTA
1 CTATAGGGTTCACATAACAGA-TA
** *
33729636 CTATAGGGTTTGCATAACAGATC
1 CTATAGGGTTCACATAACAGATA
33729659 CTATAGGGTT
1 CTATAGGGTT
33729669 GGTATGATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (23 bp):
CTATAGGGTTCACATAACAGATA
Found at i:33745349 original size:88 final size:88
Alignment explanation
Indices: 33745137--33745415 Score: 452
Period size: 88 Copynumber: 3.2 Consensus size: 88
33745127 TAGATCGGTG
*
33745137 AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATGGCAAATCTTATCTTT
1 AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATGGAAAATCTTATCTTT
*
33745202 CTAAAGATAGTGGGAAGCAGATTT
66 C-CAAGATAGTGGGAAGCAGATTT
* * * *
33745226 AAGCCACCAAGCCTTATCTCCCTCAGCAGCA-TGGAGTAAGTTGAAGACGAAAAATCTTATCTTT
1 AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATGGAAAATCTTATCTTT
* *
33745290 CCATGATAGTAGGAAGCAGATTT
66 CCAAGATAGTGGGAAGCAGATTT
* *
33745313 AAGCCACCAAGCCTTATCTCCTTGAGCAGTAGTGGAGTAGGTTGAAGATGGAAAATCTTATCTTT
1 AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATGGAAAATCTTATCTTT
33745378 CCAAGATAGTGGGAAGCAGATTT
66 CCAAGATAGTGGGAAGCAGATTT
33745401 AAGCCACCAAGCCTT
1 AAGCCACCAAGCCTT
33745416 GCCCCCTTAA
Statistics
Matches: 173, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
87 47 0.27
88 96 0.55
89 30 0.17
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (88 bp):
AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATGGAAAATCTTATCTTT
CCAAGATAGTGGGAAGCAGATTT
Found at i:33745440 original size:88 final size:88
Alignment explanation
Indices: 33745137--33745448 Score: 430
Period size: 88 Copynumber: 3.5 Consensus size: 88
33745127 TAGATCGGTG
* *
33745137 AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATGGCAAATCTTATCTTT
1 AAGCCACCAAGCCTTATCCCCCTGAGCAGCAGTGGAGTAGGTTGAAGATGGAAAATCTTATCTTT
*
33745202 CTAAAGATAGTGGGAAGCAGATTT
66 C-CAAGATAGTGGGAAGCAGATTT
* * * * *
33745226 AAGCCACCAAGCCTTATCTCCCTCAGCAGCA-TGGAGTAAGTTGAAGACGAAAAATCTTATCTTT
1 AAGCCACCAAGCCTTATCCCCCTGAGCAGCAGTGGAGTAGGTTGAAGATGGAAAATCTTATCTTT
* *
33745290 CCATGATAGTAGGAAGCAGATTT
66 CCAAGATAGTGGGAAGCAGATTT
* * *
33745313 AAGCCACCAAGCCTTATCTCCTTGAGCAGTAGTGGAGTAGGTTGAAGATGGAAAATCTTATCTTT
1 AAGCCACCAAGCCTTATCCCCCTGAGCAGCAGTGGAGTAGGTTGAAGATGGAAAATCTTATCTTT
33745378 CCAAGATAGTGGGAAGCAGATTT
66 CCAAGATAGTGGGAAGCAGATTT
* * * * *
33745401 AAGCCACCAAGCCTT-GCCCCCTTAACCAGCAGCGAAGTAGGTTGAAGA
1 AAGCCACCAAGCCTTATCCCCC-TGAGCAGCAGTGGAGTAGGTTGAAGA
33745449 CTACGAATCC
Statistics
Matches: 197, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
87 50 0.25
88 117 0.59
89 30 0.15
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (88 bp):
AAGCCACCAAGCCTTATCCCCCTGAGCAGCAGTGGAGTAGGTTGAAGATGGAAAATCTTATCTTT
CCAAGATAGTGGGAAGCAGATTT
Found at i:33751795 original size:29 final size:29
Alignment explanation
Indices: 33751753--33751821 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
33751743 AAATTGTTGT
33751753 GAAAATAAATCACGATGATAATATGTATA
1 GAAAATAAATCACGATGATAATATGTATA
* *
33751782 GAAAATAAATCACGATGATATTATGTGTA
1 GAAAATAAATCACGATGATAATATGTATA
*
33751811 GTAATATAAAT
1 G-AAAATAAAT
33751822 GCACCAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 28 0.78
30 8 0.22
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.30
Consensus pattern (29 bp):
GAAAATAAATCACGATGATAATATGTATA
Found at i:33752042 original size:18 final size:19
Alignment explanation
Indices: 33752019--33752054 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33752009 GGCTTGTAAT
33752019 CACATAAAAG-AATATGAA
1 CACATAAAAGTAATATGAA
*
33752037 CACATAAATGTAATATGA
1 CACATAAAAGTAATATGA
33752055 TAAAAATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (19 bp):
CACATAAAAGTAATATGAA
Found at i:33752832 original size:17 final size:18
Alignment explanation
Indices: 33752807--33752842 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
33752797 TTCCCTATTT
*
33752807 TTTTTATATATA-TTATA
1 TTTTGATATATATTTATA
33752824 TTTTGATATATATTTATA
1 TTTTGATATATATTTATA
33752842 T
1 T
33752843 GTATGCAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTTGATATATATTTATA
Found at i:33753628 original size:45 final size:44
Alignment explanation
Indices: 33753559--33753673 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
33753549 TTTTAGTCTA
* * * * *
33753559 CTCCACTGCAACATCAGGGAGATAATATTTGTTATA-TTCAGCCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTG-TA-ACTTCAACCTG
* * *
33753604 CTCCACTGCGACTTTAGGGTGATAAGACTTGTAACTTCAACTTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTG
*
33753648 CTCCACTGCAACTTTAGAGAGATAAG
1 CTCCACTGCAACTTTAGGGAGATAAG
33753674 GTTTGCTATG
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.02
44 32 0.55
45 25 0.43
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTG
Found at i:33753700 original size:41 final size:40
Alignment explanation
Indices: 33753645--33753755 Score: 150
Period size: 41 Copynumber: 2.7 Consensus size: 40
33753635 TAACTTCAAC
*
33753645 TTGCTCCACTGCAACTTTAGAGAGATAAGGTTTGCTATGA
1 TTGCTCTACTGCAACTTTAGAGAGATAAGGTTTGCTATGA
* * *
33753685 TCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGCTGTGA
1 T-TGCTCTACTGCAACTTTAGAGAGATAAGGTTTGCTATGA
* *
33753726 TTCACTTTACTGCAACTTTAGAGAGATAAG
1 TT-GCTCTACTGCAACTTTAGAGAGATAAG
33753756 ATATCTAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.03
41 59 0.97
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (40 bp):
TTGCTCTACTGCAACTTTAGAGAGATAAGGTTTGCTATGA
Found at i:33754155 original size:44 final size:45
Alignment explanation
Indices: 33754105--33754350 Score: 246
Period size: 45 Copynumber: 5.5 Consensus size: 45
33754095 TGTTCCATTA
* * * *
33754105 CAACTTCAGGGAAACAAGATTTGCTATCTTTAGTCTGCTCTACTG
1 CAACTTCAGGGAGACAAGACTTGCTATCTTCAGTCTGCTCCACTG
* * * * *
33754150 -TACTTCAGGGAGATAAAACTTGCTATCTTTAGTCCGCTCCACTG
1 CAACTTCAGGGAGACAAGACTTGCTATCTTCAGTCTGCTCCACTG
** *
33754194 CAACTTCAGGGAGATTAGAATTGCTATCTTCAGTCTGCTCCACTG
1 CAACTTCAGGGAGACAAGACTTGCTATCTTCAGTCTGCTCCACTG
* * * *
33754239 CAACTTCAAGGAGACAAGACTTGGTATCTTCAGTATGCTCCACTT
1 CAACTTCAGGGAGACAAGACTTGCTATCTTCAGTCTGCTCCACTG
* * ** * *
33754284 CAACTTCAAGGAGA-TAGACTTG-TGGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGACAAGACTTGCTATCTTCAGTCTGCTCCACTG
* * *
33754327 CAACTTCAAGGAGATAAGATTTGC
1 CAACTTCAGGGAGACAAGACTTGC
33754351 AGCCTGTCTT
Statistics
Matches: 169, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
43 29 0.17
44 50 0.30
45 90 0.53
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
CAACTTCAGGGAGACAAGACTTGCTATCTTCAGTCTGCTCCACTG
Found at i:33757098 original size:16 final size:19
Alignment explanation
Indices: 33757051--33757098 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
33757041 GGTTTGTATC
33757051 ACATAAA-AGAATATGAAT
1 ACATAAATAGAATATGAAT
*
33757069 ACATAAATATAATATG-AT
1 ACATAAATAGAATATGAAT
33757087 A-A-AAATAGAATA
1 ACATAAATAGAATA
33757099 AATGCATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.33
17 1 0.04
18 10 0.37
19 7 0.26
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.25
Consensus pattern (19 bp):
ACATAAATAGAATATGAAT
Found at i:33758357 original size:15 final size:15
Alignment explanation
Indices: 33758337--33758374 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
33758327 GGACTGTTTT
33758337 ATTGGGC-CCAAGAAA
1 ATTGGGCTCCAA-AAA
*
33758352 ATTGGGCTCGAAAAA
1 ATTGGGCTCCAAAAA
33758367 ATTGGGCT
1 ATTGGGCT
33758375 GATTACATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (15 bp):
ATTGGGCTCCAAAAA
Found at i:33760501 original size:3 final size:3
Alignment explanation
Indices: 33760450--33760485 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
33760440 CTCACATTCG
33760450 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
33760486 AGAATATCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:33760727 original size:3 final size:3
Alignment explanation
Indices: 33760719--33760744 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33760709 GTCATGTTTA
33760719 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
33760745 CCGACGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:33761932 original size:19 final size:20
Alignment explanation
Indices: 33761887--33761932 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
33761877 AATATATAAA
* *
33761887 TTATAAAATTTAAAAGCATG
1 TTATAAAATTCAAAAACATG
33761907 -TAT-AAATTCAAAAAC-TG
1 TTATAAAATTCAAAAACATG
33761924 TTATAAAAT
1 TTATAAAAT
33761933 AAAGAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.09
18 13 0.59
19 7 0.32
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.35
Consensus pattern (20 bp):
TTATAAAATTCAAAAACATG
Found at i:33769333 original size:18 final size:18
Alignment explanation
Indices: 33769312--33769346 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33769302 GATGGAATTC
33769312 CAGAGACAGATACAAATA
1 CAGAGACAGATACAAATA
**
33769330 CAGATTCAGATACAAAT
1 CAGAGACAGATACAAAT
33769347 GCGGACACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.17
Consensus pattern (18 bp):
CAGAGACAGATACAAATA
Found at i:33769356 original size:12 final size:12
Alignment explanation
Indices: 33769341--33769379 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
33769331 AGATTCAGAT
33769341 ACAAATGCGGAC
1 ACAAATGCGGAC
*
33769353 ACAAATGCGGAT
1 ACAAATGCGGAC
* *
33769365 ACAGATGCAGAC
1 ACAAATGCGGAC
33769377 ACA
1 ACA
33769380 GATCCTACTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.10
Consensus pattern (12 bp):
ACAAATGCGGAC
Found at i:33770988 original size:15 final size:14
Alignment explanation
Indices: 33770964--33770995 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
33770954 CCACTCTTGG
33770964 TTTCACTAACCCAA
1 TTTCACTAACCCAA
33770978 TTTCTACTAACCCAA
1 TTTC-ACTAACCCAA
33770993 TTT
1 TTT
33770996 TTAAGGTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (14 bp):
TTTCACTAACCCAA
Found at i:33773962 original size:12 final size:13
Alignment explanation
Indices: 33773940--33773969 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
33773930 ATTGATATTG
33773940 TATGTCATGATTT
1 TATGTCATGATTT
33773953 TATG-CATGATTT
1 TATGTCATGATTT
33773965 TATGT
1 TATGT
33773970 TTTAGCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (13 bp):
TATGTCATGATTT
Found at i:33774011 original size:5 final size:5
Alignment explanation
Indices: 33774003--33774027 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
33773993 TGCATTGCAT
33774003 TGGGG TGGGG TGGGG TGGGG TGGGG
1 TGGGG TGGGG TGGGG TGGGG TGGGG
33774028 GTTTATATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.80, T:0.20
Consensus pattern (5 bp):
TGGGG
Found at i:33775089 original size:25 final size:25
Alignment explanation
Indices: 33775061--33775112 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
33775051 TAGTATATAA
33775061 TGGGACTACTATAGATAGACTGTAC
1 TGGGACTACTATAGATAGACTGTAC
*
33775086 TGGGACTATTATAGATAGACTGTAC
1 TGGGACTACTATAGATAGACTGTAC
33775111 TG
1 TG
33775113 AAAACATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (25 bp):
TGGGACTACTATAGATAGACTGTAC
Found at i:33780726 original size:12 final size:13
Alignment explanation
Indices: 33780704--33780733 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
33780694 ATTGATACTG
33780704 TATGTCATGATTT
1 TATGTCATGATTT
33780717 TATG-CATGATTT
1 TATGTCATGATTT
33780729 TATGT
1 TATGT
33780734 TTTAGCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (13 bp):
TATGTCATGATTT
Found at i:33782488 original size:29 final size:29
Alignment explanation
Indices: 33782410--33782494 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
33782400 ATGACAGGCC
* * *
33782410 GTGTGAGCCACACAAACGTGTGGCTGGCT
1 GTGTTAGCCACACAGACGTGTGGTTGGCT
* *
33782439 GTGTTAGCCACACAGATGTGTGGTTGGTT
1 GTGTTAGCCACACAGACGTGTGGTTGGCT
** *
33782468 GTGTTAGCCACATGGGCGTGTGGTTGG
1 GTGTTAGCCACACAGACGTGTGGTTGG
33782495 ACATGTAGGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.16, C:0.18, G:0.38, T:0.28
Consensus pattern (29 bp):
GTGTTAGCCACACAGACGTGTGGTTGGCT
Found at i:33786976 original size:114 final size:114
Alignment explanation
Indices: 33786754--33787724 Score: 1464
Period size: 114 Copynumber: 8.6 Consensus size: 114
33786744 GTTTATTTGT
* * *
33786754 AAGCGCCGTAAAATATCTTAACCAAAACGCAGTGTTTGGTCTTGAGGTA-ATTAAAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * *
33786818 GCTTATGCAAAAACGCCGCTAAAGCATAGTATTAGCGGCGCACTATAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAA
* * * *
33786867 AAACGCCGCAAAATATCGTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * * * * * *
33786932 ACTTATGCACAAACGCCGCTAAAGCACAATATTAGCTGCACACTATAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAA
* *
33786981 AAACGCCACAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
33787046 GCTTATG-AAAAACGCCGCTAAAGCACAGTATTAGCGGCACATTACAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAA
* * *
33787094 AAGCACCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGATATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
33787159 GATTATGAAAAAACGCCGCTAAAGCGCAGTATTAGCGGCGCATTACAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAA
* * * *
33787208 AAGCACCGCAAAATATCTTACCCAAAACACAGTGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
33787273 GCTTATGAAAAAACGCCTCTAAAGCACAGTATT-GCGGCGCATTACAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAA
* * * *
33787321 AAGTGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTTTTGAGGTATATTAGAATTTGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
33787386 GCTTATG-AAAAATGCCGCTAAAGCACAATATTAGCGGCGCATTACAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAA
*
33787434 AAGCGCCGCAAAATATCTTAACCAAAACGAAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* **
33787499 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAA
* * *
33787548 AAGCACCGCAAAAAATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTTGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
**
33787613 GCTTATGAAAAAACGAAGCTAAAGCACAGTATTAGCGGCGCATTACAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAA
* * *
33787662 AAGCGCCGCAAAAAATCTTAACCAAAATGCAGCGTTTGGTCTTGAGGTATATTAAAATTAGTG
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTG
33787725 TTTAGGGTTT
Statistics
Matches: 781, Mismatches: 73, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
112 22 0.03
113 306 0.39
114 453 0.58
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (114 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAA
Found at i:33787027 original size:227 final size:228
Alignment explanation
Indices: 33786754--33787724 Score: 1448
Period size: 227 Copynumber: 4.3 Consensus size: 228
33786744 GTTTATTTGT
* * *
33786754 AAGCGCCGTAAAATATCTTAACCAAAACGCAGTGTTTGGTCTTGAGGTA-ATTAAAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * * * *
33786818 GCTTATGCAAAAACGCCGCTAAAGCATAGTATTAGCGGCGCACTATAAAAAACGCCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAAAAGCACCGCAAAATAT
* * *
33786883 CGTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGCACAAACGC
131 CTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGAAAAAACGC
* * * *
33786948 CGCTAAAGCACAATATTAGCTGCACACTATAAA
196 CGCTAAAGCACAATATTAGCGGCGCATTACAAA
* *
33786981 AAACGCCACAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
33787046 GCTTATG-AAAAACGCCGCTAAAGCACAGTATTAGCGGCACATTACAAAAAGCACCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAAAAGCACCGCAAAATAT
* *
33787110 CTTAACCAAAACGCAACGTTTGGTCTTGAGATATATTAGAATTAGTGGCGA-TTATGAAAAAACG
131 CTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGC-ACTTATGAAAAAACG
* *
33787174 CCGCTAAAGCGCAGTATTAGCGGCGCATTACAAA
195 CCGCTAAAGCACAATATTAGCGGCGCATTACAAA
* * * *
33787208 AAGCACCGCAAAATATCTTACCCAAAACACAGTGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* **
33787273 GCTTATGAAAAAACGCCTCTAAAGCACAGTATT-GCGGCGCATTACAAAAAGTGCCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAAAAGCACCGCAAAATAT
* * * * *
33787337 CTTAACCAAAACGCAGCATTTGGTTTTGAGGTATATTAGAATTTGTGGCGCTTATG-AAAAATGC
131 CTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGAAAAAACGC
33787401 CGCTAAAGCACAATATTAGCGGCGCATTACAAA
196 CGCTAAAGCACAATATTAGCGGCGCATTACAAA
*
33787434 AAGCGCCGCAAAATATCTTAACCAAAACGAAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* ** *
33787499 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTAAAAAGCACCGCAAAAAAT
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAAAAGCACCGCAAAATAT
* * * * *
33787564 CTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTTGAATTAGTGGCGCTTATGAAAAAACGA
131 CTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGAAAAAACGC
* *
33787629 AGCTAAAGCACAGTATTAGCGGCGCATTACAAA
196 CGCTAAAGCACAATATTAGCGGCGCATTACAAA
* * *
33787662 AAGCGCCGCAAAAAATCTTAACCAAAATGCAGCGTTTGGTCTTGAGGTATATTAAAATTAGTG
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTG
33787725 TTTAGGGTTT
Statistics
Matches: 673, Mismatches: 65, Indels: 11
0.90 0.09 0.01
Matches are distributed among these distances:
226 130 0.19
227 401 0.60
228 142 0.21
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (228 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTACAAAAAGCACCGCAAAATAT
CTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGAAAAAACGC
CGCTAAAGCACAATATTAGCGGCGCATTACAAA
Found at i:33787395 original size:340 final size:341
Alignment explanation
Indices: 33786754--33787724 Score: 1489
Period size: 340 Copynumber: 2.9 Consensus size: 341
33786744 GTTTATTTGT
* ** *
33786754 AAGCGCCGTAAAATATCTTAACCAAAACGCAGTGTTTGGTCTTGAGGTA-ATTAAAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * * *
33786818 GCTTATGCAAAAACGCCGCTAAAGCATAGTATTAGCGGCGCACTATAAAAAACGCCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCACCGCAAAATAT
* * * * * *
33786883 CGTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGCACAAACGC
131 CTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGC
* * * * * * *
33786948 CGCTAAAGCACAATATTAGCTGCACACTATAAAAAACGCCACAAAATATCTTAACCAAAACGCAG
196 CGCTAAAGCACAGTATTAGCGGCGCATTACAAAAAGCGCCGCAAAATATCTTAACCAAAACGCAG
*
33787013 CGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAACGCCGCTAAAGCACAGTATT
261 CGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAACGCCGCTAAAGCACAATATT
33787078 AGCGGCACATTACAAA
326 AGCGGCACATTACAAA
* *
33787094 AAGCACCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGATATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
33787159 GATTATGAAAAAACGCCGCTAAAGCGCAGTATTAGCGGCGCATTACAAAAAGCACCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCACCGCAAAATAT
* * *
33787224 CTTACCCAAAACACAGTGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGC
131 CTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGC
* *
33787289 CTCTAAAGCACAGTATT-GCGGCGCATTACAAAAAGTGCCGCAAAATATCTTAACCAAAACGCAG
196 CGCTAAAGCACAGTATTAGCGGCGCATTACAAAAAGCGCCGCAAAATATCTTAACCAAAACGCAG
* * * *
33787353 CATTTGGTTTTGAGGTATATTAGAATTTGTGGCGCTTATGAAAAATGCCGCTAAAGCACAATATT
261 CGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAACGCCGCTAAAGCACAATATT
*
33787418 AGCGGCGCATTACAAA
326 AGCGGCACATTACAAA
33787434 AAGCGCCGCAAAATATCTTAACCAAAACG-AAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGG
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAA-CGTTTGGTCTTGAGGTATATTAGAATTAGTGG
* * *
33787498 CGCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCTTTGTAAAAAGCACCGCAAAAAA
65 CGCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCACCGCAAAATA
*
33787563 TCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTTGAATTAGTGGCGCTTATGAAAAAACG
130 TCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACG
** * *
33787628 AAGCTAAAGCACAGTATTAGCGGCGCATTACAAAAAGCGCCGCAAAAAATCTTAACCAAAATGCA
195 CCGCTAAAGCACAGTATTAGCGGCGCATTACAAAAAGCGCCGCAAAATATCTTAACCAAAACGCA
*
33787693 GCGTTTGGTCTTGAGGTATATTAAAATTAGTG
260 GCGTTTGGTCTTGAGGTATATTAGAATTAGTG
33787725 TTTAGGGTTT
Statistics
Matches: 568, Mismatches: 60, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
339 2 0.00
340 353 0.62
341 213 0.38
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (341 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAGCACCGCAAAATAT
CTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGC
CGCTAAAGCACAGTATTAGCGGCGCATTACAAAAAGCGCCGCAAAATATCTTAACCAAAACGCAG
CGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAACGCCGCTAAAGCACAATATT
AGCGGCACATTACAAA
Found at i:33788018 original size:22 final size:21
Alignment explanation
Indices: 33787993--33788033 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
33787983 TATAGTTTTA
* *
33787993 GGTTTAGGGTTTGGGAGTTTGG
1 GGTTTAAGGTATGGG-GTTTGG
33788015 GGTTTAAGGTATGGGGTTT
1 GGTTTAAGGTATGGGGTTT
33788034 AGGCCACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.12, C:0.00, G:0.46, T:0.41
Consensus pattern (21 bp):
GGTTTAAGGTATGGGGTTTGG
Found at i:33789564 original size:123 final size:123
Alignment explanation
Indices: 33789345--33789591 Score: 485
Period size: 123 Copynumber: 2.0 Consensus size: 123
33789335 TCTCAAAATC
*
33789345 CCTAAACAGCCAGAGGGAAATACTCCAAGAGAGCAGTTCGTCGAGAAGTTTTTCCCCCGATTCAT
1 CCTAAACAACCAGAGGGAAATACTCCAAGAGAGCAGTTCGTCGAGAAGTTTTTCCCCCGATTCAT
33789410 CAATTGGTTGCTTTAGCAGCAAGGAAAAGGTTTATTTTTTGGGTTTCTTGCAAAGTTA
66 CAATTGGTTGCTTTAGCAGCAAGGAAAAGGTTTATTTTTTGGGTTTCTTGCAAAGTTA
33789468 CCTAAACAACCAGAGGGAAATACTCCAAGAGAGCAGTTCGTCGAGAAGTTTTTCCCCCGATTCAT
1 CCTAAACAACCAGAGGGAAATACTCCAAGAGAGCAGTTCGTCGAGAAGTTTTTCCCCCGATTCAT
33789533 CAATTGGTTGCTTTAGCAGCAAGGAAAAGGTTTATTTTTTGGGTTTCTTGCAAAGTTA
66 CAATTGGTTGCTTTAGCAGCAAGGAAAAGGTTTATTTTTTGGGTTTCTTGCAAAGTTA
33789591 C
1 C
33789592 ATAACCCACA
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (123 bp):
CCTAAACAACCAGAGGGAAATACTCCAAGAGAGCAGTTCGTCGAGAAGTTTTTCCCCCGATTCAT
CAATTGGTTGCTTTAGCAGCAAGGAAAAGGTTTATTTTTTGGGTTTCTTGCAAAGTTA
Found at i:33790204 original size:16 final size:16
Alignment explanation
Indices: 33790183--33790273 Score: 73
Period size: 16 Copynumber: 5.7 Consensus size: 16
33790173 ATGTTAAGCT
33790183 ATGTTAAGCATTTTGA
1 ATGTTAAGCATTTTGA
33790199 ATGTTAAGCATAGTTTTGA
1 ATGTTAAGC--A-TTTTGA
* *
33790218 CTGTTAAGCTATGTT-A
1 ATGTTAAGC-ATTTTGA
* *
33790234 A-GCTATG--TTTTGA
1 ATGTTAAGCATTTTGA
*
33790247 ATGTTAAACATTTTGA
1 ATGTTAAGCATTTTGA
33790263 ATGTTAAGCAT
1 ATGTTAAGCAT
33790274 ATGAGTTCCT
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
12 3 0.05
13 2 0.03
14 3 0.05
15 4 0.07
16 26 0.45
17 3 0.05
18 3 0.05
19 14 0.24
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.43
Consensus pattern (16 bp):
ATGTTAAGCATTTTGA
Found at i:33790261 original size:45 final size:44
Alignment explanation
Indices: 33790173--33790276 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 44
33790163 TTTGAAAACT
*
33790173 ATGTTAAGCTATGTTAAGCATTTTGAATGTTAAGCATAGTTTTGA
1 ATGTTAAGCTATGTTAAGCATTTTGAATGTTAA-CACAGTTTTGA
*
33790218 CTGTTAAGCTATGTTAAGCTATGTTTTGAATGTTAA-ACA-TTTTGA
1 ATGTTAAGCTATGTTAAGC-A--TTTTGAATGTTAACACAGTTTTGA
33790263 ATGTTAAGCATATG
1 ATGTTAAGC-TATG
33790277 AGTTCCTGCA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
45 32 0.62
46 7 0.13
48 13 0.25
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (44 bp):
ATGTTAAGCTATGTTAAGCATTTTGAATGTTAACACAGTTTTGA
Found at i:33790690 original size:21 final size:21
Alignment explanation
Indices: 33790666--33790738 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
33790656 GTTTTGGGAC
*
33790666 TATTTATTTATATTTTCAGCG
1 TATTTATTTATATTTTCAGCA
* *
33790687 TATTTAATATTATTGATATT-A-TA
1 TATTT-AT-TTA-T-ATTTTCAGCA
33790710 TTATTTATTTATATTTTCAGCA
1 -TATTTATTTATATTTTCAGCA
33790732 TATTTAT
1 TATTTAT
33790739 ATAAACATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
20 4 0.10
21 14 0.35
22 6 0.15
23 5 0.12
24 7 0.17
25 4 0.10
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
TATTTATTTATATTTTCAGCA
Found at i:33791341 original size:25 final size:25
Alignment explanation
Indices: 33791284--33791825 Score: 287
Period size: 25 Copynumber: 21.6 Consensus size: 25
33791274 TCTCACATCT
* *
33791284 TACATAACTTACATAGCTTA-ATTA
1 TACATAACTTACATAACTTACATAA
* *
33791308 TACTTAACTTACATAACTTACATTA
1 TACATAACTTACATAACTTACATAA
* * *
33791333 TACACAACTTACATAACTTTCATTA
1 TACATAACTTACATAACTTACATAA
*
33791358 TAC---ACATACATAACTTACATATAA
1 TACATAACTTACATAACTTAC--ATAA
* *
33791382 TACACAACATACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
33791407 TTTTCAT-A-GTACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
* * *
33791432 TA-TTGAACTTACATAATTTTCATAA
1 TACAT-AACTTACATAACTTACATAA
* * *
33791457 TACATAACTTACTTAATTTTCATAA
1 TACATAACTTACATAACTTACATAA
* *
33791482 TAAATAACTTACACAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * * *
33791507 TTTTCATAACCTACATAACTTATACAA
1 --TACATAACTTACATAACTTACATAA
* * *
33791534 TACACAACTTACATAATTTTCATAA
1 TACATAACTTACATAACTTACATAA
*
33791559 TACATAACTTACATAA--TA-TTGAA
1 TACATAACTTACATAACTTACAT-AA
* * *
33791582 CTTACATAATTTTCGTAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
*
33791607 CTTACATAA--TA-TTGAACTTACATAA
1 --TACATAACTTACAT-AACTTACATAA
* *
33791632 TTTTCA-AA-ATACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
* * * *
33791657 TA-TTGAACGTACATAATTTTCATAA
1 TACAT-AACTTACATAACTTACATAA
* * * *
33791682 TACATAAGTTACTTAATTTTCATAA
1 TACATAACTTACATAACTTACATAA
* *
33791707 TAAAAAACTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * *
33791732 TTTTCATAACTTACATAACTTATACAA
1 --TACATAACTTACATAACTTACATAA
* * * *
33791759 TACACAGCTTACATAATTTTCATAA
1 TACATAACTTACATAACTTACATAA
33791784 TACATAACTTACATAA-TTGATCATAA
1 TACATAACTTACATAACTT-A-CATAA
*
33791810 TCCA-ACACTTACATAA
1 TACATA-ACTTACATAA
33791826 TTCACAACTT
Statistics
Matches: 407, Mismatches: 79, Indels: 62
0.74 0.14 0.11
Matches are distributed among these distances:
22 16 0.04
23 8 0.02
24 31 0.08
25 272 0.67
26 23 0.06
27 57 0.14
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:33791442 original size:41 final size:41
Alignment explanation
Indices: 33791396--33791473 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
33791386 CAACATACAT
*
33791396 AACTTACATAATTTTCATAGTACATAACTTACATAATATTG
1 AACTTACATAATTTTCATAATACATAACTTACATAATATTG
*
33791437 AACTTACATAATTTTCATAATACATAACTTACTTAAT
1 AACTTACATAATTTTCATAATACATAACTTACATAAT
33791474 TTTCATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (41 bp):
AACTTACATAATTTTCATAATACATAACTTACATAATATTG
Found at i:33791521 original size:18 final size:18
Alignment explanation
Indices: 33791459--33791524 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 18
33791449 TTTCATAATA
*
33791459 CATAACTTACTTAATTTT
1 CATAACTTACATAATTTT
* * *
33791477 CATAA--TAAATAACTTA
1 CATAACTTACATAATTTT
*
33791493 CACAACTTACATAATTTT
1 CATAACTTACATAATTTT
*
33791511 CATAACCTACATAA
1 CATAACTTACATAA
33791525 CTTATACAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
16 11 0.31
18 25 0.69
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (18 bp):
CATAACTTACATAATTTT
Found at i:33791562 original size:16 final size:16
Alignment explanation
Indices: 33791317--33791906 Score: 158
Period size: 16 Copynumber: 36.9 Consensus size: 16
33791307 ATACTTAACT
*
33791317 TACATAACTTACATTA
1 TACATAACTTACATAA
*
33791333 TACACAACTTACATAA
1 TACATAACTTACATAA
* * *
33791349 CTTTCATTA--TACA-CA
1 --TACATAACTTACATAA
33791364 TACATAACTTACATATAA
1 TACATAACTTAC--ATAA
* *
33791382 TACACAACATACATAA
1 TACATAACTTACATAA
* * *
33791398 CTTACATAATTTTCATAG
1 --TACATAACTTACATAA
33791416 TACATAACTTACATAA
1 TACATAACTTACATAA
*
33791432 TA-TTGAACTTACATAA
1 TACAT-AACTTACATAA
*
33791448 TTTTCATAA--TACATAA
1 --TACATAACTTACATAA
* * *
33791464 CTTACTTAATTTTCATAA
1 --TACATAACTTACATAA
* *
33791482 TAAATAACTTACACAA
1 TACATAACTTACATAA
* *
33791498 CTTACATAATTTTCATAA
1 --TACATAACTTACATAA
* *
33791516 CCTACATAACTTATACAA
1 --TACATAACTTACATAA
*
33791534 TACACAACTTACATAA
1 TACATAACTTACATAA
33791550 T---T---TT-CATAA
1 TACATAACTTACATAA
33791559 TACATAACTTACATAA
1 TACATAACTTACATAA
*
33791575 TA-TTGAACTTACATAA
1 TACAT-AACTTACATAA
*
33791591 T---T---TT-CGTAA
1 TACATAACTTACATAA
33791600 TACATAACTTACATAA
1 TACATAACTTACATAA
*
33791616 TA-TTGAACTTACATAA
1 TACAT-AACTTACATAA
*
33791632 T---T---TT-CAAAA
1 TACATAACTTACATAA
33791641 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
33791657 TA-TTGAACGTACATAA
1 TACAT-AACTTACATAA
*
33791673 TTTTCATAA--TACATAA
1 --TACATAACTTACATAA
* * *
33791689 GTTACTTAATTTTCATAA
1 --TACATAACTTACATAA
* *
33791707 TAAAAAACTTACATAA
1 TACATAACTTACATAA
* *
33791723 CTTACATAATTTTCATAA
1 --TACATAACTTACATAA
* *
33791741 CTTACATAACTTATACAA
1 --TACATAACTTACATAA
* *
33791759 TACACAGCTTACATAA
1 TACATAACTTACATAA
*
33791775 TTTTCATAA--TACATAA
1 --TACATAACTTACATAA
33791791 CTTACATAA-TTGATCATAA
1 --TACATAACTT-A-CATAA
*
33791810 TCCA-ACACTTACATAA
1 TACATA-ACTTACATAA
* *
33791826 TTCACAACTTACATAA
1 TACATAACTTACATAA
33791842 TATTCATAA--TACATAA
1 TA--CATAACTTACATAA
* *
33791858 CTTACATAATTTTCATAA
1 --TACATAACTTACATAA
*
33791876 TAAATAACTTACATAA
1 TACATAACTTACATAA
33791892 TACATAACTTACATA
1 TACATAACTTACATA
33791907 GCTTAATTAT
Statistics
Matches: 423, Mismatches: 89, Indels: 124
0.67 0.14 0.19
Matches are distributed among these distances:
9 16 0.04
10 6 0.01
12 3 0.01
13 5 0.01
14 2 0.00
15 14 0.03
16 248 0.59
17 8 0.02
18 114 0.27
19 7 0.02
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:33791584 original size:41 final size:41
Alignment explanation
Indices: 33791496--33791698 Score: 298
Period size: 41 Copynumber: 4.9 Consensus size: 41
33791486 TAACTTACAC
* * ***
33791496 AACTTACATAATTTTCATAACCTACATAACTTATACAATACAC
1 AACTTACATAATTTTCATAA--TACATAACTTACATAATATTG
33791539 AACTTACATAATTTTCATAATACATAACTTACATAATATTG
1 AACTTACATAATTTTCATAATACATAACTTACATAATATTG
*
33791580 AACTTACATAATTTTCGTAATACATAACTTACATAATATTG
1 AACTTACATAATTTTCATAATACATAACTTACATAATATTG
*
33791621 AACTTACATAATTTTCAAAATACATAACTTACATAATATTG
1 AACTTACATAATTTTCATAATACATAACTTACATAATATTG
* * *
33791662 AACGTACATAATTTTCATAATACATAAGTTACTTAAT
1 AACTTACATAATTTTCATAATACATAACTTACATAAT
33791699 TTTCATAATA
Statistics
Matches: 148, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
41 128 0.86
43 20 0.14
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (41 bp):
AACTTACATAATTTTCATAATACATAACTTACATAATATTG
Found at i:33791664 original size:225 final size:225
Alignment explanation
Indices: 33791396--33791800 Score: 738
Period size: 225 Copynumber: 1.8 Consensus size: 225
33791386 CAACATACAT
* * *
33791396 AACTTACATAATTTTCATAGTACATAACTTACATAATATTGAACTTACATAATTTTCATAATACA
1 AACTTACATAATTTTCAAAATACATAACTTACATAATATTGAACGTACATAATTTTCATAATACA
*
33791461 TAACTTACTTAATTTTCATAATAAATAACTTACACAACTTACATAATTTTCATAACCTACATAAC
66 TAACTTACTTAATTTTCATAATAAAAAACTTACACAACTTACATAATTTTCATAACCTACATAAC
33791526 TTATACAATACACAACTTACATAATTTTCATAATACATAACTTACATAATATTGAACTTACATAA
131 TTATACAATACACAACTTACATAATTTTCATAATACATAACTTACATAATATTGAACTTACATAA
33791591 TTTTCGTAATACATAACTTACATAATATTG
196 TTTTCGTAATACATAACTTACATAATATTG
33791621 AACTTACATAATTTTCAAAATACATAACTTACATAATATTGAACGTACATAATTTTCATAATACA
1 AACTTACATAATTTTCAAAATACATAACTTACATAATATTGAACGTACATAATTTTCATAATACA
* * *
33791686 TAAGTTACTTAATTTTCATAATAAAAAACTTACATAACTTACATAATTTTCATAACTTACATAAC
66 TAACTTACTTAATTTTCATAATAAAAAACTTACACAACTTACATAATTTTCATAACCTACATAAC
*
33791751 TTATACAATACACAGCTTACATAATTTTCATAATACATAACTTACATAAT
131 TTATACAATACACAACTTACATAATTTTCATAATACATAACTTACATAAT
33791801 TGATCATAAT
Statistics
Matches: 172, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
225 172 1.00
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (225 bp):
AACTTACATAATTTTCAAAATACATAACTTACATAATATTGAACGTACATAATTTTCATAATACA
TAACTTACTTAATTTTCATAATAAAAAACTTACACAACTTACATAATTTTCATAACCTACATAAC
TTATACAATACACAACTTACATAATTTTCATAATACATAACTTACATAATATTGAACTTACATAA
TTTTCGTAATACATAACTTACATAATATTG
Found at i:33791749 original size:43 final size:40
Alignment explanation
Indices: 33791702--33791792 Score: 94
Period size: 43 Copynumber: 2.2 Consensus size: 40
33791692 ACTTAATTTT
*
33791702 CATAA-TAAAAAACTTACATAACTTACATAATTTTCATAACTTA
1 CATAACTAAAAAA--TACACAACTTACATAATTTTCATAA--TA
* * *
33791745 CATAACTTATACAATACACAGCTTACATAATTTTCATAATA
1 CATAAC-TAAAAAATACACAACTTACATAATTTTCATAATA
33791786 CATAACT
1 CATAACT
33791793 TACATAATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
40 1 0.02
41 8 0.19
43 28 0.67
45 5 0.12
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (40 bp):
CATAACTAAAAAATACACAACTTACATAATTTTCATAATA
Found at i:33791853 original size:92 final size:93
Alignment explanation
Indices: 33791722--33791892 Score: 249
Period size: 92 Copynumber: 1.8 Consensus size: 93
33791712 AACTTACATA
* * *
33791722 ACTTACATAATTTTCATAACTTACATAACTTATACAATACACAGCTTACATAATTTTCATAATAC
1 ACTTACATAA-TTTCACAACTTACATAACTTATACAATACACAACTTACATAATTTTCATAATAA
33791787 ATAACTTACATAATTGATCATAATCCAAC
65 ATAACTTACATAATTGATCATAATCCAAC
* *
33791816 ACTTACATAA-TTCACAACTTACATAA--TATTCATAATACATAACTTACATAATTTTCATAATA
1 ACTTACATAATTTCACAACTTACATAACTTA-T-ACAATACACAACTTACATAATTTTCATAATA
33791878 AATAACTTACATAAT
64 AATAACTTACATAAT
33791893 ACATAACTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
90 2 0.03
91 1 0.01
92 57 0.81
94 10 0.14
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (93 bp):
ACTTACATAATTTCACAACTTACATAACTTATACAATACACAACTTACATAATTTTCATAATAAA
TAACTTACATAATTGATCATAATCCAAC
Found at i:33791859 original size:25 final size:25
Alignment explanation
Indices: 33791821--33791893 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
33791811 CCAACACTTA
* *
33791821 CATAATTCACAACTTACATAATATT
1 CATAATACATAACTTACATAATATT
*
33791846 CATAATACATAACTTACATAATTTT
1 CATAATACATAACTTACATAATATT
*
33791871 CATAATAAATAACTTACATAATA
1 CATAATACATAACTTACATAATA
33791894 CATAACTTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (25 bp):
CATAATACATAACTTACATAATATT
Found at i:33791861 original size:41 final size:41
Alignment explanation
Indices: 33791496--33791906 Score: 286
Period size: 41 Copynumber: 9.9 Consensus size: 41
33791486 TAACTTACAC
* * * *
33791496 AACTTACATAATTTTCATAACCTACATAACTTATACAATACAC
1 AACTTACATAATTTTCATAA--TACATAACTTACATAATTCAT
33791539 AACTTACATAATTTTCATAATACATAACTTACATAA-T-ATT
1 AACTTACATAATTTTCATAATACATAACTTACATAATTCA-T
*
33791579 GAACTTACATAATTTTCGTAATACATAACTTACATAA-T-ATT
1 -AACTTACATAATTTTCATAATACATAACTTACATAATTCA-T
*
33791620 GAACTTACATAATTTTCAAAATACATAACTTACATAA-T-ATT
1 -AACTTACATAATTTTCATAATACATAACTTACATAATTCA-T
* * *
33791661 GAACGTACATAATTTTCATAATACATAAGTTACTTAATTTTCAT
1 -AACTTACATAATTTTCATAATACATAACTTACATAA--TTCAT
* * * * * *
33791705 AA--TAAAAAACTTACATAACTTACATAATTTTCATAACTTACAT
1 AACTTACATAATTTTCATAA--TACATAACTTACATAA-TT-CAT
* * *** *** * * *
33791748 AACTTATACAATACACAGCTTACATAATTTTCATAATACAT
1 AACTTACATAATTTTCATAATACATAACTTACATAATTCAT
* * *
33791789 AACTTACATAATTGATCATAATCCA-ACACTTACATAATTCAC
1 AACTTACATAATT-TTCATAATACATA-ACTTACATAATTCAT
*
33791831 AACTTACATAATATTCATAATACATAACTTACATAATTTTCAT
1 AACTTACATAATTTTCATAATACATAACTTACATAA--TTCAT
* * *
33791874 AA--TAAATAACTTACATAATACATAACTTACATA
1 AACTTACATAATTTTCATAATACATAACTTACATA
33791907 GCTTAATTAT
Statistics
Matches: 303, Mismatches: 49, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.00
41 197 0.65
42 32 0.11
43 62 0.20
44 2 0.01
45 9 0.03
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (41 bp):
AACTTACATAATTTTCATAATACATAACTTACATAATTCAT
Found at i:33797514 original size:87 final size:87
Alignment explanation
Indices: 33797336--33797494 Score: 207
Period size: 87 Copynumber: 1.9 Consensus size: 87
33797326 ACAGTTGAGG
* *
33797336 TTCAAAGGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAAGCGACAGTGAGGGAAGCAGAG
1 TTCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAAGCGACAGTGAGAGAAGCAGAG
* **
33797401 GCTGCAGCAAGAGAAGCAGAGG
66 GCAGCAGCAAGAGAAGCAGAAC
* * * *
33797423 TTCAAAAGAAATATGAAGAGCTCCAGCTACAACTTAAAGCAGATGCGGCA-TCGAGAGAAGCAGA
1 TTCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAAGCGACAGT-GAGAGAAGCAGA
33797487 -GCAG-AGCA
65 GGCAGCAGCA
33797495 GAAAGTACGA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
85 4 0.06
86 4 0.06
87 56 0.88
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (87 bp):
TTCAAAAGAAATATGAAGAACTCCAACTACAACTTAAAGCAGAAGCGACAGTGAGAGAAGCAGAG
GCAGCAGCAAGAGAAGCAGAAC
Found at i:33799976 original size:413 final size:413
Alignment explanation
Indices: 33799209--33800038 Score: 1561
Period size: 413 Copynumber: 2.0 Consensus size: 413
33799199 TATGTTGGGA
* * *
33799209 GTTTTGACTACTCCATTGTTCTCTAACCTGTTAGAACAAGTGTTAGAACAACATTTGTGTTACTA
1 GTTTTGACTACTCCATTGTTCTATAACATGTTAGAACAAGTGATAGAACAACATTTGTGTTACTA
**
33799274 TAAAAACTTGTTGATTGGCATGCTTGACAGTATATGGGCCTCGAGTGCATCTTAATAAACCAACA
66 TAAAAACTCATTGATTGGCATGCTTGACAGTATATGGGCCTCGAGTGCATCTTAATAAACCAACA
33799339 AAACATTTTGTACGCAATATTTTAGAGCTATCAACACCATCATACATATCTTGAAGAAGAAGCAT
131 AAACATTTTGTACGCAATATTTTAGAGCTATCAACACCATCATACATATCTTGAAGAAGAAGCAT
* *
33799404 GGAAAGTTTAAATTATTTGGTTTACTAAAGCTTATCCTTATCTTATCGGATAAGGGCACTTTATC
196 AGAAAGTTTAAATTATTTGGTTTACTAAAGCTTATCATTATCTTATCGGATAAGGGCACTTTATC
33799469 AGCCATGAGATACCTGATTATGATGTTGTTTATGATATTATTGTCAAGATAATTATTTAAATAAA
261 AGCCATGAGATACCTGATTATGATGTTGTTTATGATATTATTGTCAAGATAATTATTTAAATAAA
* *
33799534 ATCAACGTTTAAATTAGTGATAAGTTCTTATCTTAATCAACGTTGGAGAATAGTTGTAATAGCTA
326 ATCAACGTTTAAATTAGTGATAAGTTCTTATCTTAATCAACGTTGGAAAATAGCTGTAATAGCTA
33799599 GCTGATCAACTTCCTCATTAGTC
391 GCTGATCAACTTCCTCATTAGTC
33799622 GTTTTGACTACTCCATTGTTCTATAACATGTTAGAACAAGTGATAGAACAACATTTGTGTTACTA
1 GTTTTGACTACTCCATTGTTCTATAACATGTTAGAACAAGTGATAGAACAACATTTGTGTTACTA
*
33799687 TCAAAACTCATTGATTGGCATGCTTGACAGTATATGGGCCTCGAGTGCATCTTAATAAACCAACA
66 TAAAAACTCATTGATTGGCATGCTTGACAGTATATGGGCCTCGAGTGCATCTTAATAAACCAACA
*
33799752 AAACATTTTGTATGCAATATTTTAGAGCTATCAACACCATCATACATATCTTGAAGAAGAAGCAT
131 AAACATTTTGTACGCAATATTTTAGAGCTATCAACACCATCATACATATCTTGAAGAAGAAGCAT
33799817 AGAAAGTTTAAATTATTTGGTTTACTAAAGCTTATCATTATCTTATCGGATAAGGGCACTTTATC
196 AGAAAGTTTAAATTATTTGGTTTACTAAAGCTTATCATTATCTTATCGGATAAGGGCACTTTATC
33799882 AGCCATGAGATACCTGATTATGATGTTGTTTATGATATTATTGTCAAGATAATTATTTAAATAAA
261 AGCCATGAGATACCTGATTATGATGTTGTTTATGATATTATTGTCAAGATAATTATTTAAATAAA
33799947 ATCAACGTTTAAATTAGTGATAAGTTCTTATCTTAATCAACGTTGGAAAATAGCTGTAATAGCTA
326 ATCAACGTTTAAATTAGTGATAAGTTCTTATCTTAATCAACGTTGGAAAATAGCTGTAATAGCTA
33800012 GCTGATCAACTTCCTCATTAGTC
391 GCTGATCAACTTCCTCATTAGTC
33800035 GTTT
1 GTTT
33800039 GGGGTGTGTG
Statistics
Matches: 406, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
413 406 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (413 bp):
GTTTTGACTACTCCATTGTTCTATAACATGTTAGAACAAGTGATAGAACAACATTTGTGTTACTA
TAAAAACTCATTGATTGGCATGCTTGACAGTATATGGGCCTCGAGTGCATCTTAATAAACCAACA
AAACATTTTGTACGCAATATTTTAGAGCTATCAACACCATCATACATATCTTGAAGAAGAAGCAT
AGAAAGTTTAAATTATTTGGTTTACTAAAGCTTATCATTATCTTATCGGATAAGGGCACTTTATC
AGCCATGAGATACCTGATTATGATGTTGTTTATGATATTATTGTCAAGATAATTATTTAAATAAA
ATCAACGTTTAAATTAGTGATAAGTTCTTATCTTAATCAACGTTGGAAAATAGCTGTAATAGCTA
GCTGATCAACTTCCTCATTAGTC
Found at i:33804790 original size:60 final size:60
Alignment explanation
Indices: 33804716--33804832 Score: 216
Period size: 60 Copynumber: 1.9 Consensus size: 60
33804706 ATACTAAACT
*
33804716 AAACACAACAATTTATAACATAATCTTAAATTACTAATAAATTAATTTTAAAATAATAAC
1 AAACACAACAATTTATAACATAATCTTAAATTACTAACAAATTAATTTTAAAATAATAAC
*
33804776 AAACACAACCATTTATAACATAATCTTAAATTACTAACAAATTAATTTTAAAATAAT
1 AAACACAACAATTTATAACATAATCTTAAATTACTAACAAATTAATTTTAAAATAAT
33804833 TATAAAAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCTTAAATTACTAACAAATTAATTTTAAAATAATAAC
Found at i:33807056 original size:24 final size:24
Alignment explanation
Indices: 33807003--33807056 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
33806993 CTATAGGCCC
*
33807003 ACACCTCCAAATGTACATCTGGTT
1 ACACCTCCAAATGTACATCTAGTT
** * *
33807027 GTACCTCCGAATGTACATTTAGTT
1 ACACCTCCAAATGTACATCTAGTT
33807051 ACACCT
1 ACACCT
33807057 TTGGCTGTAC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (24 bp):
ACACCTCCAAATGTACATCTAGTT
Found at i:33811300 original size:18 final size:19
Alignment explanation
Indices: 33811274--33811333 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 19
33811264 TCGCTCCCCC
33811274 TTCTTCCTCACCTACATCT
1 TTCTTCCTCACCTACATCT
*
33811293 TT-TTCCTCGA-CTAC-CCT
1 TTCTTCCTC-ACCTACATCT
33811310 TTCTTCCTCACCTACATC-
1 TTCTTCCTCACCTACATCT
33811328 TTCTTC
1 TTCTTC
33811334 TTCTGTCACA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 5 0.14
18 26 0.74
19 4 0.11
ACGTcount: A:0.13, C:0.42, G:0.02, T:0.43
Consensus pattern (19 bp):
TTCTTCCTCACCTACATCT
Found at i:33819756 original size:11 final size:11
Alignment explanation
Indices: 33819737--33819768 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
33819727 GAGTTATTGT
*
33819737 GTGCATTTGAG
1 GTGCCTTTGAG
33819748 GTGCCTTTGAG
1 GTGCCTTTGAG
33819759 GTGCCTTTGA
1 GTGCCTTTGA
33819769 ATGGCATATT
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:0.12, C:0.16, G:0.34, T:0.38
Consensus pattern (11 bp):
GTGCCTTTGAG
Found at i:33820384 original size:21 final size:22
Alignment explanation
Indices: 33820351--33820393 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
33820341 ATGAATACGG
* *
33820351 GGTATTAGTGTTAC-ATTTAGT
1 GGTATCAGAGTTACGATTTAGT
33820372 GGTATCAGAGTTACGATTTAGT
1 GGTATCAGAGTTACGATTTAGT
33820394 CAGTTTTCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.42
Consensus pattern (22 bp):
GGTATCAGAGTTACGATTTAGT
Found at i:33824373 original size:22 final size:21
Alignment explanation
Indices: 33824341--33824404 Score: 92
Period size: 22 Copynumber: 3.0 Consensus size: 21
33824331 TTGGTATTTC
33824341 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
33824362 GGAAGTTGGTACGAAATGGTAT
1 GGAA-TTGGTACGAAATGGTAT
* *
33824384 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
33824405 ATGGTTCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.34, T:0.31
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:33825243 original size:31 final size:32
Alignment explanation
Indices: 33825198--33825264 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 32
33825188 ACATGCATGC
*
33825198 ACCTTGCTAAAATGAATCTCCA-A-ATTCGGCTA
1 ACCTTGCTAAAATG-ATC-CCACACATTCGGCCA
*
33825230 ACCTTG-TTAAATGATCCCACACATTCGGCCA
1 ACCTTGCTAAAATGATCCCACACATTCGGCCA
33825261 ACCT
1 ACCT
33825265 ATATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 3 0.10
30 4 0.13
31 18 0.58
32 6 0.19
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (32 bp):
ACCTTGCTAAAATGATCCCACACATTCGGCCA
Found at i:33825596 original size:30 final size:30
Alignment explanation
Indices: 33825538--33825596 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
33825528 TTGAAAATGT
* *
33825538 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
1 TTGAGCTGAAATGGAGCTAATTCGAGCTCA
*
33825568 TTGAGCTGAAATGGAAGTTAATTC-AGCTC
1 TTGAGCTGAAATGG-AGCTAATTCGAGCTC
33825597 GTATTAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGAGCTGAAATGGAGCTAATTCGAGCTCA
Found at i:33829185 original size:25 final size:22
Alignment explanation
Indices: 33829132--33829175 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
33829122 CATATTAAAG
*
33829132 TGTAGTTTAACCACCAATGGTT
1 TGTAGATTAACCACCAATGGTT
*
33829154 TGTAGATTAACTACCAATGGTT
1 TGTAGATTAACCACCAATGGTT
33829176 GTGGATAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (22 bp):
TGTAGATTAACCACCAATGGTT
Found at i:33836781 original size:19 final size:19
Alignment explanation
Indices: 33836757--33836800 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
33836747 TATTTATTTT
*
33836757 TTTAATTAGAATCGAAAAG
1 TTTAATTAGAATAGAAAAG
33836776 TTTAATTAGAATAGAAAAG
1 TTTAATTAGAATAGAAAAG
*
33836795 TATAAT
1 TTTAAT
33836801 AAAAGTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (19 bp):
TTTAATTAGAATAGAAAAG
Found at i:33837831 original size:26 final size:27
Alignment explanation
Indices: 33837726--33837830 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
33837716 AAAATGACCG
*
33837726 TAGGGTAAAATGACTGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* * * *
33837753 TAGGGAAAAATAACCGAAATACCCTCG
1 TAGGGTAAAATGACCGAAATACCCCCA
*
33837780 TAGGGTAGAAT-ACCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
33837806 TAGGGTAAAATGATCGTAATACCCC
1 TAGGGTAAAATGACCGAAATACCCC
33837831 AGTGTGGGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 23 0.35
27 42 0.65
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (27 bp):
TAGGGTAAAATGACCGAAATACCCCCA
Found at i:33837859 original size:21 final size:21
Alignment explanation
Indices: 33837835--33837878 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
33837825 TACCCCAGTG
* *
33837835 TGGGTTGTTCGTGCTATAAAT
1 TGGGATGTTCGTGATATAAAT
33837856 TGGGATGTTCGTGATATAAAT
1 TGGGATGTTCGTGATATAAAT
33837877 TG
1 TG
33837879 AATTGTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.41
Consensus pattern (21 bp):
TGGGATGTTCGTGATATAAAT
Found at i:33840704 original size:25 final size:26
Alignment explanation
Indices: 33840654--33840704 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
33840644 TTTAAAACAC
*
33840654 AAAAATAAATACCAAAATGGGTTTAT
1 AAAAATAAATACCAAAATGGGATTAT
33840680 AAAAATAAATACCAAAAT-GGATTAT
1 AAAAATAAATACCAAAATGGGATTAT
33840705 TTGCTTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.25
Consensus pattern (26 bp):
AAAAATAAATACCAAAATGGGATTAT
Found at i:33847078 original size:18 final size:19
Alignment explanation
Indices: 33847040--33847078 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33847030 AAAAATATTG
*
33847040 TATTTAATTTTTTTCAATA
1 TATTTAATTATTTTCAATA
33847059 TATTTAATTATTTT-AATA
1 TATTTAATTATTTTCAATA
33847077 TA
1 TA
33847079 AGCTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTAATTATTTTCAATA
Found at i:33848209 original size:26 final size:26
Alignment explanation
Indices: 33848180--33848260 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
33848170 TATTTTTTAG
*
33848180 TCAATTCAATTGGTCCATATCGATTC
1 TCAATTCAATTGATCCATATCGATTC
*** * *
33848206 TCAATTCAACCAATCCATATCGACTA
1 TCAATTCAATTGATCCATATCGATTC
* *
33848232 TCAATCCAATTGATCCATATCGGTTC
1 TCAATTCAATTGATCCATATCGATTC
33848258 TCA
1 TCA
33848261 GCCCAACTAA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (26 bp):
TCAATTCAATTGATCCATATCGATTC
Found at i:33850781 original size:25 final size:25
Alignment explanation
Indices: 33850753--33850864 Score: 179
Period size: 25 Copynumber: 4.5 Consensus size: 25
33850743 CTCCAAGTTG
*
33850753 AATAACGGAAAGCTCATGCGAGCTA
1 AATAACGGGAAGCTCATGCGAGCTA
33850778 AATAACGGGAAGCTCATGCGAGCTA
1 AATAACGGGAAGCTCATGCGAGCTA
*
33850803 AATAACGGGAAGCTCATGCGAGTTA
1 AATAACGGGAAGCTCATGCGAGCTA
* *
33850828 AATAACAGGAAGCTCATGCGAGCTT
1 AATAACGGGAAGCTCATGCGAGCTA
*
33850853 TATAACGGGAAG
1 AATAACGGGAAG
33850865 ATATGCAAGC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 80 1.00
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.18
Consensus pattern (25 bp):
AATAACGGGAAGCTCATGCGAGCTA
Found at i:33850789 original size:50 final size:50
Alignment explanation
Indices: 33850731--33850844 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 50
33850721 ACAAGATGTA
* * *
33850731 AACGGGAAGCTCCTCCAAGTTGAATAACGGAAAGCTCATGCGAGCTAAAT
1 AACGGGAAGCTCATCCAAGCTAAATAACGGAAAGCTCATGCGAGCTAAAT
* * * *
33850781 AACGGGAAGCTCATGCGAGCTAAATAACGGGAAGCTCATGCGAGTTAAAT
1 AACGGGAAGCTCATCCAAGCTAAATAACGGAAAGCTCATGCGAGCTAAAT
*
33850831 AACAGGAAGCTCAT
1 AACGGGAAGCTCAT
33850845 GCGAGCTTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (50 bp):
AACGGGAAGCTCATCCAAGCTAAATAACGGAAAGCTCATGCGAGCTAAAT
Found at i:33852039 original size:15 final size:15
Alignment explanation
Indices: 33852019--33852055 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
33852009 ATCGTTCTTT
33852019 TATTTTTCATTTATA
1 TATTTTTCATTTATA
* *
33852034 TATTTTTCATTTTTT
1 TATTTTTCATTTATA
33852049 TATTTTT
1 TATTTTT
33852056 TCTCTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTTTCATTTATA
Found at i:33852699 original size:19 final size:19
Alignment explanation
Indices: 33852671--33852729 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
33852661 TTTTTTATAT
*
33852671 TATTAATATTGTTTATTTA
1 TATTATTATTGTTTATTTA
33852690 TATTATTATTGTATTA-TTA
1 TATTATTATTGT-TTATTTA
*
33852709 TTAGTTTTTATT-TTTATTTA
1 -TA-TTATTATTGTTTATTTA
33852729 T
1 T
33852730 TATATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 18 0.53
20 9 0.26
21 7 0.21
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TATTATTATTGTTTATTTA
Found at i:33852719 original size:33 final size:34
Alignment explanation
Indices: 33852668--33852747 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
33852658 CTATTTTTTA
*
33852668 TATTATTAATATTGTTTATTTATA-TTATTAT-T
1 TATTATTATTATTGTTTATTTATATTTATTATAT
*
33852700 GTATTATTATTAGTT-TTTATTTTTATTTATTATAT
1 -TATTATTATTA-TTGTTTATTTATATTTATTATAT
33852735 TATATATTATTAT
1 TAT-TATTATTAT
33852748 ACCTATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
33 19 0.46
34 13 0.32
35 9 0.22
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (34 bp):
TATTATTATTATTGTTTATTTATATTTATTATAT
Found at i:33852742 original size:22 final size:21
Alignment explanation
Indices: 33852659--33852747 Score: 76
Period size: 22 Copynumber: 4.1 Consensus size: 21
33852649 TTTGTTATTC
* *
33852659 TATTTTTTATATTATTAATAT
1 TATTTATTATATTATTATTAT
*
33852680 TGTTTATTTATATTATTATTGTAT
1 TATTTA-TTATATTATTA-T-TAT
*
33852704 TA-TTATTAGT-TT-TTATTTT
1 TATTTATTA-TATTATTATTAT
33852723 TATTTATTATATTATATATTAT
1 TATTTATTATATTAT-TATTAT
33852745 TAT
1 TAT
33852748 ACCTATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
19 5 0.09
20 9 0.17
21 8 0.15
22 24 0.44
23 4 0.07
24 4 0.07
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (21 bp):
TATTTATTATATTATTATTAT
Found at i:33858920 original size:10 final size:10
Alignment explanation
Indices: 33858905--33858937 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
33858895 TTAAAATATT
33858905 TATTTTTTAA
1 TATTTTTTAA
33858915 TATTTTATT-A
1 TATTTT-TTAA
33858925 TATTTTTTAA
1 TATTTTTTAA
33858935 TAT
1 TAT
33858938 CTTAATTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:33858921 original size:15 final size:16
Alignment explanation
Indices: 33858890--33858923 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33858880 TGTCATATGA
33858890 ATTTTTTAAAATATTT
1 ATTTTTTAAAATATTT
*
33858906 ATTTTTTAATAT-TTT
1 ATTTTTTAAAATATTT
33858921 ATT
1 ATT
33858924 ATATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTTAAAATATTT
Found at i:33861474 original size:71 final size:68
Alignment explanation
Indices: 33861384--33861539 Score: 183
Period size: 71 Copynumber: 2.3 Consensus size: 68
33861374 ACTTAAATCA
* *
33861384 TAGAAAG-AAA-CTTTTGAAAAATCAAAGAACG-TTAGAAAAAGAAGTTTTTGAGAAACCAAAGA
1 TAGAAAGAAAAGCTTTTGAAAAACCAAAGAACGTTTA-AAAAAGAAGCTTTTGAGAAA-C--AGA
33861446 AGAGCAT
62 AGAGCAT
* * * *
33861453 TAGAAAGAAAAGCTTTTGAAAAACCAGAGAGCGTTTAAAAGAGAAGCTTTTGAGAAACTGAAGAG
1 TAGAAAGAAAAGCTTTTGAAAAACCAAAGAACGTTTAAAAAAGAAGCTTTTGAGAAACAGAAGAG
33861518 CAT
66 CAT
* *
33861521 TTGAAAGACAAGCTTTTGA
1 TAGAAAGAAAAGCTTTTGA
33861540 GAGAAGTAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
68 26 0.34
69 7 0.09
70 4 0.05
71 36 0.47
72 3 0.04
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (68 bp):
TAGAAAGAAAAGCTTTTGAAAAACCAAAGAACGTTTAAAAAAGAAGCTTTTGAGAAACAGAAGAG
CAT
Found at i:33861540 original size:34 final size:33
Alignment explanation
Indices: 33861444--33861541 Score: 115
Period size: 34 Copynumber: 2.9 Consensus size: 33
33861434 AGAAACCAAA
* *
33861444 GAAGAGCATTAGAAAGAAAAGCTTTTGAAAAAC
1 GAAGAGCATTTGAAAGAAAAGCTTTTGAGAAAC
* * * *
33861477 CAGAGAGCGTTTAAAAGAGAAGCTTTTGAGAAAC
1 GA-AGAGCATTTGAAAGAAAAGCTTTTGAGAAAC
*
33861511 TGAAGAGCATTTGAAAGACAAGCTTTTGAGA
1 -GAAGAGCATTTGAAAGAAAAGCTTTTGAGA
33861542 GAAGTAAAAC
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
33 1 0.02
34 51 0.96
35 1 0.02
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.21
Consensus pattern (33 bp):
GAAGAGCATTTGAAAGAAAAGCTTTTGAGAAAC
Found at i:33863838 original size:14 final size:14
Alignment explanation
Indices: 33863819--33863858 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
33863809 TTGATTGCCA
33863819 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
*
33863833 GTAAAATGATTTCC
1 GTAAAATGTTTTCC
*
33863847 GGAAAATGTTTT
1 GTAAAATGTTTT
33863859 ACTTTTCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:33863995 original size:20 final size:20
Alignment explanation
Indices: 33863970--33864022 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
33863960 TGAAAAAGTT
33863970 ATTTTTACATATATT-AATAA
1 ATTTTTACATATATTAAAT-A
* *
33863990 ATTTTT--ATATTTTAAATT
1 ATTTTTACATATATTAAATA
33864008 ATTTTTACATATATT
1 ATTTTTACATATATT
33864023 GCAATGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 12 0.44
19 3 0.11
20 12 0.44
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTTTACATATATTAAATA
Found at i:33865039 original size:29 final size:29
Alignment explanation
Indices: 33865007--33865065 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
33864997 AAAACTTTTT
*
33865007 ATTTTTCT-CCAAAACTTTTAATCCCTCTC
1 ATTTTCCTCCCAAAACTTTTAATCCC-CTC
*
33865036 ATTTTCCTCCCAAAACTTTTACTCCCCTC
1 ATTTTCCTCCCAAAACTTTTAATCCCCTC
33865065 A
1 A
33865066 CATCCTAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.41
Consensus pattern (29 bp):
ATTTTCCTCCCAAAACTTTTAATCCCCTC
Found at i:33866449 original size:14 final size:14
Alignment explanation
Indices: 33866430--33866469 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
33866420 TTGATTGCCA
33866430 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
33866444 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
33866458 GGAAAATGTTTT
1 GTAAAATGTTTT
33866470 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:33866478 original size:20 final size:20
Alignment explanation
Indices: 33866453--33866492 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33866443 CGTAAAATGA
*
33866453 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
33866473 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
33866493 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:33866482 original size:34 final size:35
Alignment explanation
Indices: 33866438--33866504 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
33866428 CAGTAAAATG
*
33866438 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
33866472 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
33866505 TTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:33867265 original size:11 final size:11
Alignment explanation
Indices: 33867249--33867273 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33867239 GTCTACAGGT
33867249 ATTGAATCTTC
1 ATTGAATCTTC
33867260 ATTGAATCTTC
1 ATTGAATCTTC
33867271 ATT
1 ATT
33867274 ACCATCATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (11 bp):
ATTGAATCTTC
Found at i:33867890 original size:35 final size:36
Alignment explanation
Indices: 33867844--33867912 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
33867834 TGTCAATCAT
33867844 TTCAATATCCAACAACCTTAAAACATAAT-AATAAA
1 TTCAATATCCAACAACCTTAAAACATAATCAATAAA
**
33867879 TTCAATATCCAACAAGGTTAAAACATAATCAATA
1 TTCAATATCCAACAACCTTAAAACATAATCAATA
33867913 TCTAACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (36 bp):
TTCAATATCCAACAACCTTAAAACATAATCAATAAA
Found at i:33867910 original size:27 final size:28
Alignment explanation
Indices: 33867880--33867948 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
33867870 AATAATAAAT
*
33867880 TCAATATCCAACAAGGTT-AAAACATA-A
1 TCAATATCCAACAA-ATTCAAAACATATA
* *
33867907 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAACAAATTCAAAACATATA
*
33867935 TCAAAATCCAACAA
1 TCAATATCCAACAA
33867949 TCTAAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.06
27 20 0.57
28 13 0.37
ACGTcount: A:0.52, C:0.20, G:0.04, T:0.23
Consensus pattern (28 bp):
TCAATATCCAACAAATTCAAAACATATA
Found at i:33870393 original size:28 final size:28
Alignment explanation
Indices: 33870349--33870405 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
33870339 TCTCTAGCAT
* *
33870349 CAAATACTAACAGATCATTAAGTGCTAA
1 CAAATACTAACAAATCAGTAAGTGCTAA
33870377 CAAATACTAACAAATCAGTAAGTGCTAA
1 CAAATACTAACAAATCAGTAAGTGCTAA
33870405 C
1 C
33870406 TAGAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (28 bp):
CAAATACTAACAAATCAGTAAGTGCTAA
Found at i:33872834 original size:5 final size:5
Alignment explanation
Indices: 33872799--33872862 Score: 89
Period size: 5 Copynumber: 13.2 Consensus size: 5
33872789 TTTTTATGTT
*
33872799 TTATA -TATA TTATT TTAT- TATATA TTA-A TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
33872847 TTATA TTATA TTATA T
1 TTATA TTATA TTATA T
33872863 AAACTAAATA
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
4 9 0.17
5 44 0.81
6 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:33873090 original size:22 final size:22
Alignment explanation
Indices: 33873051--33873098 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
33873041 AAATAAAAGA
*
33873051 AAAAGAAACAAAGGAAGA-ACAG
1 AAAAGAAACAAAGAAAGAGAC-G
*
33873073 AAAAGAAACAGAGAAAGAGACG
1 AAAAGAAACAAAGAAAGAGACG
33873095 AAAA
1 AAAA
33873099 CAGGGGAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (22 bp):
AAAAGAAACAAAGAAAGAGACG
Found at i:33873109 original size:30 final size:29
Alignment explanation
Indices: 33873075--33873135 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
33873065 AAGAACAGAA
* * *
33873075 AAGAAACAGAGAAAGAGACGAAAACAGGGG
1 AAGAAAAAGAGAAAGAAAAGAAAA-AGGGG
*
33873105 AAGAAAAAGGGAAAGAAAAGAAAAAGGGG
1 AAGAAAAAGAGAAAGAAAAGAAAAAGGGG
33873134 AA
1 AA
33873136 ATTCAGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.62, C:0.05, G:0.33, T:0.00
Consensus pattern (29 bp):
AAGAAAAAGAGAAAGAAAAGAAAAAGGGG
Found at i:33877715 original size:45 final size:45
Alignment explanation
Indices: 33877651--33877736 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
33877641 CTCGGTTGAT
* *
33877651 TCAGCACATAGTAACCACCTTATTAATCAATGATGTCCGGTGGAA
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTGGAA
*
33877696 TCAGCACATAGCAACCACCTTACTAATCAATGATGTTCGGT
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGT
33877737 TCACATAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (45 bp):
TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTGGAA
Found at i:33882505 original size:23 final size:23
Alignment explanation
Indices: 33882475--33882550 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
33882465 ATAAGTGACA
*
33882475 CACTGATATGTAACCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
33882498 CACTGATATGTGGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
33882521 CGCTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
33882544 CACTGAT
1 CACTGAT
33882551 CAATAACACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:33882773 original size:18 final size:17
Alignment explanation
Indices: 33882747--33882785 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
33882737 ATTTTCCTTC
33882747 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
33882764 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
33882782 CACA
1 CACA
33882786 AGTTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:33882862 original size:22 final size:22
Alignment explanation
Indices: 33882837--33882885 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
33882827 ACAATTTATA
*
33882837 TTATATTATATTTAGAGGTATT
1 TTATATTATATTTACAGGTATT
*
33882859 TTATTTTATATTTACAGGTATT
1 TTATATTATATTTACAGGTATT
33882881 TTATA
1 TTATA
33882886 CCATAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (22 bp):
TTATATTATATTTACAGGTATT
Found at i:33883596 original size:12 final size:12
Alignment explanation
Indices: 33883579--33883604 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33883569 TAATGTAAGA
33883579 GAGCCAAAATTT
1 GAGCCAAAATTT
33883591 GAGCCAAAATTT
1 GAGCCAAAATTT
33883603 GA
1 GA
33883605 CGGGCAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (12 bp):
GAGCCAAAATTT
Found at i:33885411 original size:49 final size:49
Alignment explanation
Indices: 33885237--33885550 Score: 482
Period size: 49 Copynumber: 6.6 Consensus size: 49
33885227 GCCTTCGGGA
* * * * *
33885237 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33885284 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33885331 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33885378 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33885427 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33885476 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33885525 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
33885551 CACAATTATC
Statistics
Matches: 249, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 94 0.38
49 154 0.62
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33889284 original size:23 final size:23
Alignment explanation
Indices: 33889253--33889325 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
33889243 ATAAGTGCCA
* *
33889253 CACTGATATGTAACCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
*
33889276 CACTAATATGTAGCCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
* *
33889299 CATTGAA-ATGTAGCCGAAGCTGC
1 CACT-AATATGTAGCCGAAGCTAC
33889322 CACT
1 CACT
33889326 GATCAATAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 40 0.95
24 2 0.05
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (23 bp):
CACTAATATGTAGCCGAAGCTAC
Done.