Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007214.1 Hibiscus syriacus cultivar Beakdansim tig00019074_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70539
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:4519 original size:22 final size:22
Alignment explanation
Indices: 4494--4538 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4484 CAATTTGAAG
4494 TGTTTCGAGCAAAGGTTTGTGT
1 TGTTTCGAGCAAAGGTTTGTGT
4516 TGTTTCGAGCAAAGGTTTGTGT
1 TGTTTCGAGCAAAGGTTTGTGT
4538 T
1 T
4539 CAATCGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.09, G:0.31, T:0.42
Consensus pattern (22 bp):
TGTTTCGAGCAAAGGTTTGTGT
Found at i:11617 original size:21 final size:20
Alignment explanation
Indices: 11583--11643 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
11573 CCGTTAGACA
*
11583 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
11603 GGGGAGAATCTGTA-CCCCTG
1 GGGG-GAATCTGTACCCCCTG
*
11623 GGGGGAATATGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
11643 G
1 G
11644 ACAATCTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.22
20 21 0.57
21 8 0.22
ACGTcount: A:0.18, C:0.26, G:0.38, T:0.18
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:14382 original size:67 final size:65
Alignment explanation
Indices: 14297--14465 Score: 223
Period size: 66 Copynumber: 2.5 Consensus size: 65
14287 TTGGAGCGTG
* *
14297 GGGGGAATTGGTACCCCCTCAT-AGGGAATCGGTTCCCTAATTACAATCTGATTTCGACCGTTAG
1 GGGGGAATCGGTA-CCCCT--TGAGGGAATCGGTTCCCTAATTACAATATGATTTCGACCGTTAG
14361 ACA
63 ACA
* *
14364 GGGGGAATCGGTATCCCCTTGGGGGAATCTGTTCCCTAATTACAATATGATTTCGACCGTTAGAC
1 GGGGGAATCGGTA-CCCCTTGAGGGAATCGGTTCCCTAATTACAATATGATTTCGACCGTTAGAC
14429 A
65 A
* * *
14430 GGGGGAAATCGGTACCCCTGGGGGGAATCTGTTCCC
1 GGGGG-AATCGGTACCCCTTGAGGGAATCGGTTCCC
14466 CCTGGGGGGG
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.72
67 25 0.27
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (65 bp):
GGGGGAATCGGTACCCCTTGAGGGAATCGGTTCCCTAATTACAATATGATTTCGACCGTTAGACA
Found at i:14399 original size:66 final size:66
Alignment explanation
Indices: 14320--14465 Score: 249
Period size: 66 Copynumber: 2.2 Consensus size: 66
14310 CCCCCTCATA
* * *
14320 GGGAATCGGTTCCCTAATTACAATCTGATTTCGACCGTTAGACAGGGGG-AATCGGTATCCCCTT
1 GGGAATCTGTTCCCTAATTACAATATGATTTCGACCGTTAGACAGGGGGAAATCGGTA-CCCCTG
14384 GG
65 GG
14386 GGGAATCTGTTCCCTAATTACAATATGATTTCGACCGTTAGACAGGGGGAAATCGGTACCCCTGG
1 GGGAATCTGTTCCCTAATTACAATATGATTTCGACCGTTAGACAGGGGGAAATCGGTACCCCTGG
14451 G
66 G
14452 GGGAATCTGTTCCC
1 GGGAATCTGTTCCC
14466 CCTGGGGGGG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 68 0.89
67 8 0.11
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (66 bp):
GGGAATCTGTTCCCTAATTACAATATGATTTCGACCGTTAGACAGGGGGAAATCGGTACCCCTGG
G
Found at i:14473 original size:21 final size:21
Alignment explanation
Indices: 14430--14507 Score: 99
Period size: 20 Copynumber: 3.9 Consensus size: 21
14420 CCGTTAGACA
* *
14430 GGGGGAAATCGGTA-CCCCT-
1 GGGGGGAATCTGTACCCCCTG
*
14449 GGGGGGAATCTGTTCCCCCTG
1 GGGGGGAATCTGTACCCCCTG
14470 GGGGGGAATCTGTACCCCCT-
1 GGGGGGAATCTGTACCCCCTG
*
14490 GGGGGGAATTTGTACCCC
1 GGGGGGAATCTGTACCCC
14508 TGGACAATCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
19 11 0.21
20 22 0.42
21 19 0.37
ACGTcount: A:0.15, C:0.27, G:0.37, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCTGTACCCCCTG
Found at i:14489 original size:41 final size:40
Alignment explanation
Indices: 14430--14507 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
14420 CCGTTAGACA
*
14430 GGGGGAAATCGGTACCCCTGGGGGGAATCTGTTCCCCCTG
1 GGGGGAAATCGGTACCCCTGGGGGGAATCTGTACCCCCTG
* * *
14470 GGGGGGAATCTGTACCCCCTGGGGGGAATTTGTACCCC
1 GGGGGAAATCGGTA-CCCCTGGGGGGAATCTGTACCCC
14508 TGGACAATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
40 12 0.36
41 21 0.64
ACGTcount: A:0.15, C:0.27, G:0.37, T:0.21
Consensus pattern (40 bp):
GGGGGAAATCGGTACCCCTGGGGGGAATCTGTACCCCCTG
Found at i:19455 original size:25 final size:25
Alignment explanation
Indices: 19417--19513 Score: 178
Period size: 25 Copynumber: 3.9 Consensus size: 25
19407 ATTTAGGGGA
*
19417 TTAGGG-TTGAAACCCTAATTTGTT
1 TTAGGGTTTGAAACCCTAATCTGTT
19441 TTAGGGTTTGAAACCCTAATCTGTT
1 TTAGGGTTTGAAACCCTAATCTGTT
19466 TTAGGGTTTGAAACCCTAATCTGTT
1 TTAGGGTTTGAAACCCTAATCTGTT
19491 TTAGGGTTTGAAACCCTAATCTG
1 TTAGGGTTTGAAACCCTAATCTG
19514 ATGGGTTGGG
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
24 6 0.08
25 65 0.92
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGTT
Found at i:19642 original size:3 final size:3
Alignment explanation
Indices: 19634--19689 Score: 87
Period size: 3 Copynumber: 18.3 Consensus size: 3
19624 ATTAATAAAC
19634 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT- ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT-A
19680 ATA ATA ATA A
1 ATA ATA ATA A
19690 AGAAGACCCG
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.04
3 43 0.86
4 5 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20022 original size:43 final size:44
Alignment explanation
Indices: 19957--20206 Score: 166
Period size: 43 Copynumber: 5.8 Consensus size: 44
19947 GTTCTTGGCC
*
19957 ATCTCAAGGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTT
1 ATCT-AAGG-GATGACACGGTTCCTACGTGATGAGGACTACTGGTT
* *
20003 ATCTAAGGG-TGACCCGGTTCCTACGTGATGAGGA-AATCTGG--
1 ATCTAAGGGATGACACGGTTCCTACGTGATGAGGACTA-CTGGTT
* * * * * * * **
20044 -TC-AGGGGATGACACGGCTCATACGTGATGAAGAGTTCTAGCC
1 ATCTAAGGGATGACACGGTTCCTACGTGATGAGGACTACTGGTT
* **
20086 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTT
1 ATCT-AAGG-GATGACACGGTTCCTACGTGATGAGGACTACTGGTT
* * * *
20132 ATCT-ATGGTTGACACGGCTCCTACGTGATGAGGA-GATCTGG--
1 ATCTAAGGGATGACACGGTTCCTACGTGATGAGGACTA-CTGGTT
*
20173 -TCT--GGTGATGACACGGTTCCTACATGATGAGGAC
1 ATCTAAGG-GATGACACGGTTCCTACGTGATGAGGAC
20207 GGCTGGCCAT
Statistics
Matches: 161, Mismatches: 31, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
39 5 0.03
40 53 0.33
42 2 0.01
43 57 0.35
44 3 0.02
45 7 0.04
46 34 0.21
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (44 bp):
ATCTAAGGGATGACACGGTTCCTACGTGATGAGGACTACTGGTT
Found at i:20154 original size:129 final size:130
Alignment explanation
Indices: 19874--20202 Score: 437
Period size: 129 Copynumber: 2.5 Consensus size: 130
19864 GTTCGGGTCG
* * * * * * **
19874 TCTAAGAGTGACTCGGTTCCTACGTGATGAAGACATCTGG-CCGAAGGATGACACTACTCATACA
1 TCTAAGGGTGACACGGTTCCTACGTGATGAGGAAATCTGGTCAG-GGGATGACACGGCTCATACA
* * *
19938 TGATGAAGAGTTCTTGGCCATCTCAAGGTGATAACACGGTTCCTACGTGATGAGGACTACTGGTT
65 TGATGAAGAGTTCTTAGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGTT
20003 A
130 A
* *
20004 TCTAAGGGTGACCCGGTTCCTACGTGATGAGGAAATCTGGTCAGGGGATGACACGGCTCATACGT
1 TCTAAGGGTGACACGGTTCCTACGTGATGAGGAAATCTGGTCAGGGGATGACACGGCTCATACAT
*
20069 GATGAAGAGTTC-TAGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTA
66 GATGAAGAGTTCTTAGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGTTA
* * * * * * * *
20133 TCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGTGATGACACGGTTCCTACAT
1 TCTAAGGGTGACACGGTTCCTACGTGATGAGGAAATCTGGTCAGGGGATGACACGGCTCATACAT
20198 GATGA
66 GATGA
20203 GGACGGCTGG
Statistics
Matches: 175, Mismatches: 23, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
129 108 0.62
130 65 0.37
131 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (130 bp):
TCTAAGGGTGACACGGTTCCTACGTGATGAGGAAATCTGGTCAGGGGATGACACGGCTCATACAT
GATGAAGAGTTCTTAGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGACTGGTTA
Found at i:20312 original size:28 final size:28
Alignment explanation
Indices: 20251--20312 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
20241 AAACCAAATT
20251 AAAGATTTGTTTCAAAAGAAACAAACCC
1 AAAGATTTGTTTCAAAAGAAACAAACCC
* * *
20279 AGAGATTTGTTTCAAGAA-AAATAAACTC
1 AAAGATTTGTTTCAA-AAGAAACAAACCC
20307 AAAGAT
1 AAAGAT
20313 GATATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAAACCC
Found at i:20499 original size:34 final size:36
Alignment explanation
Indices: 20450--20586 Score: 109
Period size: 37 Copynumber: 3.8 Consensus size: 36
20440 CAAAGATTAG
* *
20450 TGTTTCGAGAGAAACAAACTCAAAGA-TGTTT-TTT
1 TGTTTCAAGAAAAACAAACTCAAAGATTGTTTGTTT
* *
20484 TGTTTTAAGAAAAACATACTCAAAGACTTTGTTTGTTT
1 TGTTTCAAGAAAAACAAACTCAAAGA--TTGTTTGTTT
* * * ****
20522 TGTTTCAAGAAAAACAGATTCAAATGATGGTAAAATT
1 TGTTTCAAGAAAAACAAACTCAAA-GATTGTTTGTTT
*
20559 TGTTTCCAA-AGAAACAAACTCAAAGATT
1 TGTTT-CAAGAAAAACAAACTCAAAGATT
20587 TTTCTCAAAG
Statistics
Matches: 81, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
34 22 0.27
36 3 0.04
37 27 0.33
38 27 0.33
39 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.34
Consensus pattern (36 bp):
TGTTTCAAGAAAAACAAACTCAAAGATTGTTTGTTT
Found at i:20532 original size:38 final size:34
Alignment explanation
Indices: 20450--20589 Score: 104
Period size: 38 Copynumber: 3.9 Consensus size: 34
20440 CAAAGATTAG
* *
20450 TGTTTCGAGAGAAACAAACTCAAAGATGTTTTTT
1 TGTTTCAAGAAAAACAAACTCAAAGATGTTTTTT
* *
20484 TGTTTTAAGAAAAACATACTCAAAGACTTTGTTTGTTT
1 TGTTTCAAGAAAAACAAACTCAAAGA---TGTTT-TTT
* * ***
20522 TGTTTCAAGAAAAACAGATTCAAATGATGGTAAAATT
1 TGTTTCAAGAAAAACAAACTCAAA-GAT-GT-TTTTT
*
20559 TGTTTCCAA-AGAAACAAACTCAAAGAT-TTTT
1 TGTTT-CAAGAAAAACAAACTCAAAGATGTTTT
20590 CTCAAAGAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
34 23 0.28
36 4 0.05
37 26 0.32
38 27 0.33
39 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (34 bp):
TGTTTCAAGAAAAACAAACTCAAAGATGTTTTTT
Found at i:22093 original size:34 final size:36
Alignment explanation
Indices: 22044--22180 Score: 109
Period size: 37 Copynumber: 3.8 Consensus size: 36
22034 CAAAGATTAG
* *
22044 TGTTTCGAGAGAAACAAACTCAAAGA-TGTTT-TTT
1 TGTTTCAAGAAAAACAAACTCAAAGATTGTTTGTTT
* *
22078 TGTTTTAAGAAAAACATACTCAAAGACTTTGTTTGTTT
1 TGTTTCAAGAAAAACAAACTCAAAGA--TTGTTTGTTT
* * * ****
22116 TGTTTCAAGAAAAACAGATTCAAATGATGGTAAAATT
1 TGTTTCAAGAAAAACAAACTCAAA-GATTGTTTGTTT
*
22153 TGTTTCCAA-AGAAACAAACTCAAAGATT
1 TGTTT-CAAGAAAAACAAACTCAAAGATT
22181 TTTCTCAAAG
Statistics
Matches: 81, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
34 22 0.27
36 3 0.04
37 27 0.33
38 27 0.33
39 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.34
Consensus pattern (36 bp):
TGTTTCAAGAAAAACAAACTCAAAGATTGTTTGTTT
Found at i:22126 original size:38 final size:34
Alignment explanation
Indices: 22044--22183 Score: 104
Period size: 38 Copynumber: 3.9 Consensus size: 34
22034 CAAAGATTAG
* *
22044 TGTTTCGAGAGAAACAAACTCAAAGATGTTTTTT
1 TGTTTCAAGAAAAACAAACTCAAAGATGTTTTTT
* *
22078 TGTTTTAAGAAAAACATACTCAAAGACTTTGTTTGTTT
1 TGTTTCAAGAAAAACAAACTCAAAGA---TGTTT-TTT
* * ***
22116 TGTTTCAAGAAAAACAGATTCAAATGATGGTAAAATT
1 TGTTTCAAGAAAAACAAACTCAAA-GAT-GT-TTTTT
*
22153 TGTTTCCAA-AGAAACAAACTCAAAGAT-TTTT
1 TGTTT-CAAGAAAAACAAACTCAAAGATGTTTT
22184 CTCAAAGAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
34 23 0.28
36 4 0.05
37 26 0.32
38 27 0.33
39 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (34 bp):
TGTTTCAAGAAAAACAAACTCAAAGATGTTTTTT
Found at i:22463 original size:15 final size:15
Alignment explanation
Indices: 22420--22457 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
22410 AAGATGATCT
*
22420 TGTTTTAAGAGAAAA
1 TGTTTCAAGAGAAAA
22435 TGTTTCAAGAGAAAA
1 TGTTTCAAGAGAAAA
22450 TGTTTCAA
1 TGTTTCAA
22458 ATGAAACGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.34
Consensus pattern (15 bp):
TGTTTCAAGAGAAAA
Found at i:22619 original size:40 final size:40
Alignment explanation
Indices: 22559--22638 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
22549 GTTTTAATAA
22559 AAACAATCTCAAAGGTGGGTAGTTTT-AAAAGAAATTGTCT
1 AAACAATCTCAAAGGTGGGTA-TTTTCAAAAGAAATTGTCT
* * *
22599 AAACGATCTCAAATGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
22639 CGAGAGACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (40 bp):
AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
Found at i:22724 original size:65 final size:64
Alignment explanation
Indices: 22620--22745 Score: 189
Period size: 65 Copynumber: 2.0 Consensus size: 64
22610 AATGTGGGTA
* * *
22620 TTTTCAAAAGAAGTTGTCTCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTT
1 TTTTCAAAAGAAATTGTCTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTTT
* * *
22684 TTTTCAAAAGAAATTGTCTTTAAGAGATAAAATTTTGTTTCAAAAGAAACAGACTCAAAGAT
1 TTTTCAAAAGAAATTGTC-TCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGAT
22746 GGATCCCATC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
64 17 0.31
65 38 0.69
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (64 bp):
TTTTCAAAAGAAATTGTCTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTTT
Found at i:22795 original size:119 final size:121
Alignment explanation
Indices: 22642--22866 Score: 280
Period size: 120 Copynumber: 1.9 Consensus size: 121
22632 GTTGTCTCGA
* * *
22642 GAGACAAAATTTTGTTTCAAAGGAAACAAACTC-AAAGATT-TTTTTTCAAAAGAAATTGTCTTT
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAAG-TTAGTTTTTCAAAAGAAACTGTC-TC
*
22705 AAGAGATA-AA-ATTTTGTTTCAAAAGAAACAGACTCAAAGATGGATCCCATCTTAAGT
64 AAGAGAGACAACA-TTTGTTTCAAAAGAAACAGACTCAAAGATGGATCCCATCTTAAGT
* * * **
22762 GAGACCAAA-TTTGTTTCAAATGAAACAATCTCAAAAGTTAGTTTTTCATTAGAAACTGTCTCAA
1 GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAAGTTAGTTTTTCAAAAGAAACTGTCTCAA
** *
22826 GAGAGACAACATTTGTTTTTAAAGAAATAGACTCAAAGATG
66 GAGAGACAACATTTGTTTCAAAAGAAACAGACTCAAAGATG
22867 ATTTTGTTAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
119 31 0.35
120 57 0.64
121 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (121 bp):
GAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAAGTTAGTTTTTCAAAAGAAACTGTCTCAA
GAGAGACAACATTTGTTTCAAAAGAAACAGACTCAAAGATGGATCCCATCTTAAGT
Found at i:23017 original size:63 final size:65
Alignment explanation
Indices: 22967--23130 Score: 244
Period size: 67 Copynumber: 2.5 Consensus size: 65
22957 TCATTTTAAG
* *
22967 AGAAACAGATTCAAAGA-TTT-TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCA
1 AGAAACAAACTCAAAGATTTTATTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTT-CA
23030 A
65 A
* *
23031 AGAAACAAACTCAAAGATTTTTGTTTTAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAAACTCAAAGA-TTTTATTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTT-C
23096 AA
64 AA
23098 AGAAACAAACTCAAAGATTTT-TTTCAAAAGAAA
1 AGAAACAAACTCAAAGATTTTATTTCAAAAGAAA
23131 CAATCTCAAA
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
64 15 0.16
65 11 0.12
66 7 0.08
67 60 0.65
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (65 bp):
AGAAACAAACTCAAAGATTTTATTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCAA
Found at i:23033 original size:37 final size:37
Alignment explanation
Indices: 22987--23102 Score: 111
Period size: 37 Copynumber: 3.3 Consensus size: 37
22977 TCAAAGATTT
22987 TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTG
1 TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTG
* ** * * *
23024 TTTCCAAAGAAACAAAC-TCA-A-AG----ATTTTTG
1 TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTG
*
23054 TTTTAAAAGAAATTATCTTAAGAGAGACAAAATTTTG
1 TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTG
*
23091 TTTCCAAAGAAA
1 TTTCAAAAGAAA
23103 CAAACTCAAA
Statistics
Matches: 57, Mismatches: 15, Indels: 14
0.66 0.17 0.16
Matches are distributed among these distances:
30 18 0.32
31 2 0.04
32 1 0.02
33 2 0.04
34 2 0.04
35 1 0.02
36 2 0.04
37 29 0.51
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (37 bp):
TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTG
Found at i:23076 original size:67 final size:68
Alignment explanation
Indices: 22986--23130 Score: 262
Period size: 67 Copynumber: 2.2 Consensus size: 68
22976 TTCAAAGATT
22986 TTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTT
1 TTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTT
23051 TTG
66 TTG
23054 TTTT-AAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGA--T
1 TTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTT
23116 TT-
66 TTG
23118 TTTTCAAAAGAAA
1 TTTTCAAAAGAAA
23131 CAATCTCAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
64 4 0.05
65 11 0.14
67 57 0.75
68 4 0.05
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (68 bp):
TTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTT
TTG
Found at i:23139 original size:95 final size:93
Alignment explanation
Indices: 23014--23187 Score: 251
Period size: 95 Copynumber: 1.8 Consensus size: 93
23004 TTAAGAGAGA
* *
23014 CAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTTAAAAGAAATTATCTTAAGAGA
1 CAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTTTT-TTTTAAAA-AAATTATCTCAAGAGA
*
23079 GACAAAATTTTGTTTCCAAAGAAACAAACT
64 GACAAAACTTTGTTTCCAAAGAAACAAACT
* * * *
23109 CAAAGATTTT-TTTCAAAAGAAACAATCTCAAAGATTTTTTTTTCACAAAATTGTCTCAAGAGAG
1 CAAA-ATTTTGTTTCAAAAGAAACAAACTCAAAGATTTTTTTTTAAAAAAATTATCTCAAGAGAG
23173 ACAAAACTTTGTTTC
65 ACAAAACTTTGTTTC
23188 AGACTCAAAG
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
93 29 0.41
94 6 0.08
95 31 0.44
96 5 0.07
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (93 bp):
CAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTTTTTTTTAAAAAAATTATCTCAAGAGAGA
CAAAACTTTGTTTCCAAAGAAACAAACT
Found at i:23146 original size:27 final size:28
Alignment explanation
Indices: 23081--23149 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
23071 TTAAGAGAGA
*
23081 CAAA-ATTTTGTTTCCAAAGAAACAAACT
1 CAAAGATTTT-TTTCAAAAGAAACAAACT
*
23109 CAAAGATTTTTTTCAAAAGAAACAATCT
1 CAAAGATTTTTTTCAAAAGAAACAAACT
23137 CAAAGATTTTTTT
1 CAAAGATTTTTTT
23150 TTCACAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 33 0.87
29 5 0.13
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (28 bp):
CAAAGATTTTTTTCAAAAGAAACAAACT
Found at i:23319 original size:29 final size:29
Alignment explanation
Indices: 23237--23506 Score: 177
Period size: 29 Copynumber: 9.4 Consensus size: 29
23227 AAAACTTTGT
* * *
23237 TTCAAAATAAATAGACTCAAAGA--TTT-
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
*
23263 TTCAAAAGAAAC-AACTCAAAGATATTTA
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
* * *
23291 TTCAAAAGGAACAGACTCCAAGATTTTTA
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
*
23320 TTCAAAAGGAACAAACTCAAAGA-TTTT-
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
* *** *
23347 TTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGT-
1 TTCAAAAGAAACAAACTC-A-A-AG-----A-TTTTTA
* * *
23384 TTCAAAATAAATAGACTCAAAGA--TTT-
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
*
23410 TTCAAAAGAAAC-AACTCAAAGATATTTA
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
* *
23438 TTCAAAAGGAACAAACTCCAAGATTTTTA
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
* *
23467 TTCTAAAGGAACAAACTCAAAGATTTTT-
1 TTCAAAAGAAACAAACTCAAAGATTTTTA
*
23495 TTCAAGAGAAAC
1 TTCAAAAGAAAC
23507 TGTCTCAAGA
Statistics
Matches: 194, Mismatches: 32, Indels: 34
0.75 0.12 0.13
Matches are distributed among these distances:
25 18 0.09
26 22 0.11
27 19 0.10
28 36 0.19
29 76 0.39
30 2 0.01
34 2 0.01
35 2 0.01
36 1 0.01
37 16 0.08
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (29 bp):
TTCAAAAGAAACAAACTCAAAGATTTTTA
Found at i:23384 original size:147 final size:147
Alignment explanation
Indices: 23190--23525 Score: 606
Period size: 147 Copynumber: 2.3 Consensus size: 147
23180 TTTGTTTCAG
* *
23190 ACTCAAAGA-TTTTTC-A-CGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGA
1 ACTCAAAGATTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGA
*
23252 CTCAAAGATTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAGACTCCAAGATTT
66 CTCAAAGATTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCCAAGATTT
23317 TTATTCAAAAGGAACAA
131 TTATTCAAAAGGAACAA
23334 ACTCAAAGATTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGA
1 ACTCAAAGATTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGA
23399 CTCAAAGATTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCCAAGATTT
66 CTCAAAGATTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCCAAGATTT
*
23464 TTATTCTAAAGGAACAA
131 TTATTCAAAAGGAACAA
23481 ACTCAAAGATTTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 ACTCAAAGA-TTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
23526 AAATCGTTTT
Statistics
Matches: 184, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
144 9 0.05
145 6 0.03
146 1 0.01
147 133 0.72
148 35 0.19
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (147 bp):
ACTCAAAGATTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAAATAAATAGA
CTCAAAGATTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAACAAACTCCAAGATTT
TTATTCAAAAGGAACAA
Found at i:23831 original size:36 final size:35
Alignment explanation
Indices: 23747--23844 Score: 117
Period size: 36 Copynumber: 2.8 Consensus size: 35
23737 GAGAAAATGA
* *
23747 TGTCTCAAGCGAGACAAAATTTG-CTTTAAGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGAAAT
* ** *
23781 AGTCTCAAATGAGACAAAATTTGTTTTTAGTGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTA-AGAAAT
*
23817 TGTCTCAAGCGAGACAAAGTTTGTTTTT
1 TGTCTCAAGCGAGACAAAATTTGTTTTT
23845 GAGGAAACGA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 20 0.38
35 4 0.08
36 28 0.54
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAAGAAAT
Found at i:23859 original size:36 final size:36
Alignment explanation
Indices: 23748--23866 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
23738 AGAAAATGAT
* * * *
23748 GTCTCAAGCGAGACAAAATTTG-CTTTA-AGATATA
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGTGAAATC
** *
23782 GTCTCAAATGAGACAAAATTTGTTTTTAGTGAAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGTGAAATC
*
23818 GTCTCAAGCGAGACAAAGTTTGTTTTTGAG-GAAA-C
1 GTCTCAAGCGAGACAAAATTTGTTTTT-AGTGAAATC
*
23853 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
23867 TCAACTTTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
34 20 0.29
35 5 0.07
36 43 0.61
37 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTAGTGAAATC
Found at i:24064 original size:36 final size:35
Alignment explanation
Indices: 24024--24126 Score: 143
Period size: 36 Copynumber: 2.9 Consensus size: 35
24014 AAAGGAAAAA
* * *
24024 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAA-AGAAAT
*
24060 TGTCTCAAACGAGACAAAATTTGTTTTGAAAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTT-AAAGAAAT
24096 TGTCTCAAGCGAGACAAAAATTTGTTTTAAA
1 TGTCTCAAGCGAGAC-AAAATTTGTTTTAAA
24127 ATTCTCAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
36 46 0.77
37 14 0.23
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (35 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTAAAGAAAT
Found at i:24484 original size:4 final size:4
Alignment explanation
Indices: 24468--24509 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
24458 ATGCAAATTT
*
24468 TATG TAT- TATG TATG TATG --TG TATA TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
24510 TTTCTCGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 2 0.06
3 3 0.09
4 28 0.85
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:24498 original size:18 final size:17
Alignment explanation
Indices: 24470--24505 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
24460 GCAAATTTTA
24470 TGTATTATGTATGTATG
1 TGTATTATGTATGTATG
24487 TGTATATATGTATGTATG
1 TGTAT-TATGTATGTATG
24505 T
1 T
24506 ATGTTTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (17 bp):
TGTATTATGTATGTATG
Found at i:24832 original size:23 final size:24
Alignment explanation
Indices: 24788--24832 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
24778 GTCTGAAAAT
*
24788 ATCAATAGTTTTGAAAAATATTTA
1 ATCAAAAGTTTTGAAAAATATTTA
24812 ATCAAAAGTTTTG-AAAATATT
1 ATCAAAAGTTTTGAAAAATATT
24833 GCTCCTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (24 bp):
ATCAAAAGTTTTGAAAAATATTTA
Found at i:26361 original size:26 final size:24
Alignment explanation
Indices: 26331--26401 Score: 78
Period size: 20 Copynumber: 3.0 Consensus size: 24
26321 CAAGGTGGAA
26331 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
* *
26355 AGGGAATGTTTCAAGG--TCGAA-A-
1 A--GAATATTTCAAGGTCTCAAAGAG
26377 AGAATATTTCAAGGTCTCAAAGAG
1 AGAATATTTCAAGGTCTCAAAGAG
26401 A
1 A
26402 TAGAATGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
20 12 0.32
22 5 0.14
23 2 0.05
24 6 0.16
26 12 0.32
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAATATTTCAAGGTCTCAAAGAG
Found at i:26386 original size:20 final size:20
Alignment explanation
Indices: 26318--26392 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
26308 AAATACAGTG
*
26318 TTTCAAGGT-GGAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
* *
26337 TTTCAAGGTCTCAAAGAGAGGGAATG
1 TTTCAAGG--TCGAA-A-A--GAATA
26363 TTTCAAGGTCGAAAAGAATA
1 TTTCAAGGTCGAAAAGAATA
26383 TTTCAAGGTC
1 TTTCAAGGTC
26393 TCAAAGAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 8 0.18
20 14 0.32
21 1 0.02
22 2 0.05
23 2 0.05
24 5 0.11
26 12 0.27
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (20 bp):
TTTCAAGGTCGAAAAGAATA
Found at i:26406 original size:26 final size:26
Alignment explanation
Indices: 26328--26407 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
26318 TTTCAAGGTG
26328 GAAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
** *
26354 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATATTTCAAGGTCTCAAAGA
26375 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
*
26400 GATAGAAT
1 GAAAGAAT
26408 GTCAAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
20 13 0.32
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 20 0.49
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (26 bp):
GAAAGAATATTTCAAGGTCTCAAAGA
Found at i:26408 original size:46 final size:45
Alignment explanation
Indices: 26316--26409 Score: 152
Period size: 46 Copynumber: 2.1 Consensus size: 45
26306 ATAAATACAG
* *
26316 TGTTTCAAGGTGGAAAGAATATTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
26361 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
26407 TGT
1 TGT
26410 CAAAAATTGG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 11 0.24
46 34 0.76
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:27857 original size:31 final size:32
Alignment explanation
Indices: 27801--27862 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
27791 TGACAAAATG
27801 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
27833 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
27863 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:31568 original size:25 final size:25
Alignment explanation
Indices: 31447--31568 Score: 201
Period size: 25 Copynumber: 4.9 Consensus size: 25
31437 ATTTAGGGGA
* *
31447 TTAGGG-TTGAAACCCTAATTTATT
1 TTAGGGTTTGAAACCCTAATCTGTT
*
31471 TTAGGGTTTGAAACCCTAATCTATT
1 TTAGGGTTTGAAACCCTAATCTGTT
31496 TTAGGGTTTGAAACCCTAATCTGTT
1 TTAGGGTTTGAAACCCTAATCTGTT
*
31521 TTAGAGTTTGAAACCCTAATCTGTT
1 TTAGGGTTTGAAACCCTAATCTGTT
31546 TTAGGGTTTGAAACCCTAATCTG
1 TTAGGGTTTGAAACCCTAATCTG
31569 ATGGGTTGGG
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
24 6 0.06
25 87 0.94
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGTT
Found at i:31698 original size:3 final size:3
Alignment explanation
Indices: 31690--31749 Score: 86
Period size: 3 Copynumber: 19.3 Consensus size: 3
31680 ATTAATAAAC
31690 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT-
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
31736 ATAA ATA ATA ATA A
1 AT-A ATA ATA ATA A
31750 AGAATACCCG
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.04
3 43 0.81
4 8 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:31718 original size:25 final size:25
Alignment explanation
Indices: 31682--31749 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 25
31672 AATATGTAAT
31682 TAATAA-ACATAATAATAATAAATAA
1 TAATAATA-ATAATAATAATAAATAA
31707 TAATAATAATAATAATAAT-AATAAA
1 TAATAATAATAATAATAATAAAT-AA
31732 TAAT-ATAAATAATAATAA
1 TAATAAT-AATAATAATAA
31750 AGAATACCCG
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
24 5 0.12
25 34 0.85
26 1 0.03
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (25 bp):
TAATAATAATAATAATAATAAATAA
Found at i:31722 original size:28 final size:27
Alignment explanation
Indices: 31678--31749 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 27
31668 TTGTAATATG
31678 TAAT-TAATAA-ACATAATAATAATAAA
1 TAATATAATAATA-ATAATAATAATAAA
31704 TAATAATAATAATAATAATAATAATAAA
1 TAAT-ATAATAATAATAATAATAATAAA
31732 TAATATAAATAATAATAA
1 TAATAT-AATAATAATAA
31750 AGAATACCCG
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
26 4 0.10
27 2 0.05
28 35 0.83
29 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (27 bp):
TAATATAATAATAATAATAATAATAAA
Found at i:31744 original size:19 final size:19
Alignment explanation
Indices: 31692--31755 Score: 87
Period size: 19 Copynumber: 3.4 Consensus size: 19
31682 TAATAAACAT
31692 AATAATAATAAATAATAAT-
1 AATAAT-ATAAATAATAATA
31711 AATAATA-ATAATAATAATA
1 AATAATATA-AATAATAATA
31730 AATAATATAAATAATAATA
1 AATAATATAAATAATAATA
*
31749 AAGAATA
1 AATAATA
31756 CCCGGACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
17 1 0.02
18 10 0.24
19 29 0.71
20 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AATAATATAAATAATAATA
Found at i:35992 original size:112 final size:112
Alignment explanation
Indices: 35405--35980 Score: 981
Period size: 112 Copynumber: 5.1 Consensus size: 112
35395 TTGTCGGTTT
* * *
35405 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
35470 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
35517 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAGCAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
35582 GGTTTATAAAGGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
35629 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
35694 AGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
35741 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * *
35806 GGTCTATAAATGACAAAACATGTAAAGCGCTATCGGATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
35853 GTGTCAATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
* * *
35918 CGGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGATA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
35966 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
35981 TATAAGTATC
Statistics
Matches: 438, Mismatches: 25, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
112 364 0.83
113 74 0.17
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:36167 original size:182 final size:182
Alignment explanation
Indices: 35852--36302 Score: 776
Period size: 182 Copynumber: 2.5 Consensus size: 182
35842 ATATGTTGAT
* * *
35852 AGTGTCAATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAAATGACAAAA
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAATATGACAAAA
* ** * * *
35917 CCGGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGATAGTGTCGATACTTTATT
65 TCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATT
* *
35982 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
130 ATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
36035 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAT
36100 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
36165 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
36217 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAT
* *
36282 CGATCTCGAAATGATAAAACC
66 CGGTCTCGAAATGACAAAACC
36303 AGTAGTAAAA
Statistics
Matches: 255, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
182 208 0.82
183 47 0.18
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAT
CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
Found at i:36841 original size:21 final size:21
Alignment explanation
Indices: 36815--36854 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
36805 TTAAATGTGT
36815 ATCGATGCACT-GCTACAGTGC
1 ATCGATGCA-TAGCTACAGTGC
36836 ATCGATGCATAGCTACAGT
1 ATCGATGCATAGCTACAGT
36855 ACTGCTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (21 bp):
ATCGATGCATAGCTACAGTGC
Found at i:36863 original size:11 final size:11
Alignment explanation
Indices: 36847--36888 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
36837 TCGATGCATA
36847 GCTACAGTACT
1 GCTACAGTACT
* *
36858 GCTACAATAAT
1 GCTACAGTACT
36869 GCTACAGTACT
1 GCTACAGTACT
*
36880 ACTACAGTA
1 GCTACAGTA
36889 TTTCCAGCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (11 bp):
GCTACAGTACT
Found at i:37164 original size:2 final size:2
Alignment explanation
Indices: 37157--37191 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
37147 TTTAATTCCA
37157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37192 CCATAATTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37479 original size:59 final size:59
Alignment explanation
Indices: 37357--37479 Score: 149
Period size: 59 Copynumber: 2.1 Consensus size: 59
37347 TTTTCGTTTT
* * * * * * **
37357 AGCACACAAAGTGTCCTATTCGAAAATTCATACCATTAGTATGATTTTGTTACCATTTT
1 AGCACACAAAATGCCCTATGCGAAAATCCATACCATTAATATGATTTTCTTACCATTGA
*
37416 AGCACATAAAATGCCCTATGCGAAAATCCATACCATTAATATGATTTTCTTATCC-TTGA
1 AGCACACAAAATGCCCTATGCGAAAATCCATACCATTAATATGATTTTCTTA-CCATTGA
37475 AGCAC
1 AGCAC
37480 CCTTAGTGCT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 52 0.96
60 2 0.04
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.33
Consensus pattern (59 bp):
AGCACACAAAATGCCCTATGCGAAAATCCATACCATTAATATGATTTTCTTACCATTGA
Found at i:37502 original size:59 final size:59
Alignment explanation
Indices: 37439--37742 Score: 208
Period size: 59 Copynumber: 5.2 Consensus size: 59
37429 CCCTATGCGA
* * * *
37439 AAATCCATACCATTAATATGATTTTCTTATCCTTGAAGCACCCTTAGTGCTTTATCTGG
1 AAATCCATACCATTAATATGATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGG
* * * * * ** *
37498 AAATCCATA-CACTCAGTATGATTTCCTTA-CCATTTTAGCA-CATAACATGCCCTATAGGG
1 AAATCCATACCA-TTAATATGATTTCCTTATCC-TTGTAGCACCCTAA-GTGCTTTATATGG
*** * *
37557 AAATCCATATTTTTAATATGATTTCCTTATCCTTGTAGCACCCTGAGTGCTTTATTTGG
1 AAATCCATACCATTAATATGATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGG
* * * * * **
37616 AAATCCATA-CACTCAGTATGATTTCCTTA-CCATTTTAGCA-CATAACATGCCCTATATGG
1 AAATCCATACCA-TTAATATGATTTCCTTATCC-TTGTAGCACCCTAA-GTGCTTTATATGG
*** * * ***
37675 AAATCCATATTTTTAATATGATTTCCTTATCATT-TAGCACACTAAGTGCTCCCTATGG
1 AAATCCATACCATTAATATGATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGG
*
37733 AAATCTATAC
1 AAATCCATAC
37743 ACTCAATATA
Statistics
Matches: 185, Mismatches: 48, Indels: 25
0.72 0.19 0.10
Matches are distributed among these distances:
58 34 0.18
59 145 0.78
60 6 0.03
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (59 bp):
AAATCCATACCATTAATATGATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGG
Found at i:37530 original size:118 final size:117
Alignment explanation
Indices: 37394--37705 Score: 489
Period size: 118 Copynumber: 2.6 Consensus size: 117
37384 TCATACCATT
** * * ***
37394 AGTATGATTTTGTTACCATTTTAGCACATAAAATGCCCTATGCGAAAATCCATACCATTAATATG
1 AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATG-GGAAATCCATATTTTTAATATG
* *
37459 ATTTTCTTATCCTTGAAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTC
65 ATTTCCTTATCCTTGAAGCACCCTGAGTGCTTTATCTGGAAATCCATACACTC
37512 AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATAGGGAAATCCATATTTTTAATATG
1 AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTAT-GGGAAATCCATATTTTTAATATG
* *
37577 ATTTCCTTATCCTTGTAGCACCCTGAGTGCTTTATTTGGAAATCCATACACTC
65 ATTTCCTTATCCTTGAAGCACCCTGAGTGCTTTATCTGGAAATCCATACACTC
*
37630 AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATATGGAAATCCATATTTTTAATATG
1 AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTAT-GGGAAATCCATATTTTTAATATG
37695 ATTTCCTTATC
65 ATTTCCTTATC
37706 ATTTAGCACA
Statistics
Matches: 181, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
118 180 0.99
119 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (117 bp):
AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATGGGAAATCCATATTTTTAATATGA
TTTCCTTATCCTTGAAGCACCCTGAGTGCTTTATCTGGAAATCCATACACTC
Found at i:37797 original size:117 final size:118
Alignment explanation
Indices: 37396--37777 Score: 435
Period size: 118 Copynumber: 3.2 Consensus size: 118
37386 ATACCATTAG
** * * ** * ***
37396 TATGATTTTGTTACCATTTTAGCACATAAAATGCCCTATGCGAAAATCCATACCATTAATATGAT
1 TATGATTTCCTTACCATTTTAGCACACAACATGCCCTATATGGAAATCCATATTTTTAATATGAT
* * * * * ** * *
37461 TTTCTTATCCTTGAAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCAG
66 TTCCTTATCATTGTAGCACACTAAGTGCTCCATATGGAAATCCATACACTCAA
* *
37514 TATGATTTCCTTACCATTTTAGCACATAACATGCCCTATAGGGAAATCCATATTTTTAATATGAT
1 TATGATTTCCTTACCATTTTAGCACACAACATGCCCTATATGGAAATCCATATTTTTAATATGAT
* * * ** * *
37579 TTCCTTATCCTTGTAGCACCCTGAGTGCTTTATTTGGAAATCCATACACTCAG
66 TTCCTTATCATTGTAGCACACTAAGTGCTCCATATGGAAATCCATACACTCAA
*
37632 TATGATTTCCTTACCATTTTAGCACATAACATGCCCTATATGGAAATCCATATTTTTAATATGAT
1 TATGATTTCCTTACCATTTTAGCACACAACATGCCCTATATGGAAATCCATATTTTTAATATGAT
* *
37697 TTCCTTATCATT-TAGCACACTAAGTGCTCCCTATGGAAATCTATACACTCAA
66 TTCCTTATCATTGTAGCACACTAAGTGCTCCATATGGAAATCCATACACTCAA
***
37749 TAT-AGTTTCCTTATTGTTTTAGCACACAA
1 TATGA-TTTCCTTACCATTTTAGCACACAA
37778 AGTGTTCCAT
Statistics
Matches: 236, Mismatches: 27, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
116 1 0.00
117 55 0.23
118 180 0.76
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (118 bp):
TATGATTTCCTTACCATTTTAGCACACAACATGCCCTATATGGAAATCCATATTTTTAATATGAT
TTCCTTATCATTGTAGCACACTAAGTGCTCCATATGGAAATCCATACACTCAA
Found at i:38185 original size:63 final size:62
Alignment explanation
Indices: 38116--38276 Score: 173
Period size: 63 Copynumber: 2.5 Consensus size: 62
38106 TTCTCTCACA
*
38116 GATGCATCGGTGCACAACCTATGCATCGATGCATATATTACATTCGATG-TT-TTCATCTTAAGG
1 GATGCATCGGTGCACAACCTATGCATCGATGCATA-ACTACATTCGATGTTTATTCAT-TT-AGG
* * * * * *
38179 GATGCATCGATGCACTACCTGTGCATCGATGCACTAACTACCTTCGATGTTTATTTATTTATG
1 GATGCATCGGTGCACAACCTATGCATCGATGCA-TAACTACATTCGATGTTTATTCATTTAGG
* * *
38242 TATGCATCGGTGCACTCACTTATGCATCGATGCAT
1 GATGCATCGGTGCAC-AACCTATGCATCGATGCAT
38277 CTTTCCCAGA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
63 57 0.70
64 21 0.26
65 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (62 bp):
GATGCATCGGTGCACAACCTATGCATCGATGCATAACTACATTCGATGTTTATTCATTTAGG
Found at i:44101 original size:21 final size:21
Alignment explanation
Indices: 44076--44119 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
44066 AATATTAAAT
44076 GTGTATCGATGCACT-GCTACA
1 GTGTATCGATGCA-TAGCTACA
44097 GTGTATCGATGCATAGCTACA
1 GTGTATCGATGCATAGCTACA
44118 GT
1 GT
44120 ACTGCTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (21 bp):
GTGTATCGATGCATAGCTACA
Found at i:44128 original size:11 final size:11
Alignment explanation
Indices: 44112--44153 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
44102 TCGATGCATA
44112 GCTACAGTACT
1 GCTACAGTACT
* *
44123 GCTACAATAAT
1 GCTACAGTACT
44134 GCTACAGTACT
1 GCTACAGTACT
*
44145 ACTACAGTA
1 GCTACAGTA
44154 TTTCTAGCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (11 bp):
GCTACAGTACT
Found at i:44784 original size:59 final size:59
Alignment explanation
Indices: 44685--45008 Score: 230
Period size: 59 Copynumber: 5.5 Consensus size: 59
44675 GCCTATGCGA
* * * * *
44685 AAATCCATAC-CATTAGTATGATTTTCTTATCCTTGAAGCACCCTTAGTGCTTTATCTGG
1 AAATCCATACAC-TCAGTATGATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGG
* * * ** *
44744 AAATCCATACACTCAGTATGATTTCCTTA-CCATTTTAGCA-CATAACATGCCCTATAGGG
1 AAATCCATACACTCAGTATGATTTCCTTATCC-TTGTAGCACCCTAA-GTGCTTTATATGG
*** * * * *
44803 AAATCCATATTTTTAATATGATTTCCTTATCCTTGTAGCACCCTGAGTGCTTTATTTGG
1 AAATCCATACACTCAGTATGATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGG
* * * **
44862 AAATCCATACACTCAGTATGATTTCCTTA-CCATTTTAGCA-CATAACATGCCCTATATGG
1 AAATCCATACACTCAGTATGATTTCCTTATCC-TTGTAGCACCCTAA-GTGCTTTATATGG
*** * * * * ***
44921 AAATCCATATTTTTAATATGATTTCCTTATCATT-TAGCACACTAAGTGCTCCCTATGG
1 AAATCCATACACTCAGTATGATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGG
**
44979 AAATATATACACTCAGTAT-AGTTTCCTTAT
1 AAATCCATACACTCAGTATGA-TTTCCTTAT
45009 TGTTTTAGCA
Statistics
Matches: 200, Mismatches: 55, Indels: 21
0.72 0.20 0.08
Matches are distributed among these distances:
57 1 0.00
58 45 0.22
59 147 0.74
60 7 0.04
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.37
Consensus pattern (59 bp):
AAATCCATACACTCAGTATGATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGG
Found at i:44844 original size:118 final size:118
Alignment explanation
Indices: 44641--45007 Score: 481
Period size: 118 Copynumber: 3.1 Consensus size: 118
44631 TCATACCATT
** * * * *** *
44641 AGTATGATTTTGTTACCATTTTAGAACATAAAATG-CCTAT-GCGAAAATCCATACCATTAGTAT
1 AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATAG-GGAAATCCATATTTTTAATAT
* * * *
44704 GATTTTCTTATCCTTGAAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTC
65 GATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGGAAATCCATACACTC
44758 AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATAGGGAAATCCATATTTTTAATATG
1 AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATAGGGAAATCCATATTTTTAATATG
* *
44823 ATTTCCTTATCCTTGTAGCACCCTGAGTGCTTTATTTGGAAATCCATACACTC
66 ATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGGAAATCCATACACTC
*
44876 AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATATGGAAATCCATATTTTTAATATG
1 AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATAGGGAAATCCATATTTTTAATATG
* * *** **
44941 ATTTCCTTATCATT-TAGCACACTAAGTGCTCCCTATGGAAATATATACACTC
66 ATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGGAAATCCATACACTC
44993 AGTAT-AGTTTCCTTA
1 AGTATGA-TTTCCTTA
45008 TTGTTTTAGC
Statistics
Matches: 224, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
116 1 0.00
117 74 0.33
118 148 0.66
119 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (118 bp):
AGTATGATTTCCTTACCATTTTAGCACATAACATGCCCTATAGGGAAATCCATATTTTTAATATG
ATTTCCTTATCCTTGTAGCACCCTAAGTGCTTTATATGGAAATCCATACACTC
Found at i:47713 original size:14 final size:12
Alignment explanation
Indices: 47685--47718 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
47675 TTATTCAGAT
47685 TTTTATTTTTTA
1 TTTTATTTTTTA
47697 TTTTATTATTTTAA
1 TTTTATT-TTTT-A
47711 TTTTATTT
1 TTTTATTT
47719 CTTTTTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.35
13 5 0.25
14 8 0.40
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:50431 original size:95 final size:95
Alignment explanation
Indices: 50267--50506 Score: 281
Period size: 95 Copynumber: 2.7 Consensus size: 95
50257 TAATATTATA
* * * *
50267 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGTTTTATGGATAAT
1 TATACAATAAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
* *
50332 ATTCAGCTAGCCTAATAAAGGTGATTATGC
66 ATTCAACTAACCTAATAAAGGTGATTATGC
*
50362 TATACAATAAAGCTTGAGATGTCCCTCTA-AGGCAATTGGTTAAACGCTCCGGCTTTATGGATAA
1 TATACAATAAAGCTTGAGATGTCCCTCTAGA-GCAATTGGTTAAACGCCCCGGCTTTATGGATAA
*
50426 GATTCAACTAACCTGATAAAGGTG----T--
65 GATTCAACTAACCTAATAAAGGTGATTATGC
* **
50451 T-TAC-AT--A--TTGAGTTGTCCCTCTAGAGCAATTGGTTAAATTCCCCGGCTTTATGGAT
1 TATACAATAAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
50507 TCGGCTAGCC
Statistics
Matches: 131, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
83 43 0.33
84 1 0.01
85 1 0.01
87 2 0.02
88 3 0.02
89 1 0.01
91 1 0.01
94 1 0.01
95 78 0.60
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGATGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
ATTCAACTAACCTAATAAAGGTGATTATGC
Found at i:51810 original size:84 final size:84
Alignment explanation
Indices: 51659--52666 Score: 1073
Period size: 84 Copynumber: 12.1 Consensus size: 84
51649 CAAGGTTAGG
* * * *
51659 AGGGTTATCTGCCAA-CAAAGATCTTCGAGTTCGACTACACTCAGCTCTAAGGCACATCATTTAC
1 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
* *
51723 AGCATAGCTTAAGTCGATA
66 AGCATAACTTAAGTCGAGA
* * * *
51742 AGGGTTATCTGCCAACCAAAGACCTTCAAGTTCGATTACGCTCAGCTCCAAGGCATATTATTTGC
1 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
51807 AGCATAACTTAAGTCGAGA
66 AGCATAACTTAAGTCGAGA
* * * * *
51826 AGGGTTATCTTCCAACCTAAGACCTTCGAGTTCAACTCCGCTCAGCTTCAAGGCACATCATTTGC
1 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
* *
51891 AGCATAGCTTAAGTTGAGA
66 AGCATAACTTAAGTCGAGA
* * * * * *
51910 AGGGCTATCTG----CCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
1 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTG
* * * *
51971 CAACATAACTCAAGGCTAGA
65 CAGCATAACTTAAGTCGAGA
* * * *
51991 AGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCAACTCCGCTCAACTCCAAGGCACATCATTTGC
1 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
* *
52055 AGTATAGCTTAAGTCGAGA
66 AGCATAACTTAAGTCGAGA
* * * * * * * *
52074 AGGGCTATCTGCCAACCAAAGACCTTCAACTTCGATTACACTCAGCTTCGAGGGAACATCATTTG
1 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTG
* * *
52139 CAGCATAACTCAAGGCTAGA
65 CAGCATAACTTAAGTCGAGA
* * **
52159 AGGGTTGTCTGCCAA-CAAAGACCTTCGAATTCGACTACGCTCAGCTCCAAGAAACATCATTTGC
1 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
*
52223 AGCATAGCTTAAGTCGAGA
66 AGCATAACTTAAGTCGAGA
* * * * * * * *
52242 AGGGCTGTCTG----CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
1 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTG
* * *
52303 CAGCATAACTCAAGGCTAGA
65 CAGCATAACTTAAGTCGAGA
** * * * *
52323 AGGGTTATCTG-TGACTAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATAGCATTTG
1 AGGGTTATCTGCCAAC-CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
52387 CAGCATAACTTAAGTCGAGA
65 CAGCATAACTTAAGTCGAGA
*
52407 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTACAAGGCACATCATTTGC
1 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
*
52472 AACATAGA-TTAAGTCGAGA
66 AGCATA-ACTTAAGTCGAGA
* * ** * * *
52491 AGGGTTATCTG----CCAAAGACCCTCGAGTTCGATTACATTCAGCTTCGAGGGCACATCATTTA
1 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTG
* * *
52552 CAGCATAACTCAAGGCCAGA
65 CAGCATAACTTAAGTCGAGA
** *
52572 AGGGTTATCTATCAA-CAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACTATCATTTG
1 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC-ATCATTTG
*
52636 CAGC-TGAGCTTAAGTCGAGA
65 CAGCAT-AACTTAAGTCGAGA
52656 AGGGTTATCTG
1 AGGGTTATCTG
52667 TTAAAGACCT
Statistics
Matches: 759, Mismatches: 143, Indels: 45
0.80 0.15 0.05
Matches are distributed among these distances:
80 80 0.11
81 114 0.15
83 105 0.14
84 388 0.51
85 72 0.09
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (84 bp):
AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
AGCATAACTTAAGTCGAGA
Found at i:52245 original size:332 final size:332
Alignment explanation
Indices: 51639--52505 Score: 1279
Period size: 332 Copynumber: 2.6 Consensus size: 332
51629 AAACTATTGG
* * * * * *
51639 CAACATAACTCAAGGTTAGGAGGGTTATCTGCCAACAAAGATCTTCGAGTTCGACTACACTCAGC
1 CAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
51704 TCTAAGGCACATCATTTACAGCATAGCTTAAGTCGATAAGGGTTATCTGCCAACCAAAGACCTTC
66 TCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTC
* * *
51769 AAGTTCGATTACGCTCAGCTCCAAGGCATATTATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
131 AAGTTCGATTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
* * * * * **
51834 CTTCCAACCTAAGACCTTCGAGTTCAACTCCGCTCAGCTTCAAGGCACATCATTTGCAGCATAGC
196 CTGCCAACCAAAGACCTTCGAATTCAACTACGCTCAGCTCCAAGAAACATCATTTGCAGCATAGC
* *
51899 TTAAGTTGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACA
261 TTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACA
51964 TCATTTA
326 TCATTTA
* * *
51971 CAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCAACTCCGCTCAAC
1 CAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* * *
52036 TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTC
66 TCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTC
* * * * * * * *
52101 AACTTCGATTACACTCAGCTTCGAGGGAACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTG
131 AAGTTCGATTACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTA
*
52166 TCTGCCAA-CAAAGACCTTCGAATTCGACTACGCTCAGCTCCAAGAAACATCATTTGCAGCATAG
195 TCTGCCAACCAAAGACCTTCGAATTCAACTACGCTCAGCTCCAAGAAACATCATTTGCAGCATAG
*
52230 CTTAAGTCGAGAAGGGCTGTCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCAC
260 CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCAC
52295 ATCATTTA
325 ATCATTTA
* * *
52303 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACTAAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAACATAACTCAAGGCTAGAAGGGTTATCTGTCAC-CAAAGACCTTCGAGTTCGACTACGCTCAG
* * *
52368 CTCTAAGGCATAGCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTT
65 CTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTT
* * * *
52433 CGAGTTCGACTACGCTCAGCTACAAGGCACATCATTTGCAACATAGA-TTAAGTCGAGAAGGGTT
130 CAAGTTCGATTACGCTCAGCTTCAAGGCACATCATTTGCAGCATA-ACTTAAGTCGAGAAGGGTT
52497 ATCTGCCAA
194 ATCTGCCAA
52506 AGACCCTCGA
Statistics
Matches: 472, Mismatches: 60, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
332 328 0.69
333 144 0.31
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (332 bp):
CAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC
TCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTC
AAGTTCGATTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
CTGCCAACCAAAGACCTTCGAATTCAACTACGCTCAGCTCCAAGAAACATCATTTGCAGCATAGC
TTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACA
TCATTTA
Found at i:52636 original size:249 final size:248
Alignment explanation
Indices: 51659--52686 Score: 1112
Period size: 249 Copynumber: 4.1 Consensus size: 248
51649 CAAGGTTAGG
* *
51659 AGGGTTATCTGCCAACAAAGATCTTCGAGTTCGACTACACTCAGCTCTAAGGCACATCATTTACA
1 AGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCGAAGGCACATCATTTACA
* * * * * *
51724 GCATAGCTTAAGTCGATAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTCGATTACGCTCAGCT
66 ACATAGATTAAGTCGAGAAGGGTTATCTG---ACCAAAGACCCTCGAGTTCGATTACACTCAGCT
* * * * * *
51789 CCAAGGCATATTATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCCAACCTAAGACCTTC
128 CCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGT-CAACCAAAGACCTTC
* * * * *
51853 GAGTTCAACTCCGCTCAGCTTCAAGGCACATCATTTGCAGCATAGCTTAAGTTGAGA
192 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
* * *
51910 AGGGCTATCTG-C--CAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
1 AGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGC-TCGAAGGCACATCATTTAC
* * * * * * * * *
51972 AACATA-ACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCAACTCCGCTCAAC
65 AACATAGA-TTAAGTCGAGAAGGGTTATCTG--ACCAAAGACCCTCGAGTTCGATTACACTCAGC
* * * * * * *
52036 TCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTC
127 TCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAAGACCTTC
* * * * * * * * * *
52101 AACTTCGATTACACTCAGCTTCGAGGGAACATCATTTGCAGCATAACTCAAGGCTAGA
192 GAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
* * * * ** *
52159 AGGGTTGTCTGCCAACAAAGACCTTCGAATTCGACTACGCTCAGCTCCAAGAAACATCATTTGCA
1 AGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCGAAGGCACATCATTTACA
* * * * *
52224 GCATAGCTTAAGTCGAGAAGGGCTGTCTG-CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCG
66 ACATAGATTAAGTCGAGAAGGGTTATCTGACCAAAGACCCTCGAGTTCGATTACACTCAGC-TCC
* * * *
52288 AGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT-GACTAAAAGACCTTCGA
130 AAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-CAAAGACCTTCGA
* * *
52352 GTTCGACTACGCTCAGCTCTAAGGCATAGCATTTGCAGCATAACTTAAGTCGAGA
194 GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
* *
52407 AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTAC-AAGGCACATCATTTG
1 AGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACACTCAGCT-CGAAGGCACATCATTTA
*
52471 CAACATAGATTAAGTCGAGAAGGGTTATCTG-CCAAAGACCCTCGAGTTCGATTACATTCAGCTT
64 CAACATAGATTAAGTCGAGAAGGGTTATCTGACCAAAGACCCTCGAGTTCGATTACACTCAGC-T
* * * *
52535 CGAGGGCACATCATTTACAGCATAACTCAAGGCCAGAAGGGTTATCTATCAA-CAAAGACCTTCG
128 CCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAAGACCTTCG
* *
52599 AGTTCGACTACGTTCAGCTCCAAGGCACTATCATTTGCAGC-TGAGCTTAAGTCGAGA
193 AGTTCGACTACGCTCAGCTCCAAGGCAC-ATCATTTGCAGCAT-AACTTAAGTCGAGA
**
52656 AGGGTTATCTG---TTAAAGACCTTCGAGTTCGA
1 AGGGTTATCTGCCAACAAAGACCTTCGAGTTCGA
52687 TTGTATTTAA
Statistics
Matches: 655, Mismatches: 107, Indels: 36
0.82 0.13 0.05
Matches are distributed among these distances:
245 18 0.03
248 233 0.36
249 327 0.50
250 4 0.01
251 46 0.07
252 27 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (248 bp):
AGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCGAAGGCACATCATTTACA
ACATAGATTAAGTCGAGAAGGGTTATCTGACCAAAGACCCTCGAGTTCGATTACACTCAGCTCCA
AGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGT
TCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGA
Found at i:52770 original size:165 final size:164
Alignment explanation
Indices: 51659--52752 Score: 550
Period size: 164 Copynumber: 6.6 Consensus size: 164
51649 CAAGGTTAGG
* * * * * * *
51659 AGGGTTATCTGCCAACAAAGATCTTCGAGTTCGACTACACTCAGC-TCTAAGGCACATCATTTAC
1 AGGGTTATCTG-C--CAAAGACCCTCGAGTTCGATTACATTCAACTTCAAAGGCAAATCATTTAC
* * * * * * ** *
51723 AGCATAGCTTAAGTCGATAAGGGTTATCTGCCAACCAAAGACCTTCAAGTTCGATTACGCTCAGC
63 AGCATAACTCAAGGCAAGAAGGGCTATCTATCAA-CAAAGACCTTCAAGTTCGACTACGCTCAGC
* * * *
51788 TCCAAGGCATATTATTTGCAGCATA-ACTTAAGTCGAGA
127 TACAAGGCACATCATTTGCAACATAGA-TTAAGTCGAGA
* * * * * ** * * *
51826 AGGGTTATCTTCCAACCTAAGACCTTCGAGTTCAACTCCGCTCAGCTTC-AAGGCACATCATTTG
1 AGGGTTATCTGCC-A---AAGACCCTCGAGTTCGATTACATTCAACTTCAAAGGCAAATCATTTA
* * *** * * * *
51890 CAGCATAGCTTAAGTTGAGAAGGGCTATCT-GC--CAAAGACCTTCGAGTTCGATTACACTCAGC
62 CAGCATAACTCAAGGCAAGAAGGGCTATCTATCAACAAAGACCTTCAAGTTCGACTACGCTCAGC
* * * * * *
51952 TTCGAGGGCACATCATTTACAACATA-ACTCAAGGCTAGA
127 TAC-AAGGCACATCATTTGCAACATAGA-TTAAGTCGAGA
* * * * ** * * *
51991 AGGGTTATCTGTCACCAAAGACCTTCGAGTTCAACTCCGCTCAAC-TCCAAGGCACATCATTTGC
1 AGGGTTATCTG---CCAAAGACCCTCGAGTTCGATTACATTCAACTTCAAAGGCAAATCATTTAC
* * * * * ** * * *
52055 AGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCTTCAACTTCGATTACACTCAGC
63 AGCATAACTCAAGGCAAGAAGGGCTATCTATCAA-CAAAGACCTTCAAGTTCGACTACGCTCAGC
* * * * * * *
52120 TTCGAGGGAACATCATTTGCAGCATA-ACTCAAGGCTAGA
127 TAC-AAGGCACATCATTTGCAACATAGA-TTAAGTCGAGA
* * * * ** * * * *
52159 AGGGTTGTCTGCCAACAAAGACCTTCGAATTCGACTACGCTCAGC-TCCAA-GAAACATCATTTG
1 AGGGTTATCTG-C--CAAAGACCCTCGAGTTCGATTACATTCAACTTCAAAGGCAA-ATCATTTA
* * * * * * * * * *
52222 CAGCATAGCTTAAGTCGAGAAGGGCTGTCT-GC--CAAAGACCCTCGAGTTCGATTACACTCAGC
62 CAGCATAACTCAAGGCAAGAAGGGCTATCTATCAACAAAGACCTTCAAGTTCGACTACGCTCAGC
* * * * * * *
52284 TTCGAGGGCACATCATTTACAGCATA-ACTCAAGGCTAGA
127 TAC-AAGGCACATCATTTGCAACATAGA-TTAAGTCGAGA
* * * ** * * * * *
52323 AGGGTTATCTGTGACTAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCTAAGGCATAGCATTTG
1 AGGGTTATC--TG-C-CAAAGACCCTCGAGTTCGATTACATTCAACTTCAAAGGCAAATCATTTA
* * * * ** *
52387 CAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
62 CAGCATAACTCAAGGCAAGAAGGGCTATCTATCAA-CAAAGACCTTCAAGTTCGACTACGCTCAG
52452 CTACAAGGCACATCATTTGCAACATAGATTAAGTCGAGA
126 CTACAAGGCACATCATTTGCAACATAGATTAAGTCGAGA
* * * *
52491 AGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACATTCAGCTTCGAGGGCACATCATTTACAGC
1 AGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACATTCAACTTCAAAGGCAAATCATTTACAGC
* * * * *
52556 ATAACTCAAGGCCAGAAGGGTTATCTATCAACAAAGACCTTCGAGTTCGACTACGTTCAGCTCCA
66 ATAACTCAAGGCAAGAAGGGCTATCTATCAACAAAGACCTTCAAGTTCGACTACGCTCAGCTACA
* *
52621 AGGCACTATCATTTGCAGC-TGAGCTTAAGTCGAGA
131 AGGCAC-ATCATTTGCAACAT-AGATTAAGTCGAGA
** * ** *
52656 AGGGTTATCTGTTAAAGACCTTCGAGTTCGATTGTATTTAAC-TCAAAGGCAAATCAAGTTTACA
1 AGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACATTCAACTTCAAAGGCAAATC-A-TTTACA
* * * *
52720 TCATAGCTTAAGGCAAGAAGGGCTATCTGTCAA
64 GCATAACTCAAGGCAAGAAGGGCTATCTATCAA
52753 TAAAATTGTC
Statistics
Matches: 792, Mismatches: 105, Indels: 61
0.83 0.11 0.06
Matches are distributed among these distances:
163 2 0.00
164 247 0.31
165 209 0.26
166 43 0.05
167 15 0.02
168 244 0.31
169 32 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (164 bp):
AGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACATTCAACTTCAAAGGCAAATCATTTACAGC
ATAACTCAAGGCAAGAAGGGCTATCTATCAACAAAGACCTTCAAGTTCGACTACGCTCAGCTACA
AGGCACATCATTTGCAACATAGATTAAGTCGAGA
Found at i:53447 original size:4 final size:4
Alignment explanation
Indices: 53440--53478 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
53430 CCATGCATGT
53440 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
53479 GTTGAACAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:59525 original size:20 final size:20
Alignment explanation
Indices: 59500--59537 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59490 CCCCTTTTGA
*
59500 AGGGGAACCGATTCCCCCAC
1 AGGGGAACCGATACCCCCAC
*
59520 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
59538 TTGGGGTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (20 bp):
AGGGGAACCGATACCCCCAC
Done.