Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_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: 4978262
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 24
Found at i:4634522 original size:29 final size:27
Alignment explanation
Indices: 4634433--4634522 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 27
4634423 TTAAGAGAGA
4634433 CAAAA-TTTGTTTCAAGGGAAACTGATT
1 CAAAATTTTGTTTCAAGGGAAACTG-TT
* *
4634460 AAAAGATTTTGTGTTTCAAGGGAAACATTTT
1 CAAA-A-TTT-TGTTTCAAGGGAAAC-TGTT
*
4634491 CAAAATTTATGTTTCAAGAGAAACTGTCT
1 CAAAATTT-TGTTTCAAGGGAAACTGT-T
4634520 CAA
1 CAA
4634523 GGGAGACAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
27 3 0.06
28 3 0.06
29 21 0.41
30 3 0.06
31 20 0.39
32 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (27 bp):
CAAAATTTTGTTTCAAGGGAAACTGTT
Found at i:4634539 original size:34 final size:35
Alignment explanation
Indices: 4634500--4634584 Score: 118
Period size: 34 Copynumber: 2.4 Consensus size: 35
4634490 TCAAAATTTA
* *
4634500 TGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATT
*
4634534 TGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATT
*
4634570 CGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
4634585 GTTTTCAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 27 0.61
36 17 0.39
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (35 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAATT
Found at i:4634651 original size:38 final size:39
Alignment explanation
Indices: 4634599--4634749 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
4634589 TCAAAGTTTA
* * *
4634599 TGTTTCAAGAGAAACTGTCTCAAG-GAGACAAAATTTTT
1 TGTTTCAAGTGAAACTATCTCAAGCGAGATAAAATTTTT
* *
4634637 TGTTTTAAGTGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGTGAAACTATCTCAAGCGAGATAAAATTTTT
*
4634676 TGTTTCAAG-GAAAACTATCTCAAGCGAGATAAAATTTTC
1 TGTTTCAAGTG-AAACTATCTCAAGCGAGATAAAATTTTT
4634715 TGTTTCAAGTGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGTGAAACTATCTCAAGCGAGATAAAAT
4634750 CTTCTTTAAA
Statistics
Matches: 102, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
38 22 0.22
39 79 0.77
40 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (39 bp):
TGTTTCAAGTGAAACTATCTCAAGCGAGATAAAATTTTT
Found at i:4634877 original size:76 final size:76
Alignment explanation
Indices: 4634732--4634974 Score: 210
Period size: 76 Copynumber: 3.2 Consensus size: 76
4634722 AGTGAAACTA
* * *
4634732 TCTCAAGCGAGATAAAATCTT-CTTT---AAATACAATCTTGAATGAAATGAAATGTCTTCTTTC
1 TCTCAAGCGAGA-AAAATCTTGTTTTAAGAAAAACGATCTTGAATGAAATGAAATGTCTTCTTTC
* *
4634793 GAGTAAAAACCG
65 AAATAAAAACCG
* * * * *
4634805 TCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACGATCTTGAGTGAAAT-AAATCTTCTTGTTTC
1 TCTCAAGCGAGAAAAATCTTGTTTTAAGAAAAACGATCTTGAATGAAATGAAAT-GTCTTCTTTC
**
4634869 AAATAAAAATTG
65 AAATAAAAACCG
* * * * * *
4634881 TCTCAAGCGAGAAAAATCTTGTTTTAAGAAAAAC-AACATGTAGTTAAATGAAATGTCTTGTTTT
1 TCTCAAGCGAGAAAAATCTTGTTTTAAGAAAAACGATCTTG-AATGAAATGAAATGTCTTCTTTC
* * **
4634945 GAGTAAAAATTG
65 AAATAAAAACCG
4634957 TCTCAAGCGAGACAAAAT
1 TCTCAAGCGAGA-AAAAT
4634975 GTGTTTGGAA
Statistics
Matches: 141, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
72 7 0.05
73 14 0.10
75 8 0.06
76 103 0.73
77 9 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (76 bp):
TCTCAAGCGAGAAAAATCTTGTTTTAAGAAAAACGATCTTGAATGAAATGAAATGTCTTCTTTCA
AATAAAAACCG
Found at i:4634980 original size:76 final size:77
Alignment explanation
Indices: 4634772--4634974 Score: 261
Period size: 76 Copynumber: 2.7 Consensus size: 77
4634762 CAATCTTGAA
* ** *
4634772 TGAAATGAAATGTCTTCTTTCGAGTAAAAACCGTCTCAAGTGAGAC-AAATCTTGTTTTAAGAAA
1 TGAAATGAAATGTCTTGTTTCGAGTAAAAATTGTCTCAAGCGAGACAAAATCTTGTTTTAAGAAA
* *
4634836 AACGATCTTGAG
66 AACGAACATGAG
* * *
4634848 TGAAAT-AAATCTTCTTGTTTCAAATAAAAATTGTCTCAAGCGAGA-AAAATCTTGTTTTAAGAA
1 TGAAATGAAAT-GTCTTGTTTCGAGTAAAAATTGTCTCAAGCGAGACAAAATCTTGTTTTAAGAA
4634911 AAAC-AACATGTAG
65 AAACGAACATG-AG
* *
4634924 TTAAATGAAATGTCTTGTTTTGAGTAAAAATTGTCTCAAGCGAGACAAAAT
1 TGAAATGAAATGTCTTGTTTCGAGTAAAAATTGTCTCAAGCGAGACAAAAT
4634975 GTGTTTGGAA
Statistics
Matches: 108, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
75 8 0.07
76 91 0.84
77 9 0.08
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (77 bp):
TGAAATGAAATGTCTTGTTTCGAGTAAAAATTGTCTCAAGCGAGACAAAATCTTGTTTTAAGAAA
AACGAACATGAG
Found at i:4639757 original size:21 final size:18
Alignment explanation
Indices: 4639732--4639775 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
4639722 TGGAACACCG
4639732 TAAAAAATTGGTTGATTTTAA
1 TAAAAAATT--TT-ATTTTAA
*
4639753 TAAAACATTTTATTTTAA
1 TAAAAAATTTTATTTTAA
4639771 TAAAA
1 TAAAA
4639776 TACTGAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
21 8 0.36
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (18 bp):
TAAAAAATTTTATTTTAA
Found at i:4640912 original size:20 final size:20
Alignment explanation
Indices: 4640889--4640927 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4640879 CTCTCTCTCT
* *
4640889 CCTCAATCTCAAATCTCCTC
1 CCTCAATCTAAAATATCCTC
*
4640909 CCTCTATCTAAAATATCCT
1 CCTCAATCTAAAATATCCT
4640928 TGAAATCGAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.33
Consensus pattern (20 bp):
CCTCAATCTAAAATATCCTC
Found at i:4648645 original size:24 final size:24
Alignment explanation
Indices: 4648618--4648665 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
4648608 ATTTTCCATT
*
4648618 TTTAAAATAGATTAATTGTTTTTA
1 TTTAAAATAGATGAATTGTTTTTA
*
4648642 TTTAAAATAGATGATTTGTTTTTA
1 TTTAAAATAGATGAATTGTTTTTA
4648666 GAAATGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.54
Consensus pattern (24 bp):
TTTAAAATAGATGAATTGTTTTTA
Found at i:4648804 original size:20 final size:20
Alignment explanation
Indices: 4648768--4648815 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4648758 TCAAAATCAT
* *
4648768 TTTTCAAAATTTCATTTTTC
1 TTTTCAAAATTCCATTTTGC
4648788 TTTTCAAAA-TCCAATTTTGC
1 TTTTCAAAATTCC-ATTTTGC
4648808 -TTTCAAAA
1 TTTTCAAAA
4648816 GAAAATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.31, C:0.17, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTGC
Found at i:4654481 original size:11 final size:11
Alignment explanation
Indices: 4654461--4654498 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
4654451 AAATTGTGAA
4654461 AGAAAATTGAG
1 AGAAAATTGAG
*
4654472 AGAGAATTGAG
1 AGAAAATTGAG
4654483 AGAAAATTTGAG
1 AGAAAA-TTGAG
4654495 AGAA
1 AGAA
4654499 TACAAAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (11 bp):
AGAAAATTGAG
Found at i:4656618 original size:49 final size:49
Alignment explanation
Indices: 4656564--4656715 Score: 136
Period size: 49 Copynumber: 3.2 Consensus size: 49
4656554 TTATACATGT
*
4656564 TGAATTGTTTAATCCGATTGCCATATAGATTGCATGAATACATATGTGG
1 TGAATTGTTTAATCCGATTGCCATATAGATTGCATGAATACATATATGG
* ** * * * * ** * *
4656613 TGAATTG-CT--TCTTATT--CAAATAGA-GGAAAGAATGTTATACATGT
1 TGAATTGTTTAATCCGATTGCCATATAGATTGCATGAAT-ACATATATGG
*
4656657 TGAATTGTTTAATTCGATTGCCATATAGATTGCATGAATACATATATGG
1 TGAATTGTTTAATCCGATTGCCATATAGATTGCATGAATACATATATGG
4656706 TGAATTGTTT
1 TGAATTGTTT
4656716 CTTGTTCGAA
Statistics
Matches: 72, Mismatches: 24, Indels: 14
0.65 0.22 0.13
Matches are distributed among these distances:
43 6 0.08
44 19 0.26
45 1 0.01
46 5 0.07
47 4 0.06
48 1 0.01
49 30 0.42
50 6 0.08
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (49 bp):
TGAATTGTTTAATCCGATTGCCATATAGATTGCATGAATACATATATGG
Found at i:4656660 original size:93 final size:92
Alignment explanation
Indices: 4656539--4656734 Score: 320
Period size: 93 Copynumber: 2.1 Consensus size: 92
4656529 TTCTTGTTTG
*
4656539 AATAGATGAAAAATGTTATACATGTTGAATTGTTTAATCCGATTGCCATATAGATTGCATGAATA
1 AATAGAGGAAAAATGTTATACATGTTGAATTGTTTAATCCGATTGCCATATAGATTGCATGAATA
*
4656604 CATATGTGGTGAATTGCTTCTTATTCA
66 CATATATGGTGAATTGCTTCTTATTCA
*
4656631 AATAGAGGAAAGAATGTTATACATGTTGAATTGTTTAATTCGATTGCCATATAGATTGCATGAAT
1 AATAGAGGAAA-AATGTTATACATGTTGAATTGTTTAATCCGATTGCCATATAGATTGCATGAAT
* * *
4656696 ACATATATGGTGAATTGTTTCTTGTTCG
65 ACATATATGGTGAATTGCTTCTTATTCA
*
4656724 AATGGAGGAAA
1 AATAGAGGAAA
4656735 TATTGAAATG
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 10 0.10
93 86 0.90
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (92 bp):
AATAGAGGAAAAATGTTATACATGTTGAATTGTTTAATCCGATTGCCATATAGATTGCATGAATA
CATATATGGTGAATTGCTTCTTATTCA
Found at i:4658715 original size:22 final size:22
Alignment explanation
Indices: 4658686--4658744 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
4658676 TCTTTTAATG
4658686 GAACCGTTCAGCGCTGAATGCT
1 GAACCGTTCAGCGCTGAATGCT
*
4658708 GAATCGTTCAGCGCTGAATGCT
1 GAACCGTTCAGCGCTGAATGCT
4658730 GAACCGTTCAGCGCT
1 GAACCGTTCAGCGCT
4658745 CAGCGCGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (22 bp):
GAACCGTTCAGCGCTGAATGCT
Found at i:4667289 original size:3 final size:3
Alignment explanation
Indices: 4667283--4667351 Score: 93
Period size: 3 Copynumber: 23.0 Consensus size: 3
4667273 TATATGTATT
* * *
4667283 TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
4667331 TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
4667352 ATTAATATGG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:4667830 original size:114 final size:114
Alignment explanation
Indices: 4667580--4668249 Score: 1112
Period size: 114 Copynumber: 5.9 Consensus size: 114
4667570 GATAGAGTTA
* *
4667580 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * * * * * *
4667645 GAACTCTAC-CTAGCAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAGA
63 GAACT-TTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAGGTAAAAGG
* *
4667696 TTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
4667761 CTTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAGGTAAAAGG
4667810 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
4667875 CTTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAGGTAAAAGG
4667924 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
4667989 CTTTCTCTGGAAATGATGATCCATCAA-ATGATGAATTCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAGGTAAAAGG
4668037 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
4668102 CTTTCTCTGGAAATGATGATCCATCAATTTGATGAAATCAGGTAAAAGG
66 CTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAGGTAAAAGG
4668151 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
4668216 CTTTCTCTGGAAATGATGATCCATCAATTTGATG
66 CTTTCTCTGGAAATGATGATCCATCAATTTGATG
4668250 GATTTGAATC
Statistics
Matches: 530, Mismatches: 21, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
112 2 0.00
113 149 0.28
114 335 0.63
116 44 0.08
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (114 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAGGTAAAAGG
Found at i:4668047 original size:227 final size:228
Alignment explanation
Indices: 4667580--4668249 Score: 1103
Period size: 227 Copynumber: 2.9 Consensus size: 228
4667570 GATAGAGTTA
* *
4667580 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * * * * * * *
4667645 GAACTCTAC-CTAGCAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAGATTGAACAAGTTC
63 GAACT-TTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTC
*
4667708 TTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
127 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
* * *
4667773 AAGATAATCCATCAATTTGATGAATTCAGGTAAAAGG
192 ATGATGATCCATCAATATGATGAATTCAGGTAAAAGG
4667810 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
4667875 CTTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCT
66 CTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCT
4667940 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGA
131 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGA
4668005 TGATCCATCAA-ATGATGAATTCAGGTAAAAGG
196 TGATCCATCAATATGATGAATTCAGGTAAAAGG
4668037 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
4668102 CTTTCTCTGGAAATGATGATCCATCAATTTGATGAAATCAGGTAAAAGGTTGAACAAATTCTTCT
66 CTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCT
4668167 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGA
131 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGA
*
4668232 TGATCCATCAATTTGATG
196 TGATCCATCAATATGATG
4668250 GATTTGAATC
Statistics
Matches: 415, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
226 2 0.00
227 259 0.62
228 110 0.27
230 44 0.11
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (228 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGGAAATGATGATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCT
CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGA
TGATCCATCAATATGATGAATTCAGGTAAAAGG
Found at i:4668206 original size:341 final size:342
Alignment explanation
Indices: 4667580--4668249 Score: 1146
Period size: 341 Copynumber: 2.0 Consensus size: 342
4667570 GATAGAGTTA
* *
4667580 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTAT
* * *
4667645 GAACTCTACCTAGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTT
64 GAACTCTACCTAGAAATGATGATCCATCAAATGATGAATTCAAGCAAAAGATTGAACAAATTCTT
*
4667710 CTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
129 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA
*
4667775 GATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCT
194 GATAATCCATCAATTTGATGAAATCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCT
*
4667840 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAATTT
259 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTT
4667905 GATGAATTCAGGTAAAAGG
324 GATGAATTCAGGTAAAAGG
4667924 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGA
* * * * *
4667988 ACT-TTCTCTGGAAATGATGATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTC
66 ACTCTAC-CTAGAAATGATGATCCATCAAATGATGAATTCAAGCAAAAGATTGAACAAATTCTTC
*
4668052 TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATG
130 TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG
*
4668117 ATGATCCATCAATTTGATGAAATCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTT
195 ATAATCCATCAATTTGATGAAATCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTT
* *
4668182 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGATGATCCATCAATTTG
260 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTTG
4668247 ATG
325 ATG
4668250 GATTTGAATC
Statistics
Matches: 308, Mismatches: 17, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
340 2 0.01
341 262 0.85
344 44 0.14
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (342 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGA
ACTCTACCTAGAAATGATGATCCATCAAATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCT
CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA
TAATCCATCAATTTGATGAAATCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC
TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTTGA
TGAATTCAGGTAAAAGG
Found at i:4669009 original size:83 final size:83
Alignment explanation
Indices: 4668870--4669366 Score: 795
Period size: 83 Copynumber: 6.0 Consensus size: 83
4668860 TCTCCTATGA
4668870 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
*
4668935 TTCCGGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
*
4668953 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
*
4669018 TTCCAGAAAATGCTATTG
66 TTCCAGAAGATGCTATTG
* * * *
4669036 GCAAATTCATCTTCTAAATTTAATAATTGATTCTGTCC-AACCAGATCAGATAACTCAAAGAACA
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAAAGAACA
*
4669100 CTTCCAGAAGATGCTATTA
65 CTTCCAGAAGATGCTATTG
* * *
4669119 GCAAATTCATCTTCTAAATTCAATAATTGATTCTGTCCAAACCAGATCAGATAACTCAAAGAACA
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAAAGAACA
4669184 CTTCCAGAAGATGCTA-TG
65 CTTCCAGAAGATGCTATTG
* *
4669202 AGTACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACA
1 -GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACA
4669267 CTTCCAGAAGATGCTA-T-
65 CTTCCAGAAGATGCTATTG
*
4669284 GAATACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAAC
1 GCA-A-ATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAAC
4669349 ACTTCCAGAAGATGCTAT
64 ACTTCCAGAAGATGCTAT
4669367 GAATACATTC
Statistics
Matches: 389, Mismatches: 19, Indels: 11
0.93 0.05 0.03
Matches are distributed among these distances:
81 2 0.01
83 313 0.80
84 74 0.19
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (83 bp):
GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATTG
Found at i:4669346 original size:250 final size:249
Alignment explanation
Indices: 4668864--4669384 Score: 816
Period size: 250 Copynumber: 2.1 Consensus size: 249
4668854 CTTATTTCTC
* *
4668864 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATAATTGATTCTGCCAAACCAGATCAGATAACTCAAA
* *
4668929 GAACACTTCCGGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAAT
66 GAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
* * *
4668994 CAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATTGGCAAATTCATCTTCTAAATTTAA
131 CAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATTGGAAAATTCATCTTCCAAATTCAA
4669059 TAATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
196 TAATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
* *
4669113 CTATTAGCAAATTCATCTTCTAAATTCAATAATTGATTCTGTCCAAACCAGATCAGATAACTCAA
1 CTATGAGCAAATTCATCTTCCAAATTCAATAATTGATTCTG-CCAAACCAGATCAGATAACTCAA
* *
4669178 AGAACACTTCCAGAAGATGCTA-TGAGTACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAA
65 AGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAA
*
4669242 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-T-GAATACATTCATCTTCCAAAT
129 ACCAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATTGGAA-A-ATTCATCTTCCAAAT
* *
4669305 TCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
192 TCAATAATTGATTCTGTCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
** *
4669363 CTATGAATACATTCATCTTCCA
1 CTATGAGCAAATTCATCTTCCA
4669385 GTTAATGTTT
Statistics
Matches: 248, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
248 2 0.01
249 43 0.17
250 203 0.82
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (249 bp):
CTATGAGCAAATTCATCTTCCAAATTCAATAATTGATTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAAC
CAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATTGGAAAATTCATCTTCCAAATTCAA
TAATTGATTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
Found at i:4670528 original size:8 final size:8
Alignment explanation
Indices: 4670517--4670582 Score: 68
Period size: 7 Copynumber: 8.5 Consensus size: 8
4670507 ACCTTGACCC
4670517 CTTTTTTT
1 CTTTTTTT
4670525 C-TTTTTT
1 CTTTTTTT
4670532 C-TTTTTT
1 CTTTTTTT
*
4670539 -TTTTCTT
1 CTTTTTTT
4670546 CTTTTCTTT
1 CTTTT-TTT
*
4670555 -TTCTTTT
1 CTTTTTTT
4670562 CTTTTTTT
1 CTTTTTTT
4670570 CATTTTTTT
1 C-TTTTTTT
4670579 CTTT
1 CTTT
4670583 AAGCATAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
7 21 0.43
8 18 0.37
9 10 0.20
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (8 bp):
CTTTTTTT
Found at i:4670540 original size:19 final size:18
Alignment explanation
Indices: 4670518--4670582 Score: 87
Period size: 19 Copynumber: 3.6 Consensus size: 18
4670508 CCTTGACCCC
4670518 TTTTTTTCTTTTTTCTTT
1 TTTTTTTCTTTTTTCTTT
4670536 TTTTTTTCTTCTTTTCTTT
1 TTTTTTTCTT-TTTTCTTT
* **
4670555 TTCTTTTCTTTTTT-TCA
1 TTTTTTTCTTTTTTCTTT
4670572 TTTTTTTCTTT
1 TTTTTTTCTTT
4670583 AAGCATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
17 11 0.26
18 14 0.33
19 17 0.40
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTTCTTTTTTCTTT
Found at i:4670542 original size:11 final size:11
Alignment explanation
Indices: 4670518--4670582 Score: 62
Period size: 11 Copynumber: 6.0 Consensus size: 11
4670508 CCTTGACCCC
4670518 TTTTTTTCTTT
1 TTTTTTTCTTT
*
4670529 TTTCTTT-TTT
1 TTTTTTTCTTT
*
4670539 TTTTCTTCTTT
1 TTTTTTTCTTT
*
4670550 TCTTTTTCTTT
1 TTTTTTTCTTT
**
4670561 TCTTTTTT-TCA
1 T-TTTTTTCTTT
4670572 TTTTTTTCTTT
1 TTTTTTTCTTT
4670583 AAGCATAATA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
10 14 0.34
11 22 0.54
12 5 0.12
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:4681277 original size:18 final size:17
Alignment explanation
Indices: 4681229--4681279 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
4681219 AAATACTTGC
*
4681229 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
4681247 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
4681265 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
4681280 TTGACAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:4683397 original size:3 final size:3
Alignment explanation
Indices: 4683391--4683465 Score: 105
Period size: 3 Copynumber: 25.0 Consensus size: 3
4683381 TATATGTATT
* * *
4683391 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
4683439 TAA TAA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
4683466 ATTAATATGG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:4690340 original size:18 final size:18
Alignment explanation
Indices: 4690296--4690345 Score: 93
Period size: 17 Copynumber: 2.8 Consensus size: 18
4690286 AAATTCAATC
4690296 TTTGATTTTGAAAATTGT
1 TTTGATTTTGAAAATTGT
4690314 TTT-ATTTTGAAAATTGT
1 TTTGATTTTGAAAATTGT
4690331 TTTGATTTTGAAAAT
1 TTTGATTTTGAAAAT
4690346 AAGCGTAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (18 bp):
TTTGATTTTGAAAATTGT
Found at i:4690499 original size:19 final size:19
Alignment explanation
Indices: 4690469--4690518 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
4690459 TTTAGCATGT
4690469 ATAAAAATAAAAC-TTAAA
1 ATAAAAATAAAACTTTAAA
4690487 ATAAAAATGAAAACTTTAAA
1 ATAAAAAT-AAAACTTTAAA
*
4690507 A-GAAAATAAAAC
1 ATAAAAATAAAAC
4690519 AAAAAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 13 0.45
19 10 0.34
20 6 0.21
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (19 bp):
ATAAAAATAAAACTTTAAA
Found at i:4692852 original size:162 final size:161
Alignment explanation
Indices: 4692585--4692908 Score: 639
Period size: 162 Copynumber: 2.0 Consensus size: 161
4692575 ATTTCCACAG
4692585 ACTATTTTTAATTCATAGGTATGATTATTTAAGGTTCTTTGTTTGGTATAGAATAAAAAGCTATT
1 ACTATTTTTAATTCATAGGTATGATTATTTAAGGTTCTTTGTTTGGTATAGAATAAAAAGCTATT
4692650 GGCACGACGAAAGATCTCAACGTAATTTTCTCACTTAATAGATGATCTCTAGTAAGAAAGAATGG
66 GGCACGACGAAAGATCTCAACGTAATTTTCTCACTTAATAGATGATCTCTAGTAAGAAAGAATGG
4692715 TTATTAGATGAATTGAAAATTTTTCCACAAAA
131 TTATTAGATGAATTGAAAA-TTTTCCACAAAA
4692747 ACTATTTTTAATTCATAGGTATGATTATTTAAGGTTCTTTGTTTGGTATAGAATAAAAAGCTATT
1 ACTATTTTTAATTCATAGGTATGATTATTTAAGGTTCTTTGTTTGGTATAGAATAAAAAGCTATT
4692812 GGCACGACGAAAGATCTCAACGTAATTTTCTCACTTAATAGATGATCTCTAGTAAGAAAGAATGG
66 GGCACGACGAAAGATCTCAACGTAATTTTCTCACTTAATAGATGATCTCTAGTAAGAAAGAATGG
4692877 TTATTAGATGAATTGAAAATTTTCCACAAAA
131 TTATTAGATGAATTGAAAATTTTCCACAAAA
4692908 A
1 A
4692909 TGTAGATCTT
Statistics
Matches: 162, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
161 13 0.08
162 149 0.92
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (161 bp):
ACTATTTTTAATTCATAGGTATGATTATTTAAGGTTCTTTGTTTGGTATAGAATAAAAAGCTATT
GGCACGACGAAAGATCTCAACGTAATTTTCTCACTTAATAGATGATCTCTAGTAAGAAAGAATGG
TTATTAGATGAATTGAAAATTTTCCACAAAA
Found at i:4693353 original size:40 final size:40
Alignment explanation
Indices: 4693158--4693415 Score: 181
Period size: 40 Copynumber: 6.4 Consensus size: 40
4693148 GATTTTCCAG
* * * * * **
4693158 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGATTCTGATAATCGCAACGAGAATACGTA
*
4693198 AATCGCAACGCGATTCTGACT-ATCGCAACGAGTACT-CGTAAA
1 AATCGCAACGCGATTCTGA-TAATCGCAACGAG-AATACGT--A
*
4693240 AATCGCAACGCG-TATC-G-TAAATCGCAACGACAATACGTAA
1 AATCGCAACGCGAT-TCTGAT-AATCGCAACGAGAATACGT-A
*
4693280 AATCGCAACGCG-TATCCG-TAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGAT-TCTGAT-AATCGCAACGAGAATACGTA
* *
4693320 AATCGCAACGCGATTCTGATTATCGCAACGAGAATACGTT
1 AATCGCAACGCGATTCTGATAATCGCAACGAGAATACGTA
* * * * * * *
4693360 AATCGTAACGACAATAC-GAAAAATCGCAACGCGTATCCGTA
1 AATCGCAACG-CGATTCTG-ATAATCGCAACGAGAATACGTA
*
4693401 AATCGTAACGCGATT
1 AATCGCAACGCGATT
4693416 TTTAAAGCGC
Statistics
Matches: 180, Mismatches: 25, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
39 1 0.01
40 95 0.53
41 69 0.38
42 15 0.08
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (40 bp):
AATCGCAACGCGATTCTGATAATCGCAACGAGAATACGTA
Found at i:4693384 original size:122 final size:121
Alignment explanation
Indices: 4693158--4693390 Score: 274
Period size: 122 Copynumber: 1.9 Consensus size: 121
4693148 GATTTTCCAG
* * *
4693158 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATAAATCGCAACGCGATTCTGACTATCG
1 AATCGCAACGCGAATACGAAAATCGCAACGAGAACACATAAATCGCAACGCGATTCTGACTATCG
* * *
4693223 CAACGAGTACTCGTAAAAATCGCAACGCGTATCGTAAATCGCAACGACAATACGTAA
66 CAACGAGTAATCGT-AAAATCGCAACGCATATCGAAAATCGCAACGACAATACGTAA
* * * * * *
4693280 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACGCGATTCTGATTATCG
1 AATCGCAACGCGAATACGAAAATCGCAACGAGAACACATAAATCGCAACGCGATTCTGACTATCG
* *
4693345 CAACGAG-AATACGT-TAATCGTAACGACA-ATACGAAAAATCGCAACG
66 CAACGAGTAAT-CGTAAAATCGCAACG-CATAT-CG-AAAATCGCAACG
4693391 CGTATCCGTA
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
120 11 0.12
121 5 0.05
122 77 0.83
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (121 bp):
AATCGCAACGCGAATACGAAAATCGCAACGAGAACACATAAATCGCAACGCGATTCTGACTATCG
CAACGAGTAATCGTAAAATCGCAACGCATATCGAAAATCGCAACGACAATACGTAA
Found at i:4693405 original size:20 final size:20
Alignment explanation
Indices: 4693158--4693413 Score: 159
Period size: 20 Copynumber: 12.7 Consensus size: 20
4693148 GATTTTCCAG
* *
4693158 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
4693178 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
*
4693198 AATCGCAACGCG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* * *
4693217 CTATCGCAACGAGTACT-CGTAAA
1 -AATCGCAACGCG-AATACGT--A
*
4693240 AATCGCAACGCGTAT-CGTA
1 AATCGCAACGCGAATACGTA
4693259 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
* *
4693280 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
4693300 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
*
4693320 AATCGCAACGCG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* * *
4693339 TTATCGCAACGAGAATACGTT
1 -AATCGCAACGCGAATACGTA
* *
4693360 AATCGTAACGAC-AATACGAAA
1 AATCGCAACG-CGAATACG-TA
* *
4693381 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
4693401 AATCGTAACGCGA
1 AATCGCAACGCGA
4693414 TTTTTAAAGC
Statistics
Matches: 182, Mismatches: 37, Indels: 34
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.01
19 19 0.10
20 110 0.60
21 37 0.20
22 13 0.07
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:4693606 original size:32 final size:32
Alignment explanation
Indices: 4693570--4693631 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
4693560 TTTTTAATTA
* *
4693570 TTTTT-ATTTTGAAAATTTTGCATTATTTTAGG
1 TTTTTCATATTGAAAATTTTG-ATTAGTTTAGG
*
4693602 TTTTTCATATTGAAACTTTTGATTAGTTTA
1 TTTTTCATATTGAAAATTTTGATTAGTTTA
4693632 CTAGTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (32 bp):
TTTTTCATATTGAAAATTTTGATTAGTTTAGG
Found at i:4693872 original size:55 final size:55
Alignment explanation
Indices: 4693806--4693909 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 55
4693796 TTGCAGAAGA
* *
4693806 ATCGCAACGAGAGAAATGAAAATTGCAACAAGAGAATCTAAACGCGAAAATGACT
1 ATCGCAACGAGAGAAATGAAAATCGCAACAAGAGAATCGAAACGCGAAAATGACT
* *
4693861 ATCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAA
1 ATCGCAACGAGAGAAATGAAAATCGCAACAAGAGAATCGAAACGCGAAA
4693910 CCAAAATCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (55 bp):
ATCGCAACGAGAGAAATGAAAATCGCAACAAGAGAATCGAAACGCGAAAATGACT
Found at i:4693962 original size:33 final size:33
Alignment explanation
Indices: 4693919--4694047 Score: 231
Period size: 33 Copynumber: 3.9 Consensus size: 33
4693909 ACCAAAATCG
4693919 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
4693952 CATTGTGATTTTCATTTCGCGTTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
4693985 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
4694018 CATTGCGATTTTCATTTCCGCGTTGCGATT
1 CATTGCGATTTTCATTT-CGCGTTGCGATT
4694048 TTCATTTCCG
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 79 0.87
34 12 0.13
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:4693990 original size:14 final size:14
Alignment explanation
Indices: 4693971--4694027 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4693961 TTTCATTTCG
4693971 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4693985 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4694004 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4694018 CATTGCGATT
1 CGTTGCGATT
4694028 TTCATTTCCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4694045 original size:20 final size:20
Alignment explanation
Indices: 4693985--4694095 Score: 112
Period size: 20 Copynumber: 5.9 Consensus size: 20
4693975 GCGATTCTCT
4693985 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATTTTCATTTCCG
*
4694004 CGTTGCGA--TTC---T-CT
1 CGTTGCGATTTTCATTTCCG
*
4694018 CATTGCGATTTTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
4694038 CGTTGCGATTTTCATTTCCG
1 CGTTGCGATTTTCATTTCCG
** *
4694058 CGTTGCGATAGTCA-TTCTCT
1 CGTTGCGATTTTCATTTC-CG
4694078 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
4694096 AACCAAAAGA
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
14 9 0.12
16 3 0.04
17 3 0.04
19 12 0.16
20 45 0.60
21 3 0.04
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCCG
Found at i:4695994 original size:92 final size:93
Alignment explanation
Indices: 4695770--4696052 Score: 480
Period size: 93 Copynumber: 3.1 Consensus size: 93
4695760 TAGATTGCTT
*
4695770 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* *
4695835 ATTTGACTTTTTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
*
4695863 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAA-ATA-T
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
4695926 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * *
4695955 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
4696020 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
4696048 AGTAA
1 AGTAA
4696053 TGCATCCATT
Statistics
Matches: 179, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
91 26 0.15
92 59 0.33
93 66 0.37
94 28 0.16
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:4696162 original size:19 final size:19
Alignment explanation
Indices: 4696099--4696232 Score: 90
Period size: 19 Copynumber: 7.4 Consensus size: 19
4696089 TAGTTTACTT
* *
4696099 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* ***
4696119 TCGCAACGTGAAAAATGACTC
1 TCGCAACGCG--AAATGAAAA
4696140 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4696159 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
*
4696173 TCGCAACGAGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4696192 TCGCAA--CG--AT-AGAA
1 TCGCAACGCGAAATGAAAA
4696206 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
4696225 TCGCAACG
1 TCGCAACG
4696233 ACAAAATCGC
Statistics
Matches: 86, Mismatches: 16, Indels: 25
0.68 0.13 0.20
Matches are distributed among these distances:
14 19 0.22
15 3 0.03
16 3 0.03
17 3 0.03
18 3 0.03
19 33 0.38
20 8 0.09
21 11 0.13
22 3 0.03
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4696176 original size:14 final size:14
Alignment explanation
Indices: 4696157--4696213 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4696147 GCGAAATGAA
4696157 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4696171 AATCGCAACGAGAAATG
1 AATCGCAACGAG--A-G
*
4696188 AAAATCGCAACGATAG
1 --AATCGCAACGAGAG
4696204 AATCGCAACG
1 AATCGCAACG
4696214 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 22 0.59
16 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4696186 original size:33 final size:33
Alignment explanation
Indices: 4696140--4696245 Score: 176
Period size: 33 Copynumber: 3.2 Consensus size: 33
4696130 AAAATGACTC
*
4696140 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
* *
4696173 TCGCAACGAGAAATGAAAATCGCAACGATAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
*
4696206 TCGCAACGCGAAATGAAAATCGCAACGACAAAA
1 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
4696239 TCGCAAC
1 TCGCAAC
4696246 TACCGGCTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.10
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGACAGAA
Found at i:4697831 original size:20 final size:20
Alignment explanation
Indices: 4697734--4697823 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
4697724 ATTTATTTGA
*
4697734 CTATCGCAACGCGAAAATAG
1 CTATCGCAACGCGAAAATGG
* *
4697754 ATATCGCAACGTGAAAATGG
1 CTATCGCAACGCGAAAATGG
4697774 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
4697794 CTATCGCAACGTGAAAATGG
1 CTATCGCAACGCGAAAATGG
4697814 CTATCGCAAC
1 CTATCGCAAC
4697824 AAGAAAATCG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:4697831 original size:40 final size:40
Alignment explanation
Indices: 4697734--4697823 Score: 162
Period size: 40 Copynumber: 2.2 Consensus size: 40
4697724 ATTTATTTGA
4697734 CTATCGCAACGCGAAAATAGATATCGCAACGTGAAAATGG
1 CTATCGCAACGCGAAAATAGATATCGCAACGTGAAAATGG
* *
4697774 CTATCGCAACGCGAAAATGGCTATCGCAACGTGAAAATGG
1 CTATCGCAACGCGAAAATAGATATCGCAACGTGAAAATGG
4697814 CTATCGCAAC
1 CTATCGCAAC
4697824 AAGAAAATCG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (40 bp):
CTATCGCAACGCGAAAATAGATATCGCAACGTGAAAATGG
Found at i:4697853 original size:33 final size:33
Alignment explanation
Indices: 4697816--4697885 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
4697806 GAAAATGGCT
* * *
4697816 ATCGCAACAAGAAAATCGCAATGCAAAATGAAA
1 ATCGCAACAACAAAATCGCAACGCAAAATAAAA
* *
4697849 ATCGCAACGACAAAATCGCAACGCGAAATAAAA
1 ATCGCAACAACAAAATCGCAACGCAAAATAAAA
4697882 ATCG
1 ATCG
4697886 TAATGCGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.51, C:0.21, G:0.16, T:0.11
Consensus pattern (33 bp):
ATCGCAACAACAAAATCGCAACGCAAAATAAAA
Found at i:4697911 original size:19 final size:18
Alignment explanation
Indices: 4697900--4697995 Score: 100
Period size: 18 Copynumber: 5.7 Consensus size: 18
4697890 GCGATTTGTG
*
4697900 TTTCGCGTTGCGATTTCA
1 TTTCGCATTGCGATTTCA
4697918 TTTCGCATTGCGATTT--
1 TTTCGCATTGCGATTTCA
*
4697934 TGTCG--TTGCGATTTTCA
1 TTTCGCATTGCGA-TTTCA
4697951 TTTCGCATTGCGATTT--
1 TTTCGCATTGCGATTTCA
4697967 TTTCG--TTGCGATTTTCA
1 TTTCGCATTGCGA-TTTCA
4697984 TTTCGCATTGCG
1 TTTCGCATTGCG
4697996 GTTCTCTCGT
Statistics
Matches: 65, Mismatches: 3, Indels: 19
0.75 0.03 0.22
Matches are distributed among these distances:
14 12 0.18
15 6 0.09
16 9 0.14
17 9 0.14
18 18 0.28
19 11 0.17
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.48
Consensus pattern (18 bp):
TTTCGCATTGCGATTTCA
Found at i:4697944 original size:14 final size:14
Alignment explanation
Indices: 4697905--4697981 Score: 64
Period size: 14 Copynumber: 4.9 Consensus size: 14
4697895 TTGTGTTTCG
4697905 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TTT
*
4697921 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTTT
4697937 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TTT
4697954 CGCATTGCGATTTTTT
1 CG--TTGCGATTTTTT
4697970 CGTTGCGATTTT
1 CGTTGCGATTTT
4697982 CATTTCGCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 16 0.31
15 3 0.06
16 11 0.21
17 4 0.08
18 12 0.23
19 6 0.12
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTTT
Found at i:4697955 original size:33 final size:33
Alignment explanation
Indices: 4697900--4698011 Score: 172
Period size: 33 Copynumber: 3.4 Consensus size: 33
4697890 GCGATTTGTG
*
4697900 TTTCGCGTTGCGA-TTTCATTTCGCATTGCGAT
1 TTTCTCGTTGCGATTTTCATTTCGCATTGCGAT
*
4697932 TTTGTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TTTCTCGTTGCGATTTTCATTTCGCATTGCGAT
* *
4697965 TTTTTCGTTGCGATTTTCATTTCGCATTGCGGT
1 TTTCTCGTTGCGATTTTCATTTCGCATTGCGAT
*
4697998 TCTCTCGTTGCGAT
1 TTTCTCGTTGCGAT
4698012 AGTCAGTTTC
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
32 11 0.15
33 62 0.85
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCTCGTTGCGATTTTCATTTCGCATTGCGAT
Found at i:4698167 original size:14 final size:14
Alignment explanation
Indices: 4698138--4698177 Score: 71
Period size: 14 Copynumber: 2.8 Consensus size: 14
4698128 CATCAATTAA
4698138 ACAAATCAACATTTT
1 ACAAATCAA-ATTTT
4698153 ACAAATCAAATTTT
1 ACAAATCAAATTTT
4698167 ACAAATCAAAT
1 ACAAATCAAAT
4698178 AAACAATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAAATTTT
Found at i:4699673 original size:42 final size:40
Alignment explanation
Indices: 4699593--4699673 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
4699583 CTTCAACGAT
* *
4699593 GACAGTGGCCTCTTGAATGGTGGGGGGACTCTTGAGGGAG
1 GACAGGGGCCTCTTGAACGGTGGGGGGACTCTTGAGGGAG
*
4699633 GACAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGA
1 GACAGGGGCCTCTTGAACG-GTGG-GGGGACTCTTGAGGGA
4699674 TGACCGGTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 17 0.47
41 3 0.08
42 16 0.44
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.21
Consensus pattern (40 bp):
GACAGGGGCCTCTTGAACGGTGGGGGGACTCTTGAGGGAG
Found at i:4700068 original size:20 final size:20
Alignment explanation
Indices: 4700045--4700094 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4700035 CTTAAAATTG
4700045 CAACGCGAAAATGACTATCA
1 CAACGCGAAAATGACTATCA
* * *
4700065 CAACGCGGAAATGGCTATCG
1 CAACGCGAAAATGACTATCA
*
4700085 CAATGCGAAA
1 CAACGCGAAA
4700095 TGAAAATCGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCA
Found at i:4700118 original size:21 final size:21
Alignment explanation
Indices: 4700092--4700135 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4700082 TCGCAATGCG
4700092 AAATGAAAATCGCAACGACAA
1 AAATGAAAATCGCAACGACAA
4700113 AAATGAAAATCGCAACGACAA
1 AAATGAAAATCGCAACGACAA
4700134 AA
1 AA
4700136 TCGCAACGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.59, C:0.18, G:0.14, T:0.09
Consensus pattern (21 bp):
AAATGAAAATCGCAACGACAA
Found at i:4700202 original size:33 final size:33
Alignment explanation
Indices: 4700160--4700284 Score: 205
Period size: 33 Copynumber: 3.8 Consensus size: 33
4700150 ACAAATCGCA
* *
4700160 TTGCGATTTTCATTTTGCGTTGCGATTTTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTTTCG
*
4700193 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTTTCG
*
4700226 TTGCGATTTTCATTTCGCATTACGATTTTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTTTCG
*
4700259 TTGCGATTTTTATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
4700285 AGCCATTTCC
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 85 1.00
ACGTcount: A:0.13, C:0.17, G:0.19, T:0.51
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTTTCG
Found at i:4700253 original size:19 final size:19
Alignment explanation
Indices: 4700155--4700284 Score: 110
Period size: 19 Copynumber: 7.6 Consensus size: 19
4700145 GAAACACAAA
4700155 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
4700174 TTGCGTTGCGA-TTT--TT
1 TCGCATTGCGATTTTCATT
4700190 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
4700207 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
4700223 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
4700240 TCGCATTACGA-TTT--TT
1 TCGCATTGCGATTTTCATT
*
4700256 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
4700273 TCGCATTGCGAT
1 TCGCATTGCGAT
4700285 AGCCATTTCC
Statistics
Matches: 89, Mismatches: 7, Indels: 30
0.71 0.06 0.24
Matches are distributed among these distances:
14 17 0.19
15 9 0.10
16 13 0.15
17 14 0.16
18 9 0.10
19 27 0.30
ACGTcount: A:0.13, C:0.18, G:0.19, T:0.50
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:4700267 original size:14 final size:14
Alignment explanation
Indices: 4700172--4700269 Score: 79
Period size: 14 Copynumber: 6.3 Consensus size: 14
4700162 GCGATTTTCA
*
4700172 TTTTGCGTTGCGAT
1 TTTTTCGTTGCGAT
4700186 TTTTTCGTTGCGATT
1 TTTTTCGTTGCGA-T
4700201 TTCATTTCGCATTGCGAT
1 TT--TTTCG--TTGCGAT
*
4700219 TTTGTCGTTGCGATT
1 TTTTTCGTTGCGA-T
*
4700234 TTCATTTCGCATTACGAT
1 TT--TTTCG--TTGCGAT
4700252 TTTTTCGTTGCGAT
1 TTTTTCGTTGCGAT
4700266 TTTT
1 TTTT
4700270 ATTTCGCATT
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
14 28 0.41
15 6 0.09
16 9 0.13
17 9 0.13
18 6 0.09
19 11 0.16
ACGTcount: A:0.11, C:0.16, G:0.19, T:0.53
Consensus pattern (14 bp):
TTTTTCGTTGCGAT
Found at i:4700292 original size:19 final size:20
Alignment explanation
Indices: 4700270--4700312 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4700260 TGCGATTTTT
4700270 ATTT-CGCATTGCGATAGCC
1 ATTTCCGCATTGCGATAGCC
* *
4700289 ATTTCCGCGTTGCGATAGTC
1 ATTTCCGCATTGCGATAGCC
4700309 ATTT
1 ATTT
4700313 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (20 bp):
ATTTCCGCATTGCGATAGCC
Found at i:4700303 original size:20 final size:20
Alignment explanation
Indices: 4700278--4700323 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4700268 TTATTTCGCA
4700278 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
4700298 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
4700318 TTGCGA
1 TTGCGA
4700324 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:4700831 original size:18 final size:18
Alignment explanation
Indices: 4700805--4700849 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4700795 GTCGATCAGA
*
4700805 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
4700823 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
4700841 TGATGGCTC
1 TGATGGCTC
4700850 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:4702194 original size:20 final size:20
Alignment explanation
Indices: 4702169--4702211 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4702159 AATAGTTTCT
4702169 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
4702189 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
4702209 GAA
1 GAA
4702212 TTTGACTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.12
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:4702217 original size:20 final size:20
Alignment explanation
Indices: 4702179--4702247 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
4702169 GAAAATGAAA
* **
4702179 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAATTTGACT
4702199 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
4702219 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
4702239 ATCGCAACG
1 ATCGCAACG
4702248 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:4702537 original size:22 final size:22
Alignment explanation
Indices: 4702510--4702553 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4702500 GATGGAGATA
4702510 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
4702532 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
4702554 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:4702770 original size:20 final size:20
Alignment explanation
Indices: 4702740--4702809 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
4702730 GATTATGTAT
*
4702740 TATCGCGTTGCGAAAGTCAG
1 TATCTCGTTGCGAAAGTCAG
*
4702760 AATCTCGTTGCGAAAGTCAG
1 TATCTCGTTGCGAAAGTCAG
4702780 TATCTCGTTGCGAAAGTCAG
1 TATCTCGTTGCGAAAGTCAG
4702800 TATCTCGTTG
1 TATCTCGTTG
4702810 GATTTTGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (20 bp):
TATCTCGTTGCGAAAGTCAG
Found at i:4702831 original size:40 final size:41
Alignment explanation
Indices: 4702726--4702854 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 41
4702716 GAAAATCGCA
*
4702726 TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCTCG
1 TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCTCG
* * *
4702767 TTGCGA--AAGTCAGTATCTCGTTGCGAAAGTCAGTATCTCG
1 TTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGTATCTCG
* * * * *
4702807 TTG-GATTTTGTATTATCGCATTGCGATAGTCAGTATCGCA
1 TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCTCG
4702847 TTGCGATT
1 TTGCGATT
4702855 TTCCCAATTC
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
39 5 0.07
40 55 0.76
41 12 0.17
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (41 bp):
TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCTCG
Found at i:4702845 original size:20 final size:20
Alignment explanation
Indices: 4702740--4702853 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
4702730 GATTATGTAT
*
4702740 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
4702760 AATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
4702780 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
4702800 TATCTCGTTG-GATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
4702820 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
4702840 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
4702854 TTTCCCAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
19 5 0.06
20 71 0.89
21 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:4702964 original size:21 final size:21
Alignment explanation
Indices: 4702924--4702964 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4702914 ACTGTAGACC
** *
4702924 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
4702945 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
4702965 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:4707525 original size:22 final size:23
Alignment explanation
Indices: 4707500--4707545 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
4707490 CCTAATATAT
4707500 TTCTGGAA-TAAAGTATTATCCA
1 TTCTGGAAGTAAAGTATTATCCA
*
4707522 TTCTGGAAGTAAGGTATTATCCA
1 TTCTGGAAGTAAAGTATTATCCA
4707545 T
1 T
4707546 CATACTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (23 bp):
TTCTGGAAGTAAAGTATTATCCA
Found at i:4723928 original size:19 final size:20
Alignment explanation
Indices: 4723906--4723943 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4723896 TTCCATTGAG
4723906 CCCGAA-AAACTCCACTGAA
1 CCCGAAGAAACTCCACTGAA
*
4723925 CCCGAAGGAACTCCACTGA
1 CCCGAAGAAACTCCACTGA
4723944 GCCAAGCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.37, G:0.16, T:0.11
Consensus pattern (20 bp):
CCCGAAGAAACTCCACTGAA
Found at i:4730084 original size:101 final size:101
Alignment explanation
Indices: 4729883--4730085 Score: 289
Period size: 101 Copynumber: 2.0 Consensus size: 101
4729873 TCACGGGATG
* *
4729883 ACTCTACCTGACTAGCTTGGGGGTGAAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTTGT
1 ACTCTACCTGACTAGCTCGGGGGTGAAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGT
* **
4729948 GTGATAAACTGACTCCCCTTAAAAAATGCTTAAAAA
66 GTGATAAACTGACTCCACTTAAAAAATGCAAAAAAA
* *
4729984 ACTCTACTTGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGT
1 ACTCTACCTGACTAGCTCGGGGGTGAAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGT
* * * * **
4730049 GTGATGAGCTGACTCTACTTGAAGTATGCAAAAAAA
66 GTGATAAACTGACTCCACTTAAAAAATGCAAAAAAA
4730085 A
1 A
4730086 AAAAACAAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 89 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (101 bp):
ACTCTACCTGACTAGCTCGGGGGTGAAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTAGT
GTGATAAACTGACTCCACTTAAAAAATGCAAAAAAA
Found at i:4756489 original size:24 final size:24
Alignment explanation
Indices: 4756453--4756516 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
4756443 TCAGCCACTA
* *
4756453 CAGCCTCCA-CAACCGCAACAGTCT
1 CAGCCT-CAGCAACAGCAACAATCT
*
4756477 CAGCCTCAGCAACAGCCACAATCT
1 CAGCCTCAGCAACAGCAACAATCT
*
4756501 CAGCCTCAGCAGCAGC
1 CAGCCTCAGCAACAGC
4756517 CAACCAAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 2 0.06
24 33 0.94
ACGTcount: A:0.30, C:0.44, G:0.16, T:0.11
Consensus pattern (24 bp):
CAGCCTCAGCAACAGCAACAATCT
Found at i:4761782 original size:24 final size:24
Alignment explanation
Indices: 4761755--4761804 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4761745 TGGTGGTTGA
*
4761755 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
4761779 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
4761803 TT
1 TT
4761805 GGTTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:4763988 original size:21 final size:21
Alignment explanation
Indices: 4763962--4764002 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4763952 TTCAATTAAG
*
4763962 AATCAAGGAGCTTTACTTCAT
1 AATCAAGGAGCCTTACTTCAT
*
4763983 AATCAAGGCGCCTTACTTCA
1 AATCAAGGAGCCTTACTTCA
4764003 AAGCCATAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (21 bp):
AATCAAGGAGCCTTACTTCAT
Found at i:4768568 original size:19 final size:21
Alignment explanation
Indices: 4768531--4768573 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
4768521 TAACTTTTTC
*
4768531 TTTTCTCTTTCTTTATTAA-T
1 TTTTCTCTTTCATTATTAACT
4768551 TTTTCTCTTTCATT-TTAACT
1 TTTTCTCTTTCATTATTAACT
4768571 TTT
1 TTT
4768574 ACTTTTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCTCTTTCATTATTAACT
Found at i:4771901 original size:24 final size:24
Alignment explanation
Indices: 4771874--4771923 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4771864 TGGTGGTTGA
*
4771874 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
4771898 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
4771922 TT
1 TT
4771924 GGTTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:4773512 original size:19 final size:19
Alignment explanation
Indices: 4773488--4773525 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4773478 ATTTTAATTC
*
4773488 TATTCAATTTAGTTGTGTT
1 TATTCAATTTAGTCGTGTT
4773507 TATTCAATTTAGTCGTGTT
1 TATTCAATTTAGTCGTGTT
4773526 GTTGCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (19 bp):
TATTCAATTTAGTCGTGTT
Found at i:4777507 original size:16 final size:17
Alignment explanation
Indices: 4777475--4777507 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4777465 TGACTTTGAC
4777475 CAAAAAGTCAAATTTTT
1 CAAAAAGTCAAATTTTT
*
4777492 CAAAAAGTCATATTTT
1 CAAAAAGTCAAATTTT
4777508 ATGTTTTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
CAAAAAGTCAAATTTTT
Found at i:4779559 original size:35 final size:37
Alignment explanation
Indices: 4779494--4779564 Score: 128
Period size: 35 Copynumber: 2.0 Consensus size: 37
4779484 ATTGTGCAGG
4779494 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCA
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCA
4779531 GGGAACAGATT-CCCCCT-GGGGGGTATCGATTCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCC
4779565 CCCTAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 17 0.50
36 6 0.18
37 11 0.32
ACGTcount: A:0.18, C:0.30, G:0.32, T:0.20
Consensus pattern (37 bp):
GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCA
Found at i:4780670 original size:24 final size:23
Alignment explanation
Indices: 4780592--4780679 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
4780582 CAGTCATATA
*
4780592 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
4780615 TGGCACTTCGGTGCATTTCTATG
1 TGGCACTTCGGTGCAATTCTACG
*
4780638 CGGTC-CTTCGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-C-AATTCTACG
4780662 TGGCACTTCGGTGCAATT
1 TGGCACTTCGGTGCAATT
4780680 TATATGAGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
22 1 0.02
23 34 0.64
24 17 0.32
25 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:4781370 original size:13 final size:14
Alignment explanation
Indices: 4781326--4781378 Score: 60
Period size: 13 Copynumber: 4.0 Consensus size: 14
4781316 TACTGTAGTA
*
4781326 GGTATTGTTCATAC
1 GGTACTGTTCATAC
4781340 GGTACTG-T-AGTA-
1 GGTACTGTTCA-TAC
4781352 GGTACTGTT-ATAC
1 GGTACTGTTCATAC
4781365 GGTACTGTTCATAC
1 GGTACTGTTCATAC
4781379 CATATTTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 10 0.29
13 14 0.41
14 10 0.29
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.38
Consensus pattern (14 bp):
GGTACTGTTCATAC
Found at i:4781370 original size:25 final size:26
Alignment explanation
Indices: 4781315--4781372 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
4781305 TTTTCCGAAA
*
4781315 GTACTGTAGTAGGTATTGTTCATACG
1 GTACTGTAGTAGGTACTGTTCATACG
4781341 GTACTGTAGTAGGTACTGTT-ATACG
1 GTACTGTAGTAGGTACTGTTCATACG
4781366 GTACTGT
1 GTACTGT
4781373 TCATACCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (26 bp):
GTACTGTAGTAGGTACTGTTCATACG
Found at i:4782378 original size:22 final size:22
Alignment explanation
Indices: 4782352--4782394 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4782342 TTCTGGGCTA
*
4782352 GGGGAATCGGTACCCATTCAAG
1 GGGGAATCGATACCCATTCAAG
*
4782374 GGGGAATCGATACCCCTTCAA
1 GGGGAATCGATACCCATTCAA
4782395 ACGAACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.19
Consensus pattern (22 bp):
GGGGAATCGATACCCATTCAAG
Found at i:4782468 original size:21 final size:22
Alignment explanation
Indices: 4782422--4782470 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
4782412 GAATGTCATG
*
4782422 AGGGAACCGATACCCCCATAGT
1 AGGGAACCGATACCCCCATAGA
* *
4782444 AGGGAACCGATTCCCCCCTA-A
1 AGGGAACCGATACCCCCATAGA
4782465 AGGGAA
1 AGGGAA
4782471 ATTATAATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.33, C:0.31, G:0.24, T:0.12
Consensus pattern (22 bp):
AGGGAACCGATACCCCCATAGA
Found at i:4786244 original size:35 final size:37
Alignment explanation
Indices: 4786179--4786250 Score: 130
Period size: 35 Copynumber: 2.0 Consensus size: 37
4786169 ATTGTGCAGG
4786179 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
4786216 GGGAACAGATT-CCCCCT-GGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
4786251 CCTAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 18 0.51
36 6 0.17
37 11 0.31
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.19
Consensus pattern (37 bp):
GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
Found at i:4787319 original size:23 final size:23
Alignment explanation
Indices: 4787285--4787372 Score: 83
Period size: 23 Copynumber: 3.8 Consensus size: 23
4787275 CAGTCATATA
4787285 TGGCA-TTACGGTGCAATTCTACG
1 TGGCACTT-CGGTGCAATTCTACG
*
4787308 TGGCACTTCGGTGCATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
4787331 AGGTC-CTTTGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-C-AATTCTACG
*
4787355 TGGTACTTCGGTGCAATT
1 TGGCACTTCGGTGCAATT
4787373 TATATGAGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
22 1 0.02
23 31 0.60
24 19 0.37
25 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:4790329 original size:3 final size:3
Alignment explanation
Indices: 4790321--4790365 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
4790311 CTATTCTTAT
** * *
4790321 TTA TTA TTA TTA TTA CGA TTA TTA TTA TTA TCA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4790366 ATATATATAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:4790343 original size:15 final size:15
Alignment explanation
Indices: 4790323--4790365 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
4790313 ATTCTTATTT
4790323 ATTATTATTATTA-C
1 ATTATTATTATTATC
4790337 GATTATTATTATTATC
1 -ATTATTATTATTATC
*
4790353 ACTATTATTATTA
1 ATTATTATTATTA
4790366 ATATATATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 25 0.96
16 1 0.04
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (15 bp):
ATTATTATTATTATC
Found at i:4790344 original size:18 final size:18
Alignment explanation
Indices: 4790321--4790365 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4790311 CTATTCTTAT
*
4790321 TTATTATTATTATTACGA
1 TTATTATTATTATCACGA
*
4790339 TTATTATTATTATCACTA
1 TTATTATTATTATCACGA
4790357 TTATTATTA
1 TTATTATTA
4790366 ATATATATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (18 bp):
TTATTATTATTATCACGA
Found at i:4791146 original size:158 final size:159
Alignment explanation
Indices: 4790858--4791171 Score: 621
Period size: 158 Copynumber: 2.0 Consensus size: 159
4790848 TACAAGAAGA
4790858 AAGGGGACAACAATGAGAGCAAGTATTATACAGTAACGAAAAGCAAGACGAAGGGACAGAGACGA
1 AAGGGGACAACAATGAGAGCAAGTATTATACAGTAACGAAAAGCAAGACGAAGGGACAGAGACGA
4790923 AAAACTGAGGAATAGAATACAACCAACAAAGAGAAAAAATAGAAAAATAAGGAGAAGATTCCGAG
66 AAAACTGAGGAATAGAATACAACCAACAAAGAGAAAAAATAGAAAAATAAGGAGAAGATTCCGAG
4790988 AAACTTACCCAATGAC-TAGGAGCCTCAT
131 AAACTTACCCAATGACTTAGGAGCCTCAT
4791016 AAGGGGACAACAATGAGAGCAAGTATTATACAGTAACGAAAAGCAAGACGAAGGGACAGAGACGA
1 AAGGGGACAACAATGAGAGCAAGTATTATACAGTAACGAAAAGCAAGACGAAGGGACAGAGACGA
4791081 AAAACTGAGGAATAGAATACAACCAACAAAGAGAAAAAATAGAAAAATAAGGAGAAGATTCCGAG
66 AAAACTGAGGAATAGAATACAACCAACAAAGAGAAAAAATAGAAAAATAAGGAGAAGATTCCGAG
4791146 AAACTTACCCAATGACTTAGGAGCCT
131 AAACTTACCCAATGACTTAGGAGCCT
4791172 TCATGCGCCC
Statistics
Matches: 155, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
158 146 0.94
159 9 0.06
ACGTcount: A:0.50, C:0.15, G:0.23, T:0.12
Consensus pattern (159 bp):
AAGGGGACAACAATGAGAGCAAGTATTATACAGTAACGAAAAGCAAGACGAAGGGACAGAGACGA
AAAACTGAGGAATAGAATACAACCAACAAAGAGAAAAAATAGAAAAATAAGGAGAAGATTCCGAG
AAACTTACCCAATGACTTAGGAGCCTCAT
Found at i:4792483 original size:44 final size:44
Alignment explanation
Indices: 4792435--4792519 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
4792425 CTTGATTATT
*
4792435 TTAATAAATAAG-TTGTACTAACTTGTTTGTTAATCTTTTCAGAG
1 TTAAT-AATAAGTTTGTACTAACATGTTTGTTAATCTTTTCAGAG
** ** *
4792479 TTAATTGTCTGTTTGTACTAACATGTTTGTTAATGTTTTCA
1 TTAATAATAAGTTTGTACTAACATGTTTGTTAATCTTTTCA
4792520 TATTTAATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.49
Consensus pattern (44 bp):
TTAATAATAAGTTTGTACTAACATGTTTGTTAATCTTTTCAGAG
Found at i:4792536 original size:44 final size:44
Alignment explanation
Indices: 4792447--4792536 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
4792437 AATAAATAAG
* * *
4792447 TTGTACTAACTTGTTTGTTAATCTTTTCAGAGTTAATTGTCTGT
1 TTGTACTAACATGTTTGTTAATCTTTTCAGAGTTAATTATATGT
* * *
4792491 TTGTACTAACATGTTTGTTAATGTTTTCATATTTAATTATATGT
1 TTGTACTAACATGTTTGTTAATCTTTTCAGAGTTAATTATATGT
4792535 TT
1 TT
4792537 TTATATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.23, C:0.09, G:0.13, T:0.54
Consensus pattern (44 bp):
TTGTACTAACATGTTTGTTAATCTTTTCAGAGTTAATTATATGT
Found at i:4793101 original size:45 final size:46
Alignment explanation
Indices: 4793012--4793103 Score: 125
Period size: 45 Copynumber: 2.0 Consensus size: 46
4793002 ATATTATTAT
* * *
4793012 TTTATTTTCCAAACAAACATATGTGAACTAGAAATCATGCGGTTAGG
1 TTTATTTTCCAAACAAACA-ATGTGAACTAGAAAGCACGAGGTTAGG
4793059 TTTATTTTCCAAACAAAGC-ATG-GAACTAGAAAGCACGAGGTTAGG
1 TTTATTTTCCAAACAAA-CAATGTGAACTAGAAAGCACGAGGTTAGG
4793104 ATGTATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
45 20 0.49
46 3 0.07
47 17 0.41
48 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (46 bp):
TTTATTTTCCAAACAAACAATGTGAACTAGAAAGCACGAGGTTAGG
Found at i:4794585 original size:24 final size:24
Alignment explanation
Indices: 4794558--4794625 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
4794548 ACATAATTCA
* *
4794558 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAG
4794582 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* *
4794606 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAAT
4794626 TCAAATAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAG
Found at i:4795425 original size:24 final size:24
Alignment explanation
Indices: 4795398--4795484 Score: 59
Period size: 24 Copynumber: 3.7 Consensus size: 24
4795388 TATATCAAAA
* *
4795398 ATCAAAACATAATTCAAGTCAAGT
1 ATCAAAACAGAATCCAAGTCAAGT
* * *
4795422 ATCAGATCAGAATCCATGTCAAGT
1 ATCAAAACAGAATCCAAGTCAAGT
* * * * *
4795446 ATCAGATCCGAATTCAGGTC-AGT
1 ATCAAAACAGAATCCAAGTCAAGT
* *
4795469 ATCATATCAGAATCCA
1 ATCAAAACAGAATCCA
4795485 GGTAAGGCAT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 16 0.31
24 36 0.69
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (24 bp):
ATCAAAACAGAATCCAAGTCAAGT
Found at i:4797841 original size:14 final size:15
Alignment explanation
Indices: 4797807--4797841 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4797797 GTCGGTCAGT
4797807 CGGGTCGGGTCAAAC
1 CGGGTCGGGTCAAAC
*
4797822 CGGGTCGGGTCGAA-
1 CGGGTCGGGTCAAAC
4797836 CGGGTC
1 CGGGTC
4797842 AAACTGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.14, C:0.26, G:0.46, T:0.14
Consensus pattern (15 bp):
CGGGTCGGGTCAAAC
Found at i:4802194 original size:80 final size:80
Alignment explanation
Indices: 4802059--4802326 Score: 351
Period size: 80 Copynumber: 3.4 Consensus size: 80
4802049 TTTACAAGTC
* * *
4802059 TGATCTTCTCTGAATGAATAGAT-GAGCAAATATGTCTTCAAATTGATCTGAATACCCGAAAAAG
1 TGATCTCCCCTGAATGAATAG-TGGAGCAAATACGTCTTCAAATTGATCTGAATACCCGAAAAAG
4802123 TGGCACATATCCAATA
65 TGGCACATATCCAATA
* **
4802139 TGATCTCCCCTGAATGAATAGTGGAGCAGAA-ACGTCTTCAAATTGATCTGGATACCTAAAAAAG
1 TGATCTCCCCTGAATGAATAGTGGAGCA-AATACGTCTTCAAATTGATCTGAATACCCGAAAAAG
* *
4802203 TGGCACATGTCCAATT
65 TGGCACATATCCAATA
* * *
4802219 TGATCTCCCTTGAATGAATAGTGGAGCAAATACGTTTTCAAATTGATCTGAATACCCGAAAAAGA
1 TGATCTCCCCTGAATGAATAGTGGAGCAAATACGTCTTCAAATTGATCTGAATACCCGAAAAAGT
* * *
4802284 GGCACAGATCCAGTC
66 GGCACATATCCAATA
* * *
4802299 TGATCTTCCCTAAATGAATAGTGAAGCA
1 TGATCTCCCCTGAATGAATAGTGGAGCA
4802327 GACCTGTCAT
Statistics
Matches: 163, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
79 3 0.02
80 158 0.97
81 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (80 bp):
TGATCTCCCCTGAATGAATAGTGGAGCAAATACGTCTTCAAATTGATCTGAATACCCGAAAAAGT
GGCACATATCCAATA
Found at i:4802347 original size:80 final size:78
Alignment explanation
Indices: 4802059--4802365 Score: 237
Period size: 80 Copynumber: 3.8 Consensus size: 78
4802049 TTTACAAGTC
* * ** *
4802059 TGATCTTCTCTGAATGAATAGAT-GAGCAAATATGTCTTCAAATTGATCTGAATACCCGAAAAAG
1 TGATCTTCCCTGAATGAATAG-TGGAGCAGACCTGTCATC--ATTGATCTGAATACCCGAAAAAG
* *
4802123 TGGCACATATCCAATA
63 AGGCACAGATCCAATA
* * * * **
4802139 TGATCTCCCCTGAATGAATAGTGGAGCAGAAAC-GTCTTCAAATTGATCTGGATACCTAAAAAAG
1 TGATCTTCCCTGAATGAATAGTGGAGCAG-ACCTGTCATC--ATTGATCTGAATACCCGAAAAAG
* *
4802203 TGGCACATG-TCCAATT
63 AGGCACA-GATCCAATA
* * * *
4802219 TGATC-TCCCTTGAATGAATAGTGGAGCAAATACGTTTTCA-AATTGATCTGAATACCCGAAAAA
1 TGATCTTCCC-TGAATGAATAGTGGAGC--AGAC-CTGTCATCATTGATCTGAATACCCGAAAAA
* *
4802282 GAGGCACAGATCCAGTC
62 GAGGCACAGATCCAATA
* * * *
4802299 TGATCTTCCCTAAATGAATAGTGAAGCAGACCTGTCATCATTCAGATCTGACTACCCGAAAGAGA
1 TGATCTTCCCTGAATGAATAGTGGAGCAGACCTGTCATCATT--GATCTGAATACCCGAAAAAGA
4802364 GG
64 GG
4802366 AACAATCAAA
Statistics
Matches: 183, Mismatches: 31, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
77 4 0.02
78 6 0.03
79 5 0.03
80 159 0.87
81 6 0.03
82 1 0.01
83 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (78 bp):
TGATCTTCCCTGAATGAATAGTGGAGCAGACCTGTCATCATTGATCTGAATACCCGAAAAAGAGG
CACAGATCCAATA
Found at i:4802386 original size:160 final size:159
Alignment explanation
Indices: 4802069--4802386 Score: 367
Period size: 160 Copynumber: 2.0 Consensus size: 159
4802059 TGATCTTCTC
* * *
4802069 TGAATGAATAGATGAGCAAATATGTCTTCAAATTGATCTGAATACCCGAAAAAGTGGCACATATC
1 TGAATGAATAGATGAGCAAATACGTCTTCAAATTGATCTGAATACCCGAAAAAGAGGCACAGATC
* * * *
4802134 CAATATGATCTCCCCTGAATGAATAGTGGAGCAGAAACGTCTTCAAATTGATCTGGATACCTAAA
66 CAATATGATCTCCCCTAAATGAATAGTGAAGCAGAAACGTCATC-AATTGATCTGGATACCCAAA
* * * * *
4802199 AAAGTGGCACATGTCCAATTTGATCTCCCT
130 AAAGAGGAACATATCAAATTCGATCTCCCT
*
4802229 TGAATGAATAG-TGGAGCAAATACGTTTTCAAATTGATCTGAATACCCGAAAAAGAGGCACAGAT
1 TGAATGAATAGAT-GAGCAAATACGTCTTCAAATTGATCTGAATACCCGAAAAAGAGGCACAGAT
* * * *
4802293 CCAGTCTGATCTTCCCTAAATGAATAGTGAAGCAG-ACCTGTCATC-ATTCAGATCT-GACTACC
65 CCAATATGATCTCCCCTAAATGAATAGTGAAGCAGAAAC-GTCATCAATT--GATCTGGA-TACC
* *
4802355 CGAAAGAGAGGAACA-ATCAAAGTTCGATCTCC
126 CAAAAAAGAGGAACATATCAAA-TTCGATCTCC
4802387 ACGAAAGAGT
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
158 3 0.02
159 9 0.07
160 121 0.91
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (159 bp):
TGAATGAATAGATGAGCAAATACGTCTTCAAATTGATCTGAATACCCGAAAAAGAGGCACAGATC
CAATATGATCTCCCCTAAATGAATAGTGAAGCAGAAACGTCATCAATTGATCTGGATACCCAAAA
AAGAGGAACATATCAAATTCGATCTCCCT
Found at i:4821926 original size:17 final size:15
Alignment explanation
Indices: 4821899--4821945 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
4821889 TCGAAACCGG
4821899 TTTTTCGGTTCGGTT
1 TTTTTCGGTTCGGTT
*
4821914 TTTTTAACGGTTCGG-A
1 TTTTT--CGGTTCGGTT
4821930 TTTTTCGGTTCGGTT
1 TTTTTCGGTTCGGTT
4821945 T
1 T
4821946 ATCGGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 8 0.30
15 6 0.22
16 5 0.19
17 8 0.30
ACGTcount: A:0.06, C:0.13, G:0.26, T:0.55
Consensus pattern (15 bp):
TTTTTCGGTTCGGTT
Found at i:4821940 original size:14 final size:13
Alignment explanation
Indices: 4821896--4821952 Score: 60
Period size: 13 Copynumber: 4.0 Consensus size: 13
4821886 AAATCGAAAC
4821896 CGGTTTTTCGGTT
1 CGGTTTTTCGGTT
4821909 CGGTTTTTTTAACGGTT
1 CGG--TTTTT--CGGTT
4821926 CGGATTTTTCGGTT
1 CGG-TTTTTCGGTT
*
4821940 CGGTTTATCGGTT
1 CGGTTTTTCGGTT
4821953 TTTTAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 12 0.32
14 8 0.21
15 5 0.13
16 5 0.13
17 8 0.21
ACGTcount: A:0.07, C:0.14, G:0.28, T:0.51
Consensus pattern (13 bp):
CGGTTTTTCGGTT
Found at i:4822339 original size:165 final size:156
Alignment explanation
Indices: 4822024--4822345 Score: 547
Period size: 165 Copynumber: 2.0 Consensus size: 156
4822014 TCAATATGGA
4822024 ACAAATGGGTTCCATATGAAAAACTCGAACCGAACCGAATAAAAAAATGAGCCTTTAATCGAACG
1 ACAAATGGGTTCCATATGAAAAACTCGAACCGAACCGAATAAAAAAATGAGCCTTTAATCGAACG
4822089 AAACTAACCGTTAAAGCAACCGAACCGAAACCGTTTTACTCGATTCATTTTGTTTTTCAGTTTTC
66 AAACTAACCGTTAAAGCAACCGAACCGAAACCGTTTTACTCGATTCATTTTGTTTTTCAGTTTTC
4822154 TCGGTTTCGTTGCTCTGCCCTAATAG
131 TCGGTTTCGTTGCTCTGCCCTAATAG
4822180 ACAAATGGGTTCCATATGAAAAACTCGAACCGAACCGAATAAAAAAAATGAAGCCTTTAAATCGA
1 ACAAATGGGTTCCATATGAAAAACTCGAACCGAACCGAAT-AAAAAAATG-AGCCTTT-AATCGA
4822245 ACTGAAAACTAAACCGTTTAAAGCCAAACCGAACCG-AACCGTTTTACTCGATTCATTTTGGTTT
63 AC-G-AAACT-AACCG-TTAAAG-C-AACCGAACCGAAACCGTTTTACTCGATTCATTTT-GTTT
4822309 TTCAGTTTTCTCGGTTTCGTTGCTCTGCCCTAATAG
121 TTCAGTTTTCTCGGTTTCGTTGCTCTGCCCTAATAG
4822345 A
1 A
4822346 TAACCAAACC
Statistics
Matches: 156, Mismatches: 0, Indels: 11
0.93 0.00 0.07
Matches are distributed among these distances:
156 40 0.26
157 9 0.06
158 7 0.04
159 8 0.05
160 1 0.01
161 5 0.03
162 5 0.03
163 6 0.04
164 24 0.15
165 51 0.33
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (156 bp):
ACAAATGGGTTCCATATGAAAAACTCGAACCGAACCGAATAAAAAAATGAGCCTTTAATCGAACG
AAACTAACCGTTAAAGCAACCGAACCGAAACCGTTTTACTCGATTCATTTTGTTTTTCAGTTTTC
TCGGTTTCGTTGCTCTGCCCTAATAG
Found at i:4822682 original size:17 final size:18
Alignment explanation
Indices: 4822655--4822701 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
4822645 AAAGACCTAC
4822655 TTGATTTTTTTAGAAAAT
1 TTGATTTTTTTAGAAAAT
4822673 TTGATTTTTTTAGAAAAT
1 TTGATTTTTTTAGAAAAT
4822691 TTG-TTTTTTTA
1 TTGATTTTTTTA
4822702 ATCTTTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.62
Consensus pattern (18 bp):
TTGATTTTTTTAGAAAAT
Found at i:4822868 original size:28 final size:29
Alignment explanation
Indices: 4822837--4822895 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
4822827 AGAAGTTATA
*
4822837 ATAAATTATTA-AAAAATTAAAA-ATACTT
1 ATAAAGTATTAGAAAAA-TAAAATATACTT
*
4822865 ATAAAGTATTAGAAAAATAAAATATTCTT
1 ATAAAGTATTAGAAAAATAAAATATACTT
4822894 AT
1 AT
4822896 CATAAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (29 bp):
ATAAAGTATTAGAAAAATAAAATATACTT
Found at i:4824555 original size:14 final size:15
Alignment explanation
Indices: 4824518--4824556 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4824508 ATGAATAGGG
*
4824518 CTAAAATATAAACTA
1 CTAAAATATAAACGA
*
4824533 CTAAAATATAAAGGA
1 CTAAAATATAAACGA
4824548 CT-AAATATA
1 CTAAAATATA
4824557 TGATTTTACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (15 bp):
CTAAAATATAAACGA
Found at i:4826419 original size:20 final size:20
Alignment explanation
Indices: 4826394--4826634 Score: 274
Period size: 20 Copynumber: 12.1 Consensus size: 20
4826384 AGACTGACAG
* *
4826394 ATGACCCGAAGGATTTACTA
1 ATGACCCGAAGGCTTTACAA
*
4826414 ATGACCCCAAGGCTTTACAA
1 ATGACCCGAAGGCTTTACAA
*
4826434 ATGA-CCGAA-GCTTTACAT
1 ATGACCCGAAGGCTTTACAA
* *
4826452 ATGACCATGGAGGCTTTACAA
1 ATGACC-CGAAGGCTTTACAA
* * * *
4826473 GTTACCCGGAGGTTTTACAA
1 ATGACCCGAAGGCTTTACAA
*
4826493 ATGACCTGAAGGCTTTACAA
1 ATGACCCGAAGGCTTTACAA
* *
4826513 ATTACCCGGAGGCTTTACAA
1 ATGACCCGAAGGCTTTACAA
4826533 ATGACCCGAAGGCTTTACAA
1 ATGACCCGAAGGCTTTACAA
*
4826553 ATGACCCGGAGGCTTTACAA
1 ATGACCCGAAGGCTTTACAA
*
4826573 ATGACCC-AGAGGATTTACAA
1 ATGACCCGA-AGGCTTTACAA
*
4826593 ACT-ACCCGAAGGCTTTATAA
1 A-TGACCCGAAGGCTTTACAA
*
4826613 ATGACCCGGAGGCTTTACAA
1 ATGACCCGAAGGCTTTACAA
4826633 AT
1 AT
4826635 TCGCGGGAAA
Statistics
Matches: 185, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
18 12 0.06
19 6 0.03
20 153 0.83
21 14 0.08
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (20 bp):
ATGACCCGAAGGCTTTACAA
Found at i:4834094 original size:14 final size:15
Alignment explanation
Indices: 4834057--4834095 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4834047 ATGAATAGGG
*
4834057 CTAAAATATAAACTA
1 CTAAAATATAAACGA
*
4834072 CTAAAATATAAAGGA
1 CTAAAATATAAACGA
4834087 CT-AAATATA
1 CTAAAATATA
4834096 TGATTTTACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (15 bp):
CTAAAATATAAACGA
Found at i:4835330 original size:21 final size:21
Alignment explanation
Indices: 4835306--4835379 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
4835296 ACCAATAATT
*
4835306 GTAATATCGATATTGGAAATA
1 GTAATATCGATAATGGAAATA
* *
4835327 GTAATATCGATACTGGTAATA
1 GTAATATCGATAATGGAAATA
* *
4835348 GTAGTATCGGTAATGGAAATA
1 GTAATATCGATAATGGAAATA
* *
4835369 GGAGTATCGAT
1 GTAATATCGAT
4835380 GTTCCTATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (21 bp):
GTAATATCGATAATGGAAATA
Found at i:4848207 original size:24 final size:25
Alignment explanation
Indices: 4848125--4848205 Score: 77
Period size: 24 Copynumber: 3.5 Consensus size: 25
4848115 ACACTTAATA
*
4848125 GTGCATCGATGCATC-CCTTTGAAT
1 GTGCATCGATGCATCACCCTTGAAT
* *
4848149 GTGCATCGATACATCA-GC-TG-A-
1 GTGCATCGATGCATCACCCTTGAAT
*
4848170 -TGCACCGATGCA-CACCCTTGAAT
1 GTGCATCGATGCATCACCCTTGAAT
4848193 GTGCATCGATGCA
1 GTGCATCGATGCA
4848206 CAAGAGCCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
19 2 0.05
20 11 0.25
21 2 0.05
22 2 0.05
23 2 0.05
24 25 0.57
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (25 bp):
GTGCATCGATGCATCACCCTTGAAT
Found at i:4849791 original size:21 final size:21
Alignment explanation
Indices: 4849749--4849792 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
4849739 ACTCTGGGAG
* *
4849749 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
4849770 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
4849791 CT
1 CT
4849793 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:4855117 original size:183 final size:185
Alignment explanation
Indices: 4854807--4855177 Score: 728
Period size: 183 Copynumber: 2.0 Consensus size: 185
4854797 TCATTTGTTC
4854807 TCTAGTTTTTACGGGTTTTGTTTTCCAACTTTTTATTCTTATTGCTTTAGGTTATTTTTTTCCCT
1 TCTAGTTTTTACGGGTTTTGTTTTCCAACTTTTTATTCTTATTGCTTTAGGTTATTTTTTTCCCT
4854872 TACTTGTTCCTTTACATCATCTAACACATTCTTGTTCTTGTGTTAATAGGACTAAAAGAGTTTGC
66 TACTTGTTCCTTTACATCATCTAACACATTCTTGTTCTTGTGTTAATAGGACTAAAAGAGTTTGC
4854937 ATACTTCTTATTCCTTAAATTCTTATTCAATCGGAGTCTTACCCTTTGTTTGTCT
131 ATACTTCTTATTCCTTAAATTCTTATTCAATCGGAGTCTTACCCTTTGTTTGTCT
4854992 TCTAGTTTTTACGGGTTTTGTTTTCCAAC-TTTTATTCTTATTGCTTTA-GTTATTTTTTTCCCT
1 TCTAGTTTTTACGGGTTTTGTTTTCCAACTTTTTATTCTTATTGCTTTAGGTTATTTTTTTCCCT
4855055 TACTTGTTCCTTTACATCATCTAACACATTCTTGTTCTTGTGTTAATAGGACTAAAAGAGTTTGC
66 TACTTGTTCCTTTACATCATCTAACACATTCTTGTTCTTGTGTTAATAGGACTAAAAGAGTTTGC
4855120 ATACTTCTTATTCCTTAAATTCTTATTCAATCGGAGTCTTACCCTTTGTTTGTCT
131 ATACTTCTTATTCCTTAAATTCTTATTCAATCGGAGTCTTACCCTTTGTTTGTCT
4855175 TCT
1 TCT
4855178 TAGACCTATT
Statistics
Matches: 186, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
183 138 0.74
184 19 0.10
185 29 0.16
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.50
Consensus pattern (185 bp):
TCTAGTTTTTACGGGTTTTGTTTTCCAACTTTTTATTCTTATTGCTTTAGGTTATTTTTTTCCCT
TACTTGTTCCTTTACATCATCTAACACATTCTTGTTCTTGTGTTAATAGGACTAAAAGAGTTTGC
ATACTTCTTATTCCTTAAATTCTTATTCAATCGGAGTCTTACCCTTTGTTTGTCT
Found at i:4856911 original size:81 final size:82
Alignment explanation
Indices: 4856775--4856938 Score: 321
Period size: 81 Copynumber: 2.0 Consensus size: 82
4856765 TTCATGAATT
4856775 ATTTTAACGAACACTTTATATGGTTTTTAAACACTCCTAGCCATACACAAGTAAAAACATAGAGA
1 ATTTTAACGAACACTTTATATGGTTTTTAAACACTCCTAGCCATACACAAGTAAAAACATAGAGA
4856840 GAACATATGAATCAATC
66 GAACATATGAATCAATC
4856857 ATTTTAACGAACAC-TTATATGGTTTTTAAACACTCCTAGCCATACACAAGTAAAAACATAGAGA
1 ATTTTAACGAACACTTTATATGGTTTTTAAACACTCCTAGCCATACACAAGTAAAAACATAGAGA
4856921 GAACATATGAATCAATC
66 GAACATATGAATCAATC
4856938 A
1 A
4856939 CAAACCAAGC
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 68 0.83
82 14 0.17
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.27
Consensus pattern (82 bp):
ATTTTAACGAACACTTTATATGGTTTTTAAACACTCCTAGCCATACACAAGTAAAAACATAGAGA
GAACATATGAATCAATC
Found at i:4857830 original size:49 final size:51
Alignment explanation
Indices: 4857774--4857895 Score: 142
Period size: 49 Copynumber: 2.4 Consensus size: 51
4857764 AAGGTTAGAT
** * * *
4857774 TTATTATTTTATTGGGAATTAAT-ATAGAGTTAAAATATT-T-TTTTGGTTA
1 TTATTATTTTATTAAGAATT-ATGATAGAATCAAAATATTATCTTTAGGTTA
*
4857823 TTATTATTTTATTAAGAATTATGATAGAATCAAAATATTATCTTTAGTTTA
1 TTATTATTTTATTAAGAATTATGATAGAATCAAAATATTATCTTTAGGTTA
*
4857874 TTATTATTTTATTCAATAATTA
1 TTATTATTTTATT-AAGAATTA
4857896 CTTATTTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 2 0.03
49 32 0.52
50 1 0.02
51 20 0.32
52 7 0.11
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (51 bp):
TTATTATTTTATTAAGAATTATGATAGAATCAAAATATTATCTTTAGGTTA
Found at i:4861600 original size:97 final size:90
Alignment explanation
Indices: 4861428--4861694 Score: 327
Period size: 97 Copynumber: 2.9 Consensus size: 90
4861418 CTCACCCCAT
* * * * * * *
4861428 GTAGGCTAGAGGGGTGTATGAGCTTCGAGATGTAGCCCCTCAGCCACACTATGAGGCATTCTTCA
1 GTAGGCTAGAGGGGTGTGTGAGCTCCGAGATGTAGCCCCTCAGCCACACCATGATGCCTACCTCA
4861493 GCTTGTGTGTTGCATAGTAATATAGGTAG
66 GCTTGTGTGTTGCATAGT-A-ATA--TAG
* *
4861522 GTTAGAGGTTAGAGGGGTGTGTGAGCTCCAAGATGTAGCCCCTCAGCCACACCATGATGCCTACC
1 G-T--AGGCTAGAGGGGTGTGTGAGCTCCGAGATGTAGCCCCTCAGCCACACCATGATGCCTACC
* *
4861587 TCAGCTTGTGTGTTCCATAGTAGTATAG
63 TCAGCTTGTGTGTTGCATAGTAATATAG
* * * *
4861615 GTAGGCTAGAGGGGTGTGTGATCTCCGATATATAGCCCCTCAGCCTCACCATGATGCCTACCTCA
1 GTAGGCTAGAGGGGTGTGTGAGCTCCGAGATGTAGCCCCTCAGCCACACCATGATGCCTACCTCA
*
4861680 GCTTGTGTATTGCAT
66 GCTTGTGTGTTGCAT
4861695 TCAGATAATA
Statistics
Matches: 151, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
90 70 0.46
92 1 0.01
93 4 0.03
94 1 0.01
95 3 0.02
96 1 0.01
97 71 0.47
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (90 bp):
GTAGGCTAGAGGGGTGTGTGAGCTCCGAGATGTAGCCCCTCAGCCACACCATGATGCCTACCTCA
GCTTGTGTGTTGCATAGTAATATAG
Found at i:4863916 original size:45 final size:47
Alignment explanation
Indices: 4863866--4863972 Score: 146
Period size: 47 Copynumber: 2.3 Consensus size: 47
4863856 CCGAAATAAT
* *
4863866 CCGAATTAACTC-AAAATCT-AAAGGTTGATTCGAACCTAAACCAAC
1 CCGAATTAACCCAAAAATCTAAAAGGTTGATTCGAACCGAAACCAAC
* *
4863911 CCGAATTGACCCAAAAATTTAAAAGGTTGATTCGAACCGAAACCAAC
1 CCGAATTAACCCAAAAATCTAAAAGGTTGATTCGAACCGAAACCAAC
* *
4863958 CTGAATTGACCCAAA
1 CCGAATTAACCCAAA
4863973 GCTTGACCCG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 10 0.18
46 6 0.11
47 39 0.71
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.21
Consensus pattern (47 bp):
CCGAATTAACCCAAAAATCTAAAAGGTTGATTCGAACCGAAACCAAC
Found at i:4864103 original size:32 final size:32
Alignment explanation
Indices: 4863975--4864104 Score: 138
Period size: 31 Copynumber: 4.0 Consensus size: 32
4863965 GACCCAAAGC
* * *
4863975 TTGACCCGAC-CGGAAACCAACCGATCTGATA
1 TTGACCCGACACGAAAACCAACCGATCCGATT
* * *
4864006 TTGACCCGACCCAACCTAAAACCAACTGATCCAATT
1 TTGACCCGA--C-A-CGAAAACCAACCGATCCGATT
4864042 TTGACCCGACACGAAAA-CAACCGATCCGATT
1 TTGACCCGACACGAAAACCAACCGATCCGATT
* *
4864073 TTGACCCGACTCGAAAACCAACCGACCCGATT
1 TTGACCCGACACGAAAACCAACCGATCCGATT
4864105 ATACTTGACC
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
31 37 0.45
32 18 0.22
33 2 0.02
34 1 0.01
36 24 0.29
ACGTcount: A:0.34, C:0.35, G:0.15, T:0.17
Consensus pattern (32 bp):
TTGACCCGACACGAAAACCAACCGATCCGATT
Found at i:4867009 original size:33 final size:34
Alignment explanation
Indices: 4866966--4867050 Score: 145
Period size: 35 Copynumber: 2.5 Consensus size: 34
4866956 TATATATATA
*
4866966 TATATGTATAATATTTTATA-TTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
4866999 TATATATATAATATTTTATATTTTTTTATATTAAT
1 TATATATATAATATTTTATA-TTTTTTATATTAAT
4867034 TATATATATAATATTTT
1 TATATATATAATATTTT
4867051 CGGGTTCGGG
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
33 19 0.39
35 30 0.61
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATATATATAATATTTTATATTTTTTATATTAAT
Found at i:4867437 original size:51 final size:51
Alignment explanation
Indices: 4867358--4867454 Score: 131
Period size: 51 Copynumber: 1.9 Consensus size: 51
4867348 TTTTTTAATT
* * * *
4867358 AAAAATTATATTTTATTGGAACTCGTCACCTTGAGGTGACGAGTTCGAATA
1 AAAAAATATATTTTATTGAAACTCGTCACCTCGACGTGACGAGTTCGAATA
* * *
4867409 AAAAAATATTTTTTATTGAAACTTGTCACCTCGACGTGATGAGTTC
1 AAAAAATATATTTTATTGAAACTCGTCACCTCGACGTGACGAGTTC
4867455 CAACTCCACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (51 bp):
AAAAAATATATTTTATTGAAACTCGTCACCTCGACGTGACGAGTTCGAATA
Found at i:4869714 original size:3 final size:3
Alignment explanation
Indices: 4869706--4869772 Score: 77
Period size: 3 Copynumber: 23.0 Consensus size: 3
4869696 AATATTTTAT
*
4869706 TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA T-A GAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* *
4869751 TAA -AG TAA TAA T-A GAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
4869773 AAATGAATGG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
2 3 0.06
3 48 0.89
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:4869737 original size:19 final size:19
Alignment explanation
Indices: 4869706--4869773 Score: 86
Period size: 19 Copynumber: 3.5 Consensus size: 19
4869696 AATATTTTAT
4869706 TAATAAT-AATAATAATAA
1 TAATAATAAATAATAATAA
4869724 TAATAATAAATAATAATAA
1 TAATAATAAATAATAATAA
4869743 TAGAATAATAAAGTAATAAT-A
1 T--AATAATAAA-TAATAATAA
*
4869764 GAATAATAAA
1 TAATAATAAA
4869774 AATGAATGGA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
18 7 0.16
19 21 0.47
21 10 0.22
22 7 0.16
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.29
Consensus pattern (19 bp):
TAATAATAAATAATAATAA
Found at i:4870209 original size:121 final size:120
Alignment explanation
Indices: 4870020--4870404 Score: 580
Period size: 121 Copynumber: 3.2 Consensus size: 120
4870010 TCTTCAGATG
*
4870020 CTTCCGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGAACAAGT
1 CTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGAACAAGT
* * *
4870085 TCTTCTCATTATGAACTTCTTCTCCTTTTTCATATGAGTTCTTCTCATTATGAACA
66 TCTTCTCATTATGAACTTCTTCTCC-TCTTCAGATAAGTTCTTCTCATTATGAACA
*
4870141 CTTCTGGAAATGTTGATGCTGATCTATTTCCTTCTGTGATAGAGTCATGCAAAGGTTGAACAAGT
1 CTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGAACAAGT
*
4870206 TCTTCTCATTATGAACTTC-T-TCCTCTTCAGATAAGTTCTTCTCATTATGAACT
66 TCTTCTCATTATGAACTTCTTCTCCTCTTCAGATAAGTTCTTCTCATTATGAACA
* * *
4870259 TTTCCTGGAAATGTTAATGCTGATCTATCTCCTTCTGT-ATAGAGTCATACAAAGGTTGAACAAG
1 CTT-CTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGAACAAG
*
4870323 TTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTAATTATGAACTA
65 TTCTTCTCATTATGAACTTCTTC-TCCTCTTCAGATAAGTTCTTCTCATTATGAAC-A
* * *
4870381 -TCTCTGGAAAAGTTTATGTTGATC
1 CT-TCTGGAAATGTTGATGCTGATC
4870405 CATCAAATGA
Statistics
Matches: 243, Mismatches: 15, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
118 73 0.30
119 36 0.15
120 1 0.00
121 132 0.54
122 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.40
Consensus pattern (120 bp):
CTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAGGTTGAACAAGT
TCTTCTCATTATGAACTTCTTCTCCTCTTCAGATAAGTTCTTCTCATTATGAACA
Found at i:4870227 original size:17 final size:17
Alignment explanation
Indices: 4870205--4870259 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
4870195 GTTGAACAAG
4870205 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
4870222 TTCTTCCTC-TTCA-GATAAG
1 TTCTT-CTCATT-ATG--AAC
4870241 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
4870258 TT
1 TT
4870260 TTCCTGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
17 12 0.40
18 8 0.27
19 10 0.33
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.47
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:4870858 original size:22 final size:22
Alignment explanation
Indices: 4870780--4870858 Score: 124
Period size: 22 Copynumber: 3.6 Consensus size: 22
4870770 AATAAAGCTT
4870780 TCATCTTTGAA-AGGAGAATCTA
1 TCATCTTTGAAGA-GAGAATCTA
*
4870802 TCGTCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
*
4870824 TCATCTTTAAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
4870846 TCATCTTTGAAGA
1 TCATCTTTGAAGA
4870859 ATGTAGATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
22 51 0.98
23 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:4875191 original size:8 final size:8
Alignment explanation
Indices: 4875178--4875234 Score: 79
Period size: 8 Copynumber: 7.8 Consensus size: 8
4875168 CTTGATTCAA
4875178 TTTTTTCC
1 TTTTTTCC
4875186 -TTTTT--
1 TTTTTTCC
4875191 TTTTTTCC
1 TTTTTTCC
4875199 TTTTTTCC
1 TTTTTTCC
4875207 TTTTTTCC
1 TTTTTTCC
4875215 -TTTTTCC
1 TTTTTTCC
4875222 -TTTTTCC
1 TTTTTTCC
4875229 TTTTTT
1 TTTTTT
4875235 TTTGGTGGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
6 5 0.11
7 19 0.42
8 21 0.47
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCC
Found at i:4875202 original size:7 final size:7
Alignment explanation
Indices: 4875179--4875233 Score: 76
Period size: 7 Copynumber: 7.7 Consensus size: 7
4875169 TTGATTCAAT
4875179 TTTTTCC
1 TTTTTCC
*
4875186 TTTTT-T
1 TTTTTCC
4875192 TTTTTCC
1 TTTTTCC
4875199 TTTTTTCC
1 -TTTTTCC
4875207 TTTTTTCC
1 -TTTTTCC
4875215 TTTTTCC
1 TTTTTCC
4875222 TTTTTCC
1 TTTTTCC
4875229 TTTTT
1 TTTTT
4875234 TTTTGGTGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 5 0.11
7 24 0.55
8 15 0.34
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCC
Found at i:4876530 original size:207 final size:207
Alignment explanation
Indices: 4876175--4876571 Score: 697
Period size: 207 Copynumber: 1.9 Consensus size: 207
4876165 CAACACAAGT
* *
4876175 TCAAACAAGATGTTGAAAATAGAAAGTACTACAGTTGTAGATAACACTTCCACTCGTTTATGCAT
1 TCAAACAAGATGCTGAAAATAGAAAGTACTACAGTGGTAGATAACACTTCCACTCGTTTATGCAT
*
4876240 CATTACTCCTCTAATGTTGGGTGTGTAATAGGATCAGGGTCGTTATCCTCATTTGCCCCCCACTT
66 CATTACTCCTCTAATGTTGGGTGTGTAATAGGATCAGGGTCATTATCCTCATTTGCCCCCCACTT
* *
4876305 CTTGATTATTTCTTGTGTCAAGACTCCCTTGTCAACGAGCGTCTCTATTTCTTTTAACAGAGAAA
131 CTTGATCATTTCTTGTGTCAAGACTCCCTTGTCAACGAGCATCTCTATTTCTTTTAACAGAGAAA
4876370 TGAACAAAAAAA
196 TGAACAAAAAAA
*
4876382 TCAAACAAGATGCTGAAAATAGAAAGTACTACAGTGGTAGATAACACTTCCACTTGTTTATGCAT
1 TCAAACAAGATGCTGAAAATAGAAAGTACTACAGTGGTAGATAACACTTCCACTCGTTTATGCAT
* *
4876447 CATTACTCCTCTAATGTTGGGTGTGTAATAGGATCAGTGTTCATTGTCCTCATTTG-CCCCCACT
66 CATTACTCCTCTAATGTTGGGTGTGTAATAGGATCAG-GGTCATTATCCTCATTTGCCCCCCACT
*
4876511 TCTTGATCATTTCTTGTGTCAAGACTCCCTTGTCAATGAGCATCTCTATTTCTTTTAACAG
130 TCTTGATCATTTCTTGTGTCAAGACTCCCTTGTCAACGAGCATCTCTATTTCTTTTAACAG
4876572 TGACCAATAA
Statistics
Matches: 180, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
207 165 0.92
208 15 0.08
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (207 bp):
TCAAACAAGATGCTGAAAATAGAAAGTACTACAGTGGTAGATAACACTTCCACTCGTTTATGCAT
CATTACTCCTCTAATGTTGGGTGTGTAATAGGATCAGGGTCATTATCCTCATTTGCCCCCCACTT
CTTGATCATTTCTTGTGTCAAGACTCCCTTGTCAACGAGCATCTCTATTTCTTTTAACAGAGAAA
TGAACAAAAAAA
Done.