Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 4 of 117
Found at i:324569 original size:20 final size:18
Alignment explanation
Indices: 324544--324582 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
324534 AATTATTTAA
324544 AAATAAGAATAAAATTAATT
1 AAATAAGAA-AAAA-TAATT
*
324564 AAATAATAAAAAATAATT
1 AAATAAGAAAAAATAATT
324582 A
1 A
324583 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATAAGAAAAAATAATT
Found at i:328186 original size:10 final size:10
Alignment explanation
Indices: 328173--328220 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
328163 AAATAAAAAT
328173 AAAAATGAAA
1 AAAAATGAAA
328183 AAAAATTG--A
1 AAAAA-TGAAA
328192 AAAAATGAAA
1 AAAAATGAAA
*
328202 AAAATTGAAA
1 AAAAATGAAA
*
328212 AAAACTGAA
1 AAAAATGAA
328221 GGTAACACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 2 0.06
9 6 0.18
10 23 0.70
11 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (10 bp):
AAAAATGAAA
Found at i:328194 original size:9 final size:9
Alignment explanation
Indices: 328182--328214 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
328172 TAAAAATGAA
328182 AAAAAATTG
1 AAAAAATTG
328191 AAAAAA-TG
1 AAAAAATTG
328199 AAAAAAATTG
1 -AAAAAATTG
328209 AAAAAA
1 AAAAAA
328215 ACTGAAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (9 bp):
AAAAAATTG
Found at i:328215 original size:19 final size:18
Alignment explanation
Indices: 328173--328214 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
328163 AAATAAAAAT
328173 AAAAATGAAAAAAAATTGA
1 AAAAATG-AAAAAAATTGA
328192 AAAAATGAAAAAAATTGA
1 AAAAATGAAAAAAATTGA
328210 AAAAA
1 AAAAA
328215 ACTGAAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (18 bp):
AAAAATGAAAAAAATTGA
Found at i:328793 original size:18 final size:18
Alignment explanation
Indices: 328772--328807 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
328762 ATGATGAAAT
328772 AGAAAATAATACTAATAG
1 AGAAAATAATACTAATAG
328790 AGAAAATAATACTAATAG
1 AGAAAATAATACTAATAG
328808 TTTGTAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.11, T:0.22
Consensus pattern (18 bp):
AGAAAATAATACTAATAG
Found at i:330676 original size:19 final size:19
Alignment explanation
Indices: 330652--330693 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
330642 AATCGAATTA
*
330652 TATATATATTTTTAGTTTT
1 TATATATATTTTTAATTTT
330671 TATATATATTTTTAATTTT
1 TATATATATTTTTAATTTT
330690 TATA
1 TATA
330694 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TATATATATTTTTAATTTT
Found at i:330776 original size:26 final size:26
Alignment explanation
Indices: 330726--330776 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
330716 AATTTACATA
* * *
330726 AATATATTAAAATTTTATAACTAAAT
1 AATATATAAAAATTTAAAAACTAAAT
*
330752 AATATATAAAAATTTAAAAATTAAA
1 AATATATAAAAATTTAAAAACTAAA
330777 AATTGATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
AATATATAAAAATTTAAAAACTAAAT
Found at i:332174 original size:40 final size:38
Alignment explanation
Indices: 332130--332211 Score: 110
Period size: 40 Copynumber: 2.1 Consensus size: 38
332120 AAACTATGAT
* *
332130 TTTTTTAAAAATCGTAGTCCTTTTATATATTAGATTATAA
1 TTTTTTAAAAATCGTAATCCTTTTA-ATATTAAATTAT-A
* *
332170 TTTTTTGAAAATCGTAATCTTTTTAATATTAAATTATA
1 TTTTTTAAAAATCGTAATCCTTTTAATATTAAATTATA
332208 TTTT
1 TTTT
332212 CATACTAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 5 0.13
39 11 0.29
40 22 0.58
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (38 bp):
TTTTTTAAAAATCGTAATCCTTTTAATATTAAATTATA
Found at i:332351 original size:22 final size:21
Alignment explanation
Indices: 332303--332388 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 21
332293 TAAATTTATC
*
332303 AAATTATTTAAATAATAATAAT
1 AAATTATTTAAATAATAA-AAA
*
332325 AAATTAATTAAATAATAAAAA
1 AAATTATTTAAATAATAAAAA
332346 ACAATTATTTTAAA-AATAAAATA
1 A-AATTA-TTTAAATAATAAAA-A
*
332369 ATAA-T-TTTAAATAATTAAAA
1 A-AATTATTTAAATAATAAAAA
332389 TTTGTTTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.13
21 9 0.16
22 30 0.55
23 9 0.16
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATTATTTAAATAATAAAAA
Found at i:335971 original size:2 final size:2
Alignment explanation
Indices: 335964--336003 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
335954 GTTTTAATTA
* * *
335964 AT AT AT AT AT AA AT AT AC AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
336004 TTGTATGTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:336870 original size:61 final size:59
Alignment explanation
Indices: 336711--337079 Score: 311
Period size: 61 Copynumber: 6.1 Consensus size: 59
336701 TGCTTTTATA
* * ** * *
336711 CAAGAAAAATTGATACATTCAACTTTTCGTAAAAAAATGTTTTTCTTGGTAATTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTT-TT--TAAATTTTATTTT
* * * * * *
336773 CTAAGGAAAATTGGTACTTCCAACTTTTCC--TCAAAATGTTTTTTTCTAAAATTTTAATTT
1 C-AAGAAAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTTTT-T-AAATTTTATTTT
* *
336833 CAAGAAAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTTCTTCAAGTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTT-TTTAAATTTTATTTT
* * * *
336893 TAAG-AAAATTGGTAC-TTCTAACTTTTCC-TCAAGAAATGTTTTTTTTGAAAATTTTATTTT
1 CAAGAAAAATTGATACTTTC-AACTTTTCCTTTAA-AAATATTTTTTTT--AAATTTTATTTT
* * * *
336953 CAAAAAAAATTGATACTTTCAACTTTTCATTTAAAAATATATATTTTTTAATTTTTATGTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTTAAAAATAT-T-TTTTTTAAATTTTATTTT
* *
337014 CAA-AAGAAATTGATACATTCAAC-TTTCCTTCTAAAAATATTTTTTTTCACATTTTCATTTT
1 CAAGAA-AAATTGATACTTTCAACTTTTCCTT-TAAAAATATTTTTTTT-AAATTTT-ATTTT
*
337075 AAAGA
1 CAAGA
337080 GATCATTGAA
Statistics
Matches: 250, Mismatches: 38, Indels: 38
0.77 0.12 0.12
Matches are distributed among these distances:
58 8 0.03
59 60 0.24
60 53 0.21
61 89 0.36
62 11 0.04
63 29 0.12
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTTTTTAAATTTTATTTT
Found at i:336967 original size:120 final size:121
Alignment explanation
Indices: 336715--336992 Score: 393
Period size: 120 Copynumber: 2.3 Consensus size: 121
336705 TTTATACAAG
* * ** * * *
336715 AAAAATTGATACATTCAACTTTTCGTAAAAAAATGTTTTTCTTGGTAATTTTTATTTTCTAAGGA
1 AAAAATTGATACTTTCAACTTTTCATTTAAAAATATTTTTCTT-GCAAGTTTTATTTTCTAAGGA
*
336780 AAATTGGTACTTCCAACTTTTCCTCAAAATGTTTTTTTCTAAAATTTTAATTTCAAG
65 AAATTGGTACTTCCAACTTTTCCTCAAAATGTTTTTTTCTAAAATTTTAATTTCAAA
*
336837 AAAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTTCTT-CAAGTTTTATTTT-TAA-GAA
1 AAAAATTGATACTTTCAACTTTTCATTTAAAAATATTTTTCTTGCAAGTTTTATTTTCTAAGGAA
* *
336899 AATTGGTACTTCTAACTTTTCCTCAAGAAATGTTTTTTT-TGAAAATTTTATTTTCAAA
66 AATTGGTACTTCCAACTTTTCCTC-A-AAATGTTTTTTTCT-AAAATTTTAATTTCAAA
336957 AAAAATTGATACTTTCAACTTTTCATTTAAAAATAT
1 AAAAATTGATACTTTCAACTTTTCATTTAAAAATAT
336993 ATATTTTTTA
Statistics
Matches: 142, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
118 26 0.18
119 5 0.04
120 73 0.51
122 38 0.27
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (121 bp):
AAAAATTGATACTTTCAACTTTTCATTTAAAAATATTTTTCTTGCAAGTTTTATTTTCTAAGGAA
AATTGGTACTTCCAACTTTTCCTCAAAATGTTTTTTTCTAAAATTTTAATTTCAAA
Found at i:337058 original size:120 final size:119
Alignment explanation
Indices: 336715--337039 Score: 325
Period size: 120 Copynumber: 2.7 Consensus size: 119
336705 TTTATACAAG
* * ** * * * * *
336715 AAAAATTGATACATTCAACTTTTCGTAAAAAAATGTTTTTCTTGGTAATTTTTATTTTCTAAGGA
1 AAAAATTGATACTTTCAACTTTTCATTTAAAAATATTTTTCTT--CAAGTTTTATGTTC-AA-AA
* * * * *
336780 AAATTGGTACTTCCAACTTTTCCTCAA-AATGT-TTTTTTCTAAAATTTTAATTTCAAG
62 AAATTGATACTTCTAACTTTTCCTCAAGAAAGTATTTTTT-GAAAATTTTAATTTCAAA
* * * *
336837 AAAAATTGATACTTTCAACTTTTCCTTTAAAAATATTTTTCTTCAAGTTTTATTTTTAAGAAAAT
1 AAAAATTGATACTTTCAACTTTTCATTTAAAAATATTTTTCTTCAAGTTTTATGTTCAAAAAAAT
* * *
336902 TGGTACTTCTAACTTTTCCTCAAGAAATGTTTTTTTTGAAAATTTTATTTTCAAA
66 TGATACTTCTAACTTTTCCTCAAGAAA-GTATTTTTTGAAAATTTTAATTTCAAA
* *
336957 AAAAATTGATACTTTCAACTTTTCATTTAAAAATATATATTT-TTTAATTTTTATGTTCAAAAGA
1 AAAAATTGATACTTTCAACTTTTCATTTAAAAATAT-T-TTTCTTCAAGTTTTATGTTCAAAA-A
337021 AATTGATACATTC-AACTTT
63 AATTGATAC-TTCTAACTTT
337040 CCTTCTAAAA
Statistics
Matches: 176, Mismatches: 20, Indels: 14
0.84 0.10 0.07
Matches are distributed among these distances:
118 28 0.16
119 4 0.02
120 63 0.36
121 22 0.12
122 56 0.32
123 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.46
Consensus pattern (119 bp):
AAAAATTGATACTTTCAACTTTTCATTTAAAAATATTTTTCTTCAAGTTTTATGTTCAAAAAAAT
TGATACTTCTAACTTTTCCTCAAGAAAGTATTTTTTGAAAATTTTAATTTCAAA
Found at i:337717 original size:19 final size:20
Alignment explanation
Indices: 337693--337735 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
337683 AAATTTTCCA
*
337693 AAAAAAAACC-AAAAATTCT
1 AAAAAAAACCTAAAAATCCT
*
337712 AAAAAAATCCTAAAAATCCT
1 AAAAAAAACCTAAAAATCCT
337732 AAAA
1 AAAA
337736 TTGCCTCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAAAAAACCTAAAAATCCT
Found at i:338005 original size:12 final size:13
Alignment explanation
Indices: 337988--338085 Score: 77
Period size: 12 Copynumber: 7.9 Consensus size: 13
337978 TTTTTTTTAC
337988 TAATAA-AATAAA
1 TAATAATAATAAA
* *
338000 TAATAAAAATTCAA
1 TAATAATAA-TAAA
338014 -AATAA-AA-ACAA
1 TAATAATAATA-AA
*
338025 GAATAATAAT-AA
1 TAATAATAATAAA
338037 TAATAATAAT-AA
1 TAATAATAATAAA
*
338049 TAATAATAA-CAA
1 TAATAATAATAAA
338061 TAATAATAAT-AA
1 TAATAATAATAAA
338073 TAATAAGTAATAA
1 TAATAA-TAATAA
338086 TAGTAAAAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 18
0.78 0.03 0.19
Matches are distributed among these distances:
11 2 0.03
12 54 0.74
13 13 0.18
14 4 0.05
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:338009 original size:9 final size:9
Alignment explanation
Indices: 337997--338085 Score: 67
Period size: 9 Copynumber: 10.0 Consensus size: 9
337987 CTAATAAAAT
337997 AAATAATAA
1 AAATAATAA
*
338006 AAAT--TCA
1 AAATAATAA
338013 AAATAA-AA
1 AAATAATAA
*
338021 ACAAGAATAA
1 A-AATAATAA
*
338031 TAATAATAA
1 AAATAATAA
*
338040 TAATAATAA
1 AAATAATAA
*
338049 TAATAATAA
1 AAATAATAA
*
338058 CAATAATAA
1 AAATAATAA
*
338067 TAATAATAA
1 AAATAATAA
*
338076 TAAGTAATAA
1 -AAATAATAA
338086 TAGTAAAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
7 6 0.09
8 2 0.03
9 49 0.74
10 9 0.14
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (9 bp):
AAATAATAA
Found at i:338034 original size:3 final size:3
Alignment explanation
Indices: 338026--338087 Score: 106
Period size: 3 Copynumber: 20.3 Consensus size: 3
338016 TAAAAACAAG
*
338026 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
338074 AAT AAGT AAT AAT A
1 AAT AA-T AAT AAT A
338088 GTAAAAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:338637 original size:21 final size:21
Alignment explanation
Indices: 338604--338653 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
338594 GCAAGACTCA
338604 CATCCAACA-TTTAAAGATTCT
1 CATCCAA-ATTTTAAAGATTCT
* **
338625 CATTCAAATTTTAGGGATTCT
1 CATCCAAATTTTAAAGATTCT
338646 CATCCAAA
1 CATCCAAA
338654 AGTTCAAAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (21 bp):
CATCCAAATTTTAAAGATTCT
Found at i:338785 original size:114 final size:114
Alignment explanation
Indices: 338654--338859 Score: 306
Period size: 114 Copynumber: 1.8 Consensus size: 114
338644 CTCATCCAAA
* * *
338654 AGTTCAAAGCTTTTCGTTTGAATTCAAAAGGTTCACATTCAAGAAATCTTAGGGTTTCACATCTA
1 AGTTCAAAGCTTTTCGTTTGAATTCAAAAGATTCACATCCAAGAAATCTTAGAGTTTCACATCT-
338719 AGTTCAAAGG-TACTCACTAAAAAATTTAGAGATTTACATCCAAAAGTTG
65 AGTTCAAAGGTTACTCACTAAAAAATTTAGAGATTTACATCCAAAAGTTG
**** *
338768 AGTTCAAAGCTTTTCGTTTGAATTTTGGAGATTCATATCCAAGAAATCTTAGAGTTTCACATCTA
1 AGTTCAAAGCTTTTCGTTTGAATTCAAAAGATTCACATCCAAGAAATCTTAGAGTTTCACATCTA
* *
338833 GTTCAAAGGTTTCTCACTCAAAAATTT
66 GTTCAAAGGTTACTCACTAAAAAATTT
338860 CACCGAGATT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
113 10 0.12
114 71 0.88
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (114 bp):
AGTTCAAAGCTTTTCGTTTGAATTCAAAAGATTCACATCCAAGAAATCTTAGAGTTTCACATCTA
GTTCAAAGGTTACTCACTAAAAAATTTAGAGATTTACATCCAAAAGTTG
Found at i:338969 original size:22 final size:21
Alignment explanation
Indices: 338944--338994 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
338934 TTTCACATCC
338944 TCAAAGATGCCTCATTTGAAAT
1 TCAAAGAT-CCTCATTTGAAAT
* *
338966 TCAAAGATTCTTATTTGAAAT
1 TCAAAGATCCTCATTTGAAAT
*
338987 TCGAAGAT
1 TCAAAGAT
338995 TCATAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (21 bp):
TCAAAGATCCTCATTTGAAAT
Found at i:338983 original size:21 final size:21
Alignment explanation
Indices: 338957--338996 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
338947 AAGATGCCTC
338957 ATTTGAAATTCAAAGATTCTT
1 ATTTGAAATTCAAAGATTCTT
*
338978 ATTTGAAATTCGAAGATTC
1 ATTTGAAATTCAAAGATTC
338997 ATAAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
ATTTGAAATTCAAAGATTCTT
Found at i:339138 original size:21 final size:21
Alignment explanation
Indices: 339113--339319 Score: 107
Period size: 21 Copynumber: 9.8 Consensus size: 21
339103 TTCACACTCA
*
339113 AAAGATTCTTATTTAAAATTC
1 AAAGATTCTCATTTAAAATTC
* *
339134 AAAGATTCTCATTTAACACTC
1 AAAGATTCTCATTTAAAATTC
*
339155 AAAGATTCTCATTTGAAATTC
1 AAAGATTCTCATTTAAAATTC
* * * *
339176 AACGATTTTTA-TTAGAATTC
1 AAAGATTCTCATTTAAAATTC
* * ** *
339196 ATTAGATTCACA-TT-CGATAC
1 A-AAGATTCTCATTTAAAATTC
* **** **
339216 AAA-TTTTGGGTTTCAAACCTC
1 AAAGATTCTCATTT-AAAATTC
339237 AAAGATTCTCATTTAAAATTC
1 AAAGATTCTCATTTAAAATTC
* * *
339258 AAAGATTCTCATTTGACACTC
1 AAAGATTCTCATTTAAAATTC
**
339279 AAAGATTCTCATTTGAGGATTCC
1 AAAGATTCTCATTT-AAAATT-C
339302 TTAAAGATTCTCATTTAA
1 --AAAGATTCTCATTTAA
339320 GAAATCAGGA
Statistics
Matches: 132, Mismatches: 45, Indels: 15
0.69 0.23 0.08
Matches are distributed among these distances:
18 2 0.02
19 3 0.02
20 12 0.09
21 92 0.70
22 7 0.05
23 1 0.01
24 1 0.01
25 14 0.11
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
AAAGATTCTCATTTAAAATTC
Found at i:339174 original size:42 final size:42
Alignment explanation
Indices: 339106--339319 Score: 145
Period size: 42 Copynumber: 5.0 Consensus size: 42
339096 TTTGGGTTTC
* *
339106 ACACTCAAAAGATTCTTATTTAAAATTCAAAGATTCTCATTTA
1 ACACTC-AAAGATTCTCATTTGAAATTCAAAGATTCTCATTTA
* * *
339149 ACACTCAAAGATTCTCATTTGAAATTCAACGATTTTTA-TTA
1 ACACTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTA
* * * * * * **
339190 GA-ATTCATTAGATTCACATTCG--ATAC-AA-ATTTTGGGTTTCA
1 -ACACTCA-AAGATTCTCATTTGAAATTCAAAGATTCT-CATTT-A
* *
339231 A-ACCTCAAAGATTCTCATTTAAAATTCAAAGATTCTCATTTG
1 ACA-CTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTA
*
339273 ACACTCAAAGATTCTCATTTGAGGATTCCTTAAAGATTCTCATTTA
1 ACACTCAAAGATTCTCATTTGA-AATT-C--AAAGATTCTCATTTA
339319 A
1 A
339320 GAAATCAGGA
Statistics
Matches: 130, Mismatches: 26, Indels: 27
0.71 0.14 0.15
Matches are distributed among these distances:
38 5 0.04
39 1 0.01
40 17 0.13
41 11 0.08
42 61 0.47
43 15 0.12
44 5 0.04
46 15 0.12
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.37
Consensus pattern (42 bp):
ACACTCAAAGATTCTCATTTGAAATTCAAAGATTCTCATTTA
Found at i:340028 original size:25 final size:25
Alignment explanation
Indices: 339995--340043 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
339985 TTTGTTCATT
*
339995 ATCATCTTACTCTTTAGATTCTTGC
1 ATCATCTTACTATTTAGATTCTTGC
340020 ATCATCTTACTATTTAGATTCTTG
1 ATCATCTTACTATTTAGATTCTTG
340044 GCATTGTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.49
Consensus pattern (25 bp):
ATCATCTTACTATTTAGATTCTTGC
Found at i:348154 original size:57 final size:56
Alignment explanation
Indices: 348065--348503 Score: 451
Period size: 56 Copynumber: 7.7 Consensus size: 56
348055 TTTGTGCAGA
* * * *
348065 AAAAATTGAAACTTTCAAACTTTTCCC-AAAATATTTTTTAGAAATTTTAATCTCGAG
1 AAAAATTGATACTTTC-AACTTTTCCCAAAAATATTTTTT-GAAACTTTAATTTCAAG
* * **
348122 GAAAATTGATACTTTCAACTTTTTCCC-AAAATATCTTTTGAAACTTTAATTTTGAG
1 AAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAACTTTAATTTCAAG
* ** * **
348178 AAAAATTGATACTTTTAACTTTTCCTCAAAAACCTTTTTTGAAAATTT-ATTTTTAG
1 AAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTGAAACTTTAATTTCAAG
* *
348234 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACCTTAATTTCGA-
1 AAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTT-GAAACTTTAATTTCAAG
*** * * *
348291 AAAAATTGATACTTTC-ACATTTTCCTCAAAAA-CCGTTTTAAAAATTT-ATTATTAAG
1 AAAAATTGATACTTTCAAC-TTTTCC-CAAAAATATTTTTTGAAACTTTAATT-TCAAG
348347 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCAAG
1 AAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTT-GAAACTTTAATTTCAAG
* * * *
348405 AAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCC-CAAAAATA--TTTTTTGAAACTTTAATTTCAAG
*
348464 GAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTT
1 AAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTT
348504 TTTTGGATTT
Statistics
Matches: 323, Mismatches: 40, Indels: 38
0.81 0.10 0.09
Matches are distributed among these distances:
54 3 0.01
55 13 0.04
56 110 0.34
57 98 0.30
58 46 0.14
59 47 0.15
60 6 0.02
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (56 bp):
AAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAACTTTAATTTCAAG
Found at i:348298 original size:113 final size:114
Alignment explanation
Indices: 348123--348503 Score: 574
Period size: 113 Copynumber: 3.3 Consensus size: 114
348113 AATCTCGAGG
* * *
348123 AAAATTGATACTTTCAACTTTTTCCC-AAAATATCTTTT-GAAACTTTAATTTTGAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATTG
348186 ATACTTTTAACTTTTCCTCAAAAACCTTTTTTGAAAATTTATTTTTAGA
66 ATACTTTTAACTTTTCCTCAAAAACCTTTTTTGAAAATTTATTTTTAGA
*
348235 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACCTTAATTTCGA-AAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATTG
* * * *
348299 ATAC-TTTCACATTTTCCTCAAAAACC-GTTTTAAAAATTTATTATTAAGA
66 ATACTTTTAAC-TTTTCCTCAAAAACCTTTTTTGAAAATTTATT-TTTAGA
*
348348 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATTG
* *
348413 ATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGG
66 ATACTTTTAACTTTTCCTC--AAAAACCTTTTTTGAAAATTTATTTTT-AGA
*
348465 AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
348504 TTTTGGATTT
Statistics
Matches: 242, Mismatches: 17, Indels: 15
0.88 0.06 0.05
Matches are distributed among these distances:
112 44 0.18
113 97 0.40
114 34 0.14
115 4 0.02
116 9 0.04
117 54 0.22
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (114 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATTG
ATACTTTTAACTTTTCCTCAAAAACCTTTTTTGAAAATTTATTTTTAGA
Found at i:348548 original size:5 final size:5
Alignment explanation
Indices: 348532--348666 Score: 66
Period size: 5 Copynumber: 26.4 Consensus size: 5
348522 GAAAATAAAT
*
348532 AATAA AACAA AATAA AAGTGAA AATAAAA AATAA AA-AA AATAA AGA-AA
1 AATAA AATAA AATAA AA-T-AA AAT--AA AATAA AATAA AATAA A-ATAA
* * * * * *
348580 AGTAA AACAA AATAAA AATAA AATAA AGATAA AAGAA TATTA AATAA ACCTAA
1 AATAA AATAA AAT-AA AATAA AATAA A-ATAA AATAA AATAA AATAA A-ATAA
**
348633 TCTAA TAAT-A AAT-A AATAA AAT-A AAT-A AATAA AA
1 AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AA
348667 ACCTGGAGCG
Statistics
Matches: 101, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
4 19 0.19
5 56 0.55
6 17 0.17
7 9 0.09
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:348573 original size:16 final size:17
Alignment explanation
Indices: 348552--348618 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 17
348542 AATAAAAGTG
348552 AAAATAAAAAATAAAA-
1 AAAATAAAAAATAAAAC
348568 AAAATAAAGAAAAGTAAAAC
1 AAAAT-AA-AAAA-TAAAAC
*
348588 AAAAT-AAAAATAAAAT
1 AAAATAAAAAATAAAAC
348604 AAAGATAAAAGAATA
1 AAA-ATAAAA-AATA
348619 TTAAATAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
16 13 0.30
17 8 0.19
18 8 0.19
19 9 0.21
20 5 0.12
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.13
Consensus pattern (17 bp):
AAAATAAAAAATAAAAC
Found at i:348581 original size:32 final size:31
Alignment explanation
Indices: 348528--348608 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
348518 TAAAGAAAAT
* * *
348528 AAATAATAAAACA-AAATAAAAGTGAAAATAAA
1 AAATAA-AAAAAATAAAGAAAAGT-AAAACAAA
348560 AAATAAAAAAAATAAAGAAAAGTAAAACAAA
1 AAATAAAAAAAATAAAGAAAAGTAAAACAAA
*
348591 ATAA-AAATAAAATAAAGA
1 A-AATAAAAAAAATAAAGA
348609 TAAAAGAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
31 26 0.60
32 17 0.40
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (31 bp):
AAATAAAAAAAATAAAGAAAAGTAAAACAAA
Found at i:349565 original size:21 final size:21
Alignment explanation
Indices: 349533--349582 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
349523 AATAAATCAA
* *
349533 ATAAAGTAAAAAAGATTAACAG
1 ATAAATTAAAATA-ATTAACAG
349555 ATAAATTAAAATAATTAACAG
1 ATAAATTAAAATAATTAACAG
349576 ATAAATT
1 ATAAATT
349583 TATGGTGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (21 bp):
ATAAATTAAAATAATTAACAG
Found at i:349582 original size:12 final size:12
Alignment explanation
Indices: 349547--349582 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
349537 AGTAAAAAAG
349547 ATTAACAGATAA
1 ATTAACAGATAA
349559 ATTAA-A-AT-A
1 ATTAACAGATAA
349568 ATTAACAGATAA
1 ATTAACAGATAA
349580 ATT
1 ATT
349583 TATGGTGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 6 0.29
10 3 0.14
11 3 0.14
12 9 0.43
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (12 bp):
ATTAACAGATAA
Found at i:353605 original size:86 final size:86
Alignment explanation
Indices: 353492--353713 Score: 209
Period size: 86 Copynumber: 2.6 Consensus size: 86
353482 CTTATGGGAG
* * * * * * ** *
353492 ATCTTTCTTCGGCTTAGTCCAACTTATTCATTTCAG-GTTTTGGTTCAGTCCAGGTTATTTTGTT
1 ATCTTTCTTTGGCTTAATCTAAGTTATTCATTACAGACTTCAGGTTCA-TCCAGGTCATTTTGTT
*
353556 TTCATATTTAAACTTATGTCAA
65 TTCAGATTTAAACTTATGTCAA
* * *
353578 ATCTTTCTTTGGCTTAATCTAGGTTATTCATTACAGACTTCAGTTTCATCTAGGTCATTTTGTTT
1 ATCTTTCTTTGGCTTAATCTAAGTTATTCATTACAGACTTCAGGTTCATCCAGGTCATTTTGTTT
* * *
353643 TTAGGTTTCAACTTATGTCAA
66 TCAGATTTAAACTTATGTCAA
* * **
353664 ATCCCTT-TTTGGCTTACTCTAAGTTATTC-TTTTAGACTTC-GGTTTCATCC
1 AT-CTTTCTTTGGCTTAATCTAAGTTATTCATTACAGACTTCAGG-TTCATCC
353714 TAGTTTTTTT
Statistics
Matches: 110, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
84 1 0.01
85 15 0.14
86 84 0.76
87 10 0.09
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (86 bp):
ATCTTTCTTTGGCTTAATCTAAGTTATTCATTACAGACTTCAGGTTCATCCAGGTCATTTTGTTT
TCAGATTTAAACTTATGTCAA
Found at i:356024 original size:12 final size:14
Alignment explanation
Indices: 355996--356027 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
355986 TATGGGTTTG
355996 TTTATTTATTAATT
1 TTTATTTATTAATT
356010 TTTATTTA-T-ATT
1 TTTATTTATTAATT
356022 TTTATT
1 TTTATT
356028 GATTTAGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 1 0.06
14 8 0.44
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTATTTATTAATT
Found at i:360226 original size:22 final size:24
Alignment explanation
Indices: 360176--360233 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 24
360166 TTAACAAAAT
* *
360176 TATATTTATATATAATTAAATTAA
1 TATATTTATATATAATAAAAGTAA
360200 -A-ATTTATAT-TAA-AAAAGTAA
1 TATATTTATATATAATAAAAGTAA
*
360220 TATATTTATTTATA
1 TATATTTATATATA
360234 TATTATCATC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 15 0.54
23 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TATATTTATATATAATAAAAGTAA
Found at i:361431 original size:52 final size:52
Alignment explanation
Indices: 361345--361501 Score: 226
Period size: 52 Copynumber: 3.0 Consensus size: 52
361335 TATAACCATA
* *
361345 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
361397 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * **
361449 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTCTCCTGCAAGT
361501 C
1 C
361502 TTCTTGTCCA
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
52 92 0.96
53 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:361542 original size:11 final size:11
Alignment explanation
Indices: 361526--361567 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
361516 GCAATATCTG
*
361526 ACAAATCCCAA
1 ACAAATCTCAA
*
361537 ACAAATCTCTA
1 ACAAATCTCAA
361548 ACAAATCTCAA
1 ACAAATCTCAA
361559 ACAAATCTC
1 ACAAATCTC
361568 TTATGGGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:361551 original size:22 final size:22
Alignment explanation
Indices: 361526--361568 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
361516 GCAATATCTG
361526 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
*
361548 ACAAATCTCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
361569 TATGGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:362380 original size:25 final size:24
Alignment explanation
Indices: 362335--362388 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
362325 TCTTCTTTAT
*
362335 TTTTTAATTAATAAATTATGAAATAA
1 TTTTTAATTAAT-AATAATGAAA-AA
362361 TTTTTAATTTAAT-ATAATGAAAAA
1 TTTTTAA-TTAATAATAATGAAAAA
362385 TTTT
1 TTTT
362389 ATTATATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 8 0.31
26 7 0.27
27 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
TTTTTAATTAATAATAATGAAAAA
Found at i:362665 original size:19 final size:20
Alignment explanation
Indices: 362638--362680 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
362628 ATTGGACATA
362638 AAATAATTTACTAATTTT-T
1 AAATAATTTACTAATTTTAT
* *
362657 AAATTATTTATTAATTTTAT
1 AAATAATTTACTAATTTTAT
362677 AAAT
1 AAAT
362681 GTTAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATAATTTACTAATTTTAT
Found at i:362702 original size:27 final size:27
Alignment explanation
Indices: 362636--362703 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
362626 TTATTGGACA
* * *
362636 TAAAATAATTTACTAATTTTTAAATTATT
1 TAAAAT-ATTTA-TAAATGTTAAATAATT
*
362665 TATTAAT-TTTATAAATGTTAAATAATT
1 TA-AAATATTTATAAATGTTAAATAATT
362692 TAAAATATTTAT
1 TAAAATATTTAT
362704 TACATAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
26 3 0.09
27 20 0.62
28 4 0.12
29 2 0.06
30 3 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (27 bp):
TAAAATATTTATAAATGTTAAATAATT
Found at i:364138 original size:32 final size:35
Alignment explanation
Indices: 364101--364166 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
364091 AAATTATCAA
364101 TTAAGA-AAAATAATT-AAT-T-AATTAATATTAAT
1 TTAAGATAAAA-AATTAAATATGAATTAATATTAAT
364133 TTAAGATAAAAAATTAAATATGAATTAATATTAA
1 TTAAGATAAAAAATTAAATATGAATTAATATTAA
364167 ATTAGTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 10 0.33
33 7 0.23
34 1 0.03
35 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (35 bp):
TTAAGATAAAAAATTAAATATGAATTAATATTAAT
Found at i:364713 original size:20 final size:22
Alignment explanation
Indices: 364690--364729 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
364680 TAAAATATAT
364690 TTATT-AAATTAAA-AAATTAA
1 TTATTAAAATTAAATAAATTAA
364710 TTATTAAAATTAAATAAATT
1 TTATTAAAATTAAATAAATT
364730 CATGTCAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 8 0.44
22 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTATTAAAATTAAATAAATTAA
Found at i:364940 original size:14 final size:14
Alignment explanation
Indices: 364923--364971 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
364913 CGTAAAATTT
364923 TTTAATAAAAATAA
1 TTTAATAAAAATAA
**
364937 TTTAATAAAAATGT
1 TTTAATAAAAATAA
364951 TTTAA-AAAAATCAA
1 TTTAATAAAAAT-AA
*
364965 ATTAATA
1 TTTAATA
364972 GATTGATAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 6 0.21
14 21 0.75
15 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (14 bp):
TTTAATAAAAATAA
Found at i:364953 original size:28 final size:28
Alignment explanation
Indices: 364916--364971 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
364906 TGAAATTCGT
* *
364916 AAAATTTTTTAATAAAAAT-AATTTAATA
1 AAAATGTTTTAA-AAAAATCAAATTAATA
364944 AAAATGTTTTAAAAAAATCAAATTAATA
1 AAAATGTTTTAAAAAAATCAAATTAATA
364972 GATTGATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.24
28 19 0.76
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
AAAATGTTTTAAAAAAATCAAATTAATA
Found at i:365123 original size:30 final size:30
Alignment explanation
Indices: 365089--365148 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
365079 TTCCATCAAG
*
365089 GAAACAATTCAATTAATAATTGGAAACTAA
1 GAAACAATTCAATTAAAAATTGGAAACTAA
365119 GAAACAATTCAATTAAAAATTGGAAACTAA
1 GAAACAATTCAATTAAAAATTGGAAACTAA
365149 CTTTCGATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (30 bp):
GAAACAATTCAATTAAAAATTGGAAACTAA
Found at i:365739 original size:3 final size:3
Alignment explanation
Indices: 365733--365761 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
365723 TAATAATGGA
365733 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
365762 ATATAGACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:367057 original size:18 final size:18
Alignment explanation
Indices: 367034--367068 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
367024 ATAAAATCAA
*
367034 TTATAAATTATATAATTG
1 TTATAAATTATAAAATTG
*
367052 TTATAATTTATAAAATT
1 TTATAAATTATAAAATT
367069 CTAACCAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATAAATTATAAAATTG
Found at i:367741 original size:20 final size:20
Alignment explanation
Indices: 367671--367741 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 20
367661 AATAAATAAA
* *
367671 ATTATTATTTTATAAATTTT
1 ATTATTATATTATAAAATTT
*
367691 ATTATTATA-TA-AAAATTA
1 ATTATTATATTATAAAATTT
* * *
367709 ATAACTA-AATATAAAATTT
1 ATTATTATATTATAAAATTT
367728 ATTATTATATTATA
1 ATTATTATATTATA
367742 TTATTATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
17 1 0.03
18 12 0.31
19 13 0.33
20 13 0.33
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTATTATATTATAAAATTT
Found at i:367889 original size:19 final size:20
Alignment explanation
Indices: 367867--367909 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
367857 TTTGACATGA
*
367867 AAATAATTTACTGATTTT-T
1 AAATAATTTACTAATTTTAT
* *
367886 AAATTATTTATTAATTTTAT
1 AAATAATTTACTAATTTTAT
367906 AAAT
1 AAAT
367910 GTTAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
AAATAATTTACTAATTTTAT
Found at i:368535 original size:3 final size:3
Alignment explanation
Indices: 368529--368566 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
368519 TAATAATTAA
*
368529 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
368567 ATAGACGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:371046 original size:3 final size:3
Alignment explanation
Indices: 371003--371030 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
370993 AATAAATAAA
371003 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
371031 ACTAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:371296 original size:27 final size:27
Alignment explanation
Indices: 371245--371297 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
371235 GATATAAAAA
* * * *
371245 TAATTTAATGAATTTTCAATTATTTAT
1 TAATTTAATAAATGTTAAATAATTTAT
371272 TAATTTAATAAATGTTAAATAATTTA
1 TAATTTAATAAATGTTAAATAATTTA
371298 AAATTTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (27 bp):
TAATTTAATAAATGTTAAATAATTTAT
Found at i:372000 original size:30 final size:28
Alignment explanation
Indices: 371943--372001 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
371933 TACTCACGTT
* **
371943 ATTATTTTTTTAATTTTATCTTTAAATA
1 ATTATTTTTTAAATTTTAAATTTAAATA
371971 ATTATTTTTTAATATTTTAAATATTAAATA
1 ATTATTTTTTAA-ATTTTAAAT-TTAAATA
372001 A
1 A
372002 AATTAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 11 0.42
29 7 0.27
30 8 0.31
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTATTTTTTAAATTTTAAATTTAAATA
Found at i:372702 original size:14 final size:14
Alignment explanation
Indices: 372664--372705 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
372654 ACTTTTACAA
372664 GTATTTATTAAAAT
1 GTATTTATTAAAAT
*
372678 GT-TTCATTAAAAT
1 GTATTTATTAAAAT
372691 GTATTTATTAAAAT
1 GTATTTATTAAAAT
372705 G
1 G
372706 CCCTTTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (14 bp):
GTATTTATTAAAAT
Found at i:373688 original size:23 final size:23
Alignment explanation
Indices: 373657--373709 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
373647 TTACAATTTA
373657 TAAATGGTATAACCAATGATAAAT
1 TAAA-GGTATAACCAATGATAAAT
373681 TAAAGGTATAACCAATGATAAAT
1 TAAAGGTATAACCAATGATAAAT
*
373704 TGAAGG
1 TAAAGG
373710 AACCTCAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (23 bp):
TAAAGGTATAACCAATGATAAAT
Found at i:374843 original size:19 final size:20
Alignment explanation
Indices: 374809--374847 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
374799 ATTTAAATTG
374809 AAGATTGAAAAAAAATAAAA
1 AAGATTGAAAAAAAATAAAA
*
374829 AAGATT-AAAATAAATAAAA
1 AAGATTGAAAAAAAATAAAA
374848 TAAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (20 bp):
AAGATTGAAAAAAAATAAAA
Found at i:377999 original size:21 final size:21
Alignment explanation
Indices: 377958--378005 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
377948 AATCATTGAT
* *
377958 TATAACCTTACAGTTATAATA
1 TATAATCTTACAGTTACAATA
377979 TATAATCTTACCA-TTACAATA
1 TATAATCTTA-CAGTTACAATA
*
378000 TTTAAT
1 TATAAT
378006 TATACTGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.42
Consensus pattern (21 bp):
TATAATCTTACAGTTACAATA
Found at i:378391 original size:17 final size:18
Alignment explanation
Indices: 378356--378415 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
378346 GATCATAAAG
*
378356 TTTTTAAAAATTTATTAA
1 TTTTTAAAAATATATTAA
*
378374 TTTTTTAAAATATA-TAA
1 TTTTTAAAAATATATTAA
* * *
378391 -TTATAAAATACATGTTAA
1 TTTTTAAAA-ATATATTAA
378409 TTTTTAA
1 TTTTTAA
378416 TTTTGTTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
16 6 0.19
17 6 0.19
18 15 0.47
19 5 0.16
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTTTAAAAATATATTAA
Found at i:380641 original size:144 final size:141
Alignment explanation
Indices: 380429--380921 Score: 574
Period size: 144 Copynumber: 3.4 Consensus size: 141
380419 ACTATCTACG
* * * **
380429 TGGTTCTATCGCC-GCTTCCATAGGAAACTTGACCTACCTA-TCTATTCTCCACCTCTATGGAAA
1 TGGTTCAATC-CCTGCTTCCATAGGAAACTTGACC-ACTTATTC-ATTCTCTACCTC-ATCAAAA
380492 TATGTTTTTTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTT-GATTTG
62 TATGTTTTTTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGA-TTTCG-TTTG
380556 AGTCAAAATAATTTCTC
125 AGTCAAAATAATTTCTC
*
380573 TGGTTCAATCCCTGCTTCTATAGGAAACTTGACCAGCTTATTCATTCTCTACCTTCATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCA-CTTATTCATTCTCTACC-TCATCAAAATA
* * * * *
380638 TGTTTTTTGGGTCGATACCTAAAAAGATTGGGATGCTTAAATCTCTCACTTAAATTTTCGTTTGA
64 TGTTTTTTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCAC-T-GA-TTTCGTTTGA
* *
380703 -ACAGAATAATTTCTC
126 GTCAAAATAATTTCTC
* *
380718 TGG-TC-ATCCCTGCTATCTATAGGAAACTTGACCACTTATCTC-TTCTC-ACCTC-TACCAAAT
1 TGGTTCAATCCCTGCT-TCCATAGGAAACTTGACCACTTAT-TCATTCTCTACCTCAT-CAAAAT
*
380778 ATGTTTTGTGGATCGATACCTCAAGAGATAAGGGATGCTTAAATCTCTCACTGATTTCG-TTGAG
63 ATGTTTTTTGGATCGATACCTCAAGAGAT-AGGGATGCTTAAATCTCTCACTGATTTCGTTTGAG
380842 TCAAAATAATTTCTC
127 TCAAAATAATTTCTC
* * * * *
380857 TGGTTCAATCCCCGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTCTACCTTTATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCACT-TATTCATTCTCTACC-TCATCAAAATA
380922 ATTTATATGG
Statistics
Matches: 300, Mismatches: 30, Indels: 39
0.81 0.08 0.11
Matches are distributed among these distances:
138 4 0.01
139 21 0.07
140 24 0.08
141 48 0.16
142 26 0.09
143 29 0.10
144 117 0.39
145 21 0.07
146 9 0.03
147 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (141 bp):
TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCACTTATTCATTCTCTACCTCATCAAAATATG
TTTTTTGGATCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGATTTCGTTTGAGTCAA
AATAATTTCTC
Found at i:380959 original size:72 final size:72
Alignment explanation
Indices: 380842--380993 Score: 243
Period size: 72 Copynumber: 2.1 Consensus size: 72
380832 TTTCGTTGAG
* *
380842 TCAAAATAATTTCTCTGGTTCAATCCCCGCTTCCATAGGAAACTTGACCAGTCTATCCACTC-TC
1 TCAAAATAATTTATATGGTTCAATCCCCGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTTC
*
380906 TACCTTTA
66 -ACCTCTA
*
380914 TCAAAATAATTTATATGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTTC
1 TCAAAATAATTTATATGGTTCAATCCCCGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTTC
380979 ACCTCTA
66 ACCTCTA
*
380986 TCGAAATA
1 TCAAAATA
380994 TGTTTTCTGG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
72 72 0.97
73 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (72 bp):
TCAAAATAATTTATATGGTTCAATCCCCGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTTC
ACCTCTA
Found at i:381024 original size:72 final size:72
Alignment explanation
Indices: 380876--381168 Score: 183
Period size: 72 Copynumber: 4.1 Consensus size: 72
380866 CCCCGCTTCC
* * * * * *
380876 ATAGGAAACTTGACCAGTCTATCCACTC-TCTACCTTTATCAAAATAAT-TTATATGGTTCAATC
1 ATAGGAAACTTGACCAGTCTATCCACTCTTC-ACCTCTATCAAAAT-ATGTTTTCTGGGTCGATA
****
380939 CCTGC-TTCC
64 CCT-CAAGAG
*
380948 ATAGGAAACTTGACCAGTCTATCCACTCTTCACCTCTATCGAAATATGTTTTCTGGGTCGATACC
1 ATAGGAAACTTGACCAGTCTATCCACTCTTCACCTCTATCAAAATATGTTTTCTGGGTCGATACC
381013 TCAAGAG
66 TCAAGAG
** * * **** * *
381020 ATAGGGATGCTT-A--AATCTCT-CACTGACTTTGTGT-TGAGTCAAAATAAT-TTCTCTGGTTC
1 ATA-GGAAACTTGACCAGTCTATCCACT--CTTCACCTCT-A-TCAAAAT-ATGTTTTCTGGGTC
* * ****
381079 AATCCCTGC-TTCC
60 GATACCT-CAAGAG
381092 ATAGGAAACTTGACCAGTCTATCCACTCTTCACCTCTATCAAAATATGTTTTCTGGGTCGATACC
1 ATAGGAAACTTGACCAGTCTATCCACTCTTCACCTCTATCAAAATATGTTTTCTGGGTCGATACC
381157 TCAAGAG
66 TCAAGAG
381164 ATAGG
1 ATAGG
381169 GATGCTTAAA
Statistics
Matches: 160, Mismatches: 44, Indels: 34
0.67 0.18 0.14
Matches are distributed among these distances:
69 4 0.03
70 6 0.04
71 17 0.11
72 107 0.67
73 16 0.10
74 6 0.04
75 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (72 bp):
ATAGGAAACTTGACCAGTCTATCCACTCTTCACCTCTATCAAAATATGTTTTCTGGGTCGATACC
TCAAGAG
Found at i:381105 original size:144 final size:144
Alignment explanation
Indices: 380914--381249 Score: 636
Period size: 144 Copynumber: 2.3 Consensus size: 144
380904 TCTACCTTTA
* *
380914 TCAAAATAATTTATATGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTTC
1 TCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTTC
*
380979 ACCTCTATCGAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACT
66 ACCTCTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACT
381044 GACTTTGTGTTGAG
131 GACTTTGTGTTGAG
381058 TCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTTC
1 TCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTTC
381123 ACCTCTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACT
66 ACCTCTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACT
381188 GACTTTGTGTTGAG
131 GACTTTGTGTTGAG
*
381202 TCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACATGAC
1 TCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGAC
381250 GAAGCTTATG
Statistics
Matches: 188, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 188 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (144 bp):
TCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTTC
ACCTCTATCAAAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACT
GACTTTGTGTTGAG
Found at i:381135 original size:216 final size:211
Alignment explanation
Indices: 380707--381137 Score: 654
Period size: 216 Copynumber: 2.0 Consensus size: 211
380697 GTTTGAACAG
* * * *
380707 AATAATTTCTCTGGTCATCCCTGCTATCTATAGGAAACTTGACCACTTATCTCTTCTCACCTCTA
1 AATAATTTATATGGTCATCCCTGCTATCCATAGGAAACTTGACCACTTATCACTTCTCACCTCTA
*
380772 CCAAATATGTTTTGTGGATCGATACCTCAAGAGATAAGGGATGCTTAAATCTCTCACTGATTTCG
66 CCAAATATGTTTTCTGGATCGATACCTCAAGAGATAAGGGATGCTTAAATCTCTCACTGATTTCG
380837 TTGAGTCAAAATAATTTCTCTGGTTCAATCCCCGCTTCCATAGGAAACTTGACCAGTCTATCCAC
131 TTGAGTCAAAATAATTTCTCTGGTTCAATCCCCGCTTCCATAGGAAACTTGACCAGTCTATCCAC
*
380902 TCTCTACCTTTATCAA
196 TCTCTACCTCTATCAA
*
380918 AATAATTTATATGGTTCAATCCCTGCT-TCCATAGGAAACTTGACCAGTCTATCCAC-TCTTCAC
1 AATAATTTATATGG-TC-ATCCCTGCTATCCATAGGAAACTTGACCACT-TAT-CACTTC-TCAC
* *
380981 CTCTATCGAAATATGTTTTCTGGGTCGATACCTCAAGAGAT-AGGGATGCTTAAATCTCTCACTG
61 CTCTA-CCAAATATGTTTTCTGGATCGATACCTCAAGAGATAAGGGATGCTTAAATCTCTCACTG
* *
381045 ACTTTGTGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGT
125 A-TTT-CGTTGAGTCAAAATAATTTCTCTGGTTCAATCCCCGCTTCCATAGGAAACTTGACCAGT
381110 CTATCCACTCT-TCACCTCTATCAA
188 CTATCCACTCTCT-ACCTCTATCAA
381134 AATA
1 AATA
381138 TGTTTTCTGG
Statistics
Matches: 200, Mismatches: 11, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
211 12 0.06
212 21 0.10
213 14 0.07
214 35 0.17
215 36 0.18
216 82 0.41
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (211 bp):
AATAATTTATATGGTCATCCCTGCTATCCATAGGAAACTTGACCACTTATCACTTCTCACCTCTA
CCAAATATGTTTTCTGGATCGATACCTCAAGAGATAAGGGATGCTTAAATCTCTCACTGATTTCG
TTGAGTCAAAATAATTTCTCTGGTTCAATCCCCGCTTCCATAGGAAACTTGACCAGTCTATCCAC
TCTCTACCTCTATCAA
Found at i:381206 original size:72 final size:72
Alignment explanation
Indices: 380989--381209 Score: 186
Period size: 72 Copynumber: 3.1 Consensus size: 72
380979 ACCTCTATCG
380989 AAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGTGT
1 AAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGTGT
381054 TGAGTCA
66 TGAGTCA
* * * * **** ** * *
381061 AAATAAT-TTCTCTGGTTCAATCCCTGC-TTCCATA-GGAAACTTGACCAGTCTATCCACT--CT
1 AAAT-ATGTTTTCTGGGTCGATACCT-CAAGAGATAGGGATGCTT-A--AATCTCT-CACTGACT
****
381121 TCACCTCT-A-TCA
60 TTGTGT-TGAGTCA
381133 AAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGTGT
1 AAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGTGT
381198 TGAGTCA
66 TGAGTCA
381205 AAATA
1 AAATA
381210 ATTTCTCTGG
Statistics
Matches: 103, Mismatches: 32, Indels: 28
0.63 0.20 0.17
Matches are distributed among these distances:
69 4 0.04
70 6 0.06
71 14 0.14
72 55 0.53
73 14 0.14
74 6 0.06
75 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (72 bp):
AAATATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGTGT
TGAGTCA
Found at i:389391 original size:26 final size:26
Alignment explanation
Indices: 389344--389413 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
389334 TCAGAGGCTA
* *
389344 AAACGACATCGTTTTGGGCATTAGTG
1 AAACGACGTCATTTTGGGCATTAGTG
*
389370 AAATGACGTCATTTTGGGCATTAGTG
1 AAACGACGTCATTTTGGGCATTAGTG
*
389396 AAACGACGTCGTTTTGGG
1 AAACGACGTCATTTTGGG
389414 TTTTGGCCGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (26 bp):
AAACGACGTCATTTTGGGCATTAGTG
Found at i:389717 original size:13 final size:13
Alignment explanation
Indices: 389699--389741 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
389689 CCAAAAAAAA
389699 TTTTTTTGTGTGT
1 TTTTTTTGTGTGT
* * *
389712 TTTTTTGGTTTGC
1 TTTTTTTGTGTGT
*
389725 CTTTTTTGTGTGT
1 TTTTTTTGTGTGT
389738 TTTT
1 TTTT
389742 GTAGGTGTAT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.05, G:0.21, T:0.74
Consensus pattern (13 bp):
TTTTTTTGTGTGT
Found at i:389820 original size:16 final size:17
Alignment explanation
Indices: 389795--389836 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
389785 TTCTACTTTT
*
389795 TTTTTGTTTCTACAGAA-
1 TTTTT-TTTCGACAGAAG
*
389812 TTTTTTTTCGATAGAAG
1 TTTTTTTTCGACAGAAG
389829 TTTTTTTT
1 TTTTTTTT
389837 TGTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.19, C:0.07, G:0.12, T:0.62
Consensus pattern (17 bp):
TTTTTTTTCGACAGAAG
Found at i:389882 original size:11 final size:10
Alignment explanation
Indices: 389845--389881 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
389835 TTTGTAAAAT
389845 TTTTTTGTC-A
1 TTTTTT-TCGA
389855 TTTTTTTCGA
1 TTTTTTTCGA
389865 TTTTTTTCGA
1 TTTTTTTCGA
389875 TTTTTTT
1 TTTTTTT
389882 TTGTTTGCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 2 0.08
10 24 0.92
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTTTCGA
Found at i:390125 original size:26 final size:26
Alignment explanation
Indices: 390095--390151 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
390085 AAGGAAGAAG
*
390095 AAGAAGGAAAAAAAA-AGAAAAGAAAT
1 AAGAAAGAAAAAAAAGAGAAAA-AAAT
390121 AAGAAAGAAAAAAAAGAGAAAAAAAT
1 AAGAAAGAAAAAAAAGAGAAAAAAAT
390147 -AGAAA
1 AAGAAA
390152 ACGAAGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 5 0.17
26 18 0.62
27 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (26 bp):
AAGAAAGAAAAAAAAGAGAAAAAAAT
Found at i:390129 original size:36 final size:37
Alignment explanation
Indices: 390082--390152 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
390072 ATTTGAACCG
* * *
390082 AATAAGGAAGAAGAAGAAG-GAAAAAAAAAGAAAAGA
1 AATAAGAAAGAAAAAAAAGAGAAAAAAAAAGAAAAGA
*
390118 AATAAGAAAGAAAAAAAAGAGAAAAAAATAGAAAA
1 AATAAGAAAGAAAAAAAAGAGAAAAAAAAAGAAAA
390153 CGAAGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (37 bp):
AATAAGAAAGAAAAAAAAGAGAAAAAAAAAGAAAAGA
Found at i:390162 original size:27 final size:27
Alignment explanation
Indices: 390102--390151 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
390092 AAGAAGAAGG
390102 AAAAAAAAAGAAAAGAAATAAGAAAGA
1 AAAAAAAAAGAAAAGAAATAAGAAAGA
*
390129 AAAAAAAGAGAAAA-AAAT-AGAAA
1 AAAAAAAAAGAAAAGAAATAAGAAA
390152 ACGAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 4 0.18
27 13 0.59
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (27 bp):
AAAAAAAAAGAAAAGAAATAAGAAAGA
Found at i:390432 original size:48 final size:49
Alignment explanation
Indices: 390377--390850 Score: 439
Period size: 49 Copynumber: 9.6 Consensus size: 49
390367 TCCTCTTAAT
* *
390377 AGAGGCTTAACAACTTTAAAAATTTCATC-TGAAAAAGCTCCTCTCAAC
1 AGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGC
* * *
390425 AGAGGCTTAACAACTTT-AAAA-TTC-TCTTGAAAAAGCTCCTCTTAGT
1 AGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGC
* * *
390471 AGAGGCTCAACAA-TTTTAAAA-TTC-TTTTGAAAAAGCTCTTCTCAGC
1 AGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGC
* * * *
390517 AGAGGCTCCATAACTTT-AAAATTCTCATCTTGGAAAAGCTCCTCTCAGT
1 AGAGGCTCAACAACTTTAAAAATT-TCATCTTGAAAAAGCTCCTCTCAGC
* * * * * *
390566 AGAGGCTTAACAA-TTTTAAAATCTCATTTTGGAAAAGCTCCTCCCAGC
1 AGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGC
* * * *
390614 AGAGGCTCAACAACTTTAACTTTAAAAATCTGATTTTGAAAAAGCTCCTCTCAAC
1 AGAGGCT---CAAC---AACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGC
* * * *
390669 AAAGGCTCAACAACTTCAAGAATTTCATCTTGGAAAAA-CTCCTCTCAGT
1 AGAGGCTCAACAACTTTAAAAATTTCATCTT-GAAAAAGCTCCTCTCAGC
* * * *
390718 AGAGGCTCAACAACTTT-AAAGTCTTATATCTTGAAAAGGGCTCATCTCAGC
1 AGAGGCTCAACAACTTTAAAAAT-TT-CATCTTGAAAA-AGCTCCTCTCAGC
* * * *
390769 AGAGGTTCAACAACTTTAAAAATCTCATCTTTAAAAAGGCTCCTTTCAGC
1 AGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAA-GCTCCTCTCAGC
390819 AGAGGCTCAACAACTTTAAAAAATTTTCATCT
1 AGAGGCTCAACAACTTT-AAAAA-TTTCATCT
390851 ATTTTCAAAT
Statistics
Matches: 350, Mismatches: 53, Indels: 42
0.79 0.12 0.09
Matches are distributed among these distances:
45 5 0.01
46 71 0.20
47 8 0.02
48 54 0.15
49 79 0.23
50 46 0.13
51 34 0.10
52 15 0.04
54 2 0.01
55 36 0.10
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.30
Consensus pattern (49 bp):
AGAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTCAGC
Found at i:390733 original size:104 final size:103
Alignment explanation
Indices: 390436--390837 Score: 286
Period size: 103 Copynumber: 4.0 Consensus size: 103
390426 GAGGCTTAAC
* ** * * *
390436 AACTTT-AAAAT-TC-TCTTGAAAAAGCTCCTCTTAGTAGAGGCTCAACAATTTTAAAAT-TC-T
1 AACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTCAAAATCTCAT
* * *
390496 -TTTGAAAAAGCTCTTCTCAGCAGAGGCTC--C-A---T
66 CTTGGAAAAA-CTCCTCCCAGCAGAGGCTCAACAACTTT
* * ** * * * *
390528 AACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAGTAGAGGCTTAACAATTTTAAAATCTCAT
1 AACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTCAAAATCTCAT
* *
390593 TTTGGAAAAGCTCCTCCCAGCAGAGGCTCAACAACTTT
66 CTTGGAAAAACTCCTCCCAGCAGAGGCTCAACAACTTT
* * *
390631 AACTTTAAAAATCTGATTTTGAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTCAAGAATTTCA
1 AACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTCAA-AATCTCA
* *
390696 TCTTGGAAAAACTCCTCTCAGTAGAGGCTCAACAACTTT
65 TCTTGGAAAAACTCCTCCCAGCAGAGGCTCAACAACTTT
* * * * * * *
390735 AAAGTCTT----A--T-ATCTTGAAAAGGGCTCATCTCAGCAGAGGTTCAACAACTTTAAAAATC
1 -AACT-TTAAAAATCTCATCTTGAAAA-AGCTCCTCTCAACAAAGGCTCAACAAC-TTCAAAATC
* **
390793 TCATCTT-TAAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTT
62 TCATCTTGGAAAAA--CTCCTCCCAGCAGAGGCTCAACAACTTT
390836 AA
1 AA
390838 AAAATTTTCA
Statistics
Matches: 256, Mismatches: 35, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
92 6 0.02
93 4 0.02
94 2 0.01
95 41 0.16
96 2 0.01
97 18 0.07
98 7 0.03
99 15 0.06
100 36 0.14
101 30 0.12
102 1 0.00
103 48 0.19
104 41 0.16
105 3 0.01
106 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (103 bp):
AACTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAACAAAGGCTCAACAACTTCAAAATCTCAT
CTTGGAAAAACTCCTCCCAGCAGAGGCTCAACAACTTT
Found at i:390847 original size:152 final size:145
Alignment explanation
Indices: 390377--390850 Score: 466
Period size: 152 Copynumber: 3.2 Consensus size: 145
390367 TCCTCTTAAT
* **
390377 AGAGGCTTAACAACTTTAAAAATTTCATC-T-GAAAAAGCTCCTCTCAACAGAGGCTTAACAACT
1 AGAGGCTCAACAACTTTAAAAATTTCATCTTGGAAAAA-CTCCTCTCAGTAGAGGCTTAACAACT
* * * * * *
390440 TTAAA-ATT-CTCTTGAAAAAGCTCCTCTTAGTAGAGGCTCAACAA-TTTTAAAAT-TC-TTTTG
65 TTAAATCTTATTCTTG-AAAAGCTCCTCTCAGCAGAGGTTCAACAACTTTAAAAATCTCATTTTG
*
390500 AAAAAGCT-CTTCTCAGC
129 AAAAAGCTCCTT-TCAAC
* * * *
390517 AGAGGCTCCATAACTTT-AAAATTCTCATCTTGGAAAAGCTCCTCTCAGTAGAGGCTTAACAATT
1 AGAGGCTCAACAACTTTAAAAATT-TCATCTTGGAAAAACTCCTCTCAGTAGAGGCTTAACAACT
* * *
390581 TTAAAATCTCATT-TTGGAAAAGCTCCTCCCAGCAGAGGCTCAACAACTTTAACTTTAAAAATCT
65 TT-AAATCTTATTCTT-GAAAAGCTCCTCTCAGCAGAGG-T--TCAAC---AACTTTAAAAATCT
* *
390645 GATTTTGAAAAAGCTCCTCTCAAC
122 CATTTTGAAAAAGCTCCTTTCAAC
* * * *
390669 AAAGGCTCAACAACTTCAAGAATTTCATCTTGGAAAAACTCCTCTCAGTAGAGGCTCAACAACTT
1 AGAGGCTCAACAACTTTAAAAATTTCATCTTGGAAAAACTCCTCTCAGTAGAGGCTTAACAACTT
*
390734 TAAAGTCTTATATCTTGAAAAGGGCTCATCTCAGCAGAGGTTCAACAACTTTAAAAATCTCATCT
66 TAAA-TCTTAT-TCTTGAAAA--GCTCCTCTCAGCAGAGGTTCAACAACTTTAAAAATCTCAT-T
*
390799 TT-AAAAAGGCTCCTTTCAGC
126 TTGAAAAA-GCTCCTTTCAAC
390819 AGAGGCTCAACAACTTTAAAAAATTTTCATCT
1 AGAGGCTCAACAACTTT-AAAAA-TTTCATCT
390851 ATTTTCAAAT
Statistics
Matches: 270, Mismatches: 37, Indels: 42
0.77 0.11 0.12
Matches are distributed among these distances:
139 6 0.02
140 19 0.07
141 26 0.10
142 8 0.03
143 21 0.08
144 2 0.01
146 4 0.01
149 23 0.09
150 36 0.13
151 8 0.03
152 86 0.32
153 13 0.05
154 3 0.01
155 15 0.06
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.30
Consensus pattern (145 bp):
AGAGGCTCAACAACTTTAAAAATTTCATCTTGGAAAAACTCCTCTCAGTAGAGGCTTAACAACTT
TAAATCTTATTCTTGAAAAGCTCCTCTCAGCAGAGGTTCAACAACTTTAAAAATCTCATTTTGAA
AAAGCTCCTTTCAAC
Found at i:399913 original size:13 final size:13
Alignment explanation
Indices: 399895--399920 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
399885 GAAATCTCAA
399895 ATTTTTTCTTTTT
1 ATTTTTTCTTTTT
399908 ATTTTTTCTTTTT
1 ATTTTTTCTTTTT
399921 CAGCTTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
ATTTTTTCTTTTT
Found at i:404110 original size:4 final size:4
Alignment explanation
Indices: 404101--404145 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
404091 TAAGGAGGAA
*
404101 AAAG AAAG AAGG AAAG AAA- AAAG AAAG AAAG -AAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
404146 AGAGAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 6 0.16
4 31 0.84
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:404123 original size:19 final size:18
Alignment explanation
Indices: 404099--404145 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
404089 AATAAGGAGG
*
404099 AAAAAGAAAGAAGGAAAGA
1 AAAAAGAAAGAAAG-AAGA
404118 AAAAAGAAAGAAAGAAGA
1 AAAAAGAAAGAAAGAAGA
404136 AAGAAAGAAA
1 AA-AAAGAAA
404146 AGAGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAGAAAGAAGA
Found at i:404125 original size:15 final size:15
Alignment explanation
Indices: 404098--404145 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
404088 GAATAAGGAG
*
404098 GAAA-AAGAAAGAAG
1 GAAAGAAGAAAGAAA
*
404112 GAAAGAAAAAAGAAA
1 GAAAGAAGAAAGAAA
404127 GAAAGAAGAAAGAAA
1 GAAAGAAGAAAGAAA
404142 GAAA
1 GAAA
404146 AGAGAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 4 0.13
15 26 0.87
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
GAAAGAAGAAAGAAA
Found at i:404128 original size:11 final size:11
Alignment explanation
Indices: 404101--404155 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
404091 TAAGGAGGAA
*
404101 AAAGAAAGAAGG
1 AAAGAAA-AAAG
404113 AAAGAAAAAAG
1 AAAGAAAAAAG
*
404124 AAAGAAAGAAG
1 AAAGAAAAAAG
404135 AAAGAAAGAAA-
1 AAAGAAA-AAAG
*
404146 AGAGAAAAAA
1 AAAGAAAAAA
404156 TATTAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
10 3 0.08
11 26 0.68
12 9 0.24
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:404151 original size:15 final size:16
Alignment explanation
Indices: 404102--404152 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 16
404092 AAGGAGGAAA
*
404102 AAGAAAG-AAGGAAAG
1 AAGAAAGAAAGAAAAG
*
404117 AAAAAAGAAAG-AAAG
1 AAGAAAGAAAGAAAAG
404132 AAGAAAGAAAGAAAAG
1 AAGAAAGAAAGAAAAG
404148 -AGAAA
1 AAGAAA
404153 AAATATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 25 0.78
16 7 0.22
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAAGAAAAG
Found at i:408861 original size:12 final size:12
Alignment explanation
Indices: 408846--408870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
408836 TTTATCATCA
408846 TCGACATTGGCT
1 TCGACATTGGCT
408858 TCGACATTGGCT
1 TCGACATTGGCT
408870 T
1 T
408871 TGGTACCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (12 bp):
TCGACATTGGCT
Found at i:410641 original size:18 final size:18
Alignment explanation
Indices: 410620--410656 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
410610 AATTGTAATC
*
410620 TTTTTAATATTAAACTAT
1 TTTTTAATACTAAACTAT
*
410638 TTTTTCATACTAAACTAT
1 TTTTTAATACTAAACTAT
410656 T
1 T
410657 ATATATAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTAATACTAAACTAT
Found at i:411525 original size:3 final size:3
Alignment explanation
Indices: 411512--411542 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
411502 TAAACACCAT
411512 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
411543 TATTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:411638 original size:22 final size:24
Alignment explanation
Indices: 411602--411649 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
411592 CTTCTTCTCT
*
411602 TTTCTTCTTCTTTCTT-TCC-TCC
1 TTTCTTCTTCCTTCTTATCCATCC
*
411624 TTTCTTTTTCCTTCTTATCCATCC
1 TTTCTTCTTCCTTCTTATCCATCC
411648 TT
1 TT
411650 ATCCGATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 3 0.14
24 5 0.23
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTCTTCTTCCTTCTTATCCATCC
Found at i:412805 original size:11 final size:11
Alignment explanation
Indices: 412791--412815 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
412781 AAATAAATTT
412791 AATTAATAAAA
1 AATTAATAAAA
412802 AATTAATAAAA
1 AATTAATAAAA
412813 AAT
1 AAT
412816 GTAAGAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATTAATAAAA
Found at i:413706 original size:19 final size:17
Alignment explanation
Indices: 413661--413708 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
413651 TTGCTTTTAG
413661 TAAAAA-AAGAAAAAAAA
1 TAAAAATAA-AAAAAAAA
*
413678 TAATAATAAAAAAATAAA
1 TAAAAATAAAAAAA-AAA
413696 TCAAAAATAAAAA
1 T-AAAAATAAAAA
413709 GCAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
19 10 0.38
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (17 bp):
TAAAAATAAAAAAAAAA
Found at i:416597 original size:14 final size:15
Alignment explanation
Indices: 416578--416609 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
416568 TCTGCACCAT
416578 TTTAAAAAA-AAAAA
1 TTTAAAAAATAAAAA
416592 TTTAAAAAATAAAAA
1 TTTAAAAAATAAAAA
416607 TTT
1 TTT
416610 TAACACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TTTAAAAAATAAAAA
Found at i:416599 original size:15 final size:15
Alignment explanation
Indices: 416576--416609 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
416566 CATCTGCACC
*
416576 ATTTTAAAAAAAAAA
1 ATTTAAAAAAAAAAA
*
416591 ATTTAAAAAATAAAA
1 ATTTAAAAAAAAAAA
416606 ATTT
1 ATTT
416610 TAACACAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTTAAAAAAAAAAA
Found at i:424847 original size:49 final size:49
Alignment explanation
Indices: 424794--425235 Score: 440
Period size: 49 Copynumber: 8.9 Consensus size: 49
424784 ATTTAAAAAT
*
424794 AGATGAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
* * *
424843 AGATGAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
* * *
424892 AGATGAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGATGAGCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
*
424941 AGA-GA-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
* * * *
424987 AGAAGAGAATTTTAAAGTTGTTGGGCTTCTGCTGAGAGGAGCTTTTCC-
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
425035 AGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC-
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
* ** * * * *
425082 AGAAGAGATTTCCATATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCA
1 AGATGAGATTT---T-T-A-A-AGTT---GTTG-AG-C-CTCTGCTGAGAGGAGCTTTTCCA
*
425144 AGA-GA-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCATTTT-CA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-C-TTTTCCA
* * * *
425191 A-A-AAAAATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCCTTTT
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTT
425236 AAACTTTCAA
Statistics
Matches: 340, Mismatches: 31, Indels: 46
0.82 0.07 0.11
Matches are distributed among these distances:
46 57 0.17
47 56 0.16
48 49 0.14
49 133 0.39
51 1 0.00
52 3 0.01
53 2 0.01
54 2 0.01
55 3 0.01
56 1 0.00
58 4 0.01
59 3 0.01
60 1 0.00
61 22 0.06
62 3 0.01
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (49 bp):
AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCA
Found at i:425000 original size:95 final size:95
Alignment explanation
Indices: 424798--425235 Score: 508
Period size: 95 Copynumber: 4.5 Consensus size: 95
424788 AAAAATAGAT
*
424798 GAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTG
1 GAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTC-A-A-GAGAATTTTAAAGTTG
* * * *
424863 TTGAGCCTCTACTGAGAGGAGCTTTTTCAAGAT
63 TTGAGCCTCTGCTGAGAAGAGCTTTTCCAAGAA
*
424896 GAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGATGAGCTTTTTCAAGAGAATTTTAAAGTTGTTG
1 GAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTG
424961 AGCCTCTGCTGAGAAGAGCTTTTCCAAGAA
66 AGCCTCTGCTGAGAAGAGCTTTTCCAAGAA
* * *
424991 GAGAATTTTAAAGTTGTTG-GGCTTCTGCTGAGAGGAGC-TTTTCCAGATGAGATTTTAAAGTTG
1 GAGATTTTTAAAGTTGTTGAGCCTT-TGCTGAGAGGAGCTTTTTCAAGA-GA-ATTTTAAAGTTG
*
425054 TTGAGCCTCTGCTGAGAGGAGCTTTTCCAGAAGAGATTTCCATA
63 TTGAGCCTCTGCTGAGAAGAGCTTTTCC---A-AG------A-A
* *
425098 TGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAGAGAATTTTAAAGTTGTT
1 -GAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTT
425163 GAGCCTCTGCTGAGAAGAGCCATTTT-CAA-AA
65 GAGCCTCTGCTGAGAAGAG-C-TTTTCCAAGAA
* * * * *
425194 -AAAATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCCTTTT
1 GAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTT
425236 AAACTTTCAA
Statistics
Matches: 299, Mismatches: 22, Indels: 42
0.82 0.06 0.12
Matches are distributed among these distances:
94 49 0.16
95 77 0.26
96 41 0.14
97 2 0.01
98 42 0.14
99 1 0.00
100 2 0.01
104 1 0.00
105 1 0.00
106 1 0.00
107 33 0.11
108 34 0.11
109 15 0.05
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (95 bp):
GAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTG
AGCCTCTGCTGAGAAGAGCTTTTCCAAGAA
Found at i:425088 original size:144 final size:145
Alignment explanation
Indices: 424798--425235 Score: 512
Period size: 144 Copynumber: 3.0 Consensus size: 145
424788 AAAAATAGAT
* * * *
424798 GAGATTTTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTTTTCCAAGATGAGAATTTTAAAGTTG
1 GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCCAAGAAGAGAATTTTAAAGTTG
* * * *
424863 TTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTTTGCTGAG
66 TTGAGCCTCTGCTGAGAGGAGCATTTTCCAGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAG
* *
424928 ATGAGCTTTTTC-A-A
130 AGGAGCTTTTCCAAGA
424942 GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCCAAGAAGAGAATTTTAAAGTTG
1 GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCCAAGAAGAGAATTTTAAAGTTG
* *
425007 TTGGGCTTCTGCTGAGAGGAGC-TTTTCCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGA
66 TTGAGCCTCTGCTGAGAGGAGCATTTTCCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGA
425071 GGAGCTTTTCCAGAAGA
131 GGAGCTTTTCC--AAGA
*
425088 GATTTCCATATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTC---AAGAGAA
1 G--------A-GA-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCCAAGAAGAGAA
* * ** *
425150 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCATTTT-CAAAAAAAATTTTAAAGTTGTTGAG
55 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CATTTTCCAGATGAGATTTTAAAGTTGTTGAG
*
425214 CCTCTGCTAAGAGGAGCCTTTT
119 CCTCTGCTGAGAGGAG-CTTTT
425236 AAACTTTCAA
Statistics
Matches: 256, Mismatches: 20, Indels: 24
0.85 0.07 0.08
Matches are distributed among these distances:
142 36 0.14
143 13 0.05
144 80 0.31
145 1 0.00
146 2 0.01
154 37 0.14
155 39 0.15
156 10 0.04
157 38 0.15
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (145 bp):
GAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTCCAAGAAGAGAATTTTAAAGTTG
TTGAGCCTCTGCTGAGAGGAGCATTTTCCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGA
GGAGCTTTTCCAAGA
Found at i:425208 original size:48 final size:46
Alignment explanation
Indices: 425104--425235 Score: 201
Period size: 48 Copynumber: 2.8 Consensus size: 46
425094 CATATGAGAT
* * *
425104 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCTTTTTCAAGAGAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCTTTTCAAAAAAA
425150 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCATTTTCAAAAAAAA
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCC-TTTTC-AAAAAAA
* *
425198 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCCTTTT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCTTTT
425236 AAACTTTCAA
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
46 33 0.42
47 9 0.11
48 37 0.47
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (46 bp):
TTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAGCCTTTTCAAAAAAA
Found at i:425430 original size:3 final size:3
Alignment explanation
Indices: 425422--425458 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
425412 TAAACACCAT
425422 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
425459 TAATTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:427119 original size:208 final size:204
Alignment explanation
Indices: 426685--427078 Score: 481
Period size: 206 Copynumber: 1.9 Consensus size: 204
426675 AATAAATTTA
* * *
426685 ATTAATAAAA-AAGTAATAAAAAATGTAAGAAAAGGTAATTTTTATCCAACGATGAGATTCAAAA
1 ATTAATAAAATAAGTAATAAAAAATGGAAGAAAA-GTAAATTTAATCCAACGATGAGATTCAAAA
* *
426749 GTATTCCGAGTAGTGATGCCTACGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCACTG
65 GTATTCCGAGTAGAGATGCCTAAGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCACTG
* * * * * *
426814 TATTGGAGTATTTATAAAAAATTTTTAATACAGTAAAATTTTTTTTTTAAAATAATAAATAAAAA
130 TATTAGAATATTTATAAAAAATCTTCAATACAATAAAATTTTTTTTTCAAAATAATAAATAAAAA
426879 TTGATTAATAT
195 TTGA-TAATAT
* * *
426890 ATTAA-AAATATAAGTAATAAAAAATAGGAAGAAAA-TAAATTTAATCTAATGATGGGATTCTAA
1 ATTAATAAA-ATAAGTAATAAAAAAT-GGAAGAAAAGTAAATTTAATCCAACGATGAGATTC-AA
* * *
426953 AAGTATTCCGAGTAGAGATGCTTTAAGAAATCTTTAGGTGAGAAGATTTTTTGTAAAATATTACC
63 AAGTATTCCGAGTAGAGATGC-CTAAGAAATCTCTAGGTGAGAAGATTTTTT-TAAAATACTACC
* *
427018 AGC-GTATTAGAATATTTATAAAAAAATCTTCAATATAATTAAATTCCTTTTTCTTCAAAAT
126 A-CTGTATTAGAATATTTAT-AAAAAATCTTCAATACAATAAAATT--TTTTT-TTCAAAAT
427079 TTCAATTTTA
Statistics
Matches: 159, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
204 3 0.02
205 26 0.16
206 36 0.23
207 35 0.22
208 26 0.16
209 21 0.13
211 5 0.03
212 7 0.04
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (204 bp):
ATTAATAAAATAAGTAATAAAAAATGGAAGAAAAGTAAATTTAATCCAACGATGAGATTCAAAAG
TATTCCGAGTAGAGATGCCTAAGAAATCTCTAGGTGAGAAGATTTTTTTAAAATACTACCACTGT
ATTAGAATATTTATAAAAAATCTTCAATACAATAAAATTTTTTTTTCAAAATAATAAATAAAAAT
TGATAATAT
Found at i:429117 original size:14 final size:14
Alignment explanation
Indices: 429098--429124 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
429088 AGAAATTCTT
429098 TTTATTTTTTATTC
1 TTTATTTTTTATTC
429112 TTTATTTTTTATT
1 TTTATTTTTTATT
429125 GGATTTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTTTATTC
Found at i:429838 original size:14 final size:14
Alignment explanation
Indices: 429816--429850 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
429806 TTAATCATGA
*
429816 AAGAAAAAAATACT
1 AAGAAAAAAAAACT
*
429830 AAGAGAAAAAAACT
1 AAGAAAAAAAAACT
429844 AAGAAAA
1 AAGAAAA
429851 CTACTAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (14 bp):
AAGAAAAAAAAACT
Found at i:430174 original size:15 final size:16
Alignment explanation
Indices: 430152--430196 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
430142 TCAGATGTCC
430152 CTTTCCCTTTCTCTTT
1 CTTTCCCTTTCTCTTT
430168 C-TTCCCTTTCT-TTT
1 CTTTCCCTTTCTCTTT
430182 CTTTCCCTTTTCTCT
1 CTTTCCC-TTTCTCT
430197 AACCCGATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 4 0.15
15 15 0.58
16 6 0.23
17 1 0.04
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
CTTTCCCTTTCTCTTT
Found at i:430728 original size:3 final size:3
Alignment explanation
Indices: 430720--430786 Score: 59
Period size: 3 Copynumber: 22.7 Consensus size: 3
430710 TCTTAAAATA
* * *
430720 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT CAA- AAT AAA AAC AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT
*
430766 AAT AAA AAT AA- AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
430787 CAAAAAGTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
2 6 0.11
3 42 0.79
4 5 0.09
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.22
Consensus pattern (3 bp):
AAT
Found at i:430747 original size:28 final size:27
Alignment explanation
Indices: 430714--430786 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
430704 CTATTATCTT
* * *
430714 AAAATAAATAATAATAATAATAATAATA
1 AAAATAAATAA-AATAAAAACAAGAATA
*
430742 ATAATAAATCAAAATAAAAACAAGAATA
1 AAAATAAAT-AAAATAAAAACAAGAATA
430770 AAAATAAAATAAAATAA
1 AAAAT-AAATAAAATAA
430787 CAAAAAGTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
28 32 0.84
29 6 0.16
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.22
Consensus pattern (27 bp):
AAAATAAATAAAATAAAAACAAGAATA
Found at i:431131 original size:16 final size:16
Alignment explanation
Indices: 431110--431159 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
431100 AATAACTTTT
431110 AATCATTTATTAATAA
1 AATCATTTATTAATAA
431126 AATCA-TTATTTGACATAA
1 AATCATTTA-TT-A-ATAA
*
431144 AATAATTTATTAATAA
1 AATCATTTATTAATAA
431160 TTTATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 3 0.10
16 11 0.38
17 2 0.07
18 10 0.34
19 3 0.10
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (16 bp):
AATCATTTATTAATAA
Found at i:431160 original size:11 final size:11
Alignment explanation
Indices: 431144--431168 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
431134 TTTGACATAA
431144 AATAATTTATT
1 AATAATTTATT
431155 AATAATTTATT
1 AATAATTTATT
431166 AAT
1 AAT
431169 TTTATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATAATTTATT
Found at i:431187 original size:19 final size:20
Alignment explanation
Indices: 431143--431189 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
431133 ATTTGACATA
*
431143 AAATAA-TTTATTAATAATT
1 AAATAATTTTATAAATAATT
* *
431162 TATTAATTTTATAAAT-ATT
1 AAATAATTTTATAAATAATT
431181 AAATAATTT
1 AAATAATTT
431190 AAAATTTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATAATTTTATAAATAATT
Found at i:431805 original size:20 final size:19
Alignment explanation
Indices: 431782--431818 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
431772 AATTGTAATC
*
431782 TTTTTAATACTAAACTATA
1 TTTTTTATACTAAACTATA
431801 TTTTTTATACTAAACTAT
1 TTTTTTATACTAAACTAT
431819 TATATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTTTATACTAAACTATA
Found at i:435283 original size:16 final size:17
Alignment explanation
Indices: 435245--435298 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
435235 ATAAAATTAT
435245 AATTATATTATTA-ACTAA
1 AATT-TATTATTATA-TAA
* *
435263 AAATTATTATTTTATAA
1 AATTTATTATTATATAA
435280 AATTTATTATTATATAA
1 AATTTATTATTATATAA
435297 AA
1 AA
435299 AATTAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 27 0.87
18 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTATTATTATATAA
Found at i:435486 original size:19 final size:20
Alignment explanation
Indices: 435464--435506 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
435454 TTTTACATAA
*
435464 AAATAATTTACTGATTTT-T
1 AAATAATTTACTAATTTTAT
* *
435483 AAATTATTTATTAATTTTAT
1 AAATAATTTACTAATTTTAT
435503 AAAT
1 AAAT
435507 GTTAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
AAATAATTTACTAATTTTAT
Found at i:436167 original size:21 final size:18
Alignment explanation
Indices: 436130--436164 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
436120 TATGATAGAG
436130 TTTTTAAAAATTTATTAA
1 TTTTTAAAAATTTATTAA
* *
436148 TTTTTATAAATATATTA
1 TTTTTAAAAATTTATTA
436165 TTATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTAAAAATTTATTAA
Found at i:436782 original size:22 final size:21
Alignment explanation
Indices: 436757--436797 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
436747 GGGTCCACAC
436757 TTTAAAAAATTAAATAAAAATA
1 TTTAAAAAATTAAA-AAAAATA
**
436779 TTTATTAAATTAAAAAAAA
1 TTTAAAAAATTAAAAAAAA
436798 GAAAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TTTAAAAAATTAAAAAAAATA
Found at i:442609 original size:23 final size:23
Alignment explanation
Indices: 442583--442645 Score: 126
Period size: 23 Copynumber: 2.7 Consensus size: 23
442573 ATATTTGATT
442583 AGTTCAAAGAATACGATAGAATA
1 AGTTCAAAGAATACGATAGAATA
442606 AGTTCAAAGAATACGATAGAATA
1 AGTTCAAAGAATACGATAGAATA
442629 AGTTCAAAGAATACGAT
1 AGTTCAAAGAATACGAT
442646 TAGTTCAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.51, C:0.10, G:0.17, T:0.22
Consensus pattern (23 bp):
AGTTCAAAGAATACGATAGAATA
Found at i:446188 original size:144 final size:144
Alignment explanation
Indices: 445978--446723 Score: 1068
Period size: 144 Copynumber: 5.2 Consensus size: 144
445968 ACTATCTACG
* * * *** *
445978 TGGTTCTATCCCTGCTTCCGTAGGAAACTTGACCTA-CTTATCTGTTCTCCACCTCTATCAAAAT
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACC-AGTTTATCCACTCTCTACCTCTATCAAAAT
* * * *
446042 ATGTTTTGTGGATCGATACCTAAAGAAATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAG
65 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAG
*
446107 TCATAATAATTTCTC
130 TCAAAATAATTTCTC
* * * *
446122 TGGTTCAATCCCTGCTTCCATAAGAAACTTGACCAGTTTATCCACTCTCCACCT-TCACCATAAT
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTTTATCCACTCTCTACCTCT-ATCAAAAT
* *
446186 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGTTTAAATCTCTCACTGACTTTGAGTTTAG
65 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAG
*
446251 TCATAATAATTTCTC
130 TCAAAATAATTTCTC
* * * *
446266 TGGTTCAGTCCCTGCTTCCATAAGAAACTTGACCAGTTTATCCAGTCTCTACCT-TCATCATAAT
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTTTATCCACTCTCTACCTCT-ATCAAAAT
*
446330 ATGTTTTCTGGGTCGTTACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAG
65 ATGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAG
446395 TCAAAATAATTTCTC
130 TCAAAATAATTTCTC
*** *** *
446410 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAACCTATCTTTTCTCTACCTCTACCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTTTATCCACTCTCTACCTCTATCAAAATA
* **
446475 TGTTTTCTGGATCGATACCTCAAGAGATAGCCATGCTTAAATCTCTCACTGA-TATTGAGTTGAG
66 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACT-TTGAGTTGAG
*
446539 TCAAAATAATTTCTT
130 TCAAAATAATTTCTC
* * *
446554 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTCTATCCACTCTTTACCTCGATCAAAATA
1 TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTTTATCCACTCTCTACCTCTATCAAAATA
* *
446619 TGTTTTCTGGGTCGATGCCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGGGTTGAGT
66 TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
446684 CAAAATAATTTCTC
131 CAAAATAATTTCTC
446698 TGGTTCAATCCCTGCTTCCATAGGAA
1 TGGTTCAATCCCTGCTTCCATAGGAA
446724 GCATGTCGAA
Statistics
Matches: 545, Mismatches: 52, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
143 3 0.01
144 540 0.99
145 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (144 bp):
TGGTTCAATCCCTGCTTCCATAGGAAACTTGACCAGTTTATCCACTCTCTACCTCTATCAAAATA
TGTTTTCTGGGTCGATACCTCAAGAGATAGGGATGCTTAAATCTCTCACTGACTTTGAGTTGAGT
CAAAATAATTTCTC
Found at i:451611 original size:13 final size:14
Alignment explanation
Indices: 451577--451625 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
451567 GATAGATCGC
*
451577 AGAAGAAA-AAAAA
1 AGAAGAAAGAGAAA
*
451590 AAAAG-AAGAG-AA
1 AGAAGAAAGAGAAA
*
451602 AGGAGAAAGAGAAA
1 AGAAGAAAGAGAAA
451616 AGAAGAAAGA
1 AGAAGAAAGA
451626 ATTCTAGAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
12 7 0.25
13 10 0.36
14 11 0.39
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AGAAGAAAGAGAAA
Found at i:453761 original size:9 final size:9
Alignment explanation
Indices: 453742--453827 Score: 81
Period size: 9 Copynumber: 9.9 Consensus size: 9
453732 AACTATGCTT
*
453742 AAAAGAAAA
1 AAAAGGAAA
*
453751 AAAAGGCAA
1 AAAAGGAAA
453760 AAAA--AAA
1 AAAAGGAAA
*
453767 AAAAGAAAA
1 AAAAGGAAA
*
453776 AAAAGAAAA
1 AAAAGGAAA
453785 AAAAGGAAA
1 AAAAGGAAA
*
453794 GAAAAAGAAA
1 -AAAAGGAAA
453804 AAAA-G-AA
1 AAAAGGAAA
453811 AAAAGGAAA
1 AAAAGGAAA
*
453820 AAAGGGAA
1 AAAAGGAA
453828 TGAAAAAGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
7 12 0.18
8 2 0.03
9 44 0.67
10 8 0.12
ACGTcount: A:0.81, C:0.01, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAGGAAA
Found at i:453770 original size:25 final size:23
Alignment explanation
Indices: 453742--453822 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
453732 AACTATGCTT
453742 AAAAGAAAAAAAAGGCAAAAAAAAA
1 AAAAGAAAAAAAA-G-AAAAAAAAA
*
453767 AAAAGAAAAAAAAGAAAAAAAAG
1 AAAAGAAAAAAAAGAAAAAAAAA
* * *
453790 GAAAGAAAAAGAA-AAAAAGAAA
1 AAAAGAAAAAAAAGAAAAAAAAA
*
453812 AAAGGAAAAAA
1 AAAAGAAAAAA
453823 GGGAATGAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 15 0.31
23 19 0.40
24 1 0.02
25 13 0.27
ACGTcount: A:0.84, C:0.01, G:0.15, T:0.00
Consensus pattern (23 bp):
AAAAGAAAAAAAAGAAAAAAAAA
Found at i:453780 original size:34 final size:35
Alignment explanation
Indices: 453742--453837 Score: 126
Period size: 35 Copynumber: 2.8 Consensus size: 35
453732 AACTATGCTT
453742 AAAAGAAAAAAAAGGCAAA-AAAAA-AAAAAGAA-AA
1 AAAAGAAAAAAAAGG-AAAGAAAAAGAAAAA-AAGAA
453776 AAAAGAAAAAAAAGGAAAGAAAAAGAAAAAAAGAA
1 AAAAGAAAAAAAAGGAAAGAAAAAGAAAAAAAGAA
* * *
453811 AAAAGGAAAAAAGGGAATGAAAAAGAA
1 AAAAGAAAAAAAAGGAAAGAAAAAGAA
453838 GGACTTAAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
33 3 0.05
34 22 0.39
35 31 0.55
ACGTcount: A:0.80, C:0.01, G:0.18, T:0.01
Consensus pattern (35 bp):
AAAAGAAAAAAAAGGAAAGAAAAAGAAAAAAAGAA
Found at i:453834 original size:1 final size:1
Alignment explanation
Indices: 453758--453814 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
453748 AAAAAAAGGC
* * ** * * *
453758 AAAAAAAAAAAAAGAAAAAAAAGAAAAAAAAGGAAAGAAAAAGAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
453815 GGAAAAAAGG
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:454937 original size:41 final size:41
Alignment explanation
Indices: 454841--454966 Score: 211
Period size: 41 Copynumber: 3.1 Consensus size: 41
454831 GATTGTCAAT
454841 GAGC-ATTTACTTTC-AAAGTTGTGATGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCAAAAGTTGTGATGCCTCTGTTTAGAG
*
454880 GAGCAATTTACTTTTCAAAAGTTATGATGCCTCTGTTTAGAG
1 GAGCAATTTAC-TTTCAAAAGTTGTGATGCCTCTGTTTAGAG
*
454922 GAGCAATTTACTTTCAAAAGTTGTGATGCCTCTGCTTAGAG
1 GAGCAATTTACTTTCAAAAGTTGTGATGCCTCTGTTTAGAG
454963 GAGC
1 GAGC
454967 TTTGTTTATT
Statistics
Matches: 81, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
39 4 0.05
40 6 0.07
41 36 0.44
42 35 0.43
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (41 bp):
GAGCAATTTACTTTCAAAAGTTGTGATGCCTCTGTTTAGAG
Found at i:454996 original size:43 final size:43
Alignment explanation
Indices: 454866--455310 Score: 339
Period size: 41 Copynumber: 10.5 Consensus size: 43
454856 AAGTTGTGAT
* * * *
454866 GCCTCTGTTTAGAGGAGC--AATTTACTTTTCAAAAGTTA-TGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTC-AAAGTCATTGA
* * *
454907 TGCCTCTGTTTAGAGGAGC--AATTTA-CTTTCAAAAGT--TGTGA
1 -GCCTCTGATTAGAGGAGCTTTATTTATTTTTC-AAAGTCAT-TGA
* * *
454948 TGCCTCTGCTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATCGA
1 -GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGA
* * * * **
454992 GCCTCTTATTAAAGGAGGTTTGTTTATTTTTTCCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTA-TTTTT-CAAAGTCATTGA
* *
455037 GCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCATCGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGA
* * *
455080 GCCTCTGATTAGGGGAGCCTTA--TATTTTTCAAAGTCATTAA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGA
*
455121 GCTTCT-ATTTAGAGGAGCTTTATTTATTTTTCAAAGT-AGTTGA
1 GCCTCTGA-TTAGAGGAGCTTTATTTATTTTTCAAAGTCA-TTGA
* * * **
455164 GCCTCTGATTAGAAGAGC--CATTTATTTTCCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGA
* * * *
455205 GCCTTTGATTAGAGGAGC--CATTTA-TTTTCAAAGTCGTGGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGA
* * * *
455245 GTCTCTGTTTAGAGGAGCTTTATCTATTTTACTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTT--TCAAAGTCATTGA
* *
455290 GCCTCTGCTTAGAAGAGCTTT
1 GCCTCTGATTAGAGGAGCTTT
455311 GACCAAAATT
Statistics
Matches: 336, Mismatches: 47, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
40 29 0.09
41 106 0.32
42 29 0.09
43 92 0.27
44 17 0.05
45 63 0.19
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (43 bp):
GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCATTGA
Found at i:455138 original size:41 final size:42
Alignment explanation
Indices: 454949--455307 Score: 199
Period size: 43 Copynumber: 8.4 Consensus size: 42
454939 AAGTTGTGAT
* * * *
454949 GCCTCTGCTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATCGA
1 GCCTCTGATTAGAGGAGCCTT-ATTATTTTTCAAAGTCATCAA
* * ** * ** **
454992 GCCTCTTATTAAAGGAGGTTTGTTTATTTTTTCCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCCTT-ATTA-TTTTT-CAAAGTCATCAA
* * *
455037 GCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCATCGA
1 GCCTCTGATTAGAGGAGCCTT-ATTATTTTTCAAAGTCATCAA
* *
455080 GCCTCTGATTAGGGGAGCCTTA-TATTTTTCAAAGTCATTAA
1 GCCTCTGATTAGAGGAGCCTTATTATTTTTCAAAGTCATCAA
* * **
455121 GCTTCT-ATTTAGAGGAGCTTTATTTATTTTTCAAAGT-AGTTGA
1 GCCTCTGA-TTAGAGGAGCCTTA-TTATTTTTCAAAGTCA-TCAA
* * * ** **
455164 GCCTCTGATTAGAAGAGCCAT-TTATTTTCCAAAGTTGTTGA
1 GCCTCTGATTAGAGGAGCCTTATTATTTTTCAAAGTCATCAA
* * * **
455205 GCCTTTGATTAGAGGAGCCAT-TTA-TTTTCAAAGTCGTGGA
1 GCCTCTGATTAGAGGAGCCTTATTATTTTTCAAAGTCATCAA
* * * * **
455245 GTCTCTGTTTAGAGGAGCTTTATCTATTTTACTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCTTAT-TATTTT--TCAAAGTCATCAA
* *
455290 GCCTCTGCTTAGAAGAGC
1 GCCTCTGATTAGAGGAGC
455308 TTTGACCAAA
Statistics
Matches: 261, Mismatches: 42, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
40 30 0.11
41 74 0.28
42 3 0.01
43 84 0.32
44 11 0.04
45 59 0.23
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (42 bp):
GCCTCTGATTAGAGGAGCCTTATTATTTTTCAAAGTCATCAA
Found at i:455166 original size:84 final size:83
Alignment explanation
Indices: 454949--455311 Score: 304
Period size: 84 Copynumber: 4.3 Consensus size: 83
454939 AAGTTGTGAT
* * * **
454949 GCCTCTGCTTAGAGGAGCTTTGTTTATTTTTCAAAGTCATCGAGCCTCTTATTAAAGGAGGTTTG
1 GCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCATCGAGCCTCTGATTAGAGGA-G--CC
** *
455014 TTTATTTTTTCCAAAGTTGTTGA
63 TTTA-TTTTT-CAAAGTCATTAA
*
455037 GCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCATCGAGCCTCTGATTAGGGGAGCCTTA
1 GCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCATCGAGCCTCTGATTAGAGGAGCCTT-
455102 TATTTTTCAAAGTCATTAA
65 TATTTTTCAAAGTCATTAA
* * * *
455121 GCTTCT-ATTTAGAGGAGCTTTATTTATTTTTCAAAGT-AGTTGAGCCTCTGATTAGAAGAGCCA
1 GCCTCTGA-TTAGAGGAGCTTTGTTTATTTTTCAAAGTCA-TCGAGCCTCTGATTAGAGGAGCC-
* ** *
455184 TTTATTTTCCAAAGTTGTTGA
63 TTTATTTTTCAAAGTCATTAA
* ** * * * * *
455205 GCCTTTGATTAGAGGAGC--CATTTA-TTTTCAAAGTCGTGGAGTCTCTGTTTAGAGGAGCTTTA
1 GCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCATCGAGCCTCTGATTAGAGGAGC-CT-
* *
455267 TCTATTTTACTCAAAGTCGTTGA
64 T-TATTTT--TCAAAGTCATTAA
* *
455290 GCCTCTGCTTAGAAGAGCTTTG
1 GCCTCTGATTAGAGGAGCTTTG
455312 ACCAAAATTT
Statistics
Matches: 228, Mismatches: 34, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
81 29 0.13
82 6 0.03
83 8 0.04
84 91 0.40
85 36 0.16
86 2 0.01
87 1 0.00
88 55 0.24
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (83 bp):
GCCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCATCGAGCCTCTGATTAGAGGAGCCTTT
ATTTTTCAAAGTCATTAA
Found at i:455364 original size:16 final size:16
Alignment explanation
Indices: 455327--455357 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
455317 AATTTTAACA
455327 AAAAAACAAAAAAAAT
1 AAAAAACAAAAAAAAT
455343 AAAAAACAAAAAAAA
1 AAAAAACAAAAAAAA
455358 AACAAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAAACAAAAAAAAT
Found at i:455365 original size:8 final size:8
Alignment explanation
Indices: 455323--455356 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
455313 CCAAAATTTT
455323 AACAAAAA
1 AACAAAAA
455331 AACAAAAA
1 AACAAAAA
455339 AA-ATAAAA
1 AACA-AAAA
455347 AACAAAAA
1 AACAAAAA
455355 AA
1 AA
455357 AAACAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 1 0.04
8 22 0.92
9 1 0.04
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (8 bp):
AACAAAAA
Done.