Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold169
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: 2015121
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 45543 characters in sequence are not A, C, G, or T
File 6 of 14
Found at i:924468 original size:13 final size:13
Alignment explanation
Indices: 924446--924478 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
924436 CGTCTTTTTA
*
924446 CTCCCACTTCGTT
1 CTCCCGCTTCGTT
924459 CTCCCGCTTCGTT
1 CTCCCGCTTCGTT
924472 CTCCCGC
1 CTCCCGC
924479 CTGACGCCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.03, C:0.52, G:0.12, T:0.33
Consensus pattern (13 bp):
CTCCCGCTTCGTT
Found at i:928821 original size:2 final size:2
Alignment explanation
Indices: 928814--928856 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
928804 TCACATGTTT
*
928814 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
928855 TA
1 TA
928857 AAAATTTTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:928921 original size:15 final size:16
Alignment explanation
Indices: 928886--928924 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
928876 AGTTTTTTAA
928886 TTTTTAAAGAATAATT
1 TTTTTAAAGAATAATT
* *
928902 ATTTTAAA-ATTAATT
1 TTTTTAAAGAATAATT
928917 TTTTTAAA
1 TTTTTAAA
928925 TAGTTACTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TTTTTAAAGAATAATT
Found at i:929273 original size:15 final size:16
Alignment explanation
Indices: 929244--929276 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
929234 TTTAGTTTAT
929244 TTTTTATAATATATTA
1 TTTTTATAATATATTA
*
929260 TTTTTAT-ATTTATTA
1 TTTTTATAATATATTA
929275 TT
1 TT
929277 ATATATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTATAATATATTA
Found at i:929702 original size:15 final size:15
Alignment explanation
Indices: 929682--929716 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
929672 AAATAATTTT
929682 TAAAAAAAATTAAAAG
1 TAAAAAAAA-TAAAAG
*
929698 TAAAAAAAATATAAG
1 TAAAAAAAATAAAAG
929713 TAAA
1 TAAA
929717 TTAAAATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (15 bp):
TAAAAAAAATAAAAG
Found at i:930123 original size:16 final size:17
Alignment explanation
Indices: 930092--930124 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
930082 ATTTATTTAT
*
930092 TAAATTATATTTTAATA
1 TAAATAATATTTTAATA
930109 TAAATAATA-TTTAATA
1 TAAATAATATTTTAATA
930125 ATTACTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATAATATTTTAATA
Found at i:930212 original size:25 final size:25
Alignment explanation
Indices: 930095--930213 Score: 82
Period size: 25 Copynumber: 4.4 Consensus size: 25
930085 TATTTATTAA
930095 ATTATATTTTAATATAAATA-ATATTT
1 ATTA-ATTTTAATATAAATATA-ATTT
* *
930121 AATAATTACTTAATATAAGCATATATTTT
1 ATTAATT--TTAATATAA--ATATAATTT
930150 ATT-A-TTTAATATAAATATAATTTTAAT
1 ATTAATTTTAATATAAATATAA--TT--T
*
930177 AATTTATTTTTAATATAAATATAATTT
1 -A-TTAATTTTAATATAAATATAATTT
930204 ATTAATTTTA
1 ATTAATTTTA
930214 TTTATTATTC
Statistics
Matches: 74, Mismatches: 6, Indels: 27
0.69 0.06 0.25
Matches are distributed among these distances:
23 5 0.07
25 22 0.30
26 4 0.05
27 12 0.16
28 2 0.03
29 12 0.16
30 1 0.01
31 16 0.22
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (25 bp):
ATTAATTTTAATATAAATATAATTT
Found at i:930218 original size:67 final size:66
Alignment explanation
Indices: 930147--930275 Score: 188
Period size: 67 Copynumber: 1.9 Consensus size: 66
930137 AAGCATATAT
* *
930147 TTTATTATTTAATATAAATATAATTTTAATAATTTATT-TTTAATATAAATATAATTTATTAATT
1 TTTATTATTCAACATAAATATAATTTTAATAATTTATTATTTAATATAAATAT-ATTT-TTAATT
930211 TTA
64 TTA
* **
930214 TTTATTATTCAACATAAATATAATTTTATTTTTTTATTATTTAATATAAATATATTTTTAAT
1 TTTATTATTCAACATAAATATAATTTTAATAATTTATTATTTAATATAAATATATTTTTAAT
930276 AGTTTTTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
66 5 0.09
67 37 0.66
68 14 0.25
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (66 bp):
TTTATTATTCAACATAAATATAATTTTAATAATTTATTATTTAATATAAATATATTTTTAATTTT
A
Found at i:930263 original size:32 final size:32
Alignment explanation
Indices: 930146--930273 Score: 159
Period size: 32 Copynumber: 3.9 Consensus size: 32
930136 TAAGCATATA
* *
930146 TTTTATTATTTAATATAAATATAATTTTAATA
1 TTTTATTATTTAATATAAATATAATTTTATTT
*
930178 ATTTATT-TTTAATATAAATATAATTTATTAATTT
1 TTTTATTATTTAATATAAATATAA-TT-TT-ATTT
* *
930212 TATTTATTATTCAACATAAATATAATTTTATTT
1 T-TTTATTATTTAATATAAATATAATTTTATTT
*
930245 TTTTATTATTTAATATAAATATATTTTTA
1 TTTTATTATTTAATATAAATATAATTTTA
930274 ATAGTTTTTA
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
31 16 0.20
32 33 0.40
33 7 0.09
34 4 0.05
35 8 0.10
36 14 0.17
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (32 bp):
TTTTATTATTTAATATAAATATAATTTTATTT
Found at i:933299 original size:21 final size:22
Alignment explanation
Indices: 933275--933322 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
933265 CAAGGAAATT
*
933275 TATTTTTTAAAATT-T-TTTATA
1 TATTTTTAAAAATTATATTT-TA
933296 TATTTTTAAAAATTATATTTTA
1 TATTTTTAAAAATTATATTTTA
933318 TATTT
1 TATTT
933323 ATATTCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 13 0.54
22 8 0.33
23 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTTTAAAAATTATATTTTA
Found at i:933727 original size:14 final size:15
Alignment explanation
Indices: 933708--933743 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
933698 TTAATTATAT
933708 TTATA-TATTTAATA
1 TTATATTATTTAATA
933722 TTATATTATTTAAT-
1 TTATATTATTTAATA
933736 TTA-ATTAT
1 TTATATTAT
933744 AATTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 8 0.38
15 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATATTATTTAATA
Found at i:934020 original size:17 final size:17
Alignment explanation
Indices: 933998--934032 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
933988 TGTTTTAATT
*
933998 TTTTTTTTAGATTTAAA
1 TTTTTTTTAAATTTAAA
934015 TTTTTTTTAAATTTAAA
1 TTTTTTTTAAATTTAAA
934032 T
1 T
934033 ATTAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTTTTTAAATTTAAA
Found at i:936852 original size:3 final size:3
Alignment explanation
Indices: 936846--936893 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
936836 CAACAACAAC
936846 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
936894 TTATTTTTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:937003 original size:3 final size:3
Alignment explanation
Indices: 936995--937028 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
936985 AACCCAAGCA
936995 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
937029 TTCCAAGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:939018 original size:30 final size:31
Alignment explanation
Indices: 938953--939022 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
938943 TTCAAAACGC
*
938953 ATCAATCAAATCCTCAATCTTAACATTTCAT
1 ATCAATCAAATCCCCAATCTTAACATTTCAT
* * **
938984 ATCAATTAGATCCCCAATCTTAATGTTT-AT
1 ATCAATCAAATCCCCAATCTTAACATTTCAT
939014 ATCAATCAA
1 ATCAATCAA
939023 GTTCTTCTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.36
Consensus pattern (31 bp):
ATCAATCAAATCCCCAATCTTAACATTTCAT
Found at i:939571 original size:18 final size:19
Alignment explanation
Indices: 939540--939582 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
939530 AAACACAAAA
*
939540 TATAAATAATAATTATT-T
1 TATAAATAAAAATTATTAT
* *
939558 TATAATTAAAAATTGTTAT
1 TATAAATAAAAATTATTAT
939577 TATAAA
1 TATAAA
939583 ACTGAATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TATAAATAAAAATTATTAT
Found at i:940636 original size:2 final size:2
Alignment explanation
Indices: 940629--940674 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
940619 CTATTAACCC
940629 AT AT AT AT AT AT AT AT AT AT AT AT 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 AT
940671 AT AT
1 AT AT
940675 GCGCCAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:941262 original size:2 final size:2
Alignment explanation
Indices: 941255--941281 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
941245 GTGCGCACAA
941255 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
941282 CCTGTAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:943888 original size:2 final size:2
Alignment explanation
Indices: 943881--943908 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
943871 GATCTACAAT
943881 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
943909 AAATTTAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:946329 original size:2 final size:2
Alignment explanation
Indices: 946322--946364 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
946312 CTGCCAACTG
946322 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
946364 C
1 C
946365 AGCAATAGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:947436 original size:2 final size:2
Alignment explanation
Indices: 947429--947470 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
947419 AAGTTGGAAA
947429 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
947471 TACAAACAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:949227 original size:16 final size:17
Alignment explanation
Indices: 949206--949251 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
949196 ATTTTTAATC
949206 ATATTTAATAAATTTT-
1 ATATTTAATAAATTTTA
*
949222 ATATTTATTTAAATTTTA
1 ATATTTA-ATAAATTTTA
949240 ATATATTAATAA
1 ATAT-TTAATAA
949252 TAAAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 7 0.28
17 8 0.32
18 7 0.28
19 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTTAATAAATTTTA
Found at i:949570 original size:3 final size:3
Alignment explanation
Indices: 949564--949605 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
949554 TTTTTTTATT
949564 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
949606 CAACAACAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:949825 original size:11 final size:11
Alignment explanation
Indices: 949811--949873 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
949801 ATAATTTTGT
949811 TATTTATATTA
1 TATTTATATTA
*
949822 TATTTTTATTA
1 TATTTATATTA
*
949833 TA-ATATAATTA
1 TATTTAT-ATTA
*
949844 TATTTAAATATTT
1 TATTT--ATATTA
949857 TATTTATATATA
1 TATTTATAT-TA
949869 TATTT
1 TATTT
949874 TGATATATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
10 2 0.05
11 22 0.54
12 7 0.17
13 8 0.20
14 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTATATTA
Found at i:949926 original size:8 final size:8
Alignment explanation
Indices: 949842--949931 Score: 51
Period size: 8 Copynumber: 10.9 Consensus size: 8
949832 ATAATATAAT
949842 TATATTTA
1 TATATTTA
*
949850 AATATTTTA
1 TATA-TTTA
* *
949859 TTTATATA
1 TATATTTA
949867 TATATTTTGA
1 TATA-TTT-A
*
949877 TATATTAA
1 TATATTTA
949885 TA-ATTTA
1 TATATTTA
949892 TATTATTTA
1 TA-TATTTA
949901 -AT-TTTAA
1 TATATTT-A
* *
949908 AATACTTA
1 TATATTTA
949916 TATATTTA
1 TATATTTA
949924 TATTATTT
1 TA-TATTT
949932 TTTATCTTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
6 3 0.05
7 8 0.13
8 24 0.39
9 22 0.35
10 5 0.08
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (8 bp):
TATATTTA
Found at i:951927 original size:40 final size:40
Alignment explanation
Indices: 951859--951935 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
951849 AAGAAGTTCA
*
951859 TAGTTGATGTATTCTAGTAAATTCTTACAGTATATGACCG
1 TAGTTGATGTATTCTAGTAAATTATTACAGTATATGACCG
* * *
951899 TAGTTGATGTTTTGTAGTGAATTATTACAGTATATGA
1 TAGTTGATGTATTCTAGTAAATTATTACAGTATATGA
951936 TGGGATAGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (40 bp):
TAGTTGATGTATTCTAGTAAATTATTACAGTATATGACCG
Found at i:954018 original size:77 final size:79
Alignment explanation
Indices: 953900--954045 Score: 233
Period size: 77 Copynumber: 1.9 Consensus size: 79
953890 TTTTCATGTA
*
953900 TTAAAAAAACAAATCGAAAGAAACTACAGTGTAAAGATCACATTAGTTTACCATGTCTCCTGCTC
1 TTAAAAAAACAAA-CGAAAGAAACTACAGTGTAAAGATCACATTAGTTTACCATGTCACCTGCTC
953965 TATGTATTTTTTTTT
65 TATGTATTTTTTTTT
* * *
953980 TTAAAAAAA-AAA-GAAAGAAACTGCAGTTTAAAGGTCACATTAGTTTACCATGTCACCTGCTCT
1 TTAAAAAAACAAACGAAAGAAACTACAGTGTAAAGATCACATTAGTTTACCATGTCACCTGCTCT
954043 ATG
66 ATG
954046 CGGGTGCTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
77 50 0.81
79 3 0.05
80 9 0.15
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.32
Consensus pattern (79 bp):
TTAAAAAAACAAACGAAAGAAACTACAGTGTAAAGATCACATTAGTTTACCATGTCACCTGCTCT
ATGTATTTTTTTTT
Found at i:965270 original size:25 final size:27
Alignment explanation
Indices: 965231--965289 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
965221 TTTTTATATT
*
965231 TATATTTTTTAAAATAATAATAAT-TAA
1 TATA-TTTTTAAAATAAAAATAATATAA
*
965258 TTTATTTTT-AAATAAAAATAATATAA
1 TATATTTTTAAAATAAAAATAATATAA
965284 TATATT
1 TATATT
965290 AATATCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 12 0.43
26 13 0.46
27 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TATATTTTTAAAATAAAAATAATATAA
Found at i:965872 original size:96 final size:96
Alignment explanation
Indices: 965764--965957 Score: 370
Period size: 96 Copynumber: 2.0 Consensus size: 96
965754 ACTTTTTGAA
965764 AAATAAATAAGAGAGAGAAAATTCAAAATTTATAATTCTATATTTTATAAAATATAATAGGAATA
1 AAATAAATAAGAGAGAGAAAATTCAAAATTTATAATTCTATATTTTATAAAATATAATAGGAATA
965829 AATTTCTACATGAGTTTGAATTATTAATTTG
66 AATTTCTACATGAGTTTGAATTATTAATTTG
965860 AAATAAATAAGAGAGAGAAAATTCAAAATTTATAATTCTATATTTTATAAAATATAATAGGAATA
1 AAATAAATAAGAGAGAGAAAATTCAAAATTTATAATTCTATATTTTATAAAATATAATAGGAATA
* *
965925 AATTTTTTCATGAGTTTGAATTATTAATTTG
66 AATTTCTACATGAGTTTGAATTATTAATTTG
965956 AA
1 AA
965958 TTGAATATTG
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (96 bp):
AAATAAATAAGAGAGAGAAAATTCAAAATTTATAATTCTATATTTTATAAAATATAATAGGAATA
AATTTCTACATGAGTTTGAATTATTAATTTG
Found at i:966147 original size:16 final size:17
Alignment explanation
Indices: 966122--966155 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
966112 TTTTATTTTT
*
966122 ATTTAGTTCAAA-TCAA
1 ATTTAATTCAAACTCAA
966138 ATTTAATTCAAACTCAA
1 ATTTAATTCAAACTCAA
966155 A
1 A
966156 CAAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (17 bp):
ATTTAATTCAAACTCAA
Found at i:967677 original size:19 final size:18
Alignment explanation
Indices: 967653--967705 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 18
967643 AAATTCTGAG
967653 TCGAATTATTTTAAATTAT
1 TCGAATTATTTTAAATT-T
*
967672 TCGAATTATTTTAGA-TT
1 TCGAATTATTTTAAATTT
*
967689 T-AAATTATTTTAAATTT
1 TCGAATTATTTTAAATTT
967706 ATATTATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 11 0.37
17 4 0.13
18 1 0.03
19 14 0.47
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.55
Consensus pattern (18 bp):
TCGAATTATTTTAAATTT
Found at i:967696 original size:16 final size:16
Alignment explanation
Indices: 967656--967713 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
967646 TTCTGAGTCG
*
967656 AATTATTTTAAATTATTCG
1 AATTATTTTAAA-T-TT-A
*
967675 AATTATTTTAGATTTA
1 AATTATTTTAAATTTA
967691 AATTATTTTAAATTTA
1 AATTATTTTAAATTTA
*
967707 TATTATT
1 AATTATT
967714 AATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 21 0.60
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (16 bp):
AATTATTTTAAATTTA
Found at i:967728 original size:36 final size:35
Alignment explanation
Indices: 967688--967756 Score: 70
Period size: 36 Copynumber: 1.9 Consensus size: 35
967678 TATTTTAGAT
**
967688 TTAAATTATTTTAAATTTATATT-ATTAA-TTTTTTTA
1 TTAAATTAAATTAAA-TTA-ATTAATTAATTTTT-TTA
*
967724 TTAAATTAAATTAAATTAATTAATTACTTTTTT
1 TTAAATTAAATTAAATTAATTAATTAATTTTTT
967757 AAAATACATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
34 3 0.11
35 8 0.29
36 17 0.61
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (35 bp):
TTAAATTAAATTAAATTAATTAATTAATTTTTTTA
Found at i:967759 original size:31 final size:31
Alignment explanation
Indices: 967698--967759 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
967688 TTAAATTATT
* *
967698 TTAAATTTATATTATTAATTTTTTTATTAAA
1 TTAAATTTAAATTATTAATTCTTTTATTAAA
967729 TTAAA-TTAAATTAATTAATTACTTTT-TTAAA
1 TTAAATTTAAATT-ATTAATT-CTTTTATTAAA
967760 ATACATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 6 0.22
31 17 0.63
32 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (31 bp):
TTAAATTTAAATTATTAATTCTTTTATTAAA
Found at i:968289 original size:41 final size:41
Alignment explanation
Indices: 968244--968327 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
968234 TGAATCTGAA
968244 TAATATAGCATTTAACATATTCAAAAATGATGACAAATACT
1 TAATATAGCATTTAACATATTCAAAAATGATGACAAATACT
968285 TAATATAGCATTTAACATATTCAAAAATGATGACAAATACT
1 TAATATAGCATTTAACATATTCAAAAATGATGACAAATACT
968326 TA
1 TA
968328 GTCAAAACCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (41 bp):
TAATATAGCATTTAACATATTCAAAAATGATGACAAATACT
Found at i:974880 original size:31 final size:31
Alignment explanation
Indices: 974843--974901 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
974833 TTAATATTTT
* *
974843 TTTAATAATATTATTATA-AAATATTTATATA
1 TTTAATAAAATTATAATATAAAT-TTTATATA
974874 TTTAATAAAATTATAATATAAATTTTAT
1 TTTAATAAAATTATAATATAAATTTTAT
974902 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
TTTAATAAAATTATAATATAAATTTTATATA
Found at i:975879 original size:16 final size:16
Alignment explanation
Indices: 975858--975888 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
975848 TAAAAAATAA
975858 TTATTTTATTATAATT
1 TTATTTTATTATAATT
*
975874 TTATTTTATTTTAAT
1 TTATTTTATTATAAT
975889 AAATCAAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTATTATAATT
Found at i:977108 original size:2 final size:2
Alignment explanation
Indices: 977056--977092 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
977046 AGCTTTTGTT
977056 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
977093 TGTTTTCAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:982208 original size:17 final size:17
Alignment explanation
Indices: 982166--982208 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
982156 TTATTTATAA
982166 CAATTCTTGAAACGTTTT
1 CAATT-TTGAAACGTTTT
982184 CTAATTTTGAAAC-TGTTT
1 C-AATTTTGAAACGT-TTT
982202 CAATTTT
1 CAATTTT
982209 AACACAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.30
18 12 0.52
19 4 0.17
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (17 bp):
CAATTTTGAAACGTTTT
Found at i:982897 original size:23 final size:24
Alignment explanation
Indices: 982870--982914 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
982860 TTCAAATAAT
982870 TATTA-ATTGT-GTTATATTTTTTA
1 TATTATATTGTAGTTAT-TTTTTTA
*
982893 TATTATATTTTAGTTATTTTTT
1 TATTATATTGTAGTTATTTTTT
982915 GTATGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 9 0.47
25 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (24 bp):
TATTATATTGTAGTTATTTTTTTA
Found at i:982926 original size:24 final size:24
Alignment explanation
Indices: 982884--982940 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
982874 AATTGTGTTA
* *
982884 TATTTTTTATATTATATTTT-AGT
1 TATTTTTTATATTAAATTTTAAAT
*
982907 TATTTTTTGTATGTAAATTTTAAAT
1 TATTTTTTATAT-TAAATTTTAAAT
982932 TATTTTTTA
1 TATTTTTTA
982941 GTTATATCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 11 0.39
24 7 0.25
25 10 0.36
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (24 bp):
TATTTTTTATATTAAATTTTAAAT
Found at i:983157 original size:2 final size:2
Alignment explanation
Indices: 983150--983187 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
983140 CTAAGTACCA
*
983150 AT AT AT AT AT AT AT AT CT AT 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
983188 CATTCAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:983667 original size:17 final size:17
Alignment explanation
Indices: 983634--983754 Score: 70
Period size: 17 Copynumber: 6.9 Consensus size: 17
983624 ATAAAATAAT
*
983634 TAAA-ATAATAATTAATA
1 TAAATATAATAA-AAATA
983651 TAAATATAATAAAAATA
1 TAAATATAATAAAAATA
* * *
983668 TAAAAATATTTTAAAAT-
1 TAAATATA-ATAAAAATA
* *
983685 T-TATATAATATAAATAA
1 TAAATATAATAAAAAT-A
* *
983702 TTAATATATTAAAATTTATA
1 TAAATATAATAAAA---ATA
983722 TAAATATAA-AAAATATA
1 TAAATATAATAAAA-ATA
*
983739 TAAATATAATATAAAT
1 TAAATATAATAAAAAT
983755 TCATGTATTA
Statistics
Matches: 80, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
15 5 0.06
16 4 0.05
17 32 0.40
18 25 0.31
19 4 0.05
20 8 0.10
21 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATATAATAAAAATA
Found at i:983700 original size:33 final size:32
Alignment explanation
Indices: 983654--983739 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
983644 ATTAATATAA
* *
983654 ATATAATAAAAATATAAAAATATTTTAAAATTT
1 ATATAATATAAATA-AAAAATATATTAAAATTT
**
983687 ATATAATATAAATAATTAATATATTAAAATTT
1 ATATAATATAAATAAAAAATATATTAAAATTT
983719 ATATAA-AT--ATAAAAAATATAT
1 ATATAATATAAATAAAAAATATAT
983740 AAATATAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 11 0.23
31 2 0.04
32 21 0.45
33 13 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
ATATAATATAAATAAAAAATATATTAAAATTT
Found at i:983714 original size:32 final size:33
Alignment explanation
Indices: 983654--983731 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
983644 ATTAATATAA
* *
983654 ATATAATAAAAATATAAAAATATTTTAAAATTT
1 ATATAATATAAATATAAAAATATATTAAAATTT
**
983687 ATATAATATAAATA-ATTAATATATTAAAATTT
1 ATATAATATAAATATAAAAATATATTAAAATTT
983719 ATATAAATATAAA
1 ATAT-AATATAAA
983732 AAATATATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 19 0.47
33 21 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
ATATAATATAAATATAAAAATATATTAAAATTT
Found at i:984488 original size:20 final size:19
Alignment explanation
Indices: 984463--984516 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
984453 TCCAAGACAG
984463 AAATT-AATAGATAATTAATA
1 AAATTAAATA-ATAA-TAATA
984483 AAATTAAATAATAATAATA
1 AAATTAAATAATAATAATA
984502 ATAA-TAAA-AATAATA
1 A-AATTAAATAATAATA
984517 GGAAATACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.22
19 10 0.31
20 11 0.34
21 4 0.12
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AAATTAAATAATAATAATA
Found at i:984497 original size:3 final size:3
Alignment explanation
Indices: 984467--984516 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
984457 AGACAGAAAT
* *
984467 TAA TAGA TAA TTAA TAA -AA TTA -AA TAA TAA TAA TAA TAA TAA AAA
1 TAA TA-A TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
984512 TAA TA
1 TAA TA
984517 GGAAATACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 3 0.08
3 30 0.77
4 6 0.15
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:984733 original size:35 final size:37
Alignment explanation
Indices: 984661--984731 Score: 101
Period size: 39 Copynumber: 1.9 Consensus size: 37
984651 AATTTTTATT
984661 TATTAAAAAATAATTAATTAATTATATTATTTAAAATA
1 TATTAAAAAATAATTAATTAATTATA-TATTTAAAATA
*
984699 TATTAAAATATTAATTAATTAATTA-A-ATTTAAA
1 TATTAAAA-AATAATTAATTAATTATATATTTAAA
984732 TAAAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 7 0.23
38 9 0.29
39 15 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (37 bp):
TATTAAAAAATAATTAATTAATTATATATTTAAAATA
Found at i:984762 original size:30 final size:30
Alignment explanation
Indices: 984677--984762 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 30
984667 AAAATAATTA
* *
984677 ATTAATTATATTATTTAAA-ATATATTAAAAT
1 ATTAATTA-ATTAATTAAATATA-AATAAAAT
*
984708 ATTAATTAATTAATTAAATTTAAATAAAAT
1 ATTAATTAATTAATTAAATATAAATAAAAT
* *
984738 ATT-TTTTATTAATTAAATAATAAAT
1 ATTAATTAATTAATTAAAT-ATAAAT
984763 TAATTAAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
29 13 0.28
30 24 0.51
31 10 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
ATTAATTAATTAATTAAATATAAATAAAAT
Found at i:984764 original size:16 final size:17
Alignment explanation
Indices: 984745--984779 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
984735 AATATTTTTT
*
984745 ATTAATTAA-ATAATAA
1 ATTAATTAAGATAAAAA
984761 ATTAATTAAGATAAAAA
1 ATTAATTAAGATAAAAA
984778 AT
1 AT
984780 ATTTTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
ATTAATTAAGATAAAAA
Found at i:984855 original size:2 final size:2
Alignment explanation
Indices: 984850--984886 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
984840 GAAAAAAGAA
984850 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
984887 ATTGAACTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:985445 original size:21 final size:20
Alignment explanation
Indices: 985420--985473 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
985410 TTAAAAACAT
985420 TATATAAATTTTATCATAAAA
1 TATATAAATTTTAT-ATAAAA
*
985441 TATATAAATATTAATATAAAA
1 TATATAAAT-TTTATATAAAA
*
985462 -ATATAATTTTTA
1 TATATAAATTTTA
985474 CAAATTTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 3 0.10
20 7 0.24
21 15 0.52
22 4 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATATAAATTTTATATAAAA
Found at i:985909 original size:29 final size:29
Alignment explanation
Indices: 985877--985959 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
985867 TATATTTACG
985877 TTATGTTTATATATTTTATTATATTATAA
1 TTATGTTTATATATTTTATTATATTATAA
* * *
985906 TTATGTCTATGATATTTTATTTATATTTTGA
1 TTATGTTTAT-ATATTTTA-TTATATTATAA
* *
985937 TAATGTTAATA-ATTTATATTATA
1 TTATGTTTATATATTT-TATTATA
985960 AATTTTTGAG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 18 0.40
30 11 0.24
31 16 0.36
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (29 bp):
TTATGTTTATATATTTTATTATATTATAA
Found at i:986659 original size:21 final size:22
Alignment explanation
Indices: 986635--986679 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
986625 TATTTTTATT
986635 TAAAT-TTAATTATAAAATA-AA
1 TAAATATTAA-TATAAAATATAA
986656 TAAATATTAATATAAAATATAA
1 TAAATATTAATATAAAATATAA
986678 TA
1 TA
986680 TTTAATAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAATATAA
Found at i:987903 original size:18 final size:17
Alignment explanation
Indices: 987846--987917 Score: 65
Period size: 18 Copynumber: 4.1 Consensus size: 17
987836 TTTATTTAAA
987846 TTTAATTAAATATAATT
1 TTTAATTAAATATAATT
* *
987863 TTT-ATAAAATAAATAAAT
1 TTTAATTAAAT--ATAATT
*
987881 ATTAATATAAATATAATT
1 TTTAAT-TAAATATAATT
*
987899 TTTAATTAAGATCTAATT
1 TTTAATTAA-ATATAATT
987917 T
1 T
987918 ATGAATAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
16 6 0.14
17 6 0.14
18 25 0.58
19 2 0.05
20 4 0.09
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (17 bp):
TTTAATTAAATATAATT
Found at i:989141 original size:16 final size:16
Alignment explanation
Indices: 989120--989156 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
989110 ATTTGAACAT
*
989120 TTAATTCACTAATAAA
1 TTAATTCAATAATAAA
*
989136 TTAATTCAATGATAAA
1 TTAATTCAATAATAAA
989152 TTAAT
1 TTAAT
989157 GTATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (16 bp):
TTAATTCAATAATAAA
Found at i:989662 original size:15 final size:15
Alignment explanation
Indices: 989639--989687 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
989629 GTTAACTTTA
*
989639 ATTACTTATTTATTT
1 ATTATTTATTTATTT
989654 ATTATTTA-TTA-TT
1 ATTATTTATTTATTT
*
989667 ATTA-TTATTATTTTT
1 ATTATTTATT-TATTT
989682 ATTATT
1 ATTATT
989688 GTAAACAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
12 3 0.11
13 7 0.25
14 4 0.14
15 13 0.46
16 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTATTTATTTATTT
Found at i:989665 original size:3 final size:3
Alignment explanation
Indices: 989652--989687 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
989642 ACTTATTTAT
*
989652 TTA TTA TTTA TTA TTA TTA TTA TTA TTT TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
989688 GTAAACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:989797 original size:13 final size:13
Alignment explanation
Indices: 989756--989801 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
989746 CTTATGGGGT
*
989756 TATTTTATTTTTAG
1 TATTTTA-TTTTAA
989770 T-TTTTA-TTTAA
1 TATTTTATTTTAA
989781 -ATTTTATTTTAA
1 TATTTTATTTTAA
989793 TATTTTATT
1 TATTTTATT
989802 ATTTTAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 9 0.32
12 5 0.18
13 13 0.46
14 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
TATTTTATTTTAA
Found at i:990183 original size:13 final size:13
Alignment explanation
Indices: 990152--990177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
990142 TTTAAAAAGA
990152 AATTTATTTTATT
1 AATTTATTTTATT
990165 AATTTATTTTATT
1 AATTTATTTTATT
990178 TTTTTAGATT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
AATTTATTTTATT
Found at i:990588 original size:26 final size:24
Alignment explanation
Indices: 990559--990607 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
990549 ATTGAAAAAA
990559 TTATTTTATTAATTAATCATATTTAT
1 TTATTTTATTAA-TAAT-ATATTTAT
*
990585 TTATTTTTTTAATAATATATTTA
1 TTATTTTATTAATAATATATTTA
990608 AAGATATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 4 0.18
26 11 0.50
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATTTTATTAATAATATATTTAT
Found at i:991866 original size:31 final size:32
Alignment explanation
Indices: 991826--991886 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
991816 TGAATTTTAA
991826 TATATTATAATT-TATATAAATAAAAAATATCT
1 TATATTATAATTATA-ATAAATAAAAAATATCT
*
991858 TATA-TATAATTATAATAAATAAAATATAT
1 TATATTATAATTATAATAAATAAAAAATAT
991887 AAATATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 21 0.78
32 6 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (32 bp):
TATATTATAATTATAATAAATAAAAAATATCT
Found at i:992357 original size:18 final size:19
Alignment explanation
Indices: 992326--992363 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
992316 TTTTTTCTCA
992326 GCAAGTATAGATATAATTT
1 GCAAGTATAGATATAATTT
* *
992345 GCAA-TATATATATATTTT
1 GCAAGTATAGATATAATTT
992363 G
1 G
992364 GAAAAGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.42
Consensus pattern (19 bp):
GCAAGTATAGATATAATTT
Found at i:992490 original size:12 final size:12
Alignment explanation
Indices: 992473--992499 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
992463 TACGAGATCC
992473 ATGAGGTGGAAA
1 ATGAGGTGGAAA
992485 ATGAGGTGGAAA
1 ATGAGGTGGAAA
992497 ATG
1 ATG
992500 TATGTTCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (12 bp):
ATGAGGTGGAAA
Found at i:992658 original size:9 final size:9
Alignment explanation
Indices: 992644--992672 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
992634 TATTTTGAGA
992644 TTTTAATTT
1 TTTTAATTT
992653 TTTTAATTT
1 TTTTAATTT
992662 TTTTAATTT
1 TTTTAATTT
992671 TT
1 TT
992673 AATATTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTAATTT
Found at i:992873 original size:8 final size:8
Alignment explanation
Indices: 992860--992939 Score: 62
Period size: 8 Copynumber: 10.0 Consensus size: 8
992850 AAATATGACA
992860 ATTTATAT
1 ATTTATAT
992868 ATTTATAT
1 ATTTATAT
992876 ATTTATGATTT
1 ATTTAT-A--T
992887 ATTTATAT
1 ATTTATAT
992895 ATTT-TAT
1 ATTTATAT
*
992902 CATATA-AT
1 -ATTTATAT
*
992910 AATTAT-T
1 ATTTATAT
992917 -TTTATAAT
1 ATTTAT-AT
992925 ATTT-TAT
1 ATTTATAT
992932 ATTTATAT
1 ATTTATAT
992940 TAATTTTAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
6 4 0.07
7 13 0.22
8 29 0.50
9 4 0.07
10 1 0.02
11 7 0.12
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (8 bp):
ATTTATAT
Found at i:992936 original size:45 final size:45
Alignment explanation
Indices: 992886--992971 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
992876 ATTTATGATT
* *
992886 TATTTATA-T-ATTTTATCATATAATAATTATTTTTATAATATTTTA
1 TATTTATATTAATTTTA--ATATAATAATAATTTATATAATATTTTA
*
992931 TATTTATATTAATTTTAATATAATAATAATTTATATTATAT
1 TATTTATATTAATTTTAATATAATAATAATTTATATAATAT
992972 AAATTTAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 29 0.81
46 1 0.03
47 6 0.17
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (45 bp):
TATTTATATTAATTTTAATATAATAATAATTTATATAATATTTTA
Found at i:992946 original size:27 final size:27
Alignment explanation
Indices: 992861--992952 Score: 89
Period size: 27 Copynumber: 3.3 Consensus size: 27
992851 AATATGACAA
* *
992861 TTTATATATTTATATATTTATGATTTA-
1 TTTATATATTT-TATATTTATAATTAAT
* *
992888 TTTATATATTTTATCATATAATAATTATT
1 TTTATATATTTTAT-AT-TTATAATTAAT
992917 TTTATAATATTTTATATTTAT-ATTAAT
1 TTTAT-ATATTTTATATTTATAATTAAT
992944 TTTAATATA
1 TTT-ATATA
992953 ATAATAATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
26 3 0.06
27 24 0.44
28 11 0.20
29 7 0.13
30 9 0.17
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (27 bp):
TTTATATATTTTATATTTATAATTAAT
Found at i:993037 original size:20 final size:19
Alignment explanation
Indices: 992986--993048 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
992976 TTAACAAATG
* *
992986 TATTACATTATATTTTATTA
1 TATTATATT-TATTTTATCA
* *
993006 TATTTTAATTATTTTATACA
1 TATTATATTTATTTTAT-CA
* *
993026 TATTATATTTATATAATCA
1 TATTATATTTATTTTATCA
993045 TATT
1 TATT
993049 TAATATTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
19 14 0.41
20 20 0.59
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTATATTTATTTTATCA
Found at i:993064 original size:20 final size:19
Alignment explanation
Indices: 992995--993064 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
992985 GTATTACATT
992995 ATATTTTAT-T-ATATTTTA
1 ATATTTTATATCATA-TTTA
993013 ATTATTTTATA-CATA-TT-
1 A-TATTTTATATCATATTTA
993030 ATATTTATATAATCATATTTA
1 ATATTT-TAT-ATCATATTTA
993051 ATATTATTATATCA
1 ATATT-TTATATCA
993065 ACCTAGCTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
16 5 0.12
17 4 0.09
18 4 0.09
19 12 0.28
20 9 0.21
21 8 0.19
22 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTTATATCATATTTA
Found at i:993250 original size:37 final size:37
Alignment explanation
Indices: 993178--993253 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
993168 ATAAAATTTT
*
993178 TAAAAAATTAAATATAATTAATAATTATCTCAAAAAA
1 TAAAAAATTAAATATAATTAATAATTATCTAAAAAAA
* * * *
993215 TAAAAAATTAATTCTAA-TAATCATTATTTTAAAAAAA
1 TAAAAAATTAAATATAATTAATAATTA-TCTAAAAAAA
993252 TA
1 TA
993254 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 8 0.24
37 25 0.76
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (37 bp):
TAAAAAATTAAATATAATTAATAATTATCTAAAAAAA
Found at i:993269 original size:16 final size:16
Alignment explanation
Indices: 993230--993272 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
993220 AATTAATTCT
*
993230 AATAATCATTATTTTAAA
1 AATAAT-ATT-TTTAAAA
993248 AA-AATATTTTTAAAA
1 AATAATATTTTTAAAA
993263 AATAATATTT
1 AATAATATTT
993273 ATCTCTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 8 0.35
16 10 0.43
17 3 0.13
18 2 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATATTTTTAAAA
Found at i:993839 original size:19 final size:21
Alignment explanation
Indices: 993815--993866 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 21
993805 GTTGAATTAA
993815 TTATATAATTT-GGTAAA-TT
1 TTATATAATTTAGGTAAAGTT
*
993834 TTATAT-GTTTAGGTAAAGTT
1 TTATATAATTTAGGTAAAGTT
993854 TTAAATATAATTT
1 TT--ATATAATTT
993867 TTTTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 3 0.12
19 12 0.46
20 4 0.15
22 4 0.15
23 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.52
Consensus pattern (21 bp):
TTATATAATTTAGGTAAAGTT
Found at i:993910 original size:20 final size:21
Alignment explanation
Indices: 993885--993935 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
993875 ATTTAAGATG
993885 AATTAAATTAGATAA-ATTTA
1 AATTAAATTAGATAATATTTA
* *
993905 AATTAATTTAGATAATTTTTA
1 AATTAAATTAGATAATATTTA
*
993926 AATTTAATTA
1 AATTAAATTA
993936 TAAAATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
AATTAAATTAGATAATATTTA
Found at i:993963 original size:21 final size:20
Alignment explanation
Indices: 993925--993965 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
993915 GATAATTTTT
993925 AAATTTAATTATAAAATATA
1 AAATTTAATTATAAAATATA
993945 AAATATTAA-TATAATAATATA
1 AAAT-TTAATTATAA-AATATA
993966 TTTTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATTTAATTATAAAATATA
Found at i:994523 original size:2 final size:2
Alignment explanation
Indices: 994516--994543 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
994506 TCAAATTAAC
994516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
994544 GGCCAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:994690 original size:23 final size:23
Alignment explanation
Indices: 994661--994707 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
994651 AAGAAAGGCG
994661 AGGGAAAGTG-GAGAA-AGGGAGGA
1 AGGGAAAG-GAGAGAAGAGGG-GGA
994684 AGGGAAAGGAGAGAAGAGGGGGA
1 AGGGAAAGGAGAGAAGAGGGGGA
994707 A
1 A
994708 AAAAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 1 0.05
23 17 0.77
24 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.02
Consensus pattern (23 bp):
AGGGAAAGGAGAGAAGAGGGGGA
Found at i:994807 original size:11 final size:11
Alignment explanation
Indices: 994793--994822 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
994783 TGATATTTTT
994793 ATTTATTTAAA
1 ATTTATTTAAA
994804 ATTTTATTTAAA
1 A-TTTATTTAAA
994816 ATTTATT
1 ATTTATT
994823 GTTATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTATTTAAA
Found at i:994811 original size:12 final size:12
Alignment explanation
Indices: 994794--994819 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
994784 GATATTTTTA
994794 TTTATTTAAAAT
1 TTTATTTAAAAT
994806 TTTATTTAAAAT
1 TTTATTTAAAAT
994818 TT
1 TT
994820 ATTGTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATTTAAAAT
Found at i:995834 original size:20 final size:20
Alignment explanation
Indices: 995790--995834 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
995780 TATTATATCG
995790 TAAT-TAAATTTATAATTTT
1 TAATATAAATTTATAATTTT
*
995809 TTATATAAATTT-TAATTTAT
1 TAATATAAATTTATAATTT-T
995829 TAATAT
1 TAATAT
995835 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TAATATAAATTTATAATTTT
Found at i:995844 original size:31 final size:31
Alignment explanation
Indices: 995797--995877 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
995787 TCGTAATTAA
**
995797 ATTTATA-ATTT-T-TTATATAAATTTTAAT
1 ATTTATATATTTATATTATATAAATTACAAT
* *
995825 TTATTA-ATATTTATATTATATATATTACAAT
1 AT-TTATATATTTATATTATATAAATTACAAT
995856 ATTTATATATTTATATTATATA
1 ATTTATATATTTATATTATATA
995878 TATATTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
28 2 0.05
29 7 0.16
30 4 0.09
31 30 0.70
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (31 bp):
ATTTATATATTTATATTATATAAATTACAAT
Found at i:995881 original size:17 final size:16
Alignment explanation
Indices: 995831--995884 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
995821 TAATTTATTA
995831 ATATTTATAT-TATAT
1 ATATTTATATATATAT
* *
995846 ATA-TTACAATATTTAT
1 ATATTTA-TATATATAT
995862 ATATTTATATTATATAT
1 ATATTTATA-TATATAT
995879 ATATTT
1 ATATTT
995885 TTTTATATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 3 0.10
15 5 0.16
16 8 0.26
17 15 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATTTATATATATAT
Found at i:995891 original size:27 final size:29
Alignment explanation
Indices: 995770--995896 Score: 83
Period size: 31 Copynumber: 4.4 Consensus size: 29
995760 TATATCATAT
*
995770 TTTA-ATATTT-TATTATATCGTAATTAA-A
1 TTTATATATTTATATTATAT-AT-ATTAATA
* *
995798 TTTATA-ATTT-T-TTATATAAATT-TTAA
1 TTTATATATTTATATTATATATATTAAT-A
995824 TTTATTAATATTTATATTATATATATTACAATA
1 TTTA-T-ATATTTATATTATATATATT--AATA
*
995857 TTTATATATTTATATTATATATA-T-ATT
1 TTTATATATTTATATTATATATATTAATA
*
995884 TTTTTATATTTAT
1 TTTATATATTTAT
995897 TTTTGTTAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
25 3 0.04
26 5 0.06
27 21 0.26
28 10 0.12
29 5 0.06
30 2 0.02
31 28 0.35
32 1 0.01
33 5 0.06
34 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTATATATTTATATTATATATATTAATA
Found at i:998198 original size:16 final size:16
Alignment explanation
Indices: 998168--998209 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
998158 AATATAAAAA
998168 AATTCAAATAT-GAAAT
1 AATTCAAAT-TCGAAAT
*
998184 AATTTAAATTCGAAAT
1 AATTCAAATTCGAAAT
998200 AATTCAAATT
1 AATTCAAATT
998210 TTAAAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (16 bp):
AATTCAAATTCGAAAT
Found at i:1004988 original size:32 final size:32
Alignment explanation
Indices: 1004947--1005012 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
1004937 TAGATGCTTA
* *
1004947 AAAAGCAAACGCATAACTTTCACACCAAATTG
1 AAAAGCAAACACATAACTTTCACAACAAATTG
1004979 AAAAGCAAACACATAACTTTCACAACAAATTG
1 AAAAGCAAACACATAACTTTCACAACAAATTG
1005011 AA
1 AA
1005013 TTGTACTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.52, C:0.23, G:0.08, T:0.18
Consensus pattern (32 bp):
AAAAGCAAACACATAACTTTCACAACAAATTG
Found at i:1006814 original size:2 final size:2
Alignment explanation
Indices: 1006807--1006840 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1006797 CTAATCTACA
1006807 AT AT AT AT AT AT AT AT 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
1006841 GAAGATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1007831 original size:7 final size:7
Alignment explanation
Indices: 1007788--1007833 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
1007778 AAAATTTGAT
1007788 ATATTTA
1 ATATTTA
*
1007795 ATAATTA
1 ATATTTA
1007802 ATA-TT-
1 ATATTTA
1007807 ATATTT-
1 ATATTTA
1007813 ATATTT-
1 ATATTTA
1007819 ATATTTA
1 ATATTTA
1007826 ATATTTA
1 ATATTTA
1007833 A
1 A
1007834 AAAATAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
5 3 0.08
6 16 0.44
7 17 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATTTA
Found at i:1008373 original size:20 final size:19
Alignment explanation
Indices: 1008344--1008382 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1008334 AGGTCAAAAC
1008344 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
1008363 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
1008383 TAATGCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:1008429 original size:20 final size:22
Alignment explanation
Indices: 1008404--1008456 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
1008394 ATCGATACAT
*
1008404 TGTATCGATACATGAC-CA-AA
1 TGTATCGATACATGACAAAGAA
*
1008424 TGTATCGATAC-TTACAAAGAA
1 TGTATCGATACATGACAAAGAA
1008445 TGTATCGATACA
1 TGTATCGATACA
1008457 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (22 bp):
TGTATCGATACATGACAAAGAA
Found at i:1008534 original size:13 final size:13
Alignment explanation
Indices: 1008516--1008541 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1008506 TACATACAAG
1008516 ATGTATCGATATA
1 ATGTATCGATATA
1008529 ATGTATCGATATA
1 ATGTATCGATATA
1008542 TGACCAAATT
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:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
ATGTATCGATATA
Found at i:1009958 original size:20 final size:20
Alignment explanation
Indices: 1009933--1009970 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1009923 CCGATTGATT
1009933 ATATTAAA-AGTATAATTTAA
1 ATATTAAATA-TATAATTTAA
1009953 ATATTAAATATATAATTT
1 ATATTAAATATATAATTT
1009971 TATTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
ATATTAAATATATAATTTAA
Found at i:1012113 original size:21 final size:22
Alignment explanation
Indices: 1012071--1012114 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1012061 ATAAAAAAAT
** *
1012071 TAATTAATATTTTTATATTTTA
1 TAATTAATATTTAAATAATTTA
1012093 TAATTAA-ATTTAAATAATTTA
1 TAATTAATATTTAAATAATTTA
1012114 T
1 T
1012115 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTAATATTTAAATAATTTA
Found at i:1014750 original size:18 final size:18
Alignment explanation
Indices: 1014723--1014758 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1014713 GAGATATAGT
* *
1014723 TTTTTTTTTACAAATAAA
1 TTTTTGTTTAAAAATAAA
1014741 TTTTTGTTTAAAAATAAA
1 TTTTTGTTTAAAAATAAA
1014759 AAAAAACAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTTGTTTAAAAATAAA
Found at i:1016277 original size:2 final size:2
Alignment explanation
Indices: 1016270--1016301 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1016260 AGTAGATACA
1016270 AT AT AT AT AT AT AT 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
1016302 TTGGTATTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1016375 original size:84 final size:84
Alignment explanation
Indices: 1016287--1016455 Score: 329
Period size: 84 Copynumber: 2.0 Consensus size: 84
1016277 TATATATATA
1016287 TATATATATATATATTTGGTATTGCGAGGCTAGACTGAGAAGGCCATAAAAGGGACCCTTTAACA
1 TATATATATATATATTTGGTATTGCGAGGCTAGACTGAGAAGGCCATAAAAGGGACCCTTTAACA
1016352 TCAAGATTTTAAGACTGAT
66 TCAAGATTTTAAGACTGAT
*
1016371 TATATATATATATATTTGGTATTGCGAGGCTAGACTGAGAAGGTCATAAAAGGGACCCTTTAACA
1 TATATATATATATATTTGGTATTGCGAGGCTAGACTGAGAAGGCCATAAAAGGGACCCTTTAACA
1016436 TCAAGATTTTAAGACTGAT
66 TCAAGATTTTAAGACTGAT
1016455 T
1 T
1016456 CGTAATGAAT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (84 bp):
TATATATATATATATTTGGTATTGCGAGGCTAGACTGAGAAGGCCATAAAAGGGACCCTTTAACA
TCAAGATTTTAAGACTGAT
Found at i:1016584 original size:18 final size:19
Alignment explanation
Indices: 1016563--1016600 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1016553 TATAAGTATT
1016563 AATTTTAAT-TTATTTTAA
1 AATTTTAATATTATTTTAA
1016581 AATTTTAATATTATTTTAA
1 AATTTTAATATTATTTTAA
1016600 A
1 A
1016601 TAATGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTTTAATATTATTTTAA
Found at i:1017455 original size:25 final size:25
Alignment explanation
Indices: 1017405--1017456 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
1017395 ATGAATTATT
* * *
1017405 ATTTAATATAAAATATTTTATTTAA
1 ATTTAATATAAAATAATATATATAA
1017430 ATTTAATTATAAAA-AATATATATAA
1 ATTTAA-TATAAAATAATATATATAA
1017455 AT
1 AT
1017457 ATAAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTTAATATAAAATAATATATATAA
Found at i:1017474 original size:17 final size:18
Alignment explanation
Indices: 1017430--1017474 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
1017420 TTTTATTTAA
1017430 ATTTAATTATAAAAAATAT
1 ATTTAA-TATAAAAAATAT
*
1017449 ATATAAATATAAAAAATAT
1 AT-TTAATATAAAAAATAT
1017468 -TTTAATA
1 ATTTAATA
1017475 ATATAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 14 0.61
20 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTTAATATAAAAAATAT
Found at i:1018125 original size:19 final size:19
Alignment explanation
Indices: 1018086--1018126 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1018076 ATATTAAATA
1018086 AAATAATATATATTTAGTT
1 AAATAATATATATTTAGTT
*
1018105 AAATAATATGATTTTTA-TT
1 AAATAATAT-ATATTTAGTT
1018124 AAA
1 AAA
1018127 GATCTAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
AAATAATATATATTTAGTT
Found at i:1018704 original size:21 final size:21
Alignment explanation
Indices: 1018680--1018720 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1018670 CTAAGTAAAA
1018680 ATACGTATT-GTATCAATACAT
1 ATAC-TATTAGTATCAATACAT
*
1018701 ATACTATTAGTATTAATACA
1 ATACTATTAGTATCAATACA
1018721 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (21 bp):
ATACTATTAGTATCAATACAT
Found at i:1018785 original size:20 final size:19
Alignment explanation
Indices: 1018760--1018830 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1018750 ACCCTAAAAA
1018760 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
1018780 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
1018799 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
1018820 GTATCGATACA
1 GTATCGATACA
1018831 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:1018883 original size:53 final size:53
Alignment explanation
Indices: 1018800--1018936 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
1018790 AAATTGCATA
1018800 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1018854 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1018907 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1018937 TTGGTAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:1018979 original size:10 final size:10
Alignment explanation
Indices: 1018960--1018990 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1018950 AATCTCATTT
1018960 TCACTGTTCA
1 TCACTGTTCA
*
1018970 TCACTATTCA
1 TCACTGTTCA
1018980 TCACTGTTCA
1 TCACTGTTCA
1018990 T
1 T
1018991 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1019109 original size:13 final size:13
Alignment explanation
Indices: 1019091--1019116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1019081 TCACTATTTA
1019091 TGTATCGATACAT
1 TGTATCGATACAT
1019104 TGTATCGATACAT
1 TGTATCGATACAT
1019117 CATAAATAGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1019705 original size:20 final size:20
Alignment explanation
Indices: 1019679--1019732 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1019669 TGCCAGTTTC
*
1019679 ATGTATCGATACATAGTACA
1 ATGTATCGATACATAGCACA
* * *
1019699 GTGTATCGATACAAAGCATA
1 ATGTATCGATACATAGCACA
1019719 ATGTATCGATACAT
1 ATGTATCGATACAT
1019733 CTGGGTGTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATAGCACA
Found at i:1020308 original size:20 final size:21
Alignment explanation
Indices: 1020284--1020326 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1020274 AGGCTCTCGT
1020284 TAAAAAATTT-T-CCTTTTGA
1 TAAAAAATTTCTCCCTTTTGA
1020303 TAAAAAATTTCTCCCTTTTGA
1 TAAAAAATTTCTCCCTTTTGA
1020324 TAA
1 TAA
1020327 TCGGTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.45
20 1 0.05
21 11 0.50
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAAAAATTTCTCCCTTTTGA
Found at i:1022144 original size:10 final size:10
Alignment explanation
Indices: 1022131--1022159 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1022121 TTGAAGAAGA
1022131 TTTGATGAAT
1 TTTGATGAAT
1022141 TTTGATGAAT
1 TTTGATGAAT
1022151 TTTGATGAA
1 TTTGATGAA
1022160 AGGATGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (10 bp):
TTTGATGAAT
Found at i:1026776 original size:3 final size:3
Alignment explanation
Indices: 1026768--1026816 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
1026758 TCCGAGTCAC
* *
1026768 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT TAT CTT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1026816 C
1 C
1026817 GTCTTTAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.37
Consensus pattern (3 bp):
CAT
Found at i:1028949 original size:18 final size:18
Alignment explanation
Indices: 1028926--1028965 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1028916 AAATTACTAT
*
1028926 TTAAAATATATTAAAATA
1 TTAAAAAATATTAAAATA
**
1028944 TTAAAAAATATTTTAATA
1 TTAAAAAATATTAAAATA
1028962 TTAA
1 TTAA
1028966 TATTTATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAAAAATATTAAAATA
Found at i:1028979 original size:22 final size:22
Alignment explanation
Indices: 1028951--1028993 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1028941 ATATTAAAAA
1028951 ATATTTTAAT-ATTAATATTTAT
1 ATATTTTAATAATTAA-ATTTAT
*
1028973 ATATTTTTATAATTAAATTTA
1 ATATTTTAATAATTAAATTTA
1028994 AATAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTTTAATAATTAAATTTAT
Found at i:1029750 original size:2 final size:2
Alignment explanation
Indices: 1029743--1029770 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1029733 TCTGTGTCAC
1029743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1029771 TGAGAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1030654 original size:18 final size:18
Alignment explanation
Indices: 1030622--1030657 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1030612 TAATCTTTAC
1030622 ATAATAAAACTCCATAAT
1 ATAATAAAACTCCATAAT
1030640 ATAATTAAAAC-CCATAAT
1 ATAA-TAAAACTCCATAAT
1030658 CTCTTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAATAAAACTCCATAAT
Found at i:1030676 original size:2 final size:2
Alignment explanation
Indices: 1030669--1030694 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1030659 TCTTAAAACA
1030669 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1030695 GGAGAGAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1031126 original size:22 final size:21
Alignment explanation
Indices: 1031083--1031122 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1031073 AAATTTTATT
1031083 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
1031104 TAAATATTAA-TATAAAATA
1 TAAAT-TTAATTATAAAATA
1031123 ATATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:1031134 original size:21 final size:21
Alignment explanation
Indices: 1031083--1031138 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
1031073 AAATTTTATT
1031083 TAAA-TTTAATTATAAAATATA
1 TAAATTTTAA-TATAAAATATA
*
1031104 TAAATATTAATATAAAATA-A
1 TAAATTTTAATATAAAATATA
*
1031124 TATTATTTTAA-ATAA
1 TA-AATTTTAATATAA
1031139 TTATATATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 7 0.23
21 19 0.63
22 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTTTAATATAAAATATA
Found at i:1031420 original size:13 final size:13
Alignment explanation
Indices: 1031404--1031451 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
1031394 ATAAAATATG
1031404 AATATAAATAAAA-
1 AATATAAA-AAAAT
1031417 AATAATAAAAAAAT
1 AAT-ATAAAAAAAT
1031431 AATATAAAAAAAT
1 AATATAAAAAAAT
*
1031444 AATGTAAA
1 AATATAAA
1031452 TATAAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 24 0.75
14 8 0.25
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (13 bp):
AATATAAAAAAAT
Found at i:1031427 original size:11 final size:11
Alignment explanation
Indices: 1031413--1031445 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1031403 GAATATAAAT
1031413 AAAAAATAATA
1 AAAAAATAATA
1031424 AAAAAATAATA
1 AAAAAATAATA
*
1031435 TAAAAA-AATA
1 AAAAAATAATA
1031445 A
1 A
1031446 TGTAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:1031456 original size:24 final size:22
Alignment explanation
Indices: 1031404--1031457 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
1031394 ATAAAATATG
1031404 AATATAAATAAAAAATAATAAA
1 AATATAAATAAAAAATAATAAA
* **
1031426 AAAATAATATAAAAAAATAATGTA
1 AATATAA-AT-AAAAAATAATAAA
1031450 AATATAAA
1 AATATAAA
1031458 AATAATAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 6 0.23
23 3 0.12
24 17 0.65
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
AATATAAATAAAAAATAATAAA
Found at i:1031460 original size:17 final size:17
Alignment explanation
Indices: 1031431--1031477 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 17
1031421 ATAAAAAAAT
1031431 AATATAAAAA-AATAATG
1 AATATAAAAATAATAA-G
1031448 TAAATATAAAAATAATAAG
1 --AATATAAAAATAATAAG
1031467 AATATAAAAAT
1 AATATAAAAAT
1031478 GTGTTAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 11 0.41
19 11 0.41
20 5 0.19
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (17 bp):
AATATAAAAATAATAAG
Found at i:1032739 original size:15 final size:15
Alignment explanation
Indices: 1032719--1032751 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1032709 AAAAAATTGT
*
1032719 TAAATAATAAGATAA
1 TAAATAATAAAATAA
1032734 TAAATAATAAAATAA
1 TAAATAATAAAATAA
1032749 TAA
1 TAA
1032752 TAGGTGGCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
TAAATAATAAAATAA
Done.