Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold283
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: 2945114
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 15
Found at i:1054919 original size:2 final size:2
Alignment explanation
Indices: 1054912--1054938 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1054902 ATTATATTTA
1054912 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 A
1054939 AAAATAAAAG
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1055284 original size:14 final size:14
Alignment explanation
Indices: 1055265--1055291 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1055255 AATTATTTAT
1055265 ATTATTATATAAAA
1 ATTATTATATAAAA
1055279 ATTATTATATAAA
1 ATTATTATATAAA
1055292 TATATTTTAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTATTATATAAAA
Found at i:1055295 original size:22 final size:23
Alignment explanation
Indices: 1055254--1055296 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1055244 TTTAAAAAAT
* *
1055254 AAATTATTTATATTATTATATAA
1 AAATTATTTATATAAATATATAA
1055277 AAATTA-TTATATAAATATAT
1 AAATTATTTATATAAATATAT
1055297 TTTATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATTATTTATATAAATATATAA
Found at i:1056610 original size:2 final size:2
Alignment explanation
Indices: 1056605--1056634 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1056595 CTTTAGTGTG
1056605 TA 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 TA
1056635 AAGCAAGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1056923 original size:25 final size:25
Alignment explanation
Indices: 1056870--1056927 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
1056860 ATATTATTTT
*
1056870 TTTATATTATAATTATATTTTATATA
1 TTTATA-TATAATTATATTTAATATA
1056896 TTTATATA-AATTAATATGTTAATA-A
1 TTTATATATAATT-ATAT-TTAATATA
1056921 TTTATAT
1 TTTATAT
1056928 TATATAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.14
25 14 0.48
26 11 0.38
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTATATATAATTATATTTAATATA
Found at i:1068130 original size:30 final size:29
Alignment explanation
Indices: 1068087--1068144 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
1068077 AAATAATCAA
1068087 ATATATATTTTTAATTCATATTTAAATAT
1 ATATATATTTTTAATTCATATTTAAATAT
* **
1068116 ATATTTATCTTTTAATTTGTATTTAAATA
1 ATATATAT-TTTTAATTCATATTTAAATA
1068145 AAATTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (29 bp):
ATATATATTTTTAATTCATATTTAAATAT
Found at i:1068267 original size:104 final size:106
Alignment explanation
Indices: 1068059--1068275 Score: 278
Period size: 104 Copynumber: 2.1 Consensus size: 106
1068049 TTTTGACTGA
* * * *
1068059 AAATTTTTTACATTTAACAAATAATCAAATATATATTTTTAATTCATATTTAAATATATATTTAT
1 AAATATTTTACATTGAACAAATAATCAAATATATATTTATAATTCATATTTAAATAAATATTTAT
** *
1068124 CTTTTAATTTGTATTTAAATAAAATTTTAATTTTGCTTAAC
66 CTTTTAATTTGTATCCAAATAAAATTTTAATTTTACTTAAC
* * * * *
1068165 ATATATTTTATATTGAACAAATAATTAAATATATA-TTATAATTTATATTTAAATAAATGTTTAT
1 AAATATTTTACATTGAACAAATAATCAAATATATATTTATAATTCATATTTAAATAAATATTTAT
* *
1068229 -TTTTTATATT-TATCCAAATAAATTTTTAATTTTACTTAAC
66 CTTTTAAT-TTGTATCCAAATAAAATTTTAATTTTACTTAAC
1068269 AAATATT
1 AAATATT
1068276 GAATGAAATT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
104 38 0.40
105 27 0.28
106 30 0.32
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.51
Consensus pattern (106 bp):
AAATATTTTACATTGAACAAATAATCAAATATATATTTATAATTCATATTTAAATAAATATTTAT
CTTTTAATTTGTATCCAAATAAAATTTTAATTTTACTTAAC
Found at i:1068322 original size:23 final size:23
Alignment explanation
Indices: 1068304--1068351 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
1068294 ATATTAAGTG
1068304 TTTATTTAAATATAAATTAAAAT
1 TTTATTTAAATATAAATTAAAAT
*
1068327 TTTATTTAAATATAAAATAAAAT
1 TTTATTTAAATATAAATTAAAAT
1068350 TT
1 TT
1068352 GATGATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTATTTAAATATAAATTAAAAT
Found at i:1068783 original size:1 final size:1
Alignment explanation
Indices: 1068777--1068803 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
1068767 AAAGGGGCGC
1068777 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1068804 AATGTTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:1070717 original size:2 final size:2
Alignment explanation
Indices: 1070710--1070736 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1070700 TTAATACAAA
1070710 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 A
1070737 AAGGATTTAT
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1070894 original size:20 final size:21
Alignment explanation
Indices: 1070859--1070897 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1070849 TAATTATTTT
*
1070859 TTAAAAAAAATTAAATCTTGA
1 TTAAAAAAAATAAAATCTTGA
1070880 TTAAAAAAAA-AAAATCTT
1 TTAAAAAAAATAAAATCTT
1070898 TTTTTAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (21 bp):
TTAAAAAAAATAAAATCTTGA
Found at i:1070904 original size:21 final size:21
Alignment explanation
Indices: 1070855--1070901 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1070845 TTTTTAATTA
*
1070855 TTTTTTAAAAAAAATTAAATC
1 TTTTTTAAAAAAAATAAAATC
**
1070876 TTGATTAAAAAAAA-AAAATC
1 TTTTTTAAAAAAAATAAAATC
1070896 TTTTTT
1 TTTTTT
1070902 TAACTATTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (21 bp):
TTTTTTAAAAAAAATAAAATC
Found at i:1071609 original size:30 final size:29
Alignment explanation
Indices: 1071573--1071650 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 29
1071563 AGTATTAAAT
1071573 AAATAAA-ATAATTAAAATATGATATAATAA
1 AAATAAATAT-ATTAAAAT-TGATATAATAA
* *
1071603 AAATAAATATTTTAAAATTTATATAATAAA
1 AAATAAATATATTAAAATTGATATAAT-AA
1071633 AAATATTAATATATTAAA
1 AAATA--AATATATTAAA
1071651 TATAATTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 8 0.20
30 21 0.51
31 2 0.05
32 10 0.24
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (29 bp):
AAATAAATATATTAAAATTGATATAATAA
Found at i:1071612 original size:15 final size:15
Alignment explanation
Indices: 1071573--1071668 Score: 52
Period size: 16 Copynumber: 6.2 Consensus size: 15
1071563 AGTATTAAAT
*
1071573 AAATAAA-ATAATTA
1 AAATAAATATAATAA
*
1071587 AAATATGATATAATAA
1 AAATA-AATATAATAA
* *
1071603 AAATAAATAT-TTTA
1 AAATAAATATAATAA
**
1071617 AAATTTATATAATAAA
1 AAATAAATATAAT-AA
*
1071633 AAATATTAATATATTAA
1 AAATA--AATATAATAA
* *
1071650 ATATAATTATAATATA
1 AAATAAATATAATA-A
1071666 AAA
1 AAA
1071669 ATATTTAAAT
Statistics
Matches: 59, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
14 15 0.25
15 13 0.22
16 19 0.32
17 6 0.10
18 6 0.10
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (15 bp):
AAATAAATATAATAA
Found at i:1073127 original size:13 final size:13
Alignment explanation
Indices: 1073109--1073133 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1073099 CGGTGCCTTC
1073109 TTCTTCTTCTTTT
1 TTCTTCTTCTTTT
1073122 TTCTTCTTCTTT
1 TTCTTCTTCTTT
1073134 GGTTAATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTCTTCTTCTTTT
Found at i:1084914 original size:21 final size:22
Alignment explanation
Indices: 1084885--1084930 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
1084875 TATTCAAATA
**
1084885 AGTAGTACTCCGCAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1084907 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1084928 AGT
1 AGT
1084931 TTCAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:1086880 original size:27 final size:27
Alignment explanation
Indices: 1086808--1086882 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
1086798 AAAGTCACCA
**
1086808 TTTGTGTTTGTCAAAAATGGTGGTTAC
1 TTTGTGTTTGTCAAAAATTATGGTTAC
*
1086835 TTTGTATTTGTCAAAAATTATGGTTAC
1 TTTGTGTTTGTCAAAAATTATGGTTAC
*
1086862 TTTTTGTTTGTCAAAAATTAT
1 TTTGTGTTTGTCAAAAATTAT
1086883 AGCTTATTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.49
Consensus pattern (27 bp):
TTTGTGTTTGTCAAAAATTATGGTTAC
Found at i:1086896 original size:28 final size:27
Alignment explanation
Indices: 1086812--1086896 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
1086802 TCACCATTTG
** * *
1086812 TGTTTGTCAAAAATGGTGGTTACTTTG
1 TGTTTGTCAAAAATTATGCTTACTTTT
* *
1086839 TATTTGTCAAAAATTATGGTTACTTTT
1 TGTTTGTCAAAAATTATGCTTACTTTT
1086866 TGTTTGTCAAAAATTATAGCTTA-TTGTT
1 TGTTTGTCAAAAATTAT-GCTTACTT-TT
1086894 TGT
1 TGT
1086897 CAAAATTGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
27 41 0.82
28 9 0.18
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.49
Consensus pattern (27 bp):
TGTTTGTCAAAAATTATGCTTACTTTT
Found at i:1086897 original size:24 final size:25
Alignment explanation
Indices: 1086841--1086901 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
1086831 TTACTTTGTA
* *
1086841 TTTGTCAAAAATTATGGTTACTTTTTG
1 TTTGTCAAAAATTATAG-T-CTTATTG
1086868 TTTGTCAAAAATTATAG-CTTATTG
1 TTTGTCAAAAATTATAGTCTTATTG
1086892 TTTGTCAAAA
1 TTTGTCAAAA
1086902 TTGGTGTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 16 0.50
27 16 0.50
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (25 bp):
TTTGTCAAAAATTATAGTCTTATTG
Found at i:1090189 original size:15 final size:17
Alignment explanation
Indices: 1090169--1090200 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1090159 TTATTTCATT
1090169 TATTTT-TTAAA-ATTA
1 TATTTTATTAAATATTA
1090184 TATTTTATTAAATATTA
1 TATTTTATTAAATATTA
1090201 AACTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTATTAAATATTA
Found at i:1091150 original size:3 final size:3
Alignment explanation
Indices: 1091142--1091172 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1091132 AGCAAATGCC
1091142 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
1091173 ACATTCATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ACT
Found at i:1092532 original size:21 final size:19
Alignment explanation
Indices: 1092502--1092556 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
1092492 TCATATATAA
1092502 AATTATTTTAATTTTATATT
1 AATTA-TTTAATTTTATATT
* *
1092522 ATATTTATTTAGTTATATATT
1 A-A-TTATTTAATTTTATATT
*
1092543 AATTAATTAATTTT
1 AATTATTTAATTTT
1092557 TTTAATTCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 9 0.32
20 2 0.07
21 14 0.50
22 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
AATTATTTAATTTTATATT
Found at i:1093151 original size:14 final size:14
Alignment explanation
Indices: 1093129--1093170 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
1093119 ATTATAATGG
1093129 TATAAAATATATTT
1 TATAAAATATATTT
* *
1093143 TATATAATATTTTT
1 TATAAAATATATTT
*
1093157 TA-AAAATATCTTT
1 TATAAAATATATTT
1093170 T
1 T
1093171 CACTCTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
TATAAAATATATTT
Found at i:1093303 original size:22 final size:21
Alignment explanation
Indices: 1093254--1093305 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
1093244 TATTTTTTAA
* *
1093254 AAAAAAAATTATTATTCTTCT
1 AAAAAAAATTACTATTCATCT
1093275 AAAAAAAATTACTACTTCAT-T
1 AAAAAAAATTACTA-TTCATCT
1093296 AAATAAAAAT
1 AAA-AAAAAT
1093306 GACTCATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAAAAATTACTATTCATCT
Found at i:1094910 original size:2 final size:2
Alignment explanation
Indices: 1094903--1094937 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1094893 ATTAAGGGTG
1094903 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1094938 ACAACACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1096779 original size:2 final size:2
Alignment explanation
Indices: 1096772--1096802 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1096762 AGAGTAACAA
1096772 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 A
1096803 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1098658 original size:29 final size:29
Alignment explanation
Indices: 1098626--1098683 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
1098616 AGAAAACAAG
1098626 GGAAAATTAAGTTATTCGTCAAAATGAGA
1 GGAAAATTAAGTTATTCGTCAAAATGAGA
1098655 GGAAAATTAAGTTATTCGTCAAAATGAGA
1 GGAAAATTAAGTTATTCGTCAAAATGAGA
1098684 AACAAGACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (29 bp):
GGAAAATTAAGTTATTCGTCAAAATGAGA
Found at i:1102269 original size:23 final size:27
Alignment explanation
Indices: 1102243--1102297 Score: 82
Period size: 24 Copynumber: 2.2 Consensus size: 27
1102233 AAAAATATTT
1102243 TTAAAT-TTTTTATTAT-TA-TT-AAA
1 TTAAATATTTTTATTATATATTTAAAA
1102266 TTAAATATTTTTATTATATATTTAAAA
1 TTAAATATTTTTATTATATATTTAAAA
1102293 TTAAA
1 TTAAA
1102298 ATAAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.21
24 10 0.36
25 2 0.07
26 2 0.07
27 8 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTAAATATTTTTATTATATATTTAAAA
Found at i:1102290 original size:21 final size:20
Alignment explanation
Indices: 1102237--1102291 Score: 56
Period size: 24 Copynumber: 2.5 Consensus size: 20
1102227 TTAATAAAAA
*
1102237 ATATTTTTAAATTTTTTATT
1 ATATATTTAAATTTTTTATT
*
1102257 ATTATTAAATTAAATATTTTTATT
1 A-TA-T-ATTTAAAT-TTTTTATT
1102281 ATATATTTAAA
1 ATATATTTAAA
1102292 ATTAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 2 0.07
23 8 0.29
24 9 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATATATTTAAATTTTTTATT
Found at i:1104033 original size:6 final size:6
Alignment explanation
Indices: 1104016--1104112 Score: 55
Period size: 6 Copynumber: 16.5 Consensus size: 6
1104006 TAGTCTCATT
*
1104016 TATTTA TA-TTA TATTTA TATATT- T-TTTA -ATTTTA TAATTA TATTTA
1 TATTTA TATTTA TATTTA TAT-TTA TATTTA TA-TTTA TATTTA TATTTA
* * * *
1104062 TAATTTT TATATTA -ATATA TATTT- TA-ATA TATTTA TATTTTA TTTTTA
1 T-ATTTA TAT-TTA TATTTA TATTTA TATTTA TATTTA TA-TTTA TATTTA
1104110 TAT
1 TAT
1104113 AATATCTTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
4 3 0.04
5 12 0.17
6 39 0.57
7 15 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATTTA
Found at i:1104038 original size:8 final size:8
Alignment explanation
Indices: 1104025--1104113 Score: 50
Period size: 8 Copynumber: 11.5 Consensus size: 8
1104015 TTATTTATAT
1104025 TATATTTA
1 TATATTTA
1104033 TATATTT-
1 TATATTTA
*
1104040 TTTAATTT-
1 TAT-ATTTA
*
1104048 TATA-AT-
1 TATATTTA
1104054 TATATTTA
1 TATATTTA
*
1104062 TA-ATTTT
1 TATATTTA
1104069 TATATTAATA
1 TATATT--TA
1104079 TATATTTTAA
1 TATA-TTT-A
1104089 TATATTTA
1 TATATTTA
1104097 TAT-TTTA
1 TATATTTA
1104104 T-T-TTTA
1 TATATTTA
1104110 TATA
1 TATA
1104114 ATATCTTAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
6 11 0.17
7 16 0.25
8 22 0.34
9 4 0.06
10 10 0.15
11 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATATTTA
Found at i:1104112 original size:21 final size:21
Alignment explanation
Indices: 1104014--1104113 Score: 71
Period size: 21 Copynumber: 4.7 Consensus size: 21
1104004 GTTAGTCTCA
*
1104014 TTTATTTATATTATATTTATAT
1 TTTATTTTTA-TATATTTATAT
* *
1104036 ATTT-TTTAATTTTATAATTATAT
1 -TTTATTT--TTATATATTTATAT
* *
1104059 TTATAATTTT-TATATTAATA-
1 TT-TATTTTTATATATTTATAT
* *
1104079 TATATTTTAATATATTTATAT
1 TTTATTTTTATATATTTATAT
1104100 TTTATTTTTATATA
1 TTTATTTTTATATA
1104114 ATATCTTAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 14
0.69 0.14 0.16
Matches are distributed among these distances:
19 5 0.08
20 10 0.17
21 20 0.34
22 7 0.12
23 14 0.24
24 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTTTTATATATTTATAT
Found at i:1104827 original size:33 final size:35
Alignment explanation
Indices: 1104765--1104838 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 35
1104755 TTTTATTATA
*
1104765 ATTTTATTAAATATATTATAATAACATAATTATTT
1 ATTTTATTAAATATATTATAATAACATAATAATTT
* * *
1104800 ATTTTATTAAATAT-TTAT-TTTATATAATAATTT
1 ATTTTATTAAATATATTATAATAACATAATAATTT
1104833 ATTTTA
1 ATTTTA
1104839 ATTTTATTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 17 0.49
34 4 0.11
35 14 0.40
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (35 bp):
ATTTTATTAAATATATTATAATAACATAATAATTT
Found at i:1104834 original size:17 final size:17
Alignment explanation
Indices: 1104790--1104838 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
1104780 TTATAATAAC
*
1104790 ATAATTATTTATTTTAT
1 ATAATAATTTATTTTAT
1104807 -TAA-ATATTTATTTTAT
1 ATAATA-ATTTATTTTAT
1104823 ATAATAATTTATTTTA
1 ATAATAATTTATTTTA
1104839 ATTTTATTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 14 0.50
17 13 0.46
18 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAATAATTTATTTTAT
Found at i:1104897 original size:16 final size:16
Alignment explanation
Indices: 1104878--1104921 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
1104868 AATTAATTTA
1104878 TAAATTTATTAAAATT
1 TAAATTTATTAAAATT
*
1104894 TAAATTTA-TAATATT
1 TAAATTTATTAAAATT
* *
1104909 TTATTTTATTAAA
1 TAAATTTATTAAA
1104922 TTAAATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAAATTTATTAAAATT
Found at i:1104899 original size:24 final size:23
Alignment explanation
Indices: 1104865--1104909 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
1104855 GATTAAAATG
1104865 TAAAATTAATTTATAA-ATTTAT
1 TAAAATTAATTTATAATATTTAT
1104887 TAAAATTTAAATTTATAATATTT
1 TAAAA-TT-AATTTATAATATTT
1104910 TATTTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 2 0.10
24 9 0.45
25 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAAATTAATTTATAATATTTAT
Found at i:1104947 original size:17 final size:16
Alignment explanation
Indices: 1104898--1104952 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
1104888 AAAATTTAAA
1104898 TTTATAA-TATTTTAT
1 TTTATAATTATTTTAT
**
1104913 TTTATTAAATTAAATTAT
1 TTTA-T-AATTATTTTAT
1104931 TTCTATAATTATTTTAT
1 TT-TATAATTATTTTAT
1104948 TTTAT
1 TTTAT
1104953 TTTAATCTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 4 0.12
16 4 0.12
17 13 0.41
18 9 0.28
19 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATAATTATTTTAT
Found at i:1105928 original size:26 final size:27
Alignment explanation
Indices: 1105898--1105949 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1105888 ACACTAATTT
*
1105898 AAAA-TTATTTAAT-TATTATTTTTATA
1 AAAATTTA-TTAATATATTACTTTTATA
1105924 AAAATTTATTAATATATTACTTTTAT
1 AAAATTTATTAATATATTACTTTTAT
1105950 TAAGTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
AAAATTTATTAATATATTACTTTTATA
Found at i:1105941 original size:27 final size:26
Alignment explanation
Indices: 1105898--1105949 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
1105888 ACACTAATTT
*
1105898 AAAATTATTTAATTATTATTTTTATA
1 AAAATTATTTAATTATTACTTTTATA
1105924 AAAATT-TATTAATATATTACTTTTAT
1 AAAATTAT-TTAAT-TATTACTTTTAT
1105950 TAAGTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 1 0.04
26 11 0.48
27 11 0.48
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
AAAATTATTTAATTATTACTTTTATA
Found at i:1106099 original size:2 final size:2
Alignment explanation
Indices: 1106092--1106125 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1106082 TTACATTACA
1106092 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
1106126 TTTAAAGGGC
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:1121472 original size:2 final size:2
Alignment explanation
Indices: 1121465--1121500 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1121455 TATAAGGGAA
1121465 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
1121501 TTAATCTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1121791 original size:11 final size:11
Alignment explanation
Indices: 1121778--1121821 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
1121768 TATATTAAAT
*
1121778 ATTTTAAATTT
1 ATTTTAAATTA
*
1121789 ATTTTCAATTA
1 ATTTTAAATTA
* *
1121800 ATTATATATTA
1 ATTTTAAATTA
1121811 ATTTTAAATTA
1 ATTTTAAATTA
1121822 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:1124872 original size:7 final size:7
Alignment explanation
Indices: 1124860--1124902 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
1124850 GCCTTATTCA
1124860 TTTTCTT
1 TTTTCTT
1124867 TTTTCTT
1 TTTTCTT
*
1124874 TTTCCTT
1 TTTTCTT
*
1124881 TTTTGTT
1 TTTTCTT
*
1124888 TGTTCTT
1 TTTTCTT
*
1124895 TTATCTT
1 TTTTCTT
1124902 T
1 T
1124903 GATTTTTATG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:1129837 original size:16 final size:16
Alignment explanation
Indices: 1129813--1129854 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
1129803 AAAAAATTAA
*
1129813 AAAAT-AAAATAAAAT
1 AAAATAAAAATAAAAG
**
1129828 AAAATAAAAAGCAAAG
1 AAAATAAAAATAAAAG
1129844 AAAATAAAAAT
1 AAAATAAAAAT
1129855 CCATAGCTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAATAAAAATAAAAG
Found at i:1133769 original size:41 final size:42
Alignment explanation
Indices: 1133724--1133802 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
1133714 TTTAGAGCAC
1133724 ATTAATAATTTAATATATTAT-TTATAAT-CATAAAGATCCTA
1 ATTAATAATTTAATATATTATATT-TAATACATAAAGATCCTA
* * *
1133765 ATTAATAATTTTATTTATTATATTTAATATATAAAGAT
1 ATTAATAATTTAATATATTATATTTAATACATAAAGAT
1133803 ATTATTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 23 0.70
42 10 0.30
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.48
Consensus pattern (42 bp):
ATTAATAATTTAATATATTATATTTAATACATAAAGATCCTA
Found at i:1135692 original size:19 final size:18
Alignment explanation
Indices: 1135646--1135707 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 18
1135636 AATATATTAA
*
1135646 AAATATTTTATATTAATAT
1 AAATATTTTA-ATTAATTT
*
1135665 ATATAATTTATAATTAATTT
1 AAAT-ATTT-TAATTAATTT
*
1135685 AAATATTTTTTATT-ATTT
1 AAATA-TTTTAATTAATTT
1135703 AAATA
1 AAATA
1135708 ATAATAATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 9 0.25
19 8 0.22
20 17 0.47
21 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATATTTTAATTAATTT
Found at i:1137884 original size:2 final size:2
Alignment explanation
Indices: 1137863--1137906 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
1137853 GGTTAGCAGG
* * *
1137863 AT AT AC AT AT AA AC 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
1137905 AT
1 AT
1137907 CTGCTATTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1140207 original size:2 final size:2
Alignment explanation
Indices: 1140200--1140228 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1140190 TAACTTTATA
1140200 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1140229 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1140233 original size:2 final size:2
Alignment explanation
Indices: 1140228--1140260 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1140218 TCTCTCTCTC
1140228 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 T
1140261 GTGCTTGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1141325 original size:20 final size:20
Alignment explanation
Indices: 1141300--1141363 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
1141290 CACGTTGCTC
1141300 TCACGTGTAGTTTGAATTTG
1 TCACGTGTAGTTTGAATTTG
* *
1141320 TCACGTGATAG-TTG---CTC
1 TCACGTG-TAGTTTGAATTTG
*
1141337 TCACGTGTTGTTTGAATTTG
1 TCACGTGTAGTTTGAATTTG
1141357 TCACGTG
1 TCACGTG
1141364 ATAGACCCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
16 2 0.06
17 11 0.32
20 18 0.53
21 3 0.09
ACGTcount: A:0.17, C:0.16, G:0.25, T:0.42
Consensus pattern (20 bp):
TCACGTGTAGTTTGAATTTG
Found at i:1141343 original size:37 final size:37
Alignment explanation
Indices: 1141293--1141367 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
1141283 ATCATTGCAC
1141293 GTTGCTCTCACGTGTAGTTTGAATTTGTCACGTGATA
1 GTTGCTCTCACGTGTAGTTTGAATTTGTCACGTGATA
*
1141330 GTTGCTCTCACGTGTTGTTTGAATTTGTCACGTGATA
1 GTTGCTCTCACGTGTAGTTTGAATTTGTCACGTGATA
1141367 G
1 G
1141368 ACCCCACCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.16, G:0.25, T:0.41
Consensus pattern (37 bp):
GTTGCTCTCACGTGTAGTTTGAATTTGTCACGTGATA
Found at i:1141942 original size:2 final size:2
Alignment explanation
Indices: 1141937--1141976 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1141927 GCTAACATGG
1141937 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1141977 CTAAAGGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1144474 original size:2 final size:2
Alignment explanation
Indices: 1144469--1144501 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1144459 GCAGTGCTAA
1144469 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 A
1144502 ATTTTCTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1147932 original size:4 final size:4
Alignment explanation
Indices: 1147923--1147948 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1147913 AAAGGAACAA
1147923 AATC AATC AATC AATC AATC AATC AA
1 AATC AATC AATC AATC AATC AATC AA
1147949 AGGCAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (4 bp):
AATC
Found at i:1150555 original size:18 final size:17
Alignment explanation
Indices: 1150532--1150565 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1150522 TGTTAATATT
1150532 TTTTCTTAAATATTCATA
1 TTTTC-TAAATATTCATA
*
1150550 TTTTCTATATATTCAT
1 TTTTCTAAATATTCAT
1150566 TTAAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTCTAAATATTCATA
Found at i:1152233 original size:23 final size:23
Alignment explanation
Indices: 1152203--1152248 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1152193 ATTGTCCTTG
1152203 TACTTACTTGAAATATCAAAACA
1 TACTTACTTGAAATATCAAAACA
1152226 TACTTACTTGAAATATCAAAACA
1 TACTTACTTGAAATATCAAAACA
1152249 ATCAGCAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.30
Consensus pattern (23 bp):
TACTTACTTGAAATATCAAAACA
Found at i:1152504 original size:2 final size:2
Alignment explanation
Indices: 1152491--1152528 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1152481 TAGTATGTGC
*
1152491 AT AT AA 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
1152529 TTGCATAAGT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1157452 original size:20 final size:20
Alignment explanation
Indices: 1157414--1157450 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1157404 TTGGACCGAT
*
1157414 AATTTTTATAAATATAAATC
1 AATTATTATAAATATAAATC
1157434 AATTATTATAAAT-TAAA
1 AATTATTATAAATATAAA
1157451 ATTTTATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTATTATAAATATAAATC
Found at i:1158169 original size:11 final size:11
Alignment explanation
Indices: 1158136--1158176 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
1158126 AATACAAATT
1158136 AAAATATAA-A
1 AAAATATAATA
*
1158146 AAAAT-TATTTA
1 AAAATATA-ATA
1158157 AAAATATAATA
1 AAAATATAATA
1158168 AAAATATAA
1 AAAATATAA
1158177 AGACATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 2 0.08
10 5 0.19
11 17 0.65
12 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATATAATA
Found at i:1158980 original size:2 final size:2
Alignment explanation
Indices: 1158975--1159006 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1158965 AAAAAAGTCC
1158975 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
1159007 TCTAAGGCTA
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:1159547 original size:10 final size:10
Alignment explanation
Indices: 1159534--1159563 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1159524 ATTATATATT
1159534 TTATTTTTAA
1 TTATTTTTAA
*
1159544 TTATTTTTTA
1 TTATTTTTAA
1159554 TTATTTTTAA
1 TTATTTTTAA
1159564 AGAATATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:1159956 original size:15 final size:14
Alignment explanation
Indices: 1159932--1159961 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1159922 ACATGACACT
1159932 AATTTAAAATTAAA
1 AATTTAAAATTAAA
1159946 AATTATAAAATTAAA
1 AATT-TAAAATTAAA
1159961 A
1 A
1159962 TATAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTAAAATTAAA
Found at i:1160032 original size:21 final size:21
Alignment explanation
Indices: 1160008--1160049 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1159998 TTTTCTCAAG
1160008 TTAAATA-AACATTATATAAAA
1 TTAAATAGAA-ATTATATAAAA
*
1160029 TTAAATAGAAATTATCTAAAA
1 TTAAATAGAAATTATATAAAA
1160050 AATTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAAATAGAAATTATATAAAA
Found at i:1160541 original size:16 final size:17
Alignment explanation
Indices: 1160522--1160557 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1160512 TATATTATAA
1160522 TTATATTTAAAT-AAAT
1 TTATATTTAAATAAAAT
*
1160538 TTATATTTATATAAAAT
1 TTATATTTAAATAAAAT
1160555 TTA
1 TTA
1160558 AAATATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATATTTAAATAAAAT
Found at i:1160564 original size:16 final size:15
Alignment explanation
Indices: 1160545--1160581 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 15
1160535 AATTTATATT
1160545 TATATAAAATTTAAAA
1 TATATAAAATTT-AAA
1160561 TATATTAAAATTTAAA
1 TATA-TAAAATTTAAA
1160577 TATAT
1 TATAT
1160582 TATTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATATAAAATTTAAA
Found at i:1160582 original size:16 final size:16
Alignment explanation
Indices: 1160534--1160583 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
1160524 ATATTTAAAT
* *
1160534 AAATTTATATTTATATA
1 AAATTTAAATATAT-TA
1160551 AAATTTAAAATATATTA
1 AAATTT-AAATATATTA
1160568 AAATTTAAATATATTA
1 AAATTTAAATATATTA
1160584 TTTAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 10 0.33
17 14 0.47
18 6 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATTTAAATATATTA
Found at i:1160597 original size:25 final size:24
Alignment explanation
Indices: 1160562--1160631 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 24
1160552 AATTTAAAAT
*
1160562 ATATTAAAATTTAAATATATTATTTA
1 ATATTATAATTTAAAT-T-TTATTTA
1160588 A-ATTATAATTATATAATTTTATTTA
1 ATATTATAATT-TA-AATTTTATTTA
1160613 ATATTATTAAATTTAAATT
1 ATATTA-T-AATTTAAATT
1160632 AAACGGTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 16 0.42
26 12 0.32
27 6 0.16
28 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTATAATTTAAATTTTATTTA
Found at i:1160600 original size:20 final size:19
Alignment explanation
Indices: 1160551--1160630 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 19
1160541 TATTTATATA
*
1160551 AAATTTAAA-ATA-TATTA
1 AAATTTAAATATATTATTT
1160568 AAATTTAAATATATTATTT
1 AAATTTAAATATATTATTT
* *
1160587 AAATTATAATTATATAATTT
1 AAATT-TAAATATATTATTT
*
1160607 -TATTT--A-ATATTA-TT
1 AAATTTAAATATATTATTT
1160621 AAATTTAAAT
1 AAATTTAAAT
1160631 TAAACGGTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
14 2 0.04
15 9 0.18
17 10 0.20
18 4 0.08
19 12 0.24
20 12 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTTAAATATATTATTT
Found at i:1160633 original size:20 final size:21
Alignment explanation
Indices: 1160577--1160633 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
1160567 AAAATTTAAA
*
1160577 TATATTATTTAAATT-ATAAT
1 TATATAATTTAAATTAATAAT
* *
1160597 TATATAATTTTATTTAAT-AT
1 TATATAATTTAAATTAATAAT
1160617 TAT-TAAATTTAAATTAA
1 TATAT-AATTTAAATTAA
1160634 ACGGTGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.03
20 27 0.90
21 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATATAATTTAAATTAATAAT
Found at i:1161536 original size:17 final size:18
Alignment explanation
Indices: 1161502--1161556 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
1161492 TAGTGAATAA
*
1161502 AATTTTTTCTTTTCATAT
1 AATTTTTTATTTTCATAT
1161520 AATTTTTTATTTT-ATAT
1 AATTTTTTATTTTCATAT
** *
1161537 TTTTTTTTATTATCATAT
1 AATTTTTTATTTTCATAT
1161555 AA
1 AA
1161557 CATTTTATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
AATTTTTTATTTTCATAT
Found at i:1161754 original size:23 final size:24
Alignment explanation
Indices: 1161728--1161779 Score: 61
Period size: 27 Copynumber: 2.1 Consensus size: 24
1161718 ATTTTAAATA
1161728 ATAT-GATTTATTTAATGTATTAT
1 ATATAGATTTATTTAATGTATTAT
*
1161751 ATATAAAATATTTATTTAATGTATTAT
1 ATAT---AGATTTATTTAATGTATTAT
1161778 AT
1 AT
1161780 TTTTATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.17
27 20 0.83
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (24 bp):
ATATAGATTTATTTAATGTATTAT
Found at i:1169617 original size:17 final size:17
Alignment explanation
Indices: 1169597--1169634 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
1169587 CCTGGTTAAG
* *
1169597 TTCAGTCATTGGTTCCC
1 TTCAGTCATTGATTCAC
1169614 TTCAGTCATTGATTCAC
1 TTCAGTCATTGATTCAC
1169631 TTCA
1 TTCA
1169635 TCACTGTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.42
Consensus pattern (17 bp):
TTCAGTCATTGATTCAC
Found at i:1170913 original size:5 final size:5
Alignment explanation
Indices: 1170903--1170929 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1170893 ACATCTTTTA
1170903 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1170930 TTTTAGGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:1173086 original size:11 final size:11
Alignment explanation
Indices: 1173068--1173137 Score: 54
Period size: 11 Copynumber: 6.2 Consensus size: 11
1173058 TTGGGTTAAA
1173068 TATATTATATT
1 TATATTATATT
* *
1173079 TGTATTATTTT
1 TATATTATATT
*
1173090 TAAATTATATT
1 TATATTATATT
1173101 T-TAATTA-ATTT
1 TAT-ATTATA-TT
*
1173112 TTTATTATATAAT
1 TATATTATAT--T
1173125 TATATTATATT
1 TATATTATATT
1173136 TA
1 TA
1173138 AAATTATTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
10 1 0.02
11 33 0.72
12 2 0.04
13 10 0.22
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (11 bp):
TATATTATATT
Found at i:1173096 original size:22 final size:21
Alignment explanation
Indices: 1173071--1173144 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 21
1173061 GGTTAAATAT
1173071 ATTATATTTGTATTATTTTTAA
1 ATTATATTT-TATTATTTTTAA
*
1173093 ATTATATTTTAATTAATTTTT-T
1 ATTATATTTT-ATT-ATTTTTAA
*
1173115 ATTATATAATTATATTATATTTAAA
1 ATTATAT--TT-TATTAT-TTTTAA
1173140 ATTAT
1 ATTAT
1173145 TTAAAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
21 1 0.02
22 19 0.45
23 8 0.19
24 8 0.19
25 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (21 bp):
ATTATATTTTATTATTTTTAA
Found at i:1174114 original size:18 final size:18
Alignment explanation
Indices: 1174101--1174139 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1174091 GAATTTTATT
1174101 TTTTATTTATATTTAATA
1 TTTTATTTATATTTAATA
*
1174119 TTTTATTTA-ATAT-ATA
1 TTTTATTTATATTTAATA
1174135 TTTTA
1 TTTTA
1174140 ATATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 3 0.15
18 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTTATATTTAATA
Found at i:1174125 original size:12 final size:12
Alignment explanation
Indices: 1174093--1174131 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1174083 ATTTACTCGA
**
1174093 ATTTTATTTTTT
1 ATTTTATTTAAT
1174105 ATTTATATTTAAT
1 ATTT-TATTTAAT
1174118 ATTTTATTTAAT
1 ATTTTATTTAAT
1174130 AT
1 AT
1174132 ATATTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTATTTAAT
Found at i:1174133 original size:14 final size:13
Alignment explanation
Indices: 1174104--1174143 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
1174094 TTTTATTTTT
1174104 TATTTATATTTAA
1 TATTTATATTTAA
1174117 TATTT-TATTTAA
1 TATTTATATTTAA
*
1174129 TATATAT-TTTAA
1 TATTTATATTTAA
1174141 TAT
1 TAT
1174144 AAATATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 19 0.76
13 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTATATTTAA
Found at i:1174137 original size:16 final size:16
Alignment explanation
Indices: 1174101--1174152 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
1174091 GAATTTTATT
*
1174101 TTTTATTTATATTTAATA
1 TTTTATTTA-ATAT-ATA
1174119 TTTTATTTAATATATA
1 TTTTATTTAATATATA
*
1174135 TTTTAATATAA-ATATA
1 TTTT-ATTTAATATATA
1174151 TT
1 TT
1174153 AATTATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 14 0.45
17 8 0.26
18 9 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTATTTAATATATA
Found at i:1174262 original size:15 final size:15
Alignment explanation
Indices: 1174231--1174264 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1174221 CCTGCTGGTT
*
1174231 GAAACTTGACGGCAA
1 GAAACTTGACAGCAA
*
1174246 GAAACTTGACAGTAA
1 GAAACTTGACAGCAA
1174261 GAAA
1 GAAA
1174265 ACAATGTCAA
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:0.47, C:0.15, G:0.24, T:0.15
Consensus pattern (15 bp):
GAAACTTGACAGCAA
Found at i:1176514 original size:22 final size:23
Alignment explanation
Indices: 1176488--1176534 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1176478 TGATCATTGC
*
1176488 TTTTTCTTT-TGAA-CTTTATTT
1 TTTTTTTTTGTGAATCTTTATTT
*
1176509 TTTTTTTTTGTGAATTTTTATTT
1 TTTTTTTTTGTGAATCTTTATTT
1176532 TTT
1 TTT
1176535 GAATGGGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 4 0.18
23 10 0.45
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (23 bp):
TTTTTTTTTGTGAATCTTTATTT
Found at i:1184061 original size:27 final size:28
Alignment explanation
Indices: 1184030--1184084 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 28
1184020 ACTTTTTATA
1184030 TAAATATTTTA-ATA-TTATTT-AATATT
1 TAAA-ATTTTATATATTTATTTAAATATT
1184056 TAAAATTTTATATATTTATTTAAATATT
1 TAAAATTTTATATATTTATTTAAATATT
1184084 T
1 T
1184085 TAATTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 6 0.23
26 7 0.27
27 6 0.23
28 7 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TAAAATTTTATATATTTATTTAAATATT
Found at i:1184143 original size:25 final size:27
Alignment explanation
Indices: 1184110--1184159 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
1184100 TTATTACCTA
**
1184110 AATATATTTATTATATT-AAATAAATG
1 AATATATTTAAAATATTAAAATAAATG
1184136 AATA-ATTTAAAATATTAAAATAAA
1 AATATATTTAAAATATTAAAATAAA
1184160 GATAACATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AATATATTTAAAATATTAAAATAAATG
Found at i:1184197 original size:26 final size:26
Alignment explanation
Indices: 1184127--1184197 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 26
1184117 TTATTATATT
* * *
1184127 AAATAAATGAATAATTTAAAATATTA
1 AAATAAATAAATATTTTAAAATATAA
1184153 AAATAAAGATAACAT-TTTTAAAATA-AA
1 AAAT-AA-ATAA-ATATTTTAAAATATAA
1184180 AAATAAATTAAATATTTT
1 AAATAAA-TAAATATTTT
1184198 TTATTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
25 3 0.08
26 13 0.35
27 7 0.19
28 12 0.32
29 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (26 bp):
AAATAAATAAATATTTTAAAATATAA
Found at i:1184579 original size:2 final size:2
Alignment explanation
Indices: 1184572--1184606 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1184562 TGAGCAGGTC
1184572 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 T
1184607 TTCTTCTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1185348 original size:30 final size:31
Alignment explanation
Indices: 1185306--1185391 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 31
1185296 TTTAATGATT
1185306 TAATTAATAAAAATAATTTAAATTTATTAATA
1 TAATT-ATAAAAATAATTTAAATTTATTAATA
* * *
1185338 -AATTATAAAAATATTTTTAATAT-TTAATA
1 TAATTATAAAAATAATTTAAATTTATTAATA
* * *
1185367 TATTTTTAATAATAATTTAAATTTA
1 TAATTATAAAAATAATTTAAATTTA
1185392 CAAATTAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
29 6 0.14
30 33 0.77
31 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
TAATTATAAAAATAATTTAAATTTATTAATA
Found at i:1188065 original size:10 final size:9
Alignment explanation
Indices: 1188024--1188084 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
1188014 TAAAAATATG
*
1188024 ATATATATT
1 ATATTTATT
**
1188033 ATACGTATT
1 ATATTTATT
1188042 ATATTTATT
1 ATATTTATT
*
1188051 ATATTTTTAT
1 ATATTTAT-T
1188061 ATATTTATT
1 ATATTTATT
* *
1188070 AAATATATT
1 ATATTTATT
1188079 ATATTT
1 ATATTT
1188085 GTATTAATTT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
9 33 0.80
10 8 0.20
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (9 bp):
ATATTTATT
Found at i:1191558 original size:35 final size:37
Alignment explanation
Indices: 1191516--1191593 Score: 101
Period size: 35 Copynumber: 2.2 Consensus size: 37
1191506 TATTATTTAA
1191516 TGAATATAAAATATCATATTTAA-AA-TATTTTA-ATTT
1 TGAATATAAAATA--ATATTTAATAATTATTTTATATTT
*
1191552 T-AATATAAAATAATTTTTAATAATTATTTTATATTT
1 TGAATATAAAATAATATTTAATAATTATTTTATATTT
1191588 TGAATA
1 TGAATA
1191594 ATAATTTGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
33 7 0.19
34 2 0.05
35 18 0.49
36 6 0.16
37 4 0.11
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (37 bp):
TGAATATAAAATAATATTTAATAATTATTTTATATTT
Found at i:1192573 original size:21 final size:22
Alignment explanation
Indices: 1192533--1192574 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1192523 CATAATCATA
*
1192533 TAAATATATCATAAAAAATAAT
1 TAAATATATAATAAAAAATAAT
*
1192555 TAAAT-TATAATACAAAATAA
1 TAAATATATAATAAAAAATAA
1192575 GTATACAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAATATATAATAAAAAATAAT
Found at i:1193145 original size:17 final size:17
Alignment explanation
Indices: 1193111--1193143 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1193101 TCGAAATATA
1193111 AATAAAAAAATATATTT
1 AATAAAAAAATATATTT
1193128 AATAAAAAAATA-ATTT
1 AATAAAAAAATATATTT
1193144 TATATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAAAAAAATATATTT
Found at i:1193703 original size:23 final size:23
Alignment explanation
Indices: 1193677--1193729 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
1193667 AATTATTTAT
*
1193677 ATTTATTT-TTAA-AGTATAATATA
1 ATTTATTTATTAATAATAT-ATA-A
1193700 ATTTAATTTATTAATAATATATAA
1 ATTT-ATTTATTAATAATATATAA
1193724 ATTTAT
1 ATTTAT
1193730 ATACCATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 6 0.23
24 9 0.35
25 7 0.27
26 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTATTTATTAATAATATATAA
Found at i:1194013 original size:2 final size:2
Alignment explanation
Indices: 1194006--1194031 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1193996 TAAAAGGCAA
1194006 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
1194032 CTTCATTAAA
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:1194374 original size:2 final size:2
Alignment explanation
Indices: 1194369--1194415 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1194359 TCTCTCTCTC
1194369 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
1194411 TA TA T
1 TA TA T
1194416 TTATTGACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1194779 original size:21 final size:22
Alignment explanation
Indices: 1194741--1194781 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1194731 AAAAATATAA
*
1194741 ATTATATAAAAATTAATTTTAT
1 ATTATATAAAAATAAATTTTAT
*
1194763 ATTA-ATATAAATAAATTTT
1 ATTATATAAAAATAAATTTT
1194782 TTCATATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTATATAAAAATAAATTTTAT
Found at i:1196802 original size:14 final size:14
Alignment explanation
Indices: 1196783--1196820 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
1196773 AATTTTTATG
*
1196783 AAATATTTTTATTT
1 AAATATTTATATTT
*
1196797 ATATATTTATATTT
1 AAATATTTATATTT
1196811 AAATATTTAT
1 AAATATTTAT
1196821 TGAACTCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AAATATTTATATTT
Found at i:1197108 original size:19 final size:18
Alignment explanation
Indices: 1197067--1197119 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 18
1197057 AAAAAATTTA
1197067 ATATATTTAT-TTTAAAT
1 ATATATTTATATTTAAAT
1197084 ATATATTTATATTT-AAT
1 ATATATTTATATTTAAAT
*
1197101 ATTAATATTTAAATTTAAA
1 A-T-ATATTTATATTTAAA
1197120 CAATATAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 14 0.45
18 4 0.13
19 11 0.35
20 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATATTTATATTTAAAT
Found at i:1197902 original size:23 final size:23
Alignment explanation
Indices: 1197874--1197919 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
1197864 TTTATTTTTA
*
1197874 AAAAAATAAGTTATAATTTAAAAAT
1 AAAAAAT-A-TTAAAATTTAAAAAT
1197899 AAAAAATATTAAAATTTAAAA
1 AAAAAATATTAAAATTTAAAA
1197920 TTTAAAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 1 0.05
25 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAAAATATTAAAATTTAAAAAT
Found at i:1201174 original size:30 final size:31
Alignment explanation
Indices: 1201132--1201197 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
1201122 AAACAATTGT
1201132 TTATTAAAAAAAAAGAACAAAAGAATATTTC
1 TTATTAAAAAAAAAGAACAAAAGAATATTTC
*
1201163 TTATT-AAAAAAAAGAACAGAAGAATATTTC
1 TTATTAAAAAAAAAGAACAAAAGAATATTTC
1201193 TTATT
1 TTATT
1201198 CATCCATGCG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (31 bp):
TTATTAAAAAAAAAGAACAAAAGAATATTTC
Found at i:1202611 original size:15 final size:17
Alignment explanation
Indices: 1202593--1202624 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1202583 TAAATAGTAA
1202593 AATTTTA-AAA-TAAAT
1 AATTTTATAAATTAAAT
1202608 AATTTTATAAATTAAAT
1 AATTTTATAAATTAAAT
1202625 TTAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTTATAAATTAAAT
Found at i:1202725 original size:4 final size:4
Alignment explanation
Indices: 1202716--1202746 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1202706 CAAAATACAA
1202716 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1202747 AGATGAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1206516 original size:25 final size:26
Alignment explanation
Indices: 1206473--1206651 Score: 66
Period size: 25 Copynumber: 7.3 Consensus size: 26
1206463 ATAACAATTT
* *
1206473 TATATATAATTATGT-AAATATAATA
1 TATATAAAATTATATAAAATATAATA
* *
1206498 TATATAAAATTAT-TAAAATGTGATA
1 TATATAAAATTATATAAAATATAATA
**
1206523 TA-ATACGA-TATGATATAAATAT-ATA
1 TATATAAAATTAT-ATA-AAATATAATA
* *
1206548 -ATTTAAAATT-TATATAATATAA-A
1 TATATAAAATTATATAAAATATAATA
**
1206571 T-TATAGTA-TAT-TAAAAT-TAATA
1 TATATAAAATTATATAAAATATAATA
* *
1206593 TAAATATAAATT-TTTAAAATATAAT-
1 TATATA-AAATTATATAAAATATAATA
* * *
1206618 TTTAATAAAATAAAATAAAATA-AATA
1 TAT-ATAAAATTATATAAAATATAATA
1206644 -ATCATAAA
1 TAT-ATAAA
1206652 TAGGTGACGT
Statistics
Matches: 112, Mismatches: 24, Indels: 36
0.65 0.14 0.21
Matches are distributed among these distances:
21 3 0.03
22 8 0.07
23 17 0.15
24 12 0.11
25 52 0.46
26 20 0.18
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (26 bp):
TATATAAAATTATATAAAATATAATA
Found at i:1206588 original size:31 final size:30
Alignment explanation
Indices: 1206530--1206604 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 30
1206520 ATATAATACG
* *
1206530 ATATGATATAAA-TATATAATTTAAAATTT
1 ATATAATATAAATTATATAATTTAAAATTA
1206559 ATATAATATAAATTATAGT-ATATTAAAATTA
1 ATATAATATAAATTATA-TAAT-TTAAAATTA
1206590 ATATAAATATAAATT
1 ATAT-AATATAAATT
1206605 TTTAAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 11 0.28
30 6 0.15
31 13 0.32
32 10 0.25
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
ATATAATATAAATTATATAATTTAAAATTA
Found at i:1206614 original size:15 final size:16
Alignment explanation
Indices: 1206594--1206633 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1206584 AAATTAATAT
1206594 AAATATAAATTTT-TA
1 AAATATAAATTTTATA
1206609 AAATAT-AATTTTAATA
1 AAATATAAATTTT-ATA
1206625 AAATA-AAAT
1 AAATATAAAT
1206634 AAAATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.27
15 6 0.27
16 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATAAATTTTATA
Found at i:1206617 original size:26 final size:27
Alignment explanation
Indices: 1206559--1206617 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
1206549 TTTAAAATTT
*
1206559 ATATAATATAAATTATAGTATATTAAA
1 ATATAATATAAATTATAATATATTAAA
*
1206586 AT-TAATATAAA-TATAA-ATTTTTAAA
1 ATATAATATAAATTATAATA-TATTAAA
1206611 ATATAAT
1 ATATAAT
1206618 TTTAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.04
25 12 0.43
26 13 0.46
27 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
ATATAATATAAATTATAATATATTAAA
Found at i:1207092 original size:20 final size:21
Alignment explanation
Indices: 1207058--1207103 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1207048 TAATTCAATT
* *
1207058 AATAAAATTATTTAAAATTTA
1 AATAAAATTAATTAAAATTAA
*
1207079 AATAAAA-TAATTAATATTAA
1 AATAAAATTAATTAAAATTAA
1207099 AATAA
1 AATAA
1207104 TTACATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAAAATTAATTAAAATTAA
Found at i:1207101 original size:15 final size:16
Alignment explanation
Indices: 1207081--1207112 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1207071 AAAATTTAAA
1207081 TAAAATAATTA-ATAT
1 TAAAATAATTACATAT
1207096 TAAAATAATTACATAT
1 TAAAATAATTACATAT
1207112 T
1 T
1207113 TTTATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAATAATTACATAT
Found at i:1208681 original size:19 final size:19
Alignment explanation
Indices: 1208632--1208682 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
1208622 AGCTATCACA
1208632 GAATTTAAATATTTATAAT
1 GAATTTAAATATTTATAAT
* * *
1208651 -TATTTAATATATTTTTTAT
1 GAATTTAA-ATATTTATAAT
1208670 GAATTTAAATATT
1 GAATTTAAATATT
1208683 ACAAATTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 6 0.23
19 14 0.54
20 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (19 bp):
GAATTTAAATATTTATAAT
Found at i:1209968 original size:20 final size:20
Alignment explanation
Indices: 1209940--1209981 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1209930 ATGTTTTTTG
* *
1209940 TATTTTTTTAATTATATTAA
1 TATTATTTTAATTATAATAA
*
1209960 TATTATTTTATTTATAATAA
1 TATTATTTTAATTATAATAA
1209980 TA
1 TA
1209982 ATTTAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTATTTTAATTATAATAA
Found at i:1209983 original size:23 final size:23
Alignment explanation
Indices: 1209940--1209994 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
1209930 ATGTTTTTTG
* *
1209940 TATTTT-TTTAATTATATTAATAT
1 TATTTTATTTAATAATAATAAT-T
1209963 TATTTTATTT-ATAATAATAATT
1 TATTTTATTTAATAATAATAATT
1209985 TAATTTTATT
1 T-ATTTTATT
1209995 CAAAATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.07
23 23 0.82
24 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTTTATTTAATAATAATAATT
Found at i:1210615 original size:6 final size:6
Alignment explanation
Indices: 1210604--1210643 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
1210594 ATGTACACGA
*
1210604 ACGATG ACGATG TCGATG ACGATG ACGATG ACGATG ACGA
1 ACGATG ACGATG ACGATG ACGATG ACGATG ACGATG ACGA
1210644 CGATGATCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
ACGATG
Found at i:1216454 original size:12 final size:12
Alignment explanation
Indices: 1216434--1216466 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1216424 CCACCTCATT
1216434 TGACAATGACGA
1 TGACAATGACGA
*
1216446 TGACGATGACGA
1 TGACAATGACGA
1216458 TGACAATGA
1 TGACAATGA
1216467 TGGTGATGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.18
Consensus pattern (12 bp):
TGACAATGACGA
Found at i:1219902 original size:17 final size:15
Alignment explanation
Indices: 1219882--1219931 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 15
1219872 TAATAATTTT
1219882 TTTAATAAATTTGATAA
1 TTTAATAAATTT-A-AA
1219899 TTTAATAAATTTAAA
1 TTTAATAAATTTAAA
1219914 TTTAAATTAAATTTAAA
1 TTT-AA-TAAATTTAAA
1219931 T
1 T
1219932 ATAAATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.16
16 3 0.10
17 23 0.74
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TTTAATAAATTTAAA
Found at i:1219915 original size:6 final size:6
Alignment explanation
Indices: 1219904--1219937 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1219894 GATAATTTAA
*
1219904 TAAATT TAAATT TAAA-T TAAATT TAAATA TAAAT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAAT
1219938 AAAAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:1219925 original size:11 final size:11
Alignment explanation
Indices: 1219904--1219937 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
1219894 GATAATTTAA
1219904 TAAATTTAAATT
1 TAAA-TTAAATT
1219916 TAAATTAAATT
1 TAAATTAAATT
1219927 TAAATATAAAT
1 TAAAT-TAAAT
1219938 AAAAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAATTAAATT
Found at i:1219936 original size:17 final size:17
Alignment explanation
Indices: 1219904--1219937 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1219894 GATAATTTAA
*
1219904 TAAATTTAAATTTAAAT
1 TAAATTTAAATATAAAT
1219921 TAAATTTAAATATAAAT
1 TAAATTTAAATATAAAT
1219938 AAAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATATAAAT
Found at i:1220708 original size:19 final size:19
Alignment explanation
Indices: 1220684--1220730 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
1220674 TTTTTTAATA
1220684 TATTATAAATTATCAAATT
1 TATTATAAATTATCAAATT
* * *
1220703 TATTATTAATTATTATATT
1 TATTATAAATTATCAAATT
*
1220722 TAATATAAA
1 TATTATAAA
1220731 AAAATATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAAATTATCAAATT
Found at i:1220950 original size:15 final size:15
Alignment explanation
Indices: 1220930--1220959 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1220920 ATTTGCAAGG
*
1220930 TTTTTTTTTTTTAAA
1 TTTTTTTATTTTAAA
1220945 TTTTTTTATTTTAAA
1 TTTTTTTATTTTAAA
1220960 GCAACCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTTATTTTAAA
Found at i:1227310 original size:16 final size:16
Alignment explanation
Indices: 1227271--1227346 Score: 55
Period size: 16 Copynumber: 4.5 Consensus size: 16
1227261 AACTTGAATT
*
1227271 ATATTGAATTTAAATAA
1 ATATT-AATTTAATTAA
* *
1227288 TTTTTAATTTAATTAA
1 ATATTAATTTAATTAA
*
1227304 ATATTAA-TTAATAAA
1 ATATTAATTTAATTAA
*
1227319 AAATTTAAATTTAATTATAA
1 ATA-TT-AATTTAA-T-TAA
1227339 ATATTAAT
1 ATATTAAT
1227347 ATAAAAACAA
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
15 9 0.20
16 17 0.38
17 5 0.11
18 7 0.16
19 3 0.07
20 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (16 bp):
ATATTAATTTAATTAA
Found at i:1227330 original size:33 final size:35
Alignment explanation
Indices: 1227293--1227428 Score: 98
Period size: 35 Copynumber: 4.1 Consensus size: 35
1227283 AATAATTTTT
1227293 AATTTAA-T-TAAATATTAAT-TAATAAAAAATTTA
1 AATTTAATTATAAATATTAATATAA-AAAAAATTTA
*
1227326 AATTTAATTATAAATATTAATATAAAAACAATTT-
1 AATTTAATTATAAATATTAATATAAAAAAAATTTA
* *
1227360 --TTTAA-TAT-TATATTAAAAATAAAATAAAATATTA
1 AATTTAATTATAAATATT-AATATAAAA-AAAAT-TTA
**
1227394 AA-TTAATT-T-AAT-TTAAATATAAAAATTATTTA
1 AATTTAATTATAAATATT-AATATAAAAAAAATTTA
1227426 AAT
1 AAT
1227429 AACAATAGAT
Statistics
Matches: 84, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
30 5 0.06
31 11 0.13
32 14 0.17
33 12 0.14
34 12 0.14
35 26 0.31
36 4 0.05
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.43
Consensus pattern (35 bp):
AATTTAATTATAAATATTAATATAAAAAAAATTTA
Found at i:1227339 original size:12 final size:13
Alignment explanation
Indices: 1227301--1227351 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 13
1227291 TTAATTTAAT
1227301 TAAATATTAATTAA
1 TAAATATTAATT-A
1227315 TAAA-A--AATT-
1 TAAATATTAATTA
1227324 TAAAT-TTAATTA
1 TAAATATTAATTA
1227336 TAAATATTAA-TA
1 TAAATATTAATTA
1227348 TAAA
1 TAAA
1227352 AACAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
9 4 0.12
11 8 0.25
12 11 0.34
13 5 0.16
14 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATATTAATTA
Done.