Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 229 of 344
Found at i:75911217 original size:19 final size:20
Alignment explanation
Indices: 75911178--75911217 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
75911168 CTAAACTGAT
75911178 AACTTAGGAAATTTTTACAA
1 AACTTAGGAAATTTTTACAA
75911198 AACTTA-GAATATTTTT-CAA
1 AACTTAGGAA-ATTTTTACAA
75911217 A
1 A
75911218 CTACAAGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (20 bp):
AACTTAGGAAATTTTTACAA
Found at i:75922193 original size:14 final size:14
Alignment explanation
Indices: 75922176--75922203 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
75922166 TTGTTTTAAA
75922176 ATCCAAGTTTCTTC
1 ATCCAAGTTTCTTC
75922190 ATCCAAGTTTCTTC
1 ATCCAAGTTTCTTC
75922204 TGAATGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (14 bp):
ATCCAAGTTTCTTC
Found at i:75922413 original size:20 final size:20
Alignment explanation
Indices: 75922388--75922430 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
75922378 TACTCTTATT
75922388 TAAAGGTTGGACAAAGATTA
1 TAAAGGTTGGACAAAGATTA
75922408 TAAAGGTTGGACAAAGATTA
1 TAAAGGTTGGACAAAGATTA
75922428 TAA
1 TAA
75922431 GTAATTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.26
Consensus pattern (20 bp):
TAAAGGTTGGACAAAGATTA
Found at i:75934748 original size:12 final size:12
Alignment explanation
Indices: 75934731--75934771 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
75934721 TCCACAAATA
75934731 TTTAAAACAAAC
1 TTTAAAACAAAC
75934743 TTT---A-AAAC
1 TTTAAAACAAAC
75934751 TTTAAAACAAAC
1 TTTAAAACAAAC
75934763 TTTAAAACA
1 TTTAAAACA
75934772 CAAATACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
8 7 0.28
9 1 0.04
11 1 0.04
12 16 0.64
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (12 bp):
TTTAAAACAAAC
Found at i:75934754 original size:20 final size:20
Alignment explanation
Indices: 75934731--75934770 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
75934721 TCCACAAATA
75934731 TTTAAAACAAACTTTAAAAC
1 TTTAAAACAAACTTTAAAAC
75934751 TTTAAAACAAACTTTAAAAC
1 TTTAAAACAAACTTTAAAAC
75934771 ACAAATACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (20 bp):
TTTAAAACAAACTTTAAAAC
Found at i:75958630 original size:15 final size:15
Alignment explanation
Indices: 75958584--75958631 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
75958574 AGCTAGTAAT
75958584 TAAATGAAAAAAATATC
1 TAAATG-AAAAAA-ATC
75958601 T-AAT--AAAAAAT-
1 TAAATGAAAAAAATC
75958612 TAAATGAAAAAAATC
1 TAAATGAAAAAAATC
75958627 TAAAT
1 TAAAT
75958632 ATTGAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
11 1 0.04
12 5 0.19
13 5 0.19
14 7 0.26
15 5 0.19
16 3 0.11
17 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (15 bp):
TAAATGAAAAAAATC
Found at i:75960813 original size:16 final size:18
Alignment explanation
Indices: 75960794--75960834 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
75960784 AATTAATCAC
75960794 ATTTTAAAT-A-AAAATA
1 ATTTTAAATAATAAAATA
*
75960810 ATTTAAAATAATAAAATA
1 ATTTTAAATAATAAAATA
75960828 ATATTTA
1 AT-TTTA
75960835 TTGATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 1 0.05
18 8 0.40
19 3 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTTTAAATAATAAAATA
Found at i:75961072 original size:22 final size:21
Alignment explanation
Indices: 75961046--75961116 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 21
75961036 AGAGAAAATT
*
75961046 AATTATGATTTTAATGTATTAA
1 AATTATGA-ATTAATGTATTAA
75961068 AATTATTGAATTAATGTATTAA
1 AATTA-TGAATTAATGTATTAA
*
75961090 AATTATTGAATTAA-CTATTAA
1 AATTA-TGAATTAATGTATTAA
75961111 ATATTA
1 A-ATTA
75961117 AATTTAATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.16
22 35 0.78
23 3 0.07
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (21 bp):
AATTATGAATTAATGTATTAA
Found at i:75961495 original size:18 final size:18
Alignment explanation
Indices: 75961474--75961508 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
75961464 TTCAACTTCC
75961474 TAAAAAATTAAAATAAAA
1 TAAAAAATTAAAATAAAA
**
75961492 TAAAATTTTAAAATAAA
1 TAAAAAATTAAAATAAA
75961509 TGCTAATAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAAATTAAAATAAAA
Found at i:75970846 original size:7 final size:7
Alignment explanation
Indices: 75970836--75970882 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
75970826 ATATTTAATC
75970836 CTAATTA
1 CTAATTA
75970843 CTAATTA
1 CTAATTA
75970850 CTAATTA
1 CTAATTA
75970857 CTAATTA
1 CTAATTA
75970864 CTAATTA
1 CTAATTA
75970871 CTAATTA
1 CTAATTA
75970878 CTAAT
1 CTAAT
75970883 AACATAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.43
Consensus pattern (7 bp):
CTAATTA
Found at i:75973092 original size:22 final size:22
Alignment explanation
Indices: 75973067--75973109 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
75973057 CGTTTAAATC
* *
75973067 GATACTAAATCGAAACTACGTT
1 GATACTAAACCAAAACTACGTT
75973089 GATACTAAACCAAAACTACGT
1 GATACTAAACCAAAACTACGT
75973110 CGAAACAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (22 bp):
GATACTAAACCAAAACTACGTT
Found at i:75973355 original size:5 final size:5
Alignment explanation
Indices: 75973345--75973375 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
75973335 TTTTGGGGGA
75973345 AAAAT AAAAT AAAAT AAAAT CAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT
75973376 CCCCACTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:75973363 original size:16 final size:16
Alignment explanation
Indices: 75973345--75973375 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
75973335 TTTTGGGGGA
75973345 AAAAT-AAAATAAAAT
1 AAAATCAAAATAAAAT
75973360 AAAATCAAAATAAAAT
1 AAAATCAAAATAAAAT
75973376 CCCCACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATCAAAATAAAAT
Found at i:75973369 original size:11 final size:11
Alignment explanation
Indices: 75973345--75973376 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
75973335 TTTTGGGGGA
75973345 AAAATAAAAT-
1 AAAATAAAATC
75973355 AAAATAAAATC
1 AAAATAAAATC
75973366 AAAATAAAATC
1 AAAATAAAATC
75973377 CCCACTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAAAATC
Found at i:75979481 original size:10 final size:11
Alignment explanation
Indices: 75979466--75979494 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
75979456 TTTCGGGGGA
75979466 AAAATAAAAT-
1 AAAATAAAATC
75979476 AAAATAAAATC
1 AAAATAAAATC
75979487 AAAATAAA
1 AAAATAAA
75979495 CACCCCACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATC
Found at i:75979651 original size:34 final size:35
Alignment explanation
Indices: 75979604--75979670 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
75979594 ACACCATCAA
75979604 TTATGCAAATTTTTA-TAATT-TTTTTTATGAAAAT
1 TTATGCAAATTTTTATTAATTATTTTTT-TGAAAAT
* *
75979638 TTATGCAATTTTTTATTTATTATTTTTTTGAAA
1 TTATGCAAATTTTTATTAATTATTTTTTTGAAA
75979671 TTTTTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.48
35 9 0.31
36 6 0.21
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (35 bp):
TTATGCAAATTTTTATTAATTATTTTTTTGAAAAT
Found at i:75980175 original size:22 final size:20
Alignment explanation
Indices: 75980140--75980186 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
75980130 AAAGTATTTT
* *
75980140 TATTTAAATTTAATTATAAA
1 TATTTAAATTTAATAAAAAA
75980160 TATTATAAATATTAATAAAAAA
1 TATT-TAAAT-TTAATAAAAAA
75980182 TATTT
1 TATTT
75980187 TTATATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 6 0.26
22 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTTAAATTTAATAAAAAA
Found at i:75985346 original size:21 final size:20
Alignment explanation
Indices: 75985320--75985358 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
75985310 ATGTGTTTTG
75985320 ATGTTTAATGATAGATTATTA
1 ATGTTTAATGATAG-TTATTA
*
75985341 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
75985359 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATTA
Found at i:75993198 original size:21 final size:20
Alignment explanation
Indices: 75993172--75993210 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
75993162 ATGTGTTTTG
75993172 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
75993193 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
75993211 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:75997264 original size:39 final size:40
Alignment explanation
Indices: 75997164--75997348 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
75997154 GTGAATGATG
* * *
75997164 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
75997203 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
75997244 TTCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
75997283 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
75997322 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
75997349 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.28
40 76 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:75997370 original size:79 final size:79
Alignment explanation
Indices: 75997217--75997381 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
75997207 GGACTAAGAT
* ** **
75997217 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
75997282 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
75997296 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
75997359 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
75997375 CCGAAGG
1 CCGAAGG
75997382 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:76003151 original size:11 final size:11
Alignment explanation
Indices: 76003135--76003187 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
76003125 AGATAAATAT
76003135 TATTTTATTAA
1 TATTTTATTAA
*
76003146 TATTTTAATAA
1 TATTTTATTAA
* * *
76003157 GATATT-TTAT
1 TATTTTATTAA
*
76003167 TATTTTATTAT
1 TATTTTATTAA
76003178 TATTTTATTA
1 TATTTTATTA
76003188 GTATATAAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 6 0.18
11 28 0.82
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:76005024 original size:46 final size:46
Alignment explanation
Indices: 76004976--76005295 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
76004966 GCTCTCTGAA
* * * * *
76004976 ATGAAATGTGTAAGACCATGGTTGAAAGGTACCATGGCCATATGAA
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
76005022 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
76005068 ATGAAAAGAATAAGACCATGGTTCAGAGATACTATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
76005114 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
76005160 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
76005206 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
76005252 A-GAAAATGAGTAAGACCATAGTTGAAAGACACAATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
76005296 TCAAAGATAA
Statistics
Matches: 238, Mismatches: 35, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
45 1 0.00
46 237 1.00
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:76005226 original size:138 final size:138
Alignment explanation
Indices: 76004986--76005295 Score: 485
Period size: 138 Copynumber: 2.2 Consensus size: 138
76004976 ATGAAATGTG
* * *
76004986 TAAGACCATGGTTGAAAGGTACCATGGCCATATGAAATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAAATGAAATGTGTAAGACCATGGTTGAAAGA
* * *
76005051 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTCAGAGATACTATGGCAACATGACGG
66 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTCAAAGATACCATGGCAACATGACAG
*
76005116 GAAATGAA
131 AAAATGAA
* *
76005124 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAAATGAAATGTGTAAGACCATGGTTGAAAGA
*
76005189 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
66 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTCAAAGATACCATGGCAACATGACAG
*
76005254 AAAATGAG
131 AAAATGAA
* * * *
76005262 TAAGACCATAGTTGAAAGACACAATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
76005296 TCAAAGATAA
Statistics
Matches: 156, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 156 1.00
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGAAATGAAATGTGTAAGACCATGGTTGAAAGA
TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTCAAAGATACCATGGCAACATGACAG
AAAATGAA
Found at i:76008083 original size:26 final size:26
Alignment explanation
Indices: 76008047--76008097 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
76008037 CTTGAAATTT
*
76008047 AGATCTTGCCTAACCTCAATCTCCTC
1 AGATCTAGCCTAACCTCAATCTCCTC
*
76008073 AGATCTAGCCTAACTTCAATCTCCT
1 AGATCTAGCCTAACCTCAATCTCCT
76008098 TGTCGAGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.35, G:0.08, T:0.31
Consensus pattern (26 bp):
AGATCTAGCCTAACCTCAATCTCCTC
Found at i:76013392 original size:40 final size:40
Alignment explanation
Indices: 76013348--76013428 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
76013338 TAAATCGAGA
* *
76013348 ATTAGTGACGCTTTTCAAAAAACGCCGCTAAAGATCAAGC
1 ATTAGCGACGCTTTCCAAAAAACGCCGCTAAAGATCAAGC
* ** *
76013388 ATTAGCGGCGCTTTCCCGAAAACTCCGCTAAAGATCAAGC
1 ATTAGCGACGCTTTCCAAAAAACGCCGCTAAAGATCAAGC
76013428 A
1 A
76013429 AGCGCCGCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (40 bp):
ATTAGCGACGCTTTCCAAAAAACGCCGCTAAAGATCAAGC
Found at i:76013548 original size:40 final size:40
Alignment explanation
Indices: 76013484--76013616 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 40
76013474 GCTTTAGTGG
* * *
76013484 AAGATTGAGAATTAGCGACACTTTCTGAAAAACGCCGCTA
1 AAGATCGAGCATTAGCGGCACTTTCTGAAAAACGCCGCTA
* * * *
76013524 AAGATCGAGTATTAGTGGCGCTTTCTGAAAAACGCCACTA
1 AAGATCGAGCATTAGCGGCACTTTCTGAAAAACGCCGCTA
* * * *
76013564 AAGATTGAGCCTTAGCGGTACTTT-TCGAAAAACACCGCTA
1 AAGATCGAGCATTAGCGGCACTTTCT-GAAAAACGCCGCTA
76013604 AAGATCGAGCATT
1 AAGATCGAGCATT
76013617 TGCGACGTTT
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (40 bp):
AAGATCGAGCATTAGCGGCACTTTCTGAAAAACGCCGCTA
Found at i:76013939 original size:21 final size:21
Alignment explanation
Indices: 76013915--76013959 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
76013905 TGTTTTATTT
*
76013915 TTTTGTGATTAGAGTTCT-GAG
1 TTTTGGGATTAGAGTT-TAGAG
*
76013936 TTTTGGGTTTAGAGTTTAGAG
1 TTTTGGGATTAGAGTTTAGAG
76013957 TTT
1 TTT
76013960 GTAGTTTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.18, C:0.02, G:0.29, T:0.51
Consensus pattern (21 bp):
TTTTGGGATTAGAGTTTAGAG
Found at i:76013952 original size:14 final size:14
Alignment explanation
Indices: 76013933--76013974 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
76013923 TTAGAGTTCT
*
76013933 GAGTTTTGGGTTTA
1 GAGTTTAGGGTTTA
*
76013947 GAGTTTAGAGTTT-
1 GAGTTTAGGGTTTA
76013960 GTAGTTTAGGGTTTA
1 G-AGTTTAGGGTTTA
76013975 TTGTTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 22 0.96
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (14 bp):
GAGTTTAGGGTTTA
Found at i:76014194 original size:21 final size:21
Alignment explanation
Indices: 76014156--76014196 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
76014146 TTAGGGTGGA
*
76014156 GGTTTATGGTCTAAGATTTAT
1 GGTTTATGATCTAAGATTTAT
* *
76014177 GGTTTATGATTTAGGATTTA
1 GGTTTATGATCTAAGATTTA
76014197 GGGGTTTGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (21 bp):
GGTTTATGATCTAAGATTTAT
Found at i:76015089 original size:8 final size:8
Alignment explanation
Indices: 76015055--76015125 Score: 78
Period size: 8 Copynumber: 8.9 Consensus size: 8
76015045 TATATTTTAC
76015055 TTTAAAAA
1 TTTAAAAA
76015063 TTATAAAAA
1 TT-TAAAAA
76015072 TCTTCAAAAAA
1 T-TT--AAAAA
76015083 TTT-AAAA
1 TTTAAAAA
76015090 TTT-AAAA
1 TTTAAAAA
76015097 TTTAAAAA
1 TTTAAAAA
76015105 --TAAAAA
1 TTTAAAAA
76015111 TTTAAAAA
1 TTTAAAAA
76015119 TTTAAAA
1 TTTAAAA
76015126 CTTAAAACTT
Statistics
Matches: 56, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
6 6 0.11
7 14 0.25
8 19 0.34
9 8 0.14
10 3 0.05
11 6 0.11
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (8 bp):
TTTAAAAA
Found at i:76015104 original size:22 final size:22
Alignment explanation
Indices: 76015078--76015157 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 22
76015068 AAAATCTTCA
76015078 AAAAATTTAAAATTTAAAATTT
1 AAAAATTTAAAATTTAAAATTT
*
76015100 AAAAA-TAAAAATTTAAAAATTT
1 AAAAATTTAAAATTT-AAAATTT
* * *
76015122 -AAAACTTAAAACTTAAAACTT
1 AAAAATTTAAAATTTAAAATTT
* * *
76015143 AGAACTTTAATATTT
1 AAAAATTTAAAATTT
76015158 TAGTCCATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
21 18 0.39
22 28 0.61
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.36
Consensus pattern (22 bp):
AAAAATTTAAAATTTAAAATTT
Found at i:76015140 original size:14 final size:14
Alignment explanation
Indices: 76015079--76015149 Score: 70
Period size: 14 Copynumber: 5.0 Consensus size: 14
76015069 AAATCTTCAA
*
76015079 AAAATTTAAAATTT
1 AAAATTTAAAACTT
* *
76015093 AAAATTTAAAAATA
1 AAAATTTAAAACTT
*
76015107 AAAATTTAAAAATTT
1 AAAATTT-AAAACTT
*
76015122 AAAACTTAAAACTT
1 AAAATTTAAAACTT
* *
76015136 AAAACTTAGAACTT
1 AAAATTTAAAACTT
76015150 TAATATTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
14 38 0.78
15 11 0.22
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (14 bp):
AAAATTTAAAACTT
Found at i:76015143 original size:7 final size:7
Alignment explanation
Indices: 76015079--76015139 Score: 77
Period size: 7 Copynumber: 8.6 Consensus size: 7
76015069 AAATCTTCAA
76015079 AAAATTT
1 AAAATTT
76015086 AAAATTT
1 AAAATTT
76015093 AAAATTT
1 AAAATTT
* *
76015100 AAAAATA
1 AAAATTT
76015107 AAAATTT
1 AAAATTT
76015114 AAAAATTT
1 -AAAATTT
*
76015122 AAAACTT
1 AAAATTT
*
76015129 AAAACTT
1 AAAATTT
76015136 AAAA
1 AAAA
76015140 CTTAGAACTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
7 41 0.85
8 7 0.15
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (7 bp):
AAAATTT
Found at i:76015148 original size:7 final size:7
Alignment explanation
Indices: 76015079--76015149 Score: 61
Period size: 7 Copynumber: 10.0 Consensus size: 7
76015069 AAATCTTCAA
*
76015079 AAAATTT
1 AAAACTT
*
76015086 AAAATTT
1 AAAACTT
*
76015093 AAAATTT
1 AAAACTT
* *
76015100 AAAAATA
1 AAAACTT
*
76015107 AAAATTT
1 AAAACTT
*
76015114 AAAAATTT
1 -AAAACTT
76015122 AAAACTT
1 AAAACTT
76015129 AAAACTT
1 AAAACTT
76015136 AAAACTT
1 AAAACTT
*
76015143 AGAACTT
1 AAAACTT
76015150 TAATATTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
7 50 0.88
8 7 0.12
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (7 bp):
AAAACTT
Found at i:76015179 original size:46 final size:39
Alignment explanation
Indices: 76015134--76015217 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
76015124 AACTTAAAAC
*
76015134 TTAAAACTTAGAACTTTAATATTTTAGTCCATATTTCAG
1 TTAAAACTTAAAACTTTAATATTTTAGTCCATATTTCAG
76015173 TTAAAACTTAAAACTTTAATATTTTAGTCCATATTTCAG
1 TTAAAACTTAAAACTTTAATATTTTAGTCCATATTTCAG
76015212 TTAAAA
1 TTAAAA
76015218 AGTTCAATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (39 bp):
TTAAAACTTAAAACTTTAATATTTTAGTCCATATTTCAG
Found at i:76015706 original size:37 final size:37
Alignment explanation
Indices: 76015664--76015737 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
76015654 ATCCGATGAG
76015664 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
1 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
76015701 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
1 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
76015738 ATTGTGAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (37 bp):
TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
Found at i:76019109 original size:26 final size:26
Alignment explanation
Indices: 76019053--76019103 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
76019043 TTGGCATTTA
76019053 TTTTTGTCATTGATATTAGCTGCAGG
1 TTTTTGTCATTGATATTAGCTGCAGG
*
76019079 TTTTTGTCATTGGTATTAGCTGCAG
1 TTTTTGTCATTGATATTAGCTGCAG
76019104 TATTTTACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (26 bp):
TTTTTGTCATTGATATTAGCTGCAGG
Found at i:76023623 original size:120 final size:120
Alignment explanation
Indices: 76023422--76025364 Score: 3679
Period size: 120 Copynumber: 16.2 Consensus size: 120
76023412 TTTTCAAGTT
76023422 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* ** *
76023487 TAATATAAGAACATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76023542 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
76023607 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76023662 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
76023727 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
* * *
76023782 TTATATTTAATAATAATTATGTTAATTTATATTTTAGAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
** *
76023847 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76023902 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
76023967 TAATATAAGAATATTAATTATTAAGAATTTCATTAAAATATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76024022 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
76024087 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
*
76024142 TTATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
** *
76024207 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76024262 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
76024327 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76024382 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
76024447 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76024502 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
76024567 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76024622 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
76024687 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76024742 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
76024807 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76024862 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
76024927 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76024982 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
76025047 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76025102 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
76025167 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
* *
76025222 TTATATTTAATAATAATTATGTTAATTTATATTTTACAATATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
76025287 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
76025342 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
76025365 TAAATATGAT
Statistics
Matches: 1788, Mismatches: 35, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 1788 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
Found at i:76023781 original size:18 final size:17
Alignment explanation
Indices: 76023753--76023787 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
76023743 ATTATTAAGA
76023753 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
76023770 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
76023788 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:76024141 original size:18 final size:17
Alignment explanation
Indices: 76024113--76024147 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
76024103 ATTATTAAGA
76024113 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
76024130 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
76024148 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:76024621 original size:18 final size:17
Alignment explanation
Indices: 76024593--76024627 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
76024583 ATTATTAAGA
*
76024593 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
76024610 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
76024628 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:76024861 original size:18 final size:17
Alignment explanation
Indices: 76024833--76024867 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
76024823 ATTATTAAGA
*
76024833 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
76024850 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
76024868 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:76025221 original size:18 final size:17
Alignment explanation
Indices: 76025193--76025227 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
76025183 ATTATTAAGA
76025193 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
76025210 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
76025228 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:76025607 original size:16 final size:16
Alignment explanation
Indices: 76025582--76025650 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
76025572 GATTAGCTAT
*
76025582 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
*
76025598 TACAACTCTAATCCCAA
1 TACACCTCTAAT-CCAA
76025615 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
76025631 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
76025647 TACA
1 TACA
76025651 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
16 32 0.68
17 15 0.32
ACGTcount: A:0.39, C:0.35, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:76025625 original size:33 final size:32
Alignment explanation
Indices: 76025582--76025650 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
76025572 GATTAGCTAT
76025582 TACACATCTAATCCAATACAACTCTAATCCCAA
1 TACACATCTAATCCAATACAACTCTAAT-CCAA
* **
76025615 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACATCTAATCCAATACAACTCTAATCCAA
76025647 TACA
1 TACA
76025651 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 8 0.24
33 25 0.76
ACGTcount: A:0.39, C:0.35, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACATCTAATCCAATACAACTCTAATCCAA
Found at i:76027131 original size:39 final size:39
Alignment explanation
Indices: 76027086--76027354 Score: 439
Period size: 39 Copynumber: 6.9 Consensus size: 39
76027076 ATGCAAGACA
76027086 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
76027125 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
76027164 CTAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
76027203 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTA
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
76027242 CTGGAAATGTATTCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
76027281 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
76027320 CGGGAAATGTATCCGGGTTAAAGTCCCGTAGGCTT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
76027355 TGTACTGGTA
Statistics
Matches: 211, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 211 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:76031172 original size:37 final size:37
Alignment explanation
Indices: 76031122--76031195 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
76031112 ATCCGAGGAG
76031122 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
1 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
76031159 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
1 TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
76031196 ATTGTGAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (37 bp):
TAGGTTTGTAAATATTATATTTAATATTTATGAGTTA
Found at i:76033541 original size:39 final size:39
Alignment explanation
Indices: 76033496--76033764 Score: 448
Period size: 39 Copynumber: 6.9 Consensus size: 39
76033486 ATGCAAGACA
76033496 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
76033535 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
76033574 CTAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
76033613 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
76033652 CTGGAAATGTATTCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
76033691 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
76033730 CGGGAAATGTATCCGGGTTAAAGTCCCGTAGGCTT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
76033765 TGTACTGGTA
Statistics
Matches: 213, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 213 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:76038840 original size:17 final size:16
Alignment explanation
Indices: 76038818--76038849 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
76038808 TCTCATCTGG
76038818 TTATCTATTATTTTTCC
1 TTATCTATT-TTTTTCC
76038835 TTATCTATTTTTTTC
1 TTATCTATTTTTTTC
76038850 TTTTTTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATCTATTTTTTTCC
Found at i:76039628 original size:15 final size:16
Alignment explanation
Indices: 76039608--76039638 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
76039598 GTTTTTGTCT
76039608 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
76039623 TATATATGATCTAAAA
1 TATATATGATCTAAAA
76039639 GTAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:76040238 original size:13 final size:13
Alignment explanation
Indices: 76040220--76040245 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76040210 ACCAGTTTGA
76040220 TTTTGACATGAGT
1 TTTTGACATGAGT
76040233 TTTTGACATGAGT
1 TTTTGACATGAGT
76040246 CCCTTAAACA
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:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
TTTTGACATGAGT
Found at i:76040853 original size:16 final size:16
Alignment explanation
Indices: 76040832--76040882 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 16
76040822 TTATGGGTTT
76040832 ACTTTTTACTGATTTC
1 ACTTTTTACTGATTTC
*
76040848 AC-TTTTA-TGGGTTT-
1 ACTTTTTACT-GATTTC
76040862 ACTTTTTACTGATTTC
1 ACTTTTTACTGATTTC
76040878 ACTTT
1 ACTTT
76040883 GATTACAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 3 0.10
15 18 0.62
16 8 0.28
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.57
Consensus pattern (16 bp):
ACTTTTTACTGATTTC
Found at i:76040857 original size:30 final size:30
Alignment explanation
Indices: 76040822--76040882 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
76040812 AGTTTTTTTA
76040822 TTATGGGTTTACTTTTTACTGATTTCACTT
1 TTATGGGTTTACTTTTTACTGATTTCACTT
76040852 TTATGGGTTTACTTTTTACTGATTTCACTT
1 TTATGGGTTTACTTTTTACTGATTTCACTT
76040882 T
1 T
76040883 GATTACAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.57
Consensus pattern (30 bp):
TTATGGGTTTACTTTTTACTGATTTCACTT
Found at i:76040868 original size:15 final size:15
Alignment explanation
Indices: 76040822--76040869 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
76040812 AGTTTTTTTA
76040822 TTATGGGTTTACTTT
1 TTATGGGTTTACTTT
*
76040837 TTACT-GATTTCAC-TT
1 TTA-TGGGTTT-ACTTT
76040852 TTATGGGTTTACTTT
1 TTATGGGTTTACTTT
76040867 TTA
1 TTA
76040870 CTGATTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.17, C:0.10, G:0.15, T:0.58
Consensus pattern (15 bp):
TTATGGGTTTACTTT
Found at i:76041189 original size:2 final size:2
Alignment explanation
Indices: 76041182--76041216 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
76041172 TGTAATACTT
76041182 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
76041217 TTATGTATTA
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:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:76041612 original size:44 final size:44
Alignment explanation
Indices: 76041445--76041615 Score: 213
Period size: 44 Copynumber: 3.9 Consensus size: 44
76041435 TAATTTTTTT
* * *
76041445 AAAGGTCATGA-CTTTTAGCGGCGTTTGTAGGAAAAGTGTCGCTA
1 AAAGGTCATGATC-TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * *
76041489 AAA-GTCATGTTTTTTAGCGGCGTTTTTGGGAAAAGTGCCGCTA
1 AAAGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
*
76041532 AACA-GTCATGATCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTA
1 AA-AGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* *
76041576 AAAGGTCATGATCTTTAGTGGCGTTTCTGGGAAAAGCGCC
1 AAAGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCC
76041616 AAAGGTCATG
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
43 37 0.33
44 74 0.67
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (44 bp):
AAAGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
Found at i:76044421 original size:29 final size:29
Alignment explanation
Indices: 76044386--76044459 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
76044376 GTTGTGAGAT
* *
76044386 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
76044415 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
76044444 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
76044460 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:76047682 original size:21 final size:20
Alignment explanation
Indices: 76047657--76047695 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
76047647 ACCTACTCTA
76047657 CCACCCACTC-TCTCTCTTTGG
1 CCACCC-CTCTTCT-TCTTTGG
76047678 CCACCCCTCTTCTTCTTT
1 CCACCCCTCTTCTTCTTT
76047696 CTCCATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.08, C:0.49, G:0.05, T:0.38
Consensus pattern (20 bp):
CCACCCCTCTTCTTCTTTGG
Found at i:76049265 original size:40 final size:40
Alignment explanation
Indices: 76049183--76049400 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
76049173 AAGCCAAGTA
* * *
76049183 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* ** *
76049221 CCTTCGGGACATAGCCCGGATATAGTAACTCAAACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
76049261 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
76049301 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
76049341 CCTTCGGGACTTAGCTCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
76049382 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
76049401 TTATCATCCA
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 12 0.08
39 16 0.10
40 104 0.65
41 23 0.14
42 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:76052506 original size:27 final size:27
Alignment explanation
Indices: 76052491--76052550 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
76052481 GTGAGACTTT
76052491 GGTGCAAATAAATGATAATGACACATC
1 GGTGCAAATAAATGATAATGACACATC
* *
76052518 GGTGCAACTCAATGATAATGGAC-C-TC
1 GGTGCAAATAAATGATAAT-GACACATC
76052544 GGTGCAA
1 GGTGCAA
76052551 TTCAGTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 9 0.30
27 18 0.60
28 3 0.10
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (27 bp):
GGTGCAAATAAATGATAATGACACATC
Found at i:76052559 original size:26 final size:28
Alignment explanation
Indices: 76052491--76052564 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 28
76052481 GTGAGACTTT
* *
76052491 GGTGCAAATAAATGATAAT-GACACATC
1 GGTGCAACTCAATGATAATGGACACATC
76052518 GGTGCAACTCAATGATAATGGAC-C-TC
1 GGTGCAACTCAATGATAATGGACACATC
* *
76052544 GGTGCAATTCAGTGATAATGG
1 GGTGCAACTCAATGATAATGG
76052565 TTCTTCAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 21 0.50
27 18 0.43
28 3 0.07
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (28 bp):
GGTGCAACTCAATGATAATGGACACATC
Found at i:76058127 original size:18 final size:19
Alignment explanation
Indices: 76058104--76058139 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
76058094 ATTGTTTTCA
76058104 TACCTT-TAGGTATATCAC
1 TACCTTGTAGGTATATCAC
76058122 TACCTTGTAGGTATATCA
1 TACCTTGTAGGTATATCA
76058140 TTAATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (19 bp):
TACCTTGTAGGTATATCAC
Found at i:76059174 original size:21 final size:21
Alignment explanation
Indices: 76059150--76059202 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
76059140 CGTTGTTTCT
76059150 AATCTCACCGCTACAGT-ATCC
1 AATCTCACCGCTACAGTAAT-C
*
76059171 AATCTCACCGCTACAGTAATT
1 AATCTCACCGCTACAGTAATC
76059192 AATCTCACCGC
1 AATCTCACCGC
76059203 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAATC
Found at i:76060150 original size:37 final size:37
Alignment explanation
Indices: 76060086--76060242 Score: 199
Period size: 37 Copynumber: 4.0 Consensus size: 37
76060076 TACGTATGAT
*
76060086 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
76060122 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
76060159 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
76060202 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
76060242 C
1 C
76060243 GAAGCTATCA
Statistics
Matches: 107, Mismatches: 4, Indels: 19
0.82 0.03 0.15
Matches are distributed among these distances:
36 10 0.09
37 54 0.50
39 2 0.02
40 4 0.04
41 1 0.01
42 1 0.01
43 3 0.03
44 2 0.02
46 30 0.28
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:76060212 original size:46 final size:46
Alignment explanation
Indices: 76060159--76060473 Score: 405
Period size: 46 Copynumber: 6.6 Consensus size: 46
76060149 TAAGTGTAGC
* * **
76060159 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
76060205 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
76060251 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
76060303 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
76060355 CACTTATCACTTTGTTACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
76060401 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
76060447 TACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
76060474 AGTACTCAAA
Statistics
Matches: 249, Mismatches: 13, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
46 154 0.62
49 1 0.00
50 1 0.00
51 3 0.01
52 90 0.36
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:76060278 original size:52 final size:52
Alignment explanation
Indices: 76060202--76060467 Score: 349
Period size: 52 Copynumber: 5.3 Consensus size: 52
76060192 TAGCTAAAGC
* *
76060202 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
76060255 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
76060307 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
76060359 TATCAC---T---TTGTTACTTGATCAGATAAGTATAGCCGAAGCTATAACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
76060405 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
76060451 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
76060468 ATCAGAAGTA
Statistics
Matches: 191, Mismatches: 12, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
46 81 0.42
47 2 0.01
48 2 0.01
49 1 0.01
52 93 0.49
53 12 0.06
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:76063258 original size:46 final size:46
Alignment explanation
Indices: 76063181--76063285 Score: 174
Period size: 46 Copynumber: 2.3 Consensus size: 46
76063171 TGACAAGTGA
* * *
76063181 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAAAC
*
76063227 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAAAC
76063273 AAAGTGATAAGTG
1 AAAGTGATAAGTG
76063286 GCTACACTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAAAC
Found at i:76063321 original size:36 final size:37
Alignment explanation
Indices: 76063249--76063321 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
76063239 GATAGCTTTA
76063249 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
76063286 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
76063322 ATCATACGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 12 0.35
37 22 0.65
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:76069414 original size:32 final size:32
Alignment explanation
Indices: 76069378--76069441 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
76069368 ACATATTAGG
76069378 GAAAACGAAAGAGTCTGAACAACATAGGATAA
1 GAAAACGAAAGAGTCTGAACAACATAGGATAA
76069410 GAAAACGAAAGAGTCTGAACAACATAGGATAA
1 GAAAACGAAAGAGTCTGAACAACATAGGATAA
76069442 TGTTATCCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.53, C:0.12, G:0.22, T:0.12
Consensus pattern (32 bp):
GAAAACGAAAGAGTCTGAACAACATAGGATAA
Found at i:76071584 original size:92 final size:92
Alignment explanation
Indices: 76071469--76071652 Score: 350
Period size: 92 Copynumber: 2.0 Consensus size: 92
76071459 AAGACATGCA
76071469 ACGGTATATGATATGGGAAAAAATAGAAAATAACTTGAAACATGATTATGATATAATAAAATATA
1 ACGGTATATGATATGGGAAAAAATAGAAAATAACTTGAAACATGATTATGATATAATAAAATATA
* *
76071534 TGAATTATCAGGTATAAAATTCACTTT
66 TGAAGTATCAGGTATAAAACTCACTTT
76071561 ACGGTATATGATATGGGAAAAAATAGAAAATAACTTGAAACATGATTATGATATAATAAAATATA
1 ACGGTATATGATATGGGAAAAAATAGAAAATAACTTGAAACATGATTATGATATAATAAAATATA
76071626 TGAAGTATCAGGTATAAAACTCACTTT
66 TGAAGTATCAGGTATAAAACTCACTTT
76071653 CTCTTTGCTT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (92 bp):
ACGGTATATGATATGGGAAAAAATAGAAAATAACTTGAAACATGATTATGATATAATAAAATATA
TGAAGTATCAGGTATAAAACTCACTTT
Found at i:76077852 original size:12 final size:12
Alignment explanation
Indices: 76077832--76077866 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
76077822 TTAATAATAA
76077832 TTTATAAAAAAAT
1 TTTA-AAAAAAAT
76077845 TTTAAAAAAAAT
1 TTTAAAAAAAAT
76077857 TTTAAAAAAA
1 TTTAAAAAAA
76077867 GCTTACTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TTTAAAAAAAAT
Found at i:76077959 original size:21 final size:20
Alignment explanation
Indices: 76077933--76077989 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
76077923 AATGTAAGGA
76077933 ATAATAAATGTAGTAAAATTT
1 ATAATAAATGTA-TAAAATTT
*
76077954 ATAATATATG-ATAAAATTT
1 ATAATAAATGTATAAAATTT
76077973 ATAAATAAAATGTATAA
1 AT-AAT-AAATGTATAA
76077990 TAATATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 10 0.32
20 4 0.13
21 13 0.42
22 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
ATAATAAATGTATAAAATTT
Found at i:76080203 original size:44 final size:44
Alignment explanation
Indices: 76079658--76080195 Score: 788
Period size: 44 Copynumber: 12.2 Consensus size: 44
76079648 CAAATGTGAG
* * * *
76079658 ATCTGCTATCTTCGATATGCTCTCTGTCAATACAGAAACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
76079702 ATCTGTTATCTTTGATCTGCTCTCTGCCAATATAGACACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
76079746 ATCTGCTATCTTCGATATGCTTTCTGACAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* *
76079790 ATCTGTTATCTTCGATCTGCTCTCTGAAAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * * *
76079834 ATTTGTCATCTTCGATCTGCTCTCTGACAATATAGAGACACCGA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* *
76079878 ATCTGTCATCTTCGATCTGCTCTTTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
*
76079922 ATCTGTTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
*
76079966 ATCTGTCATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
76080010 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
76080054 ATCTATCATCTTCGATCTGCTCTCTGAGAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
76080098 ATCTGTTATCTTCGATCTACTCTCTGACAATACAGATACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* **
76080142 ATCTGTCATCTTCGATCTGCTCTCTGTTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
76080186 ATCTGTTATC
1 ATCTGTTATC
76080196 GGTGATCTAC
Statistics
Matches: 444, Mismatches: 50, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 444 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
Found at i:76085460 original size:40 final size:40
Alignment explanation
Indices: 76085376--76085560 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
76085366 TCGAATGATG
* *
76085376 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTTAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
76085415 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
76085456 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
76085495 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AT
* * *
76085535 ACCGAGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
76085561 AATGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 34 0.27
40 80 0.64
41 11 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:76085512 original size:79 final size:81
Alignment explanation
Indices: 76085376--76085558 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
76085366 TCGAATGATG
* * * *
76085376 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTTAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
76085440 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTACA
**
76085455 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGAT-CCGAAGGCA
76085517 TTTGTGCGAGTTACTACA
64 TTTGTGCGAGTTACTACA
* * *
76085535 ACCGAGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
76085559 TGAATGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTACA
Found at i:76085582 original size:79 final size:78
Alignment explanation
Indices: 76085410--76085583 Score: 192
Period size: 79 Copynumber: 2.2 Consensus size: 78
76085400 GTGCTTAGTG
* * *
76085410 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGG
**
76085475 CATTGGTGCGAGTC
65 CATTGGAACGAGTC
* *
76085489 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTACA-ACCGAGCTATGTCCCGA
1 ACTATATCC-GGTTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATACCGAGCTAAG-CCCGA
* *
76085552 AGGCATTTGAATGAGT-
62 AGGCATTGGAACGAGTC
76085568 AGCTATATCCGGTTAA
1 A-CTATATCCGGTTAA
76085584 ATTCTGAAGG
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
78 1 0.01
79 52 0.65
80 27 0.34
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (78 bp):
ACTATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGC
ATTGGAACGAGTC
Found at i:76095044 original size:23 final size:23
Alignment explanation
Indices: 76095017--76095084 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
76095007 AAATCACACA
76095017 ATATACATTAACATTTCATGCAT
1 ATATACATTAACATTTCATGCAT
* * ** *
76095040 ATATA-ATCACAAATAACATGAAT
1 ATATACATTA-ACATTTCATGCAT
* *
76095063 ATACACATTATCATTTCATGCA
1 ATATACATTAACATTTCATGCA
76095085 AAAATACAAA
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
22 3 0.10
23 25 0.81
24 3 0.10
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATACATTAACATTTCATGCAT
Found at i:76095688 original size:12 final size:13
Alignment explanation
Indices: 76095671--76095716 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
76095661 AACAAAATGT
76095671 ATAATAAT-ATAA
1 ATAATAATAATAA
*
76095683 ATAAT-ATAATGA
1 ATAATAATAATAA
76095695 ATAATATATAATAA
1 ATAATA-ATAATAA
*
76095709 AAAATAAT
1 ATAATAAT
76095717 CTATATACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 2 0.07
12 13 0.46
13 2 0.07
14 11 0.39
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAATAATAATAA
Found at i:76095692 original size:17 final size:16
Alignment explanation
Indices: 76095670--76095716 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
76095660 AAACAAAATG
76095670 TATAATAATATAAATAA
1 TATAATAA-ATAAATAA
*
76095687 TATAATGAAT-AAT-A
1 TATAATAAATAAATAA
76095701 TATAATAAA-AAATAA
1 TATAATAAATAAATAA
76095716 T
1 T
76095717 CTATATACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 12 0.46
15 5 0.19
16 2 0.08
17 7 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
TATAATAAATAAATAA
Found at i:76101543 original size:40 final size:40
Alignment explanation
Indices: 76101499--76101687 Score: 166
Period size: 40 Copynumber: 4.7 Consensus size: 40
76101489 GGATATAGCT
* * * *
76101499 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATACCTTCGGGACTTAGCCCGGTTATAGTA
* *
76101539 ACTCGCACAATTACCTTCGGGACTTAGCCCAGATT-TAGTA
1 ACTCGCACAAATACCTTCGGGACTTAGCCC-GGTTATAGTA
* * * * *
76101579 ATTCGCAAAAATACCTTCGAGACGT-GCCCGGATATAGTA
1 ACTCGCACAAATACCTTCGGGACTTAGCCCGGTTATAGTA
* ** *
76101618 ACTTGCACAAAGGCCTTCGGGACTTAGCCCGGGATATAGTA
1 ACTCGCACAAATACCTTCGGGACTTAGCCC-GGTTATAGTA
* * * * *
76101659 GCTCGTACGAATGCCTTCGAGACTTAGCC
1 ACTCGCACAAATACCTTCGGGACTTAGCC
76101688 TGGAATTAGC
Statistics
Matches: 119, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
38 2 0.02
39 27 0.23
40 54 0.45
41 36 0.30
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATACCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:76103081 original size:10 final size:10
Alignment explanation
Indices: 76103053--76103089 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
76103043 AACATGAGAG
76103053 CTTTCTTTTT
1 CTTTCTTTTT
* *
76103063 ATTTTTTTTT
1 CTTTCTTTTT
76103073 CTTTCTTTTT
1 CTTTCTTTTT
76103083 CTTTCTT
1 CTTTCTT
76103090 CTATTCGGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:76105071 original size:16 final size:16
Alignment explanation
Indices: 76105044--76105114 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
76105034 GTTTGGTTCA
*
76105044 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
* *
76105060 CTATAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
76105076 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
76105092 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
76105108 CTGTAAT
1 CTGTAAT
76105115 CAGTAATTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:76105297 original size:25 final size:26
Alignment explanation
Indices: 76105269--76105320 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
76105259 ATAATTATTG
*
76105269 TTATTGTT-ATTAAATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
*
76105294 TTATTGTTAAATATATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
76105320 T
1 T
76105321 AAAAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (26 bp):
TTATTGTTAAATAAATTTTAATAAAA
Found at i:76105445 original size:58 final size:59
Alignment explanation
Indices: 76105280--76105457 Score: 170
Period size: 60 Copynumber: 3.1 Consensus size: 59
76105270 TATTGTTATT
* * * * * * * *
76105280 AAATTTTAATAAAATTATTGTTAAATATATTTTAATAAAATAAAAATAAATAATTTAATC
1 AAATTTTAATATAATCATTATTAAATACAATTTAATAAAAT-ATAATATATAATTTAATA
* *
76105340 ATATTTTAATATAATTATTATTAAATACAATTTAATAAAATAT--TATATAATTTAATA
1 AAATTTTAATATAATCATTATTAAATACAATTTAATAAAATATAATATATAATTTAATA
* *
76105397 AAATTCTTAATATAATCATTATTATAT-GAA-TTAA-AAAATCATAATATATAATATT-ATA
1 AAATT-TTAATATAATCATTATTAAATACAATTTAATAAAAT-ATAATATATAAT-TTAATA
76105455 AAA
1 AAA
76105458 ATAATATATA
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
55 5 0.05
56 6 0.06
57 18 0.18
58 33 0.33
59 3 0.03
60 36 0.36
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (59 bp):
AAATTTTAATATAATCATTATTAAATACAATTTAATAAAATATAATATATAATTTAATA
Found at i:76105452 original size:23 final size:21
Alignment explanation
Indices: 76105426--76105468 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
76105416 TATTATATGA
76105426 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
76105449 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
76105469 CCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:76111097 original size:18 final size:18
Alignment explanation
Indices: 76111074--76111109 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
76111064 ATTTGGGCAT
76111074 TGTTCATCAAAGTTCTTG
1 TGTTCATCAAAGTTCTTG
76111092 TGTTCATCAAAGTTCTTG
1 TGTTCATCAAAGTTCTTG
76111110 GAAATTGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (18 bp):
TGTTCATCAAAGTTCTTG
Found at i:76120631 original size:57 final size:58
Alignment explanation
Indices: 76120561--76120669 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 58
76120551 AAATTCACAT
* *
76120561 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCAAAACC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCAAAACC
* * *
76120618 ACCTGTATATGGCCCATTATGCCCAAATCACATTTATATGGCCCGTTAGGCC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCC
76120670 CAGTCACATT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 22 0.48
58 24 0.52
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCAAAACC
Found at i:76120670 original size:29 final size:28
Alignment explanation
Indices: 76120570--76120679 Score: 112
Period size: 29 Copynumber: 3.9 Consensus size: 28
76120560 TACCTGTATC
* * *
76120570 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTTATA
* * * *
76120598 TGGCCCATTAGGCCAAAACCACCTGTATA
1 TGGCCCATTAGGCC-CAATCACATTTATA
*
76120627 TGGCCCATTATGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTTATA
* *
76120656 TGGCCCGTTAGGCCCAGTCACATT
1 TGGCCCATTAGGCCCAATCACATT
76120680 CACATTCATG
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
28 21 0.32
29 44 0.68
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTTATA
Found at i:76128419 original size:17 final size:18
Alignment explanation
Indices: 76128397--76128442 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
76128387 TGCCCATTAT
76128397 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
76128414 GGGCCCATTTAGCCCATTC
1 GGGCCCATATAGCCCA-TC
*
76128433 TGGCCCATAT
1 GGGCCCATAT
76128443 GGCCAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.29
18 7 0.29
19 10 0.42
ACGTcount: A:0.20, C:0.37, G:0.22, T:0.22
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:76129845 original size:16 final size:16
Alignment explanation
Indices: 76129824--76129856 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
76129814 AAAAATTCAA
76129824 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
76129840 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
76129856 G
1 G
76129857 GGCGTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.27, T:0.48
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:76130384 original size:13 final size:13
Alignment explanation
Indices: 76130366--76130391 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76130356 ATATTATAAT
76130366 TATTTTATGTTAA
1 TATTTTATGTTAA
76130379 TATTTTATGTTAA
1 TATTTTATGTTAA
76130392 AAATAAAAGT
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:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:76131807 original size:40 final size:40
Alignment explanation
Indices: 76131759--76131962 Score: 351
Period size: 40 Copynumber: 5.2 Consensus size: 40
76131749 GGACTAAGAT
*
76131759 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
76131799 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
76131839 CCGAAGGCATTTGTGCTA-TTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
*
76131878 CCGAAGGCATCTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* *
76131918 CCGAAGGCATTTGTGCGAGTT-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
76131956 CCGAAGG
1 CCGAAGG
76131963 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
38 15 0.09
39 46 0.29
40 97 0.61
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:76131884 original size:79 final size:80
Alignment explanation
Indices: 76131759--76131962 Score: 351
Period size: 79 Copynumber: 2.6 Consensus size: 80
76131749 GGACTAAGAT
* *
76131759 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTTACTA
76131824 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
76131839 CCGAAGGCATTTGTGCTA-TTACTATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTTACTA
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTTACTA
76131903 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
* *
76131918 CCGAAGGCATTTGTGCGAGTT-CTATATCC-GGCTAAATCCCGAAGG
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGG
76131963 TACTTGGGTT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
78 15 0.13
79 84 0.71
80 20 0.17
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTTACTA
TATCCGGGCTAAGTC
Found at i:76152331 original size:28 final size:28
Alignment explanation
Indices: 76152295--76152398 Score: 172
Period size: 28 Copynumber: 3.7 Consensus size: 28
76152285 TAGCCCCTTT
*
76152295 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGTCCATC
*
76152323 GGGCCCAATCACATTCATATGGTCCATC
1 AGGCCCAATCACATTCATATGGTCCATC
* *
76152351 AGACCCAATCACATTCATATGGTCCGTC
1 AGGCCCAATCACATTCATATGGTCCATC
76152379 AGGCCCAATCACATTCATAT
1 AGGCCCAATCACATTCATAT
76152399 TCATGCAATC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGTCCATC
Found at i:76165487 original size:43 final size:43
Alignment explanation
Indices: 76165439--76165599 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 43
76165429 TCTGATTACA
*
76165439 TGTAAGACCATGTCTGGGACATTGGCATTGTATTAAGAATACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTAAGAATACG
* * *
76165482 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCA-ATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTAAGAATACG
* * * *
76165525 TTTAAGA-CACTGTCTGGGACAGTGGCATCG-A-TATGTAATAACT
1 TGTAAGACCA-TGTCTGGGACATTGGCATCGTATTAAG-AAT-ACG
* * *
76165568 TGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT
76165600 GAGCTTATGT
Statistics
Matches: 95, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 11 0.12
43 75 0.79
44 7 0.07
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTAAGAATACG
Found at i:76171881 original size:67 final size:64
Alignment explanation
Indices: 76171737--76171921 Score: 187
Period size: 64 Copynumber: 2.9 Consensus size: 64
76171727 CATATAGTTC
* * * * * * *
76171737 AGCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCG
1 AGCTCTCTTCT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACA-TATATCCCG
76171799 T
64 T
* * * *
76171800 AGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCC
1 AGCTCTCTTCTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCC
76171865 GT
63 GT
* *
76171867 AGCTCTCTTCTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 AGCTCTCTTCTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
76171922 CATAATGTCT
Statistics
Matches: 102, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 29 0.28
66 23 0.23
67 28 0.27
68 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (64 bp):
AGCTCTCTTCTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGT
Found at i:76172690 original size:30 final size:30
Alignment explanation
Indices: 76172656--76172716 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
76172646 TCCTTAACTC
76172656 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
76172686 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
76172716 A
1 A
76172717 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:76181708 original size:583 final size:584
Alignment explanation
Indices: 76180445--76181728 Score: 1704
Period size: 583 Copynumber: 2.2 Consensus size: 584
76180435 ACCAATCATA
* * * * * *
76180445 TTGTTCCTAATACGAGCCTATAAGGCCCAAAACATGCATTCGG-GGAAGCTCAAGACTAAACTAA
1 TTGTCCCTAATACGAGCCTACAAGGCCCTAAACATACATTCGGAGTAA-CTCAGGACTAAACTAA
* * * * * *
76180509 TAACTT-AGAAACTTTTAGAACACTTAGAAA-ATTTTCTCAAAAATAGGGGACACACACCCGTAT
65 TAACTTAAGAAACTTTCACAA-ACTTTGAAATTTTTTCTC-AAAACAGGGGACACACACCCATAT
* * * * *
76180572 AGCCCAGTCGTGTTTCTCACACAGCCAAAGACACACCAGTGTCACAGGCCGTGTGGATATTCGAA
128 AGCCCAGCCGTGTGTCTCACACAGCCAAAGACACACCAGTGTCACAAGACGTGTGGACATTCGAA
* ** * * *
76180637 ATGGGAGCACATGGTCGCGTCCCAGCCTGTGTCTGATCCCGTATAACTATTTGACTTGGGTCACA
193 ATGGGAGCACATGGTCGCGTCCCAGCCTATGTCCAACCCCATATAACTATCTGACTTGGGTCACA
* * * * * **
76180702 TGGCCAACACACACGCCTGTGTGGCTAGCCCGTGTGCCCTAAAAATGGCCACACATGCCCGTATG
258 CGGCCAACACACACACCTGTATGGCTAGCCCATGTGCCCTAAAAATGGCCACACACGCCAATATG
* * * * * * * *
76180767 CTAGGTCGTGTGCTAGGCTGTGCCAAAACTGTAGGGTATACGGACTTATGCCATACGGCCAAGTT
323 CCAGGTCGTATGCTAGGCTATGCCAAAACTATAGGGTATACGAACTTATGCCACACGACCAAGTC
* * *
76180832 ACACACCCGTGTGTGAGGCTATATGGAGCATACTGAATCGATTTTTAATTCAACACCAGGGACAC
388 ACACACCCATGTGTGAGGCCATATGAAGCATACTGAATCGATTTTTAATTCAACACCAGGGACAC
* * *
76180897 ATTACAACACCCTTCACTCGTATTCAAAGCCAAAATAGGGTTACAAAGCATTACCAGACTTACAA
453 ACTACAACACCCCTCACCCGTATTCAAAGCCAAAATAGGGTTACAAAGCATTACCAGACTTACAA
* * *
76180962 CACATTTAAACATAGTTTTCTCAAACATTTAATCAATACATACAATCATCATTCAATCTCAGTCA
518 CACATTTAAACATACTTTTCTCAAACATTTAATCAATACATACAATCATCATTCAATCTAAATCA
76181027 AT
583 AT
* * * *
76181029 TTGTCCCTAATACGAGCCTACAAGG-CCTAAACATACATTGGGAGTGATTCAGGACTAAACTGAT
1 TTGTCCCTAATACGAGCCTACAAGGCCCTAAACATACATTCGGAGTAACTCAGGACTAAACTAAT
* * * * * *
76181093 AAATTAAGAAACTTTCACGAACTTTTAAATTTTTTCTCAAAACAGGGGACACACGCCCATGT-GG
66 AACTTAAGAAACTTTCACAAACTTTGAAATTTTTTCTCAAAACAGGGGACACACACCCATATAGC
* * * * *
76181157 CGAGGCCGTGTGTCTCACACGGCCACCAGACACTCCCGTGTCACAAGACGTGTGGACATTCGAAA
131 CCA-GCCGTGTGTCTCACACAGCCA-AAGACACACCAGTGTCACAAGACGTGTGGACATTCGAAA
* * *
76181222 TGGGAGCACATGG-C-CGTCTCCAAGCCTATGTCCAACCCCATGTAACTCTCTGACTTTGGTCAC
194 TGGGAGCACATGGTCGCGTC-CC-AGCCTATGTCCAACCCCATATAACTATCTGACTTGGGTCAC
* *
76181285 ACGGCCAACACACACACCTGTATGGCTTGCCCATGTGCCCTAAAAATGGCCACACACGCCAATGT
257 ACGGCCAACACACACACCTGTATGGCTAGCCCATGTGCCCTAAAAATGGCCACACACGCCAATAT
* *
76181350 GCCAGGTCGTATGCTAGGC-ATGCCAAACCTATAGGGTATACTAACTTATGCCACACGACCAAGT
322 GCCAGGTCGTATGCTAGGCTATGCCAAAACTATAGGGTATACGAACTTATGCCACACGACCAAGT
* * * * *
76181414 CACAGACCCATGTGTGAGGCCGTGTGAAGCATACTGACTTGATTTTTAATTCAACACCAGGGACA
387 CACACACCCATGTGTGAGGCCATATGAAGCATACTGAATCGATTTTTAATTCAACACCAGGGACA
* ** ** *
76181479 CACT-CAACACCCCTCACCCGTATTCAACGCTGAAATAGGGTTACGGAGCATTACCGGACTTACA
452 CACTACAACACCCCTCACCCGTATTCAAAGCCAAAATAGGGTTACAAAGCATTACCAGACTTACA
76181543 ACACATTTAAACATACTTTTCTCAAACATTTAATCAATACATACAATCATCATTCAATCTAAATC
517 ACACATTTAAACATACTTTTCTCAAACATTTAATCAATACATACAATCATCATTCAATCTAAATC
76181608 AAT
582 AAT
* *
76181611 TTGTCCCTAATACGAGCCTACGAGGCCCTAAACATACATTTGGAGTAACTCAGGACTAAACTAAT
1 TTGTCCCTAATACGAGCCTACAAGGCCCTAAACATACATTCGGAGTAACTCAGGACTAAACTAAT
76181676 AACTTAAGAAACTTTCACAAACTTTGAAATTTTTTCTCAAAACAGGGGACACA
66 AACTTAAGAAACTTTCACAAACTTTGAAATTTTTTCTCAAAACAGGGGACACA
76181729 TGCCTGTGTA
Statistics
Matches: 604, Mismatches: 88, Indels: 17
0.85 0.12 0.02
Matches are distributed among these distances:
582 148 0.25
583 262 0.43
584 194 0.32
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (584 bp):
TTGTCCCTAATACGAGCCTACAAGGCCCTAAACATACATTCGGAGTAACTCAGGACTAAACTAAT
AACTTAAGAAACTTTCACAAACTTTGAAATTTTTTCTCAAAACAGGGGACACACACCCATATAGC
CCAGCCGTGTGTCTCACACAGCCAAAGACACACCAGTGTCACAAGACGTGTGGACATTCGAAATG
GGAGCACATGGTCGCGTCCCAGCCTATGTCCAACCCCATATAACTATCTGACTTGGGTCACACGG
CCAACACACACACCTGTATGGCTAGCCCATGTGCCCTAAAAATGGCCACACACGCCAATATGCCA
GGTCGTATGCTAGGCTATGCCAAAACTATAGGGTATACGAACTTATGCCACACGACCAAGTCACA
CACCCATGTGTGAGGCCATATGAAGCATACTGAATCGATTTTTAATTCAACACCAGGGACACACT
ACAACACCCCTCACCCGTATTCAAAGCCAAAATAGGGTTACAAAGCATTACCAGACTTACAACAC
ATTTAAACATACTTTTCTCAAACATTTAATCAATACATACAATCATCATTCAATCTAAATCAAT
Found at i:76186113 original size:21 final size:20
Alignment explanation
Indices: 76186082--76186122 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
76186072 ATAAAACTTG
76186082 TATAACTATCATCAAACATT
1 TATAACTATCATCAAACATT
*
76186102 TATAATCTATCATCAATCATT
1 TATAA-CTATCATCAAACATT
76186123 AAAATACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (20 bp):
TATAACTATCATCAAACATT
Found at i:76186799 original size:26 final size:26
Alignment explanation
Indices: 76186770--76186825 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
76186760 TGATACAAAT
76186770 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76186796 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76186822 TGAT
1 TGAT
76186826 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:76196383 original size:53 final size:53
Alignment explanation
Indices: 76196292--76196397 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
76196282 ACGCAACTTG
*
76196292 TAACACCCCTAACCCGTATCCGTCGCTAGAATAGGGTTACGAGGCATTACCTA
1 TAACACCCCTAACCCGTATCCGTCGCTAGAATAAGGTTACGAGGCATTACCTA
* * *
76196345 TAACACCCCTAACCCGTATCTGTCGCTGGATTAAGGTTACGAGGCATTACCTA
1 TAACACCCCTAACCCGTATCCGTCGCTAGAATAAGGTTACGAGGCATTACCTA
76196398 ACATAAGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (53 bp):
TAACACCCCTAACCCGTATCCGTCGCTAGAATAAGGTTACGAGGCATTACCTA
Found at i:76199191 original size:68 final size:67
Alignment explanation
Indices: 76199114--76199263 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
76199104 CATCACGTGT
* * * *
76199114 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
76199176 ATGTAG
62 ATGTAG
** * *
76199182 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
76199247 AG
66 AG
76199249 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
76199264 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:76199219 original size:64 final size:64
Alignment explanation
Indices: 76199138--76199321 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
76199128 AGACATTATG
* *
76199138 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
76199202 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
76199267 AA
63 AA
* * * *
76199269 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
76199322 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:76203665 original size:64 final size:64
Alignment explanation
Indices: 76203515--76203766 Score: 224
Period size: 68 Copynumber: 3.9 Consensus size: 64
76203505 ATACAGATGG
* ** * * * * * *
76203515 TATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA
76203579 TTA
63 -TA
* *
76203582 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * *
76203647 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGACACCATGTAGACAAGAGAGCTACGAGAT
1 TATGTAGCTAGGTCGCATGGGTGGTACTAAGTG--TACACCATGTAGACAAGAGAGCTACGAGAT
76203712 A
64 A
* * * *
76203713 AACTG--GCTCGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
76203767 CGAACTATAT
Statistics
Matches: 154, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 27 0.18
65 25 0.16
66 34 0.22
67 3 0.02
68 45 0.29
69 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:76203700 original size:66 final size:65
Alignment explanation
Indices: 76203560--76203712 Score: 191
Period size: 66 Copynumber: 2.3 Consensus size: 65
76203550 CATCATGTGT
* * * * *
76203560 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TATGATGTAGCTAGGTCGCATGCGTGATACCAAGTGGACACCATG
76203625 TAG
63 TAG
* *
76203628 ACAAGAGAGCTACGAGATAT-ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGACACCATGT
1 ACAAGAGAGCTACGAGATATGATGTAGCTAGGTCGCATGCGTGATACCAAGTG--GACACCATGT
76203692 AG
64 AG
76203694 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
76203713 AACTGGCTCG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
64 27 0.36
65 3 0.04
66 33 0.43
68 13 0.17
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (65 bp):
ACAAGAGAGCTACGAGATATGATGTAGCTAGGTCGCATGCGTGATACCAAGTGGACACCATGTAG
Found at i:76209553 original size:16 final size:16
Alignment explanation
Indices: 76209532--76209562 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
76209522 ATATATTTTC
*
76209532 ATTTGCATCATATATA
1 ATTTGCATCACATATA
76209548 ATTTGCATCACATAT
1 ATTTGCATCACATAT
76209563 CAAATAACCA
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:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATCACATATA
Found at i:76221945 original size:56 final size:56
Alignment explanation
Indices: 76221859--76222034 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
76221849 ACAAGGGATG
*
76221859 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
76221915 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
76221971 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
76222027 ATGAGCAA
1 ATGGGCAA
76222035 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:76223392 original size:40 final size:40
Alignment explanation
Indices: 76223161--76223385 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
76223151 TCAAATGATG
* * * *
76223161 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
76223201 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
76223241 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
76223280 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
76223320 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
76223361 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
76223386 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:76223407 original size:119 final size:119
Alignment explanation
Indices: 76223168--76223418 Score: 278
Period size: 119 Copynumber: 2.1 Consensus size: 119
76223158 ATGTCCGGGC
*
76223168 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* ** *
76223233 ATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCTCGGT
* * * **
76223287 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * * *
76223350 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGGT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCTCGGT
* *
76223406 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
76223419 TACGTGATTT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 78 0.70
120 30 0.27
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCTCGGT
Found at i:76230058 original size:56 final size:56
Alignment explanation
Indices: 76229972--76230078 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 56
76229962 GCGTCACAGT
76229972 CGCTAAAAAAATCCATATCTCTAGTTACGAAACTTGAAATCCAATAATGTATCTGA
1 CGCTAAAAAAATCCATATCTCTAGTTACGAAACTTGAAATCCAATAATGTATCTGA
**
76230028 CGCTAAAAAAATCCATATCTCTAGTTACGAAACTTTTAATCCAATAATGTA
1 CGCTAAAAAAATCCATATCTCTAGTTACGAAACTTGAAATCCAATAATGTA
76230079 AATTTTCCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (56 bp):
CGCTAAAAAAATCCATATCTCTAGTTACGAAACTTGAAATCCAATAATGTATCTGA
Found at i:76231331 original size:46 final size:46
Alignment explanation
Indices: 76231209--76231342 Score: 164
Period size: 46 Copynumber: 2.9 Consensus size: 46
76231199 TGTAACCCGC
*
76231209 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGAT
* * * * *
76231255 ACATTTCA-CGAACTCAGACTCAACTCAACGAGTTCGGATG-TTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-AT
*
76231302 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC
76231343 CAAATATCTG
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.03
46 34 0.47
47 34 0.47
48 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGAT
Found at i:76236754 original size:46 final size:46
Alignment explanation
Indices: 76236687--76236905 Score: 221
Period size: 46 Copynumber: 4.7 Consensus size: 46
76236677 TGTAACCTGC
* * * *
76236687 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCAGG-CATTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
76236733 CCATAAGTGAACTCGGACTCAACTCAATGAGTTTGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *** *
76236779 ACATTTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
76236826 CCATAAGTGAATTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
76236872 CCATAAGTGAACTTGGACTCAACTCAATGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
76236906 AGATGCCCAA
Statistics
Matches: 141, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
43 1 0.01
44 4 0.03
45 2 0.01
46 99 0.70
47 31 0.22
49 3 0.02
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:76240246 original size:26 final size:25
Alignment explanation
Indices: 76240216--76240273 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
76240206 TGTTCAAAAC
*
76240216 AGTCATATA-TCATATAGGGGTATATT
1 AGTCATATACTCATA-A-GGGTATAAT
*
76240242 AGTCATTTACTTCATAAGGGTATAAT
1 AGTCATATAC-TCATAAGGGTATAAT
76240268 AGTCAT
1 AGTCAT
76240274 TTAACAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 22 0.79
27 1 0.04
28 5 0.18
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (25 bp):
AGTCATATACTCATAAGGGTATAAT
Found at i:76243877 original size:36 final size:36
Alignment explanation
Indices: 76243837--76243909 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
76243827 TCTCTTGTCT
76243837 AAAGGTAATAATATTTGTTGGTGTTATACTGGACTG
1 AAAGGTAATAATATTTGTTGGTGTTATACTGGACTG
76243873 AAAGGTAATAATATTTGTTGGTGTTATACTGGACTG
1 AAAGGTAATAATATTTGTTGGTGTTATACTGGACTG
76243909 A
1 A
76243910 GGCATTTCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (36 bp):
AAAGGTAATAATATTTGTTGGTGTTATACTGGACTG
Found at i:76245086 original size:33 final size:33
Alignment explanation
Indices: 76245016--76245087 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
76245006 GCATACTGTG
* **
76245016 CTGATATGGGTTAAGGCCCAGACTACTTTTATCA
1 CTGA-ATGGGCTAAGGCCCAGACTACTACTATCA
* * *
76245050 CTGAATGGGCTAAGGCCCAGACTGCTACTGTTA
1 CTGAATGGGCTAAGGCCCAGACTACTACTATCA
76245083 CTGAA
1 CTGAA
76245088 AAGGTTTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (33 bp):
CTGAATGGGCTAAGGCCCAGACTACTACTATCA
Found at i:76249461 original size:15 final size:16
Alignment explanation
Indices: 76249441--76249470 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
76249431 CTGTAAAGAT
76249441 TATACATT-TCATATA
1 TATACATTCTCATATA
76249456 TATACATTCTCATAT
1 TATACATTCTCATAT
76249471 CTGGTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:76249630 original size:42 final size:43
Alignment explanation
Indices: 76249536--76249648 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
76249526 CAATGCCTAC
* * **
76249536 GTCCCAGAC-GTGGTCTTACATGTAAGTCAATATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTACACGTAAATCAATATCGATGCCAAT
76249579 GTCCCAGACAGGGTCTTACACG-AAATCACATA-CGATGCCAAT
1 GTCCCAGACAGGGTCTTACACGTAAATCA-ATATCGATGCCAAT
* * *
76249621 GTCCTAGACATGGTCTTACACTTAAATC
1 GTCCCAGACAGGGTCTTACACGTAAATC
76249649 TCAAATTGAG
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 32 0.53
43 27 0.45
44 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGTAAATCAATATCGATGCCAAT
Found at i:76250388 original size:12 final size:12
Alignment explanation
Indices: 76250371--76250401 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
76250361 AAGAACACGA
76250371 AGAAACGATCAC
1 AGAAACGATCAC
76250383 AGAAACGATCAC
1 AGAAACGATCAC
76250395 AGAAACG
1 AGAAACG
76250402 TAGAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.23, G:0.19, T:0.06
Consensus pattern (12 bp):
AGAAACGATCAC
Found at i:76256754 original size:15 final size:16
Alignment explanation
Indices: 76256736--76256765 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
76256726 CTGTAAAGAT
76256736 TATACATT-TCATATA
1 TATACATTCTCATATA
76256751 TATACATTCTCATAT
1 TATACATTCTCATAT
76256766 CTCGTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Done.