Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005592.1 Hibiscus syriacus cultivar Beakdansim tig00012992_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 97576
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:533 original size:62 final size:57
Alignment explanation
Indices: 446--573 Score: 166
Period size: 58 Copynumber: 2.2 Consensus size: 57
436 TTACTTCTAC
* * * *
446 TTATAAAAAAATATTTTTAAATACTTTACGTCAAATAAACAGAAGTTCATTTATTAATAGA
1 TTATTAAAAAATATTTTTAAATACTTTACATCAAAT--A-AGAAGTT-AGTTAATAATAGA
*
507 TTATTAAAAAATATTTTTCAAATACTTTCCATCAAATAAGAAGTTAGTTAATAATAGA
1 TTATTAAAAAATATTTTT-AAATACTTTACATCAAATAAGAAGTTAGTTAATAATAGA
565 TTATTAAAA
1 TTATTAAAA
574 TATCGAAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
58 20 0.33
59 7 0.11
60 1 0.02
61 17 0.28
62 16 0.26
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (57 bp):
TTATTAAAAAATATTTTTAAATACTTTACATCAAATAAGAAGTTAGTTAATAATAGA
Found at i:2405 original size:23 final size:23
Alignment explanation
Indices: 2363--2413 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2353 TGTATTCACG
** *
2363 AACATGTTCATTTTACATTCATA
1 AACATGTTCATTCAAAATTCATA
*
2386 AACATGTTCATTCAAAATTCATG
1 AACATGTTCATTCAAAATTCATA
2409 AACAT
1 AACAT
2414 TTAATTTAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (23 bp):
AACATGTTCATTCAAAATTCATA
Found at i:2647 original size:11 final size:11
Alignment explanation
Indices: 2631--2655 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2621 TTTTAAATGT
2631 AAAAAAAAGAA
1 AAAAAAAAGAA
2642 AAAAAAAAGAA
1 AAAAAAAAGAA
2653 AAA
1 AAA
2656 GGAGAATCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:3805 original size:27 final size:27
Alignment explanation
Indices: 3767--3819 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
3757 TTACTAGTTT
* *
3767 CAATTTGGACCAAATAACCAAACTTAG
1 CAATTTGAACCAAACAACCAAACTTAG
*
3794 CAATTTGAACCAAACAGCCAAACTTA
1 CAATTTGAACCAAACAACCAAACTTA
3820 TACACCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.45, C:0.25, G:0.09, T:0.21
Consensus pattern (27 bp):
CAATTTGAACCAAACAACCAAACTTAG
Found at i:8516 original size:60 final size:61
Alignment explanation
Indices: 8388--8533 Score: 149
Period size: 60 Copynumber: 2.4 Consensus size: 61
8378 TGAATACGAG
* * *
8388 GATGAAATTAGAA-GATTCAAAAGTTTGAGGATCAATTTAAAATGAATGTCATAGTTTAAA
1 GATGAAATTAAAATGATTCAAAAATTTGAGGATCAATTTAAAATGAATGTCATAATTTAAA
** * * * *
8448 GAAAAAATTACAATGCTT-AAAAATTTGAGGA-CTAATTTAGAATGAAAT-TCATAATTTAAT
1 GATGAAATTAAAATGATTCAAAAATTTGAGGATC-AATTTAAAATG-AATGTCATAATTTAAA
*
8508 GATGAAATTAAAATG-TACAAAAATTT
1 GATGAAATTAAAATGATTCAAAAATTT
8534 AAAAATTAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
59 2 0.03
60 62 0.89
61 6 0.09
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.32
Consensus pattern (61 bp):
GATGAAATTAAAATGATTCAAAAATTTGAGGATCAATTTAAAATGAATGTCATAATTTAAA
Found at i:9457 original size:26 final size:27
Alignment explanation
Indices: 9410--9462 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
9400 GGTTAGGTGG
* *
9410 TGAACTTTTAAGATTTTAGGG-ATGAA
1 TGAACTTATAAAATTTTAGGGAATGAA
9436 TGAACTTATAAAAGTTTT-GGGAATGAA
1 TGAACTTATAAAA-TTTTAGGGAATGAA
9463 AACAGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.36
Consensus pattern (27 bp):
TGAACTTATAAAATTTTAGGGAATGAA
Found at i:10150 original size:60 final size:59
Alignment explanation
Indices: 10072--10204 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 59
10062 TTCGGGTGTA
* * ** *
10072 CATTTTGTAACTTCTAATAGTTGAGAGACTCAACAAAATAACT-TTATATAATCGAGAGAT
1 CATTTTATAACTTTTAATAGTCAAAAGACTCAACAAAATAA-TATTATATAATCGA-AGAT
* * * *
10132 CATTTTATAACTTTTAATAGTCAAAAGATTTAATAAAATAATATTTTATAATCGAAGAT
1 CATTTTATAACTTTTAATAGTCAAAAGACTCAACAAAATAATATTATATAATCGAAGAT
10191 CA-TTTATATACTTT
1 CATTTTATA-ACTTT
10205 ACCCTTAATT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
58 6 0.10
59 12 0.19
60 44 0.71
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (59 bp):
CATTTTATAACTTTTAATAGTCAAAAGACTCAACAAAATAATATTATATAATCGAAGAT
Found at i:15758 original size:2 final size:2
Alignment explanation
Indices: 15751--15794 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
15741 AACTATTACC
*
15751 AT AT AT AT AT AT AT AT AT AA 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
15793 AT
1 AT
15795 TGGCAAGCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16018 original size:114 final size:114
Alignment explanation
Indices: 15815--16029 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
15805 AAATTTTTTT
* * * * *
15815 GTAACTGCAACTGTAACATTTGTCCTTTAACTTTGAGATTAACTTCAAATACATTACACCTTAAT
1 GTAACTGCAACTGAAACATTTGTCCTTTAACTTCGAGATTAACTACAAATACAATAAACCTTAAT
* *
15880 GTAAACATCAAAAGTAATACACTACAAATGCAATAATCTAAAGTTTTAA
66 GTAAACATAAAAAGTAAAACACTACAAATGCAATAATCTAAAGTTTTAA
* * * *
15929 GTAACTGCAATTGAAATATTTTTCCTTTAACTTCGAGATTAACTACAAATACAATAAATCTTAAT
1 GTAACTGCAACTGAAACATTTGTCCTTTAACTTCGAGATTAACTACAAATACAATAAACCTTAAT
* *
15994 TTAAACATAAAAAGTAAAATACTACAAATGCAATAA
66 GTAAACATAAAAAGTAAAACACTACAAATGCAATAA
16030 GTCATAATCC
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
114 88 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (114 bp):
GTAACTGCAACTGAAACATTTGTCCTTTAACTTCGAGATTAACTACAAATACAATAAACCTTAAT
GTAAACATAAAAAGTAAAACACTACAAATGCAATAATCTAAAGTTTTAA
Found at i:22874 original size:23 final size:21
Alignment explanation
Indices: 22825--22887 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
22815 TTTTGGTGCA
* *
22825 GAGGGAATCGATCCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
22846 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
22867 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
22888 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 19 0.53
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.17
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:22895 original size:21 final size:21
Alignment explanation
Indices: 22869--22908 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22859 CCCCCTTTGA
*
22869 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
22890 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
22909 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:23292 original size:13 final size:13
Alignment explanation
Indices: 23274--23299 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23264 AACACAAGAA
23274 TTTTTTAAATTTT
1 TTTTTTAAATTTT
23287 TTTTTTAAATTTT
1 TTTTTTAAATTTT
23300 CGAAATAAAA
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:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTAAATTTT
Found at i:25235 original size:32 final size:32
Alignment explanation
Indices: 25197--25259 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
25187 TCTAATTTCA
25197 TTTTTTCTAAATTCAAAACTTGATTTCAAAAT
1 TTTTTTCTAAATTCAAAACTTGATTTCAAAAT
*
25229 TTTTTTCTAATTTCAAAACTTGATTTCAAAA
1 TTTTTTCTAAATTCAAAACTTGATTTCAAAA
25260 ATCTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.48
Consensus pattern (32 bp):
TTTTTTCTAAATTCAAAACTTGATTTCAAAAT
Found at i:27208 original size:15 final size:15
Alignment explanation
Indices: 27188--27239 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
27178 TAGAAGTCAT
27188 AAATTTAAATTTATA
1 AAATTTAAATTTATA
* ** *
27203 AAATTTTAAGATATT
1 AAATTTAAATTTATA
* *
27218 AAACTTAAATTTATC
1 AAATTTAAATTTATA
27233 AAATTTA
1 AAATTTA
27240 GGAGGTGAAA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (15 bp):
AAATTTAAATTTATA
Found at i:28352 original size:20 final size:21
Alignment explanation
Indices: 28302--28351 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
28292 GACCCAAAAT
*
28302 AATAAAAAAATATTTTTATTC
1 AATAAAAAATTATTTTTATTC
28323 AATAAAAAATTATTTTTATTC
1 AATAAAAAATTATTTTTATTC
28344 AATAAAAA
1 AATAAAAA
28352 TAGTGACTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAAAAAATTATTTTTATTC
Found at i:28722 original size:223 final size:229
Alignment explanation
Indices: 28326--28743 Score: 663
Period size: 223 Copynumber: 1.9 Consensus size: 229
28316 TTTATTCAAT
*
28326 AAAAAATTATTTTTATTCAATAAAAATAGTGACTTAATTGGAAATATATATATATATATATAGAG
1 AAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAATATATATATATATATATAGAG
* *
28391 GGGGTATTATTGTAATTATTCATAAATATATAAGGCAAAATTATATATTTTTTGGGTCGGATATT
66 GGGGTATTATTATAATTATTCATAAATATATAAGGCAAAATTATATATTTTTCGGGTCGGATATT
* *
28456 TTTCATCCTAAACCCGAACCCGACCCGACTCGAATATCACACTTAAAAAAATCGACCCGACCCGA
131 TTTCATCCTAAACCCGAACCCGACCCGACCCGAATAGCACACTTAAAAAAATCGACCCGACCCGA
28521 CAAAAATAAAGTTTCACCCGACCCGAAATAATAA
196 CAAAAATAAAGTTTCACCCGACCCGAAATAATAA
*
28555 AAAAAATTATTTTTATTCAATAAAAACAGTGATTTAATT-GAAA-A-A-A-AT-TATATATAGA-
1 AAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAATATATATATATATATATAGAG
* * *
28613 GGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTAT
66 GGGGTATTATTATAATTATTCATAAATATATAAGGCAAAATTATATAT-TTTTCGGGTCGGATAT
* *
28678 TTTTCA-CTCTAAACCCGAACTCGACCCGACCCGAATAGCACACTTAAAAAAATCGACTCGACCC
130 TTTTCATC-CTAAACCCGAACCCGACCCGACCCGAATAGCACACTTAAAAAAATCGACCCGACCC
28742 GA
194 GA
28744 ATATATGAAT
Statistics
Matches: 176, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
222 46 0.26
223 84 0.48
224 2 0.01
225 1 0.01
226 1 0.01
227 1 0.01
228 4 0.02
229 37 0.21
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (229 bp):
AAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAATATATATATATATATATAGAG
GGGGTATTATTATAATTATTCATAAATATATAAGGCAAAATTATATATTTTTCGGGTCGGATATT
TTTCATCCTAAACCCGAACCCGACCCGACCCGAATAGCACACTTAAAAAAATCGACCCGACCCGA
CAAAAATAAAGTTTCACCCGACCCGAAATAATAA
Found at i:28765 original size:223 final size:230
Alignment explanation
Indices: 28323--28802 Score: 660
Period size: 223 Copynumber: 2.1 Consensus size: 230
28313 ATTTTTATTC
*
28323 AATAAAAAATTATTTTTATTCAATAAAAATAGTGACTTAATTGGAAATATATATATATATATATA
1 AATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAATATATATATATATATATA
* *
28388 GAGGGGGTATTATTGTAATTATTCATAAATATATAAGGCAAAATTATATATTTTTTGGGTCGGAT
66 GAGGGGGTATTATTATAATTATTCATAAATATATAAGGCAAAATTATATATTTTTCGGGTCGGAT
* *
28453 ATTTTTCATCCTAAACCCGAACCCGACCCGACTCGAATATCACACTTAAAAAAATCGACCCGACC
131 ATTTTTCATCCTAAACCCGAACCCGACCCGACCCGAATAGCACACTTAAAAAAATCGACCCGACC
**
28518 CGACAAAAATAAAGTTTCACCCGACCCGAA-ATAAT
196 CGACAAAAATAAAGTTAAACCCGACCCGAACA-AAT
*
28553 AA-AAAAAATTATTTTTATTCAATAAAAACAGTGATTTAATT-GAAA-A-A-A-AT-TATATATA
1 AATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAATATATATATATATATATA
* * *
28611 GA-GGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGG
66 GAGGGGGTATTATTATAATTATTCATAAATATATAAGGCAAAATTATATAT-TTTTCGGGTCGGA
* *
28675 TATTTTTCA-CTCTAAACCCGAACTCGACCCGACCCGAATAGCACACTTAAAAAAATCGACTCGA
130 TATTTTTCATC-CTAAACCCGAACCCGACCCGACCCGAATAGCACACTTAAAAAAATCGACCCGA
* * *
28739 CCCGA-ATATATGAA-TTAGAAACCCGACCCGAACCGAAAT
194 CCCGACAAAAATAAAGTT--AAACCCGACCCGAA-C-AAAT
*
28778 AATAAAAAACTATTTTTATTCAATA
1 AATAAAAAATTATTTTTATTCAATA
28803 TATAAATAAG
Statistics
Matches: 225, Mismatches: 17, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
221 2 0.01
222 52 0.23
223 96 0.43
224 2 0.01
225 6 0.03
226 23 0.10
227 1 0.00
228 4 0.02
229 37 0.16
230 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.31
Consensus pattern (230 bp):
AATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGAAATATATATATATATATATA
GAGGGGGTATTATTATAATTATTCATAAATATATAAGGCAAAATTATATATTTTTCGGGTCGGAT
ATTTTTCATCCTAAACCCGAACCCGACCCGACCCGAATAGCACACTTAAAAAAATCGACCCGACC
CGACAAAAATAAAGTTAAACCCGACCCGAACAAAT
Found at i:30418 original size:32 final size:32
Alignment explanation
Indices: 30377--30441 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
30367 TACTCACCAC
30377 GTTAACAACCACCACAAACAATATCCCAATCA
1 GTTAACAACCACCACAAACAATATCCCAATCA
30409 GTTAACAACCACCACAAACAATATCCCAATCA
1 GTTAACAACCACCACAAACAATATCCCAATCA
30441 G
1 G
30442 CTGAACTCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.34, G:0.05, T:0.15
Consensus pattern (32 bp):
GTTAACAACCACCACAAACAATATCCCAATCA
Found at i:33759 original size:2 final size:2
Alignment explanation
Indices: 33754--33790 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
33744 ACACACACAC
33754 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33791 TTTAAGAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33830 original size:24 final size:22
Alignment explanation
Indices: 33803--33936 Score: 75
Period size: 22 Copynumber: 6.0 Consensus size: 22
33793 TAAGAATTTG
33803 TATT-TTTATATTATT-AAAATA
1 TATTATTTA-ATTATTAAAAATA
33824 TATTATTTAATTATTAAAAATA
1 TATTATTTAATTATTAAAAATA
* **
33846 TA-AAAAT-ATTA-TAAAAATA
1 TATTATTTAATTATTAAAAATA
* * *
33865 T-TAATTTAATAATATATAAATA
1 TATTATTTAATTAT-TAAAAATA
*
33887 -ATTATAAATATATTATTATAAAATA
1 TATTAT--TTA-ATTATTA-AAAATA
*
33912 TATTATTTTAATTATTTTAAAATA
1 TATTA-TTTAATTA-TTAAAAATA
33936 T
1 T
33937 TAATATATTC
Statistics
Matches: 86, Mismatches: 13, Indels: 25
0.69 0.10 0.20
Matches are distributed among these distances:
19 12 0.14
20 7 0.08
21 12 0.14
22 22 0.26
24 15 0.17
25 13 0.15
26 4 0.05
27 1 0.01
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTATTTAATTATTAAAAATA
Found at i:33886 original size:33 final size:32
Alignment explanation
Indices: 33833--33914 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 32
33823 ATATTATTTA
* *
33833 ATTATTAAAAATATAAAAAT-ATTATAAAAAT
1 ATTATTTAAAATATATAAATAATTATAAAAAT
*
33864 ATTAATTTAATAATATATAAATAATTATAAATAT
1 ATT-ATTTAA-AATATATAAATAATTATAAAAAT
33898 ATTATTATAAAATATAT
1 ATTATT-TAAAATATAT
33915 TATTTTAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 3 0.07
32 5 0.11
33 20 0.45
34 16 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
ATTATTTAAAATATATAAATAATTATAAAAAT
Found at i:38462 original size:25 final size:25
Alignment explanation
Indices: 38421--38469 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
38411 TCGTATCACG
38421 GCATTAACCAACAATGAAAATCTCA
1 GCATTAACCAACAATGAAAATCTCA
* *
38446 GCATTAACGAACGATGAAAATCTC
1 GCATTAACCAACAATGAAAATCTC
38470 CTAGAGCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.20
Consensus pattern (25 bp):
GCATTAACCAACAATGAAAATCTCA
Found at i:41998 original size:2 final size:2
Alignment explanation
Indices: 41991--42015 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
41981 AAAAGTAAAA
41991 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
42016 TTATTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47797 original size:3 final size:3
Alignment explanation
Indices: 47789--47814 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47779 AGTCAAATAA
47789 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
47815 ATTAATGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:50452 original size:15 final size:16
Alignment explanation
Indices: 50425--50474 Score: 68
Period size: 15 Copynumber: 3.1 Consensus size: 16
50415 TTCTATAAAA
50425 ATAT-TTTATTTTATT
1 ATATATTTATTTTATT
50440 ATATATTTA-TTTATT
1 ATATATTTATTTTATT
50455 ATTATTATTTATTTTATT
1 A-TA-TATTTATTTTATT
50473 AT
1 AT
50475 TTTTGCATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 11 0.35
16 6 0.19
17 7 0.23
18 7 0.23
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATATATTTATTTTATT
Found at i:50458 original size:18 final size:18
Alignment explanation
Indices: 50429--50475 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
50419 ATAAAAATAT
50429 TTTATTTTATTA-TA-TA
1 TTTATTTTATTATTATTA
50445 TTTA-TTTATTATTATTA
1 TTTATTTTATTATTATTA
50462 TTTATTTTATTATT
1 TTTATTTTATTATT
50476 TTTGCATGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 6 0.21
18 9 0.32
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTATTATTATTA
Found at i:53809 original size:98 final size:95
Alignment explanation
Indices: 53551--53810 Score: 332
Period size: 95 Copynumber: 2.7 Consensus size: 95
53541 CCAAGTTATA
* *
53551 ATTAT-ATATATAATAAAGCTTGAGTTGT-CCTCTAAAGCAATTGGTTAAACGCCCC-ATCTTTA
1 ATTATAATATACAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGA-CTTTA
53613 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
65 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* * *
53644 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAA-CAATTGGTTAAATGCGCCGACTTTA
1 ATTATAATATACAATAAAGCTTAAGTTGTCCCTCTA-AAGCAATTGGTTAAACGCCCCGACTTTA
*
53708 TGGATAATATTCAGCTAGCCTGATAAAGGTG
65 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* * * * *
53739 GTTATAATACTTA-TATAATATCATTAAGTTGTCCCTCTAAAGCAATTGGTTGAACGCCCCGGCT
1 ATTATAATA--TACAATAA-AGC-TTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACT
53803 TTATGGAT
62 TTATGGAT
53811 TCAACTAGCC
Statistics
Matches: 146, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
93 5 0.03
94 22 0.15
95 65 0.45
96 7 0.05
97 6 0.04
98 41 0.28
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTAT
GGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:55547 original size:21 final size:21
Alignment explanation
Indices: 55522--55586 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
55512 TGAGACAGTT
55522 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
55543 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
*
55560 -C-CTTGAAATAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
55579 TCTCTTGA
1 TCTCTTGA
55587 GACAGTTTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
15 6 0.18
16 1 0.03
17 3 0.09
18 4 0.12
19 3 0.09
20 1 0.03
21 15 0.45
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:55550 original size:36 final size:36
Alignment explanation
Indices: 55406--55823 Score: 376
Period size: 36 Copynumber: 11.4 Consensus size: 36
55396 ACGAATATGT
*
55406 TTTC-CTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
55441 TTTCT-TTTAGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGA-AAC-AAATTTTGTCTCTCTTGAGACAG
*
55478 TTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAGACAG
1 TTTCTCTTGAAACAAA------TTTTGTCTCTCTTGAGACAG
55520 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
55556 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * *
55592 TTTCCCTTGAAATAAA------ATCT-TTGA-ATATG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA-G
*
55621 TTT-TACATT-AAACAAATTTTGTCTC-CTTTGAGACAA
1 TTTCT-C-TTGAAACAAATTTTGTCTCTC-TTGAGACAG
* * * *
55657 TTTCTTTTGGAACTAAGTTTTGTATCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
55694 TTTCTCTTGAAACAAATTTTGTCTTTGTCTCTGTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTC----TCTC--TTGAGACAG
* * *
55736 TTTCTCTTGAAATAAATTTTTTCTCTCTTGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
55772 TTTCCCTTGAAACAAATTTTGTCTCTATTGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
55808 TTTCCCTTGAAACAAA
1 TTTCTCTTGAAACAAA
55824 ATCTTTTAAT
Statistics
Matches: 319, Mismatches: 32, Indels: 63
0.77 0.08 0.15
Matches are distributed among these distances:
28 2 0.01
29 15 0.05
30 5 0.02
35 11 0.03
36 148 0.46
37 61 0.19
38 8 0.03
40 4 0.01
42 65 0.20
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:55559 original size:78 final size:78
Alignment explanation
Indices: 55421--55793 Score: 333
Period size: 78 Copynumber: 5.0 Consensus size: 78
55411 TTGAAACAAA
* * *
55421 TTTTGTCTCCCTTGAGACAGTTTCT-TTTAGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCT
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGA-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCT
55485 TGAAACAAATTTTGT
64 TGAAACAAATTTTGT
* *
55500 TTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
*
55565 AAATAAA------
66 AAACAAATTTTGT
* * * *
55572 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAA------ATCT-TTGA-ATATGTTT-TACA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA-GTTTCT-C-
55628 TT-AAACAAATTTTG-
63 TTGAAACAAATTTTGT
* * * * * *
55642 ---TCTC-CT-TTGAGACAATTTCTTTTGGAACTAAGTTTTGTATCTCTTGAGACAGTTTCTCTT
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTT
55702 GAAACAAATTTTGT
65 GAAACAAATTTTGT
* * * * * *
55716 CTTTGTCTCTGTTGAGACAGTTTCTCTTGAAATAAATTTTTTCTCTCTTGAGATAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
55781 AAACAAATTTTGT
66 AAACAAATTTTGT
55794 CTCTATTGAG
Statistics
Matches: 238, Mismatches: 30, Indels: 53
0.74 0.09 0.17
Matches are distributed among these distances:
64 2 0.01
65 32 0.13
66 9 0.04
67 3 0.01
72 39 0.16
73 21 0.09
74 3 0.01
77 3 0.01
78 78 0.33
79 45 0.19
80 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (78 bp):
TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
AAACAAATTTTGT
Found at i:55734 original size:42 final size:42
Alignment explanation
Indices: 55675--55795 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
55665 GGAACTAAGT
*
55675 TTTGTATCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
* *
55717 TTTGTCTCTGTTGAGACAGTTTCTCTTGAAATAAA---T-T-
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
* *
55754 TTT-TCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTC
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
55795 T
1 T
55796 CTATTGAGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
36 27 0.40
37 3 0.04
38 1 0.01
39 2 0.03
40 1 0.01
41 1 0.01
42 32 0.48
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (42 bp):
TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTC
Found at i:55776 original size:216 final size:216
Alignment explanation
Indices: 55398--55929 Score: 877
Period size: 216 Copynumber: 2.5 Consensus size: 216
55388 TCGAAGCAAC
*
55398 GAATATGTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTAGAACTAAGTTTTG
1 GAATATGTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTG
* *
55463 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTTTTTGTCTCACTTGAGACAGTTTCTCTT
66 TATCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTTTGTCTCACTTGAGACAGTTTCTCTT
* *
55528 GAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGT
131 GAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTATTGAGACAGT
*
55593 TTCCCTTGAAATAAAATCTTT
196 TTCCCTTGAAACAAAATCTTT
* * *
55614 GAATATGTTTTACATT-AAACAAATTTTGTCTCCTTTGAGACAATTTCTTTTGGAACTAAGTTTT
1 GAATATGTTTT-CCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTT
**
55678 GTATCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTTTGTCTCTGTTGAGACAGTTTCTCT
65 GTATCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTTTGTCTCACTTGAGACAGTTTCTCT
* * * *
55743 TGAAATAAATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTATTGAGATAG
130 TGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTATTGAGACAG
55808 TTTCCCTTGAAACAAAATCTTT
195 TTTCCCTTGAAACAAAATCTTT
* *
55830 TAATATGTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTC
1 GAATATGTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTG
* *
55895 TTTCTCTTGAGACAGTTTATCTTGAAACAAATTTT
66 TATCTCTTGAGACAGTTTCTCTTGAAACAAATTTT
55930 ATCTCTCTTA
Statistics
Matches: 292, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
215 3 0.01
216 286 0.98
217 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (216 bp):
GAATATGTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTG
TATCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTTTGTCTCACTTGAGACAGTTTCTCTT
GAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTATTGAGACAGT
TTCCCTTGAAACAAAATCTTT
Found at i:55974 original size:73 final size:73
Alignment explanation
Indices: 55842--55977 Score: 168
Period size: 73 Copynumber: 1.9 Consensus size: 73
55832 ATATGTTTTC
* * ** * * *
55842 CTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTCTTTCTCTTGAGA
1 CTTGAAACAAATTTTATCTCCCTTAAGACAGTTTCCATTGAAACAAAGTTTTCTCTCTCTTGAGA
55907 CAGTTTAT
66 CAGTTTAT
*
55915 CTTGAAACAAATTTTATCTCTCTTAA-AGCAGTTTCCATTGAAACAAAGTTTTGC-CTCTCTTGA
1 CTTGAAACAAATTTTATCTCCCTTAAGA-CAGTTTCCATTGAAACAAAGTTTT-CTCTCTCTTGA
55978 AACACCAATC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
72 1 0.02
73 51 0.96
74 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.41
Consensus pattern (73 bp):
CTTGAAACAAATTTTATCTCCCTTAAGACAGTTTCCATTGAAACAAAGTTTTCTCTCTCTTGAGA
CAGTTTAT
Found at i:57147 original size:3 final size:3
Alignment explanation
Indices: 57089--57132 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
57079 AATGCTTTAT
57089 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
57133 TTGCATTCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:58061 original size:16 final size:16
Alignment explanation
Indices: 58040--58071 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58030 TTTTTTATAT
58040 ATTTTTTCATATTTTG
1 ATTTTTTCATATTTTG
*
58056 ATTTTTTTATATTTTG
1 ATTTTTTCATATTTTG
58072 TCGTGATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (16 bp):
ATTTTTTCATATTTTG
Found at i:58304 original size:29 final size:30
Alignment explanation
Indices: 58237--58314 Score: 113
Period size: 29 Copynumber: 2.6 Consensus size: 30
58227 TGAAAAATAA
* * *
58237 TTTACGTAAATTGGATTACTTAAAAAGTGT
1 TTTACGTAAAATGAATTACTTAAAAACTGT
58267 TTTACGTAAAATGAATTACTT-AAAACTGT
1 TTTACGTAAAATGAATTACTTAAAAACTGT
*
58296 TTTAGGTAAAATGAATTAC
1 TTTACGTAAAATGAATTAC
58315 ATTTTATAGG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 25 0.57
30 19 0.43
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (30 bp):
TTTACGTAAAATGAATTACTTAAAAACTGT
Found at i:59349 original size:23 final size:23
Alignment explanation
Indices: 59323--59392 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
59313 CACCACAGCT
* *
59323 TGTAAAAATGCACCGAAGTACCA
1 TGTAGAAATGCACCGAAGTGCCA
*
59346 TGTAGAATTGCACCGAAGTGCC-
1 TGTAGAAATGCACCGAAGTGCCA
*
59368 TCGTAGAAATGCACCGTAGTGCCA
1 T-GTAGAAATGCACCGAAGTGCCA
59392 T
1 T
59393 ATAAGATTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
22 1 0.03
23 38 0.95
24 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (23 bp):
TGTAGAAATGCACCGAAGTGCCA
Found at i:61187 original size:30 final size:31
Alignment explanation
Indices: 61130--61189 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
61120 CAACCTTTTA
*
61130 CAACTTTTCCAAAAATTATGAATTGGTCCCC
1 CAACTTTTCCAAAAATTAAGAATTGGTCCCC
61161 CAACTTTT-CAAAAATTACAGAA-TGGTCCC
1 CAACTTTTCCAAAAATTA-AGAATTGGTCCC
61190 TAAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (31 bp):
CAACTTTTCCAAAAATTAAGAATTGGTCCCC
Found at i:62441 original size:30 final size:27
Alignment explanation
Indices: 62407--62481 Score: 75
Period size: 30 Copynumber: 2.7 Consensus size: 27
62397 CTTTAATTTT
*
62407 AATTATTAGTATT-TTATTAACATAATACTA
1 AATTATTA-TATTAATATTAA-AT-ATA-TA
62437 AATTATTATATTAATATTAAATATATA
1 AATTATTATATTAATATTAAATATATA
62464 AATTA--ATATTAATCATTA
1 AATTATTATATTAAT-ATTA
62482 TTAATAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 8 0.19
26 4 0.10
27 7 0.17
28 3 0.07
29 6 0.14
30 14 0.33
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (27 bp):
AATTATTATATTAATATTAAATATATA
Found at i:62451 original size:19 final size:19
Alignment explanation
Indices: 62429--62471 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
62419 TTTATTAACA
*
62429 TAATACTAAAT-TATTATAT
1 TAATACTAAATATA-TAAAT
*
62448 TAATATTAAATATATAAAT
1 TAATACTAAATATATAAAT
62467 TAATA
1 TAATA
62472 TTAATCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATACTAAATATATAAAT
Found at i:62621 original size:17 final size:17
Alignment explanation
Indices: 62601--62676 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
62591 ATTAATACAA
62601 TATTAAAATTATAATAT
1 TATTAAAATTATAATAT
*
62618 TATTAAAATTATATTA-
1 TATTAAAATTATAATAT
*
62634 TATGT-ATATTA-AATAT
1 TAT-TAAAATTATAATAT
* *
62650 T-TTAATAATTAATATTTT
1 TATTAA-AATT-ATAATAT
62668 TATTAAAAT
1 TATTAAAAT
62677 GATATTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
14 1 0.02
15 5 0.11
16 12 0.26
17 17 0.37
18 7 0.15
19 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (17 bp):
TATTAAAATTATAATAT
Found at i:63529 original size:20 final size:20
Alignment explanation
Indices: 63435--63803 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
63425 GATTTTCCAT
* ** *
63435 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
63455 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
63475 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
63495 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
63515 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
63535 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
63555 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
63575 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
63595 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
63615 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
63635 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
63655 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
63675 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
63695 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
63715 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
63735 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
63755 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
63775 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
63795 AATCACAAC
1 AATCGCAAC
63804 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:64515 original size:24 final size:24
Alignment explanation
Indices: 64476--64522 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
64466 AAATTTGGTC
64476 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
64500 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
64523 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:64714 original size:12 final size:12
Alignment explanation
Indices: 64697--64721 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64687 ATATAATCCT
64697 GAAGAAGAAAAA
1 GAAGAAGAAAAA
64709 GAAGAAGAAAAA
1 GAAGAAGAAAAA
64721 G
1 G
64722 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:67045 original size:19 final size:19
Alignment explanation
Indices: 67023--67348 Score: 405
Period size: 19 Copynumber: 18.4 Consensus size: 19
67013 CGGAAAATAC
*
67023 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
67042 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
67056 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
67076 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
67090 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
67109 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
67128 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
67142 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
67161 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
67180 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
67194 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
67213 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
67232 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
67251 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
67270 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
67289 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
67303 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
67322 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
67341 AATCGCAA
1 AATCGCAA
67349 CGAGATAATC
Statistics
Matches: 269, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 50 0.19
15 3 0.01
16 13 0.05
17 12 0.04
18 4 0.01
19 174 0.65
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:67110 original size:33 final size:34
Alignment explanation
Indices: 67023--67348 Score: 321
Period size: 33 Copynumber: 9.2 Consensus size: 34
67013 CGGAAAATAC
* *
67023 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
67056 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
67090 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
67128 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
67161 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
67194 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
67232 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
67270 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
67302 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
67341 AATCGCAA
1 AATCGCAA
67349 CGAGATAATC
Statistics
Matches: 257, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.01
33 111 0.43
34 32 0.12
35 9 0.04
36 6 0.02
37 4 0.02
38 91 0.35
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:67284 original size:161 final size:157
Alignment explanation
Indices: 67051--67370 Score: 552
Period size: 161 Copynumber: 2.0 Consensus size: 157
67041 AAATCCCAAC
*
67051 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
*
67116 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
66 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
67181 ATCGCAACGAGAGAATCGCAATGCGAA
131 ATCGCAACGAGAGAATCGCAATGCGAA
*
67208 ATGAAAATCGCAATGC-GAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGC-A-ACG--A-GAAAATCGCAATGCGAAATGAAAA
67272 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
61 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
*
67337 TGAAAATCGCAACGAGATAATCGCAATGCGAA
126 TGAAAATCGCAACGAGAGAATCGCAATGCGAA
67369 AT
1 AT
67371 TATAAACGCA
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 13 0.08
157 17 0.11
158 3 0.02
160 1 0.01
161 120 0.78
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (157 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
ATCGCAACGAGAGAATCGCAATGCGAA
Found at i:67386 original size:52 final size:52
Alignment explanation
Indices: 67051--67370 Score: 550
Period size: 52 Copynumber: 6.0 Consensus size: 52
67041 AAATCCCAAC
67051 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
67104 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
67156 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
67208 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
67265 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
67317 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
67369 AT
1 AT
67371 TATAAACGCA
Statistics
Matches: 255, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 184 0.72
53 18 0.07
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:67486 original size:19 final size:19
Alignment explanation
Indices: 67377--67478 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
67367 AAATTATAAA
67377 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
67396 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
67416 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
67432 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
67449 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
67468 CGCATTGCGAT
1 CGCATTGCGAT
67479 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:67604 original size:14 final size:14
Alignment explanation
Indices: 67585--67621 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
67575 CATCAATTAC
67585 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
67599 ACAAATCATCTTTT
1 ACAAATCAACTTTT
67613 ACAAATCAA
1 ACAAATCAA
67622 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:67633 original size:12 final size:12
Alignment explanation
Indices: 67616--67688 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
67606 ATCTTTTACA
67616 AATCAATTAAAC
1 AATCAATTAAAC
*
67628 AATCAA--AAATTG
1 AATCAATTAAA--C
**
67640 AATCAACTTTTAC
1 AATCAA-TTAAAC
67653 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
67666 AATCAA-AAAAC
1 AATCAATTAAAC
67677 AATCAATTAAAC
1 AATCAATTAAAC
67689 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:67650 original size:38 final size:38
Alignment explanation
Indices: 67602--67674 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
67592 AACTTTTACA
*
67602 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
67640 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
67675 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:69529 original size:19 final size:19
Alignment explanation
Indices: 69489--69623 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
69479 TAGTTTACTT
* *
69489 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
69509 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
69528 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
69547 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
69561 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
69580 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
69594 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
69613 TCGCAATGCGA
1 TCGCAACGCGA
69624 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:69564 original size:14 final size:14
Alignment explanation
Indices: 69545--69601 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
69535 GCGAAATGAA
*
69545 AATCGCAACGACAG
1 AATCGCAACGAAAG
69559 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
69576 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
69592 AATCGCAACG
1 AATCGCAACG
69602 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:69568 original size:33 final size:33
Alignment explanation
Indices: 69526--69618 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
69516 GCGAAACCAA
*
69526 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
69559 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
69592 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
69619 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:69615 original size:52 final size:54
Alignment explanation
Indices: 69489--69623 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 54
69479 TAGTTTACTT
*
69489 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
* **
69547 TCGCAA-CGACA-G--AATCGCAACGCGAAATGAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
69594 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
69624 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.08
50 6 0.09
52 37 0.56
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:69641 original size:19 final size:19
Alignment explanation
Indices: 69619--69747 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
69609 AAAATCGCAA
69619 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
69638 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
69652 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
69671 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
69685 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
69704 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
69723 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
69743 TGCGA
1 TGCGA
69748 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:69661 original size:33 final size:33
Alignment explanation
Indices: 69619--69710 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
69609 AAAATCGCAA
69619 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
69652 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
69685 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
69711 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:69950 original size:93 final size:93
Alignment explanation
Indices: 69791--70170 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
69781 TTGAATGGAT
69791 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
69856 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
69884 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
69949 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
69977 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
70041 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
70069 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
70134 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
70162 AAATTTACT
1 AAATTTACT
70171 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 193 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:70104 original size:185 final size:186
Alignment explanation
Indices: 69791--70170 Score: 744
Period size: 185 Copynumber: 2.0 Consensus size: 186
69781 TTGAATGGAT
69791 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
69856 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
69921 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
69977 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
70041 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
70106 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
70162 AAATTTACT
1 AAATTTACT
70171 AAGCAATCTA
Statistics
Matches: 193, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
185 154 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:71896 original size:14 final size:14
Alignment explanation
Indices: 71877--71965 Score: 79
Period size: 14 Copynumber: 5.6 Consensus size: 14
71867 TTGAAATGAA
71877 AATCGCAACGAGAG
1 AATCGCAACGAGAG
71891 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
71908 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
71924 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
71943 AATCGCAACGAGAG
1 AATCGCAACGAGAG
71957 AATCGCAAC
1 AATCGCAAC
71966 ACTGTTTCGC
Statistics
Matches: 63, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
14 27 0.43
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 18 0.29
ACGTcount: A:0.43, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:71914 original size:33 final size:33
Alignment explanation
Indices: 71869--71965 Score: 176
Period size: 33 Copynumber: 2.9 Consensus size: 33
71859 TCTTTTGGTT
71869 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
71902 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
71935 GAAATGAAAATCGCAACGAGAGAATCGCAAC
1 GAAATGAAAATCGCAACGAGAGAATCGCAAC
71966 ACTGTTTCGC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.22, G:0.25, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:71915 original size:19 final size:18
Alignment explanation
Indices: 71876--71957 Score: 72
Period size: 19 Copynumber: 4.9 Consensus size: 18
71866 GTTGAAATGA
71876 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
71891 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
71908 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
71924 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
71941 AAAATCGCAACGAGAGA
1 -AAATCGCAACGCGAGA
71958 ATCGCAACAC
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.30
16 10 0.19
17 7 0.13
19 21 0.39
ACGTcount: A:0.44, C:0.22, G:0.26, T:0.09
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:72192 original size:33 final size:33
Alignment explanation
Indices: 72150--72220 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
72140 AATACTAACT
*
72150 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
72183 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
72216 TGAAA
1 TGAAA
72221 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:72454 original size:22 final size:22
Alignment explanation
Indices: 72402--72456 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
72392 TGGTTGTGAG
**
72402 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
72424 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
72446 GGATTTCTTCG
1 GGATTTCTTCG
72457 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:72627 original size:20 final size:20
Alignment explanation
Indices: 72602--72795 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
72592 CTTTAAATAT
72602 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
72622 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
72644 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
72663 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
72683 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
72703 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
72723 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
72743 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
72763 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
72783 CGCGTTGCGATTT
1 CGCGTTGCGATTT
72796 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:72789 original size:60 final size:60
Alignment explanation
Indices: 72602--72795 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
72592 CTTTAAATAT
**
72602 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
72663 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
72723 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
72783 CGCGTTGCGATTT
1 CGCGTTGCGATTT
72796 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:72812 original size:21 final size:20
Alignment explanation
Indices: 72788--72864 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
72778 ATATTCGCGT
72788 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
72809 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
72829 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
72851 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
72865 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:72875 original size:20 final size:20
Alignment explanation
Indices: 72850--72901 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
72840 AAGAATCGCG
*
72850 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
72870 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
72890 TTGCGATTCTGG
1 TTGCGATTCTGG
72902 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:74985 original size:14 final size:14
Alignment explanation
Indices: 74968--74996 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
74958 TAGGAATTTA
74968 TGATTAGGGTTTTG
1 TGATTAGGGTTTTG
74982 TGATTAGGGTTTTG
1 TGATTAGGGTTTTG
74996 T
1 T
74997 ATGAGTGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (14 bp):
TGATTAGGGTTTTG
Found at i:77778 original size:21 final size:21
Alignment explanation
Indices: 77754--77810 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
77744 TATGACCCAA
77754 AGTATCGATACTCTTTCAAAT
1 AGTATCGATACTCTTTCAAAT
77775 AGTATCGATACTCTTTCAAAT
1 AGTATCGATACTCTTTCAAAT
*
77796 AGTATCGATATTCTT
1 AGTATCGATACTCTT
77811 GCCCAGAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.40
Consensus pattern (21 bp):
AGTATCGATACTCTTTCAAAT
Found at i:78987 original size:30 final size:30
Alignment explanation
Indices: 78953--79084 Score: 167
Period size: 30 Copynumber: 4.4 Consensus size: 30
78943 ATTTACATAT
** *
78953 TAAAACAATTTTCAGGTAATTTGTTTTACA
1 TAAAACAATTTTCAGGTAATTCATTTTACG
* *
78983 TAAAACAGTTTTCATGTAATTCATTTTACG
1 TAAAACAATTTTCAGGTAATTCATTTTACG
* *
79013 TAAAACAATTTTCATGTAATTCATTTGACG
1 TAAAACAATTTTCAGGTAATTCATTTTACG
* *
79043 TAAAACAATTTTTAGGTAATCCATTTTACG
1 TAAAACAATTTTCAGGTAATTCATTTTACG
*
79073 T-AAACTATTTTC
1 TAAAACAATTTTC
79085 TAGAAAACCA
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
29 9 0.10
30 80 0.90
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (30 bp):
TAAAACAATTTTCAGGTAATTCATTTTACG
Found at i:79009 original size:15 final size:15
Alignment explanation
Indices: 78991--79038 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
78981 CATAAAACAG
78991 TTTTCATGTAATTCA
1 TTTTCATGTAATTCA
* **
79006 TTTT-ACGTAAAACAA
1 TTTTCATGTAATTC-A
79021 TTTTCATGTAATTCA
1 TTTTCATGTAATTCA
79036 TTT
1 TTT
79039 GACGTAAAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 6 0.24
15 13 0.52
16 6 0.24
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTTCATGTAATTCA
Found at i:82605 original size:14 final size:14
Alignment explanation
Indices: 82586--82620 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
82576 TGATAGAATT
82586 GTTAAATATGAAAA
1 GTTAAATATGAAAA
82600 GTTAAATATGAAAA
1 GTTAAATATGAAAA
82614 GTTAAAT
1 GTTAAAT
82621 TTATTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (14 bp):
GTTAAATATGAAAA
Found at i:83020 original size:33 final size:33
Alignment explanation
Indices: 82982--83048 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
82972 GATTCGAGTC
82982 AATATCGGATCAATTGATTTTCGAATTGGGTCA
1 AATATCGGATCAATTGATTTTCGAATTGGGTCA
* *
83015 AATATCGGATCAATTGATTTTTGATTTGGGTCA
1 AATATCGGATCAATTGATTTTCGAATTGGGTCA
83048 A
1 A
83049 CCTTTAGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (33 bp):
AATATCGGATCAATTGATTTTCGAATTGGGTCA
Found at i:83274 original size:32 final size:32
Alignment explanation
Indices: 83227--83308 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
83217 TAAGATTAAT
** *
83227 TTCAATTTGGCTTACTTTTGAATCGGGCCAAA
1 TTCAATTTGATTTACTTTTGAATCGGACCAAA
* * *
83259 TTCAATTTGATTTACTTTTGGATCTGATCAAA
1 TTCAATTTGATTTACTTTTGAATCGGACCAAA
*
83291 TTCAATTCGATTTACTTT
1 TTCAATTTGATTTACTTT
83309 CAATTCAGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (32 bp):
TTCAATTTGATTTACTTTTGAATCGGACCAAA
Found at i:83324 original size:32 final size:32
Alignment explanation
Indices: 83288--83356 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
83278 GGATCTGATC
* *
83288 AAATTCAATTCGATTTACTTTCAATTCAGGCT
1 AAATTCAATTCAAGTTACTTTCAATTCAGGCT
* * *
83320 AAATTCGATTCAAGTTACTTTCAGTTCAGGTT
1 AAATTCAATTCAAGTTACTTTCAATTCAGGCT
83352 AAATT
1 AAATT
83357 GAATATGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.41
Consensus pattern (32 bp):
AAATTCAATTCAAGTTACTTTCAATTCAGGCT
Found at i:86923 original size:158 final size:159
Alignment explanation
Indices: 86635--86945 Score: 525
Period size: 158 Copynumber: 2.0 Consensus size: 159
86625 AACAAGTGCA
* *
86635 CATCACCAAGAACATAATATGTTTACATTTAGAGTCGCAACATGATAATAAACCTAACCTATTTG
1 CATCACCAACAACATAATATGTTTACATTTAGAGTCGCAACATAATAATAAACCTAACCTATTTG
86700 ACAAGCTAACTGTCTGCAAACATATGCGTGAGACAAGCTAAAATAAATTTTAATTGAACACTGAA
66 ACAAGCTAACTGTCTGCAAACATATGCGTGAGACAAGCTAAAATAAATTTTAATTGAACACTGAA
*
86765 ATTA-AATCTATAAAGCATTGATTACATT
131 ATTATAATCCATAAAGCATTGATTACATT
** *
86793 CATCACCAACAACATAATATGTTTAGTTTTAGAGTCGCAGCATAATAATAAACCTAACCTATTTG
1 CATCACCAACAACATAATATGTTTACATTTAGAGTCGCAACATAATAATAAACCTAACCTATTTG
* * * *
86858 ACAAGCTAATTGTCTGCATACATATGCGTGTGACATGCTAAAATAAATTTTAATTGAACACTGAA
66 ACAAGCTAACTGTCTGCAAACATATGCGTGAGACAAGCTAAAATAAATTTTAATTGAACACTGAA
86923 ATTATAATCCATAAAGCATTGAT
131 ATTATAATCCATAAAGCATTGAT
86946 CGTACGTTTA
Statistics
Matches: 142, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
158 125 0.88
159 17 0.12
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (159 bp):
CATCACCAACAACATAATATGTTTACATTTAGAGTCGCAACATAATAATAAACCTAACCTATTTG
ACAAGCTAACTGTCTGCAAACATATGCGTGAGACAAGCTAAAATAAATTTTAATTGAACACTGAA
ATTATAATCCATAAAGCATTGATTACATT
Found at i:90474 original size:14 final size:14
Alignment explanation
Indices: 90457--90496 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
90447 ATAATTTAGA
90457 ATTTAGGGTTTAAG
1 ATTTAGGGTTTAAG
90471 ATTTAGGGTTTTAAG
1 ATTTAGGG-TTTAAG
90486 --TTAGGGTTTAA
1 ATTTAGGGTTTAA
90497 AGTATAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.20
13 6 0.24
14 8 0.32
15 6 0.24
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
ATTTAGGGTTTAAG
Found at i:93110 original size:21 final size:21
Alignment explanation
Indices: 93086--93135 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
93076 GTGAGGGTAG
93086 TATCGATACCCCTTTAAGGGA
1 TATCGATACCCCTTTAAGGGA
93107 TATCGATACCCCTTTAAGGGA
1 TATCGATACCCCTTTAAGGGA
93128 TATCGATA
1 TATCGATA
93136 ATGGAGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (21 bp):
TATCGATACCCCTTTAAGGGA
Done.