Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 332 of 427
Found at i:96817854 original size:25 final size:26
Alignment explanation
Indices: 96817804--96817854 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
96817794 AGTTGTAGAG
*
96817804 AGAAAATTCTCTGAAGAGATTATTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
* *
96817830 AGAAAATT-TCTAAAGATATTTTTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
96817855 GATTTACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAGATTATTCT
Found at i:96822409 original size:11 final size:11
Alignment explanation
Indices: 96822390--96822422 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
96822380 GTGGTTAATT
*
96822390 AAACTTCCCAA
1 AAACCTCCCAA
96822401 AAACCTCCCAA
1 AAACCTCCCAA
96822412 AAACCTCCCAA
1 AAACCTCCCAA
96822423 GTTGATGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.12
Consensus pattern (11 bp):
AAACCTCCCAA
Found at i:96823054 original size:13 final size:13
Alignment explanation
Indices: 96823036--96823075 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
96823026 TTGAGACCAT
96823036 ACGGGCGGGTGAC
1 ACGGGCGGGTGAC
* *
96823049 ACGGGCGTGTGTC
1 ACGGGCGGGTGAC
96823062 A-GGGCGGGTGAC
1 ACGGGCGGGTGAC
96823074 AC
1 AC
96823076 ACATGGGTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.15, C:0.23, G:0.50, T:0.12
Consensus pattern (13 bp):
ACGGGCGGGTGAC
Found at i:96824001 original size:5 final size:5
Alignment explanation
Indices: 96823989--96824056 Score: 64
Period size: 5 Copynumber: 13.6 Consensus size: 5
96823979 TTTATTCCAT
* * * * ** * *
96823989 TCTGC TCTTC TCTGC TCTGT TCTGT TCTGT TCTGC TCTAT TCTGT TCTGT
1 TCTGC TCTGC TCTGC TCTGC TCTGC TCTGC TCTGC TCTGC TCTGC TCTGC
96824039 TCTGC TCTGC TCTGC TCT
1 TCTGC TCTGC TCTGC TCT
96824057 ATTCTGTTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.01, C:0.31, G:0.16, T:0.51
Consensus pattern (5 bp):
TCTGC
Found at i:96824004 original size:10 final size:10
Alignment explanation
Indices: 96823988--96824062 Score: 89
Period size: 10 Copynumber: 7.5 Consensus size: 10
96823978 CTTTATTCCA
96823988 TTCTGCTCT-
1 TTCTGCTCTG
96823997 TCTCTGCTCTG
1 T-TCTGCTCTG
*
96824008 TTCTGTTCTG
1 TTCTGCTCTG
*
96824018 TTCTGCTCTA
1 TTCTGCTCTG
*
96824028 TTCTGTTCTG
1 TTCTGCTCTG
96824038 TTCTGCTCTG
1 TTCTGCTCTG
* *
96824048 CTCTGCTCTA
1 TTCTGCTCTG
96824058 TTCTG
1 TTCTG
96824063 TTCTATTCAG
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
9 1 0.02
10 53 0.96
11 1 0.02
ACGTcount: A:0.03, C:0.29, G:0.16, T:0.52
Consensus pattern (10 bp):
TTCTGCTCTG
Found at i:96824066 original size:5 final size:5
Alignment explanation
Indices: 96823999--96824107 Score: 78
Period size: 5 Copynumber: 21.8 Consensus size: 5
96823989 TCTGCTCTTC
* * * * *
96823999 TCTGC TCTGT TCTGT TCTGT TCTGC TCTAT TCTGT TCTGT TCTGC TCTGC
1 TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT TCTGT
* * * * * * *
96824049 TCTGC TCTAT TCTGT TCTAT TCAGT TTTGCT T-TGT TTTGT TCTGC TCTG-
1 TCTGT TCTGT TCTGT TCTGT TCTGT TCTG-T TCTGT TCTGT TCTGT TCTGT
96824098 TCTTGT TCTG
1 TC-TGT TCTG
96824108 ATGGGTTTGT
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
4 4 0.05
5 76 0.90
6 4 0.05
ACGTcount: A:0.04, C:0.24, G:0.17, T:0.55
Consensus pattern (5 bp):
TCTGT
Found at i:96824067 original size:10 final size:10
Alignment explanation
Indices: 96823987--96824070 Score: 80
Period size: 10 Copynumber: 8.4 Consensus size: 10
96823977 GCTTTATTCC
96823987 ATTCTGCTCT
1 ATTCTGCTCT
96823997 -TCTCTGCTCT
1 AT-TCTGCTCT
* *
96824007 GTTCTGTTCT
1 ATTCTGCTCT
*
96824017 GTTCTGCTCT
1 ATTCTGCTCT
*
96824027 ATTCTGTTCT
1 ATTCTGCTCT
*
96824037 GTTCTGCTCT
1 ATTCTGCTCT
**
96824047 GCTCTGCTCT
1 ATTCTGCTCT
*
96824057 ATTCTGTTCT
1 ATTCTGCTCT
96824067 ATTC
1 ATTC
96824071 AGTTTTGCTT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
9 1 0.02
10 60 0.97
11 1 0.02
ACGTcount: A:0.05, C:0.29, G:0.14, T:0.52
Consensus pattern (10 bp):
ATTCTGCTCT
Found at i:96825324 original size:30 final size:31
Alignment explanation
Indices: 96825290--96825353 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
96825280 ACTTATTTTA
*
96825290 TTGTTAA-TTTTGTTATTATTTTA-AATGCAT
1 TTGTTAATTTTTATTATTATTTTAGAA-GCAT
96825320 TTGTTAATTTTTATTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
96825351 TTG
1 TTG
96825354 ATTGTTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 22 0.71
32 2 0.06
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:96826879 original size:55 final size:54
Alignment explanation
Indices: 96826809--96826913 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 54
96826799 TAATTTGTTG
* * * * *
96826809 AATTTTTTTTAGAATTAAAATTAAAGTGACAAATTTTGTAAATTTTGAGGGTTA
1 AATTTTTTTTAGAATTAAAACTAAAATGAAAAACTTTGTAAATATTGAGGGTTA
*
96826863 AATTTATTTTTAGAATTCAAACTAAAATGAAAAACTTTGTAAATATTGAGG
1 AATTT-TTTTTAGAATTAAAACTAAAATGAAAAACTTTGTAAATATTGAGG
96826914 CTAAATATGT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 5 0.11
55 39 0.89
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.41
Consensus pattern (54 bp):
AATTTTTTTTAGAATTAAAACTAAAATGAAAAACTTTGTAAATATTGAGGGTTA
Found at i:96827301 original size:20 final size:20
Alignment explanation
Indices: 96827255--96827293 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
96827245 ATTTTTTCCG
*
96827255 GATAAAATCCTAAAATTTAA
1 GATAAAATCCTAAAATTCAA
96827275 GATAAAATCCTAAAATTCA
1 GATAAAATCCTAAAATTCA
96827294 GAATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (20 bp):
GATAAAATCCTAAAATTCAA
Found at i:96827395 original size:17 final size:17
Alignment explanation
Indices: 96827373--96827408 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
96827363 CCAATCATTT
96827373 TTCTAAATCTAGACTGA
1 TTCTAAATCTAGACTGA
96827390 TTCTAAATCTAGACTGA
1 TTCTAAATCTAGACTGA
96827407 TT
1 TT
96827409 GTAGGCAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (17 bp):
TTCTAAATCTAGACTGA
Found at i:96828730 original size:2 final size:2
Alignment explanation
Indices: 96828725--96828751 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
96828715 TCTTAAAAAA
96828725 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
96828752 ATAAGAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:96831277 original size:29 final size:28
Alignment explanation
Indices: 96831217--96831282 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
96831207 GCTAGAAGCA
**
96831217 TTTTCGTAAAAACAACCTATTCCTGTAAT
1 TTTTC-TAAAAACAACCTATTCAAGTAAT
96831246 TTTTCTAAAAATCAACCTATTCAAGT-AT
1 TTTTCTAAAAA-CAACCTATTCAAGTAAT
*
96831274 TTTTTTAAA
1 TTTTCTAAA
96831283 TTTTTTGGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 16 0.48
29 17 0.52
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.42
Consensus pattern (28 bp):
TTTTCTAAAAACAACCTATTCAAGTAAT
Found at i:96832079 original size:30 final size:30
Alignment explanation
Indices: 96832044--96832109 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
96832034 TTAGCAATAT
96832044 AAAAACAATAATATATATAATAATCGTGTA
1 AAAAACAATAATATATATAATAATCGTGTA
96832074 AAAAACAATAATATATATAATAATCGTGTA
1 AAAAACAATAATATATATAATAATCGTGTA
96832104 AAAAAC
1 AAAAAC
96832110 TCTCAAACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (30 bp):
AAAAACAATAATATATATAATAATCGTGTA
Found at i:96832368 original size:20 final size:20
Alignment explanation
Indices: 96832335--96832373 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
96832325 TAAAAATTAG
*
96832335 AAAAAAATATAAATTTTAAT
1 AAAAAAATAAAAATTTTAAT
*
96832355 AAAAATATAAAAATTTTAA
1 AAAAAAATAAAAATTTTAA
96832374 ATTGTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAAATAAAAATTTTAAT
Found at i:96832387 original size:29 final size:29
Alignment explanation
Indices: 96832321--96832392 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 29
96832311 GCCCTTCGCC
*
96832321 TTATTAAAAATTAGAAAAAAATATAAATT
1 TTATTAAAAAATAGAAAAAAATATAAATT
* * * *
96832350 TTAAT-AAAAATA-TAAAAATTTTAAATT
1 TTATTAAAAAATAGAAAAAAATATAAATT
96832377 GTTATTAAAAAATAGA
1 -TTATTAAAAAATAGA
96832393 TTTTTTTATA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
27 12 0.36
28 10 0.30
29 11 0.33
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (29 bp):
TTATTAAAAAATAGAAAAAAATATAAATT
Found at i:96832639 original size:20 final size:22
Alignment explanation
Indices: 96832611--96832655 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
96832601 GAAATTTATA
*
96832611 TTTCTTTAC-ATTTTGTAAAAT
1 TTTCTTTACAATTTTATAAAAT
96832632 TTTC-TTACAATTTTATAAAAT
1 TTTCTTTACAATTTTATAAAAT
96832653 TTT
1 TTT
96832656 ATAATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTCTTTACAATTTTATAAAAT
Found at i:96832693 original size:46 final size:45
Alignment explanation
Indices: 96832605--96832772 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 45
96832595 TTTTACGAAA
* *
96832605 TTTATATTTCTTTACATTTTGTAAAATTTTCTTAC-AATTTTATAAAAT
1 TTTATAATT-TTTA-ATTTT-TAAAATTTT-TTACTATTTTTATAAAAT
* *
96832653 TTTATAATTTTATAATTTTTTAAATTTTTTACTATTTTTATAAAAA
1 TTTATAATTTT-TAATTTTTAAAATTTTTTACTATTTTTATAAAAT
** * *
96832699 TTTGCAATTTTTATATTTTTAAAATTTCTATA-TATTTTT-TAAATTT
1 TTTATAATTTTTA-ATTTTTAAAATTT-TTTACTATTTTTATAAA-AT
* *
96832745 TTTATACTTTTTAATATTTGAAAATTTT
1 TTTATAATTTTTAAT-TTTTAAAATTTT
96832773 ATTAAAATTT
Statistics
Matches: 100, Mismatches: 14, Indels: 15
0.78 0.11 0.12
Matches are distributed among these distances:
45 13 0.13
46 67 0.67
47 10 0.10
48 10 0.10
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (45 bp):
TTTATAATTTTTAATTTTTAAAATTTTTTACTATTTTTATAAAAT
Found at i:96832739 original size:20 final size:18
Alignment explanation
Indices: 96832704--96832763 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
96832694 AAAAATTTGC
96832704 AATTTT-TATATTTTTAA
1 AATTTTATATATTTTTAA
*
96832721 AATTTCTATATATTTTTTA
1 AATTT-TATATATTTTTAA
*
96832740 AATTTTTTATACTTTTTAA
1 AATTTTATATA-TTTTTAA
*
96832759 TATTT
1 AATTT
96832764 GAAAATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.14
18 6 0.17
19 25 0.69
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
AATTTTATATATTTTTAA
Found at i:96833019 original size:91 final size:84
Alignment explanation
Indices: 96832848--96833036 Score: 245
Period size: 90 Copynumber: 2.2 Consensus size: 84
96832838 AATAAAACAA
* *
96832848 GAGCTTAATTTTTTTTTAAAGTTTGAGGGTCTTTTTGATGAATTTTGAAAGTTCAAATACCCAAT
1 GAGCTTAATTTTTTTTTAAAGTTTGAAGGTCTTTTTGATGAATTTTGAAAGTTCAAATACCCAAA
*
96832913 TGAGTGTAAAAAAAAAGTAAG
66 TGAGTGCAAAAAAAAA--AAG
* * *
96832934 G-GCTTAATTGCTTTTTTTAAAAAGGTTTGAAGGTTTTTTTTATGCATTTTGAAAGTTCAGAATA
1 GAGCTTAATT--TTTTTTT--AAA-GTTTGAAGGTCTTTTTGATGAATTTTGAAAGTTCA-AATA
96832998 CCCAAATGAGTGCAAAAAAAAAAAG
60 CCCAAATGAGTGCAAAAAAAAAAAG
96833023 GAGCTTAATTTTTT
1 GAGCTTAATTTTTT
96833037 AAAAAAAAAT
Statistics
Matches: 90, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
85 8 0.09
86 1 0.01
87 7 0.08
88 4 0.04
89 7 0.08
90 39 0.43
91 24 0.27
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (84 bp):
GAGCTTAATTTTTTTTTAAAGTTTGAAGGTCTTTTTGATGAATTTTGAAAGTTCAAATACCCAAA
TGAGTGCAAAAAAAAAAAG
Found at i:96849135 original size:14 final size:14
Alignment explanation
Indices: 96849116--96849143 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
96849106 GGACCATTTT
96849116 CCACATCAGCGCAA
1 CCACATCAGCGCAA
96849130 CCACATCAGCGCAA
1 CCACATCAGCGCAA
96849144 ATTCAGGGGA
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:0.36, C:0.43, G:0.14, T:0.07
Consensus pattern (14 bp):
CCACATCAGCGCAA
Found at i:96849441 original size:15 final size:15
Alignment explanation
Indices: 96849421--96849460 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
96849411 TGTTTTAAGG
*
96849421 TTAGGGTTTAATAGT
1 TTAGGGTTTAAGAGT
*
96849436 TTAGGGTTTTTAGAGT
1 TTAGGG-TTTAAGAGT
96849452 TTAGGGTTT
1 TTAGGGTTT
96849461 TAGTGTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (15 bp):
TTAGGGTTTAAGAGT
Found at i:96849461 original size:15 final size:15
Alignment explanation
Indices: 96849412--96849463 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
96849402 GTTTTTTATT
*
96849412 GTTTTA-AGGTTAGG
1 GTTTTAGAGTTTAGG
* *
96849426 GTTTAATAGTTTAGG
1 GTTTTAGAGTTTAGG
96849441 GTTTTTAGAGTTTAGG
1 G-TTTTAGAGTTTAGG
96849457 GTTTTAG
1 GTTTTAG
96849464 TGTATAATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 5 0.16
15 14 0.44
16 13 0.41
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (15 bp):
GTTTTAGAGTTTAGG
Found at i:96852055 original size:95 final size:95
Alignment explanation
Indices: 96851892--96852192 Score: 483
Period size: 95 Copynumber: 3.3 Consensus size: 95
96851882 CGTGTAAAAT
* * * *
96851892 GGATTTAACTCGAACAGGTAATCCAAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATC
1 GGATTTAGCCCGAACGGGTAATCCGAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATC
96851957 CAAGCTCATTAGAGTAATTGTCGTTGCAGG
66 CAAGCTCATTAGAGTAATTGTCGTTGCAGG
96851987 GGATTTAGCCCGAACGGGTAATCCGAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATC
1 GGATTTAGCCCGAACGGGTAATCCGAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATC
96852052 CAAGCTCATTAGAGTAATTGTCGTTGCA--
66 CAAGCTCATTAGAGTAATTGTCGTTGCAGG
96852080 -G-----GCCCGAACGGGTAATCCGAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATC
1 GGATTTAGCCCGAACGGGTAATCCGAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATC
96852139 CAAGCTCATTAGAGTAATTGTCGTTGCAGG
66 CAAGCTCATTAGAGTAATTGTCGTTGCAGG
* * *
96852169 GGATTTAGCCTGGACTGGTAATCC
1 GGATTTAGCCCGAACGGGTAATCC
96852193 CGACAATACT
Statistics
Matches: 191, Mismatches: 7, Indels: 16
0.89 0.03 0.07
Matches are distributed among these distances:
87 86 0.45
90 1 0.01
92 1 0.01
95 103 0.54
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (95 bp):
GGATTTAGCCCGAACGGGTAATCCGAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATC
CAAGCTCATTAGAGTAATTGTCGTTGCAGG
Found at i:96852140 original size:87 final size:87
Alignment explanation
Indices: 96851994--96852168 Score: 350
Period size: 87 Copynumber: 2.0 Consensus size: 87
96851984 AGGGGATTTA
96851994 GCCCGAACGGGTAATCCGAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATCCAAGCTC
1 GCCCGAACGGGTAATCCGAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATCCAAGCTC
96852059 ATTAGAGTAATTGTCGTTGCAG
66 ATTAGAGTAATTGTCGTTGCAG
96852081 GCCCGAACGGGTAATCCGAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATCCAAGCTC
1 GCCCGAACGGGTAATCCGAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATCCAAGCTC
96852146 ATTAGAGTAATTGTCGTTGCAG
66 ATTAGAGTAATTGTCGTTGCAG
96852168 G
1 G
96852169 GGATTTAGCC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (87 bp):
GCCCGAACGGGTAATCCGAATTAGGGTCTGAATTTAGCTTGGACTGGTAATTCAGATCCAAGCTC
ATTAGAGTAATTGTCGTTGCAG
Found at i:96852333 original size:46 final size:46
Alignment explanation
Indices: 96852281--96852462 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
96852271 AGTGTGCTCT
*
96852281 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
96852327 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
96852373 GTGATATGAAACGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
96852419 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
96852463 TCATGTCAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:96853524 original size:126 final size:126
Alignment explanation
Indices: 96853307--96853607 Score: 514
Period size: 126 Copynumber: 2.4 Consensus size: 126
96853297 TTAATTACAA
* * *
96853307 AAAAAAGCTCCCACGTGGACACTCTTTTGCTATAGTAGTATCTGAAAAAATAATTTTGAGAAGAT
1 AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTTGAGAAGAT
* *
96853372 GTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCAGTGTTAGCAAAATTACGG
66 GTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTGTCAGCAAAATTACGG
*
96853433 AAAAAAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTTGAGAAGAT
1 AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTTGAGAAGAT
*
96853498 GTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTGTCAGCAAAATTATGG
66 GTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTGTCAGCAAAATTACGG
*
96853559 AAACAAA-CTCCCACGTAGACGCTCTTTTGCTACAGTAGTATCTGAAAAA
1 AAA-AAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAA
96853608 GCCTTAGACT
Statistics
Matches: 165, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
126 162 0.98
127 3 0.02
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (126 bp):
AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTTGAGAAGAT
GTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAGGATGCACTGTCAGCAAAATTACGG
Found at i:96856344 original size:216 final size:216
Alignment explanation
Indices: 96855955--96856360 Score: 715
Period size: 216 Copynumber: 1.9 Consensus size: 216
96855945 ATTTCCAAAG
* *
96855955 TGAGCAGCGAGTTATAAGGCCAAATGCAGGGAGGCCATGTATGGTGCGCGAAGGTATTGCGAGAG
1 TGAGCAGCGAGTTATAAGGCCAAATGCAAGGAGGCCATGTATGGTACGCGAAGGTATTGCGAGAG
* *
96856020 ATTAACAAGGCGAAGGTACGAGCCAACACCATGTACATAGTGTGTCATGATCGCGACAACCTATG
66 ATTAACAAGGCGAAGGTACGAGCCAACACCATGCACATAGTGTGTCACGATCGCGACAACCTATG
* *
96856085 GTTTCGTGTTACGGAGTTTGATAGACCGAACCAAGGTATTATCGGT-GGCAATATCGTGTACGCT
131 GTTTCGTGTTACAGAGTTTGACAGACCGAACCAAGGTATTATCGGTGGGCAATATCGTGTACGCT
96856149 TGAGAAATAGGACATGCGAAA
196 TGAGAAATAGGACATGCGAAA
96856170 TGAGCAGCGAGTTATAAAGGCCAAATGCAAGGAGGCCATGTATGGTACGCGAAGGTATTGCGAGA
1 TGAGCAGCGAGTTAT-AAGGCCAAATGCAAGGAGGCCATGTATGGTACGCGAAGGTATTGCGAGA
* *
96856235 GATTAACAAGGTGAAGGTACGAGCCAACACCATGCACATAGTGTGTCACGATCGCGATAACCTAT
65 GATTAACAAGGCGAAGGTACGAGCCAACACCATGCACATAGTGTGTCACGATCGCGACAACCTAT
*
96856300 GGTTTTGTGTTACAGAGTTTGACAGACCGAACCAAGGTATTATCGGTGGGCAATATCGTGT
130 GGTTTCGTGTTACAGAGTTTGACAGACCGAACCAAGGTATTATCGGTGGGCAATATCGTGT
96856361 GTTGTAGGCC
Statistics
Matches: 180, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
215 15 0.08
216 152 0.84
217 13 0.07
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (216 bp):
TGAGCAGCGAGTTATAAGGCCAAATGCAAGGAGGCCATGTATGGTACGCGAAGGTATTGCGAGAG
ATTAACAAGGCGAAGGTACGAGCCAACACCATGCACATAGTGTGTCACGATCGCGACAACCTATG
GTTTCGTGTTACAGAGTTTGACAGACCGAACCAAGGTATTATCGGTGGGCAATATCGTGTACGCT
TGAGAAATAGGACATGCGAAA
Found at i:96856539 original size:35 final size:35
Alignment explanation
Indices: 96856500--96856568 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
96856490 ACTTGCCTCT
96856500 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
96856535 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
96856569 TCACACACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.51, G:0.12, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:96857440 original size:3 final size:3
Alignment explanation
Indices: 96857409--96857472 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
96857399 AATATCCTTG
* * **
96857409 TTA TT- TTA ATA TTA TTA ATA TTA AAA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
96857454 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
96857473 ATATCCTTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:96857455 original size:25 final size:25
Alignment explanation
Indices: 96857420--96857470 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
96857410 TATTTTAATA
96857420 TTATTAATATTAAAATTATTATTAT
1 TTATTAATATTAAAATTATTATTAT
* **
96857445 TTATTATTATTATTATTATTATTAT
1 TTATTAATATTAAAATTATTATTAT
96857470 T
1 T
96857471 ATATATCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTATTAATATTAAAATTATTATTAT
Found at i:96857682 original size:22 final size:23
Alignment explanation
Indices: 96857654--96857708 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
96857644 AATTTTTTTA
96857654 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
96857676 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
96857700 -TA-ATATTAT
1 ATATATATTAT
96857709 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:96870330 original size:51 final size:51
Alignment explanation
Indices: 96870254--96870353 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
96870244 GAGCCTCGGA
96870254 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTAC
1 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTAC
96870305 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATT
1 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATT
96870354 GCGAGAGGTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (51 bp):
CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTAC
Found at i:96870426 original size:74 final size:74
Alignment explanation
Indices: 96870305--96870908 Score: 779
Period size: 74 Copynumber: 8.1 Consensus size: 74
96870295 CTCATATTAC
96870305 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
96870370 GCCTCGGGA
66 GCCTCGGGA
*
96870379 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGGTGA
1 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
96870444 GCCTCGGGA
66 GCCTCGGGA
* * *
96870453 CACGCTGAGGTAATTTTAATTTCTATTTTTAAAAAAAAATCAACTCATATTGCGAGAGATGAATT
1 CACGCTGAGGTAATTTTAATTTCTA-TTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
96870518 GAGCCTCGAGA
64 GAGCCTCGGGA
* * *
96870529 CACGCTGAGGTAATTTTAATTTCTATTTTTAAAAAAATCAACTCATATTGCGAGAGATGAATTGA
1 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
96870594 GCCTTGGGA
66 GCCTCGGGA
* * **
96870603 CACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGA
1 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
**
96870668 GCCTCAAGA
66 GCCTCGGGA
*
96870677 CACGTTGAGGT-ATTTTCAATTTCTATTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 CACGCTGAGGTAATTTT-AATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
96870739 AGCCTCGGTTCA
65 AGCCTCGG--GA
* * * * * * *
96870751 CATGCTGAGGTAATTTCAATTTGTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGA
1 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
**
96870816 GCCTCAAGA
66 GCCTCGGGA
** * * *
96870825 CATACTTAGGT-ATTGTCAATTTTTTGTATGTTTC--AAAAATCAACTCATATTGCGAGAGGTGA
1 CACGCTGAGGTAATT-TTAA---TTTCTAT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
* *
96870887 ATTGAGCCTCAGGA
61 GTTGAGCCTCGGGA
96870901 CACGCTGA
1 CACGCTGA
96870909 ATGAGTTGAG
Statistics
Matches: 470, Mismatches: 47, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
72 36 0.08
73 7 0.01
74 262 0.56
75 12 0.03
76 144 0.31
77 6 0.01
78 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (74 bp):
CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCGGGA
Found at i:96870700 original size:224 final size:220
Alignment explanation
Indices: 96870305--96870908 Score: 795
Period size: 224 Copynumber: 2.7 Consensus size: 220
96870295 CTCATATTAC
96870305 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
96870370 GCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAG
66 GCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAG
* *
96870435 GTGAGGTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTTAAAAAAAAATCAACTCA
131 GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCTA-TTTT---AAAAAATCAACTCA
96870500 TATTGCGAGAGATGAATTGAGCCTCGAG-A
192 TATTGCGAGAGATGAATTGAGCCTCG-GTA
* * *
96870529 CACGCTGAGGTAATTTTAATTTCTATTTTTAAAAAAATCAACTCATATTGCGAGAGATGAATTGA
1 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
96870594 GCCTTGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAA
66 GCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAG
* * * *
96870659 ATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTCTATTTTCAAAAATCAACTCATAT
131 GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTCTATTTTAAAAAATCAACTCATAT
* *
96870723 TGCGAGAGGTGAGTTGAGCCTCGGTTCA
195 TGCGAGAGATGAATTGAGCCTCGG-T-A
* * * * * * *
96870751 CATGCTGAGGTAATTTCAATTTGTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGA
1 CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** ** * *
96870816 GCCTCAAGACATACTTAGGT-ATTGTCAATTTTTTGTATGTTTC--AAAAATCAACTCATATTGC
66 GCCTCGGGACACGCTGAGGTAATT-TCAA-TTTCTG--T-TTTCAAAAAAATCAACTCATATTGC
*
96870878 GAGAGGTGAATTGAGCCTCAGGACACGCTGA
126 GAGAGGTGAGTTGAGCCTCAGGACACGCTGA
96870909 ATGAGTTGAG
Statistics
Matches: 334, Mismatches: 37, Indels: 18
0.86 0.10 0.05
Matches are distributed among these distances:
219 1 0.00
220 37 0.11
221 3 0.01
222 74 0.22
223 14 0.04
224 200 0.60
225 1 0.00
226 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (220 bp):
CACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCTATTTTAAAAAATCAACTCATATT
GCGAGAGATGAATTGAGCCTCGGTA
Found at i:96871549 original size:35 final size:35
Alignment explanation
Indices: 96871510--96871578 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
96871500 ACTTGCCTCT
96871510 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
96871545 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
96871579 TCACACACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.51, G:0.12, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:96872432 original size:3 final size:3
Alignment explanation
Indices: 96872424--96872475 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
96872414 GTTATTTTCA
96872424 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96872472 TAT T
1 TAT T
96872476 GTACATTAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:96872582 original size:3 final size:3
Alignment explanation
Indices: 96872574--96872600 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
96872564 TGTGTTTCAA
96872574 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
96872601 ATATCCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:96872807 original size:22 final size:23
Alignment explanation
Indices: 96872779--96872833 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
96872769 AATTTTTTTA
96872779 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
96872801 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
96872825 -TA-ATATTAT
1 ATATATATTAT
96872834 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:96885409 original size:74 final size:74
Alignment explanation
Indices: 96885293--96885937 Score: 800
Period size: 74 Copynumber: 8.7 Consensus size: 74
96885283 TTCCGTTTTC
* * ** * *
96885293 AAAATTCAACTTATATTGCGAGAAATGGGTTGAGCCTTGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
96885358 TATTTTCAA
66 TATTTTCAA
96885367 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
96885432 TATTTTCAA
66 TATTTTCAA
*
96885441 AAAAATCAACTCATATTGCGAGAGGTGAGGTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
*
96885506 TATTTTTAAAA
66 TA-TTTT-CAA
* * *
96885517 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGAGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
*
96885582 TATTTTTAA
66 TATTTTCAA
* * * *
96885591 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGGACACGCTGAGGTAATTTCAATTT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
*
96885655 TGTTTTCAA
66 TATTTTCAA
** ** *
96885664 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTT-AATTT
96885728 CTATTTTC--
65 CTATTTTCAA
* * *
96885736 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTAATTTTAATT
* * *
96885801 TGTGTTGTCAA
64 TCTATTTTCAA
* * ** ** * *
96885812 AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAAGACATACTTAGGT-ATTGTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT-TTAA---
*
96885876 TTTGTATGTTTC--
62 TTTCTAT-TTTCAA
* *
96885888 AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAGGACACGCTGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
96885938 ATGAGTTGAG
Statistics
Matches: 504, Mismatches: 53, Indels: 26
0.86 0.09 0.04
Matches are distributed among these distances:
72 40 0.08
73 62 0.12
74 237 0.47
75 12 0.02
76 144 0.29
77 6 0.01
78 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
TATTTTCAA
Found at i:96887431 original size:3 final size:3
Alignment explanation
Indices: 96887423--96887653 Score: 159
Period size: 3 Copynumber: 74.0 Consensus size: 3
96887413 GTTATTTTCA
96887423 TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
96887469 TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TGT ACAT TAGT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T -TAT
* * * * *
96887516 ATCT TCAT GTAT GTAT ATAT ATAT GTAG TAA TGT T-T CTAT TAC T-T TAT
1 -TAT T-AT -TAT -TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT
* * * ** * *
96887564 T-T TAA TAT TTT TAT TAT AAT GGCT T-T TGT GT-T TCAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT T-AT TAT TAT TAT
96887609 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96887654 ATATCCTTGT
Statistics
Matches: 187, Mismatches: 25, Indels: 32
0.77 0.10 0.13
Matches are distributed among these distances:
2 9 0.05
3 147 0.79
4 28 0.15
5 3 0.02
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:96887861 original size:22 final size:23
Alignment explanation
Indices: 96887833--96887887 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
96887823 AATTTTTTTA
96887833 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
96887855 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
96887879 -TA-ATATTAT
1 ATATATATTAT
96887888 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:96889884 original size:130 final size:129
Alignment explanation
Indices: 96889518--96889894 Score: 639
Period size: 129 Copynumber: 2.9 Consensus size: 129
96889508 ACATTTATTT
* * **
96889518 TAATAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTATTAAAATTAAAAATGGTAAAGTAC
1 TAATAAAAA-TATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
*
96889583 AATTAAAATATTAAAAATAACTTTTATTTTATTAATTGAAACTATATAAAAAATAAATATAAAAA
65 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATAAATATAAAAA
* *
96889648 TAATAAAAATATTGACTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGCAAAGTACA
1 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
*
96889713 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAAATAAATATAAAAA
66 ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATAAATATAAAAA
96889777 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTCAAAAAAAGTAAAGTAC
1 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATT-AAAAAAAGTAAAGTAC
*
96889842 AATTAAAATTTTAAAAACAACTTTTATTTTATT-ATATGAAACTATATAAAAAA
65 AATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TGAAACTATATAAAAAA
96889895 AGTTTCTACA
Statistics
Matches: 233, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
129 161 0.69
130 72 0.31
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (129 bp):
TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTACA
ATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATAAATATAAAAA
Found at i:96890333 original size:18 final size:18
Alignment explanation
Indices: 96890307--96890343 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
96890297 GAAAAGAAAG
*
96890307 CATAAAAGGGTTAGGATA
1 CATAAAAGGGCTAGGATA
*
96890325 CATATAAGGGCTAGGATA
1 CATAAAAGGGCTAGGATA
96890343 C
1 C
96890344 GCACCTGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.22
Consensus pattern (18 bp):
CATAAAAGGGCTAGGATA
Found at i:96890973 original size:7 final size:7
Alignment explanation
Indices: 96890961--96890986 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
96890951 TTATATAGGT
96890961 AATACTA
1 AATACTA
96890968 AATACTA
1 AATACTA
96890975 AATACTA
1 AATACTA
96890982 AATAC
1 AATAC
96890987 GAAACGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:96892202 original size:11 final size:10
Alignment explanation
Indices: 96892149--96892203 Score: 56
Period size: 11 Copynumber: 5.1 Consensus size: 10
96892139 TTGACAAAAA
96892149 TTGAGAGAAAT
1 TTGAGAG-AAT
96892160 TTGAGAGAAT
1 TTGAGAGAAT
* *
96892170 TTAGAAAGGAT
1 TT-GAGAGAAT
96892181 TTAGAGAGAAT
1 TT-GAGAGAAT
96892192 TGTGAGAGAAT
1 T-TGAGAGAAT
96892203 T
1 T
96892204 ATTGTGTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
10 5 0.13
11 32 0.84
12 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (10 bp):
TTGAGAGAAT
Found at i:96892533 original size:32 final size:32
Alignment explanation
Indices: 96892497--96892561 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
96892487 TAAAGTAGCG
96892497 AGATTTTCAATTATTTTTAAATTTACTTAATT
1 AGATTTTCAATTATTTTTAAATTTACTTAATT
96892529 AGATTTTCAATTATTTTTAAATTTACTTAATT
1 AGATTTTCAATTATTTTTAAATTTACTTAATT
96892561 A
1 A
96892562 ATAGTTAAAA
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:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (32 bp):
AGATTTTCAATTATTTTTAAATTTACTTAATT
Found at i:96892890 original size:19 final size:19
Alignment explanation
Indices: 96892861--96892908 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
96892851 TAGTTTTTAA
96892861 AGTTA-ATTTTTTTATTTT
1 AGTTATATTTTTTTATTTT
*
96892879 GGTTATA-TTTTTTATTTT
1 AGTTATATTTTTTTATTTT
*
96892897 AGTTTTATTTTT
1 AGTTATATTTTT
96892909 AAAATTTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (19 bp):
AGTTATATTTTTTTATTTT
Found at i:96896572 original size:2 final size:2
Alignment explanation
Indices: 96896565--96896590 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
96896555 TAGTGTTAGA
96896565 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
96896591 TTACTGTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96897146 original size:17 final size:16
Alignment explanation
Indices: 96897112--96897151 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
96897102 TAATCCTTTA
*
96897112 AAAATTA-TAAATATT
1 AAAATTATTAAATAAT
96897127 AAAATTATTAAAATAAT
1 AAAATTATT-AAATAAT
96897144 AAAATTAT
1 AAAATTAT
96897152 ATTTTTGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 1 0.05
17 14 0.64
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTATTAAATAAT
Found at i:96907792 original size:14 final size:14
Alignment explanation
Indices: 96907773--96907808 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
96907763 TATTTGTATG
*
96907773 ATAAAAGGAGGCCT
1 ATAAAAGCAGGCCT
96907787 ATAAAATGCAGGCCT
1 ATAAAA-GCAGGCCT
96907802 ATAAAAG
1 ATAAAAG
96907809 AAAATTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.17
Consensus pattern (14 bp):
ATAAAAGCAGGCCT
Found at i:96909421 original size:14 final size:14
Alignment explanation
Indices: 96909402--96909440 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
96909392 TTGTTTGGCT
*
96909402 GAAAATGATTTCTA
1 GAAAATAATTTCTA
*
96909416 GAAAATAATTTTTA
1 GAAAATAATTTCTA
*
96909430 AAAAATAATTT
1 GAAAATAATTT
96909441 ATTTTTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (14 bp):
GAAAATAATTTCTA
Found at i:96909465 original size:19 final size:20
Alignment explanation
Indices: 96909424--96909466 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
96909414 TAGAAAATAA
*
96909424 TTTTTAAAAAATAATTTATT
1 TTTTTAAAAAATAACTTATT
* *
96909444 TTTTTGAAAGATAACTTATT
1 TTTTTAAAAAATAACTTATT
96909464 TTT
1 TTT
96909467 CTAGTGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTTAAAAAATAACTTATT
Found at i:96922254 original size:14 final size:14
Alignment explanation
Indices: 96922235--96922270 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
96922225 TATTTGTATG
*
96922235 ATAAAAGGAGGCCT
1 ATAAAAGCAGGCCT
96922249 ATAAAATGCAGGCCT
1 ATAAAA-GCAGGCCT
96922264 ATAAAAG
1 ATAAAAG
96922271 AAAATTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.17
Consensus pattern (14 bp):
ATAAAAGCAGGCCT
Found at i:96923880 original size:14 final size:14
Alignment explanation
Indices: 96923861--96923899 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
96923851 TTGTTTGGCT
*
96923861 GAAAATGATTTCTA
1 GAAAATAATTTCTA
*
96923875 GAAAATAATTTTTA
1 GAAAATAATTTCTA
*
96923889 AAAAATAATTT
1 GAAAATAATTT
96923900 ATTTTTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (14 bp):
GAAAATAATTTCTA
Found at i:96923924 original size:19 final size:20
Alignment explanation
Indices: 96923883--96923925 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
96923873 TAGAAAATAA
*
96923883 TTTTTAAAAAATAATTTATT
1 TTTTTAAAAAATAACTTATT
* *
96923903 TTTTTGAAAGATAACTTATT
1 TTTTTAAAAAATAACTTATT
96923923 TTT
1 TTT
96923926 CTAGTGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTTAAAAAATAACTTATT
Found at i:96936704 original size:14 final size:14
Alignment explanation
Indices: 96936685--96936720 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
96936675 TATTTGTATG
*
96936685 ATAAAAGGAGGCCT
1 ATAAAAGCAGGCCT
96936699 ATAAAATGCAGGCCT
1 ATAAAA-GCAGGCCT
96936714 ATAAAAG
1 ATAAAAG
96936721 AAAATTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.17
Consensus pattern (14 bp):
ATAAAAGCAGGCCT
Found at i:96938113 original size:22 final size:22
Alignment explanation
Indices: 96938071--96938116 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
96938061 TAAAATATCA
*
96938071 TAAAATTTATTATATTATATTT
1 TAAAATTTATTATAGTATATTT
*
96938093 TAAAATTGTATTTTAGT-TATTT
1 TAAAATT-TATTATAGTATATTT
96938115 TA
1 TA
96938117 TGGAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (22 bp):
TAAAATTTATTATAGTATATTT
Found at i:96939473 original size:21 final size:21
Alignment explanation
Indices: 96939392--96939534 Score: 76
Period size: 21 Copynumber: 6.9 Consensus size: 21
96939382 CATTGAAGCA
* *
96939392 CATAAGTGTTAAACTGGAACC
1 CATAAGGGTTAAACTGAAACC
* * * * *
96939413 CATTAGGGTTGAACGGAAGCT
1 CATAAGGGTTAAACTGAAACC
* * *
96939434 CAT-AGGAGCTGAACGGAAACC
1 CATAAGG-GTTAAACTGAAACC
*
96939455 CATAAGGGTTAAACTGAAACT
1 CATAAGGGTTAAACTGAAACC
** * *
96939476 CA-AAAAGCTGAACTGAAACC
1 CATAAGGGTTAAACTGAAACC
* * *
96939496 CAATTAGGGTTAAATTGAAACT
1 C-ATAAGGGTTAAACTGAAACC
*
96939518 CATAAGAGTT-AACTGAA
1 CATAAGGGTTAAACTGAA
96939535 GCTCATGAGA
Statistics
Matches: 89, Mismatches: 29, Indels: 9
0.70 0.23 0.07
Matches are distributed among these distances:
20 23 0.26
21 51 0.57
22 15 0.17
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (21 bp):
CATAAGGGTTAAACTGAAACC
Found at i:96939532 original size:42 final size:42
Alignment explanation
Indices: 96939403--96939534 Score: 151
Period size: 42 Copynumber: 3.2 Consensus size: 42
96939393 ATAAGTGTTA
* * * * *
96939403 AACTGGAACCCATTAGGGTTGAACGGAAGCTCATAGGAGCTG
1 AACTGAAACCCATTAGGGTTAAACTGAAACTCATAAGAGCTG
* * *
96939445 AACGGAAACCCATAAGGGTTAAACTGAAACTCA-AAAAGCTG
1 AACTGAAACCCATTAGGGTTAAACTGAAACTCATAAGAGCTG
* *
96939486 AACTGAAACCCAATTAGGGTTAAATTGAAACTCATAAGAG-TT
1 AACTGAAACCC-ATTAGGGTTAAACTGAAACTCATAAGAGCTG
96939528 AACTGAA
1 AACTGAA
96939535 GCTCATGAGA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 16 0.21
42 55 0.73
43 4 0.05
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (42 bp):
AACTGAAACCCATTAGGGTTAAACTGAAACTCATAAGAGCTG
Found at i:96939539 original size:20 final size:21
Alignment explanation
Indices: 96939428--96939556 Score: 64
Period size: 21 Copynumber: 6.2 Consensus size: 21
96939418 GGGTTGAACG
* * *
96939428 GAAGCTCATAGGAGCTGAACG
1 GAAGCTCATAAGAGCTAAACT
* * * *
96939449 GAAACCCATAAGGGTTAAACT
1 GAAGCTCATAAGAGCTAAACT
* * *
96939470 GAAACTCA-AAAAGCTGAACT
1 GAAGCTCATAAGAGCTAAACT
* * * * * *
96939490 GAAACCCAATTAGGGTTAAATT
1 GAAGCTC-ATAAGAGCTAAACT
* *
96939512 GAAACTCATAAGAG-TTAACT
1 GAAGCTCATAAGAGCTAAACT
*
96939532 GAAGCTCATGAGAGCTAAACT
1 GAAGCTCATAAGAGCTAAACT
96939553 GAAG
1 GAAG
96939557 GCAAACACGA
Statistics
Matches: 78, Mismatches: 27, Indels: 6
0.70 0.24 0.05
Matches are distributed among these distances:
20 30 0.38
21 36 0.46
22 12 0.15
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.19
Consensus pattern (21 bp):
GAAGCTCATAAGAGCTAAACT
Found at i:96939554 original size:21 final size:20
Alignment explanation
Indices: 96939506--96939556 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
96939496 CAATTAGGGT
* *
96939506 TAAATTGAAACTCATAAGAG
1 TAAACTGAAGCTCATAAGAG
* *
96939526 TTAACTGAAGCTCATGAGAG
1 TAAACTGAAGCTCATAAGAG
96939546 CTAAACTGAAG
1 -TAAACTGAAG
96939557 GCAAACACGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.24
Consensus pattern (20 bp):
TAAACTGAAGCTCATAAGAG
Found at i:96959529 original size:41 final size:42
Alignment explanation
Indices: 96959484--96959562 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
96959474 TCTGTTTAGC
* * *
96959484 TCTTT-GAGCTTCGGTATAATCCTTTTAGGTTTCAGTTCAAT
1 TCTTTCGAGCTTCAGTATAACCCTTATAGGTTTCAGTTCAAT
* *
96959525 TCTTTCGAGCTTCAGTGTAACCCTTATGGGTTTCAGTT
1 TCTTTCGAGCTTCAGTATAACCCTTATAGGTTTCAGTT
96959563 TAGGACCTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 5 0.16
42 27 0.84
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (42 bp):
TCTTTCGAGCTTCAGTATAACCCTTATAGGTTTCAGTTCAAT
Found at i:96964195 original size:33 final size:33
Alignment explanation
Indices: 96964156--96964247 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
96964146 AAGATGTACA
96964156 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
1 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
* * *
96964189 TTCCTTTTCATA-TGGTATACACAAAATATACCT
1 TTCCTTTCCA-AGTGGTACACACAAAGTATACCT
** *
96964222 GACATTTCCAAGT-GTACACACAAAGT
1 TTCCTTTCCAAGTGGTACACACAAAGT
96964248 GTACATAACC
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
32 12 0.25
33 35 0.73
34 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (33 bp):
TTCCTTTCCAAGTGGTACACACAAAGTATACCT
Found at i:96964993 original size:20 final size:21
Alignment explanation
Indices: 96964958--96964998 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
96964948 GTGGTTTATC
* *
96964958 TATCAATAATCTTTCATTTTA
1 TATCAATAAACTTTCAATTTA
96964979 TATCAA-AAACTTTCAATTTA
1 TATCAATAAACTTTCAATTTA
96964999 CAGCATATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (21 bp):
TATCAATAAACTTTCAATTTA
Found at i:96967992 original size:27 final size:27
Alignment explanation
Indices: 96967962--96968040 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
96967952 TTGAGTTGAG
96967962 TCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAGTTCGTGAGATGTAACTAGGCA
** *
96967989 TCCGAACTCGT-TGA-GT---T--G-A
1 TCCGAGTTCGTGAGATGTAACTAGGCA
96968008 GTCCGAGTTCGTGAGATGTAACTAGGCA
1 -TCCGAGTTCGTGAGATGTAACTAGGCA
96968036 TCCGA
1 TCCGA
96968041 ACTCGTTGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 18
0.61 0.10 0.30
Matches are distributed among these distances:
19 1 0.03
20 10 0.27
21 2 0.05
22 3 0.08
25 3 0.08
26 2 0.05
27 15 0.41
28 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (27 bp):
TCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:96968013 original size:47 final size:47
Alignment explanation
Indices: 96967944--96968064 Score: 242
Period size: 47 Copynumber: 2.6 Consensus size: 47
96967934 ATTTGAGTTT
96967944 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
96967991 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
96968038 CGAACTCGTTGAGTTGAGTCCGAGTTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC
96968065 ACTTATGGAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATC
Found at i:96973316 original size:8 final size:8
Alignment explanation
Indices: 96973305--96973342 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
96973295 ATTATTTCTT
96973305 TTATTATA
1 TTATTATA
96973313 TTATTA-A
1 TTATTATA
96973320 TTATTATA
1 TTATTATA
96973328 TTATTATAA
1 TTATTAT-A
96973337 TTATTA
1 TTATTA
96973343 ATTTCTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.25
8 14 0.50
9 7 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATTATA
Found at i:96973316 original size:20 final size:20
Alignment explanation
Indices: 96973280--96973341 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
96973270 TTCTTTCCTT
* *
96973280 TTTC-TTTATTCTTTTATTA
1 TTTCTTTTATTATATTATTA
96973299 TTTCTTTTATTATATTATTA
1 TTTCTTTTATTATATTATTA
* * * *
96973319 ATTATTATATTATTATAATTA
1 TTTCTTTTATTA-TATTATTA
96973340 TT
1 TT
96973342 AATTTCTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 4 0.12
20 22 0.65
21 8 0.24
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTCTTTTATTATATTATTA
Found at i:96973323 original size:15 final size:15
Alignment explanation
Indices: 96973305--96973333 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
96973295 ATTATTTCTT
96973305 TTATTATATTATTAA
1 TTATTATATTATTAA
96973320 TTATTATATTATTA
1 TTATTATATTATTA
96973334 TAATTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTATATTATTAA
Found at i:96977060 original size:32 final size:32
Alignment explanation
Indices: 96976961--96977075 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 32
96976951 GATGTACATT
* * **
96976961 CCTTTCGAAGTCGTACACACAAAGTATACCTTT
1 CCTTTCCAAGT-GTACACACAAAGTATACATAA
* * *
96976994 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGT-GTACACACAAAGTATACATAA
*
96977027 CCTTTCCAAGTGTACACACAAAGTGTACATAA
1 CCTTTCCAAGTGTACACACAAAGTATACATAA
*
96977059 CCTTTTCAAGTTGTACA
1 CCTTTCCAAG-TGTACA
96977076 ATTTAGGTAC
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 28 0.41
33 39 0.57
34 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (32 bp):
CCTTTCCAAGTGTACACACAAAGTATACATAA
Found at i:96979449 original size:14 final size:15
Alignment explanation
Indices: 96979425--96979456 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
96979415 ATTTTCTGTG
96979425 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
96979440 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
96979454 TTT
1 TTT
96979457 TCATGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:96980659 original size:43 final size:42
Alignment explanation
Indices: 96980612--96980744 Score: 135
Period size: 43 Copynumber: 3.1 Consensus size: 42
96980602 TCTAAGACGG
**
96980612 TGGCATCTATATGTGATTACGTGTAAGACCATGCCTGGGACAT
1 TGGCATCTATATGTGATT-CGTGTAAGACCATATCTGGGACAT
* * *
96980655 TGGCATCGTAT-T-TGATTTGTGTAAGACCCTATCTGGGACAG
1 TGGCATC-TATATGTGATTCGTGTAAGACCATATCTGGGACAT
** * * *
96980696 TGGCATCGGTATGTGATTGCATGTAAGACCACATCTGGGACGT
1 TGGCATCTATATGTGATT-CGTGTAAGACCATATCTGGGACAT
96980739 TGGCAT
1 TGGCAT
96980745 TGTACGATAT
Statistics
Matches: 73, Mismatches: 13, Indels: 8
0.78 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 27 0.37
42 10 0.14
43 32 0.44
44 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
TGGCATCTATATGTGATTCGTGTAAGACCATATCTGGGACAT
Found at i:96983225 original size:96 final size:96
Alignment explanation
Indices: 96983061--96983252 Score: 357
Period size: 96 Copynumber: 2.0 Consensus size: 96
96983051 TGTATTGCAG
* *
96983061 ACTCTGAGAGATAAGCGTTATATGCAAAGTTCAGTAAAATTTTGGTTGAGTGAAGTTGGTTTTCT
1 ACTCTGAGAGATAAGCGTTATATGAAAAGTTCAGTAAAATTTTGGTTGAGTGAAGTTAGTTTTCT
*
96983126 GGGGCATATTGTGTCAGCATCAGGTATTCGA
66 GGGGCATATTGTGTCAGCATCAAGTATTCGA
96983157 ACTCTGAGAGATAAGCGTTATATGAAAAGTTCAGTAAAATTTTGGTTGAGTGAAGTTAGTTTTCT
1 ACTCTGAGAGATAAGCGTTATATGAAAAGTTCAGTAAAATTTTGGTTGAGTGAAGTTAGTTTTCT
96983222 GGGGCATATTGTGTCAGCATCAAGTATTCGA
66 GGGGCATATTGTGTCAGCATCAAGTATTCGA
96983253 GTTGATCCGA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (96 bp):
ACTCTGAGAGATAAGCGTTATATGAAAAGTTCAGTAAAATTTTGGTTGAGTGAAGTTAGTTTTCT
GGGGCATATTGTGTCAGCATCAAGTATTCGA
Found at i:96989953 original size:48 final size:48
Alignment explanation
Indices: 96989825--96990109 Score: 311
Period size: 48 Copynumber: 5.9 Consensus size: 48
96989815 AAAAGGGTAA
96989825 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATACATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATA-A-C
** * * *
96989875 GGTGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATATAAC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATAAC
* * * ** **
96989923 AATGCCGATGCCATGTTCCAAATATGGTCTTACACTGGCTCGCATATT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATAAC
* * * * *
96989971 GAGGCCAATGCTATGTCCCAGACATGGTCTTACACTGGCTCACATAAC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATAAC
* * * *
96990019 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGACTCGCATATACC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT--CATATAAC
**
96990069 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
96990110 TCATATCTCC
Statistics
Matches: 191, Mismatches: 41, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
48 109 0.57
49 1 0.01
50 80 0.42
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATAAC
Found at i:96990020 original size:96 final size:96
Alignment explanation
Indices: 96989825--96990114 Score: 420
Period size: 96 Copynumber: 3.0 Consensus size: 96
96989815 AAAAGGGTAA
* * *
96989825 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCAATGCCATG
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCAT--ATCGGTGCCAATGCCATG
* * *
96989890 TCCCAGACATGGTCTTACACTGACACATATAAC
64 TCCCAGACATGGTCTTACACTGGCTCACATAAC
* * *
96989923 AATGCCGATGCCATGTTCCAAATATGGTCTTACACTGGCTCGCATATTGAG-GCCAATGCTATGT
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATCG-GTGCCAATGCCATGT
96989987 CCCAGACATGGTCTTACACTGGCTCACATAAC
65 CCCAGACATGGTCTTACACTGGCTCACATAAC
* *
96990019 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGACTCGCATATACCGGTGCCGATGCCATG
1 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATAT--CGGTGCCAATGCCATG
*
96990084 TCCCAGACATGGTCTTACACTGGCTCTCATA
64 TCCCAGACATGGTCTTACACTGGCTCACATA
96990115 TCTCCATGGT
Statistics
Matches: 173, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
96 89 0.51
97 2 0.01
98 82 0.47
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (96 bp):
AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATCGGTGCCAATGCCATGTC
CCAGACATGGTCTTACACTGGCTCACATAAC
Found at i:96990101 original size:146 final size:146
Alignment explanation
Indices: 96989832--96990115 Score: 401
Period size: 146 Copynumber: 1.9 Consensus size: 146
96989822 TAAAATGCCG
* ** *
96989832 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCAATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATACATCAATGCCAATGCCATGTCCCAAA
* *
96989897 CATGGTCTTACACTGACACATATAACAATGCCGATGCCATGTTCCAAATATGGTCTTACACTGGC
66 CATGGTCTTACACTGACACATATAACAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGC
96989962 TCGCATATTGAGGCCA
131 TCGCATATTGAGGCCA
* * *
96989978 ATGCTATGTCCCAGACATGGTCTTACACTGGCTCACATA-A-CAATGCCGATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATACATCAATGCCAATGCCATGTCCCAAA
* * ** *
96990041 CATGGTCTTACACTGACTCGCATATACCGGTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
66 CATGGTCTTACACTGA--CACATATAACAATGCCGATGCCATGTCCCAAACATGGTCTTACACTG
*
96990106 GCTCTCATAT
129 GCTCGCATAT
96990116 CTCCATGGTC
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
144 34 0.28
145 1 0.01
146 86 0.71
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (146 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATACATCAATGCCAATGCCATGTCCCAAA
CATGGTCTTACACTGACACATATAACAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGC
TCGCATATTGAGGCCA
Found at i:96995945 original size:19 final size:19
Alignment explanation
Indices: 96995921--96995979 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
96995911 TCTTAAAATA
96995921 AAATTTATTTAATGTTTAT
1 AAATTTATTTAATGTTTAT
* **
96995940 AAATTT-CTTAA--AATA-
1 AAATTTATTTAATGTTTAT
96995955 AAATTTATTTAATGTTTAT
1 AAATTTATTTAATGTTTAT
96995974 AAATTT
1 AAATTT
96995980 GGGTTGGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 6 0.20
16 6 0.20
18 6 0.20
19 12 0.40
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (19 bp):
AAATTTATTTAATGTTTAT
Found at i:96995947 original size:34 final size:34
Alignment explanation
Indices: 96995909--96995979 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
96995899 ACAGATCCAG
96995909 TTTCTTAAAATAAAATTTATTTAATGTTTATAAA
1 TTTCTTAAAATAAAATTTATTTAATGTTTATAAA
96995943 TTTCTTAAAATAAAATTTATTTAATGTTTATAAA
1 TTTCTTAAAATAAAATTTATTTAATGTTTATAAA
96995977 TTT
1 TTT
96995980 GGGTTGGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (34 bp):
TTTCTTAAAATAAAATTTATTTAATGTTTATAAA
Found at i:96997623 original size:31 final size:32
Alignment explanation
Indices: 96997588--96997663 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
96997578 TATTTTTATA
* *
96997588 ATGTATATAATTGAA-TCAAAAT-AAATAATTT
1 ATGTATATAATTGAACT-AAAATAAAAAAATTG
* *
96997619 ATGTATACATTTGAACTAAAATAAAAAAATTG
1 ATGTATATAATTGAACTAAAATAAAAAAATTG
*
96997651 ATGTGTATAATTG
1 ATGTATATAATTG
96997664 CACAAATTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
31 18 0.50
32 18 0.50
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.37
Consensus pattern (32 bp):
ATGTATATAATTGAACTAAAATAAAAAAATTG
Found at i:97005250 original size:26 final size:26
Alignment explanation
Indices: 97005219--97005268 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
97005209 AATACAAAGA
*
97005219 ATTCTTTCAATACTCAATACATTTTC
1 ATTCTTTCAATACACAATACATTTTC
97005245 ATTCTTTCAATACACAATACATTT
1 ATTCTTTCAATACACAATACATTT
97005269 CAACTCACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (26 bp):
ATTCTTTCAATACACAATACATTTTC
Found at i:97010337 original size:26 final size:26
Alignment explanation
Indices: 97010306--97010355 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
97010296 AATACAAATA
*
97010306 ATTCTTTCAATACTCAATACATTTTC
1 ATTCTTTCAATACACAATACATTTTC
*
97010332 ATTCTTTTAATACACAATACATTT
1 ATTCTTTCAATACACAATACATTT
97010356 AAACTCACCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTCTTTCAATACACAATACATTTTC
Found at i:97016923 original size:21 final size:21
Alignment explanation
Indices: 97016884--97016923 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
97016874 TTTTCCTAAG
*
97016884 ATATGAATTAGATTGAATTGA
1 ATATGAATTAGATTAAATTGA
97016905 ATATGAATT-GTATTAAATT
1 ATATGAATTAG-ATTAAATT
97016924 TAGTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (21 bp):
ATATGAATTAGATTAAATTGA
Found at i:97017089 original size:2 final size:2
Alignment explanation
Indices: 97017082--97017118 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
97017072 ATTGAAATGT
97017082 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
97017119 GAATTTGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97017578 original size:25 final size:25
Alignment explanation
Indices: 97017512--97017600 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 25
97017502 GGCTCTTATG
* *
97017512 AGCTTCCCGTTATACAGCCCAGATA
1 AGCTTCCCGTTATATAGCCCAAATA
97017537 AGCTTCCCGTTATATAGCCCAAATA
1 AGCTTCCCGTTATATAGCCCAAATA
* * *** *
97017562 AGCTTCCCATTACATAGATTACATA
1 AGCTTCCCGTTATATAGCCCAAATA
97017587 AGCTTCCCG-TATAT
1 AGCTTCCCGTTATAT
97017601 GCTCGAGAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 4 0.07
25 50 0.93
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.29
Consensus pattern (25 bp):
AGCTTCCCGTTATATAGCCCAAATA
Found at i:97018894 original size:31 final size:31
Alignment explanation
Indices: 97018858--97018931 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
97018848 TGGATATGGG
*
97018858 ACACGCCTGTGTGGGCAGGCTATGTGGACAC
1 ACACGCCTGTGTGGACAGGCTATGTGGACAC
*
97018889 ACACG-CTCGTGTGGACAGGCTGTGTGGACAC
1 ACACGCCT-GTGTGGACAGGCTATGTGGACAC
*
97018920 ACACGCCCGTGT
1 ACACGCCTGTGT
97018932 CTCGACCCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 2 0.05
31 35 0.92
32 1 0.03
ACGTcount: A:0.19, C:0.28, G:0.34, T:0.19
Consensus pattern (31 bp):
ACACGCCTGTGTGGACAGGCTATGTGGACAC
Found at i:97019369 original size:14 final size:15
Alignment explanation
Indices: 97019350--97019378 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
97019340 AGCATATACA
97019350 TACAACCAA-ACATC
1 TACAACCAAGACATC
97019364 TACAACCAAGACATC
1 TACAACCAAGACATC
97019379 AACACATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.34, G:0.03, T:0.14
Consensus pattern (15 bp):
TACAACCAAGACATC
Found at i:97023454 original size:26 final size:26
Alignment explanation
Indices: 97023416--97023524 Score: 110
Period size: 26 Copynumber: 4.2 Consensus size: 26
97023406 GTTAACACTT
*
97023416 TGAAATGGCTATACGAAATGGTTATA
1 TGAAATGGTTATACGAAATGGTTATA
* * *
97023442 TGAATTGGTTATACGAATTGGTTATG
1 TGAAATGGTTATACGAAATGGTTATA
* * *
97023468 TGAAATGATTATAAGAATTGGTTATA
1 TGAAATGGTTATACGAAATGGTTATA
* * * *
97023494 TAAAAATAGATATACAAAATGGTTATA
1 T-GAAATGGTTATACGAAATGGTTATA
97023521 TGAA
1 TGAA
97023525 TCAGTTATAC
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
26 47 0.71
27 19 0.29
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (26 bp):
TGAAATGGTTATACGAAATGGTTATA
Found at i:97023520 original size:13 final size:13
Alignment explanation
Indices: 97023417--97023493 Score: 73
Period size: 13 Copynumber: 5.9 Consensus size: 13
97023407 TTAACACTTT
*
97023417 GAAATGGCTATAC
1 GAAATGGTTATAC
*
97023430 GAAATGGTTATAT
1 GAAATGGTTATAC
*
97023443 GAATTGGTTATAC
1 GAAATGGTTATAC
* **
97023456 GAATTGGTTATGT
1 GAAATGGTTATAC
* *
97023469 GAAATGATTATAA
1 GAAATGGTTATAC
*
97023482 GAATTGGTTATA
1 GAAATGGTTATA
97023494 TAAAAATAGA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.36
Consensus pattern (13 bp):
GAAATGGTTATAC
Found at i:97023600 original size:12 final size:13
Alignment explanation
Indices: 97023583--97023616 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
97023573 ATGTAAATAA
*
97023583 TTATATGAAGTG-
1 TTATATGAAATGT
97023595 TTATATGAAATGT
1 TTATATGAAATGT
97023608 TTATATGAA
1 TTATATGAA
97023617 TAGATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (13 bp):
TTATATGAAATGT
Found at i:97029858 original size:26 final size:26
Alignment explanation
Indices: 97029828--97029909 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
97029818 TGAAATTCCC
97029828 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
97029854 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
97029880 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
97029906 ATCA
1 ATCA
97029910 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:97037253 original size:21 final size:22
Alignment explanation
Indices: 97037201--97037253 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
97037191 AAATAAAGTC
*
97037201 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
97037222 CATGTTGTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
97037244 CATGTATCAT
1 CATGTATCAT
97037254 CATTTATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:97040064 original size:26 final size:25
Alignment explanation
Indices: 97040029--97040081 Score: 97
Period size: 26 Copynumber: 2.1 Consensus size: 25
97040019 AATCAATCAG
97040029 TTTTTTCCAAAAGTATTTCCCCAAT
1 TTTTTTCCAAAAGTATTTCCCCAAT
97040054 TTTTTTCCCAAAAGTATTTCCCCAAT
1 TTTTTT-CCAAAAGTATTTCCCCAAT
97040080 TT
1 TT
97040082 ACTTCCTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.26, C:0.25, G:0.04, T:0.45
Consensus pattern (25 bp):
TTTTTTCCAAAAGTATTTCCCCAAT
Found at i:97040087 original size:26 final size:26
Alignment explanation
Indices: 97040035--97040087 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
97040025 TCAGTTTTTT
**
97040035 CCAAAAGTATTTCCCCAATTTTTTTC
1 CCAAAAGTATTTCCCCAATTTACTTC
97040061 CCAAAAGTATTTCCCCAATTTACTTC
1 CCAAAAGTATTTCCCCAATTTACTTC
97040087 C
1 C
97040088 TGTGCATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.04, T:0.38
Consensus pattern (26 bp):
CCAAAAGTATTTCCCCAATTTACTTC
Found at i:97055651 original size:44 final size:45
Alignment explanation
Indices: 97055544--97055653 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 45
97055534 ATTACCGATT
*
97055544 TTTATCT-TCTTGAAATTACAGTCGAGTAGATCGAAGCTACAAATC
1 TTTATCTCTCTTG-AATTACAGTCGAGTAGATCGAAGCCACAAATC
* * * *
97055589 TCT-TCTC-CTTAGAATTACATTTGAGTAGATCGAGGCCAC-AATC
1 TTTATCTCTCTT-GAATTACAGTCGAGTAGATCGAAGCCACAAATC
97055632 TTTATCTCTC-TGAAGTTACAGT
1 TTTATCTCTCTTGAA-TTACAGT
97055654 AGAGCAGGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
43 9 0.17
44 40 0.75
45 4 0.08
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.35
Consensus pattern (45 bp):
TTTATCTCTCTTGAATTACAGTCGAGTAGATCGAAGCCACAAATC
Found at i:97055683 original size:46 final size:45
Alignment explanation
Indices: 97055633--97055744 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 45
97055623 GCCACAATCT
97055633 TTATCTCTCTGAAGTTACAGTAGAGCAGGATAAAAATACACAAGCC
1 TTATCTCTCTGAAGTTACAGTAGAGCAGGATAAAAATAC-CAAGCC
* * * * * *
97055679 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAATTACCAAGTC
1 TTATCTCTCTGAAGTTACAGTAGAGCAGGATAAAAATACCAAGCC
* * *
97055724 TTACCTCTTTGAAGTTCCAGT
1 TTATCTCTCTGAAGTTACAGT
97055745 GGAATAGATT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
45 22 0.39
46 34 0.61
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (45 bp):
TTATCTCTCTGAAGTTACAGTAGAGCAGGATAAAAATACCAAGCC
Found at i:97059549 original size:22 final size:21
Alignment explanation
Indices: 97059524--97059567 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
97059514 CATAATAAAT
97059524 ATTTCAAATAAAACATTATATC
1 ATTTCAAATAAAACATT-TATC
* **
97059546 ATTTCTAATTCAACATTTATC
1 ATTTCAAATAAAACATTTATC
97059567 A
1 A
97059568 ATTATAATCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTCAAATAAAACATTTATC
Found at i:97059575 original size:21 final size:22
Alignment explanation
Indices: 97059535--97059575 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
97059525 TTTCAAATAA
* *
97059535 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
97059557 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
97059576 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:97066574 original size:46 final size:46
Alignment explanation
Indices: 97066524--97066657 Score: 189
Period size: 46 Copynumber: 2.9 Consensus size: 46
97066514 TGAAGAAGCC
*
97066524 ACAAATCCTATACCCCTGAGTTGTAATGGGATGGATTGAAGATAAT
1 ACAAATCCTATACCCCTGAGTTGTAGTGGGATGGATTGAAGATAAT
* **
97066570 ACAAAT-CTCATACCCCTGAGTTGCAGTGGGATGGATTGAAGATGGT
1 ACAAATCCT-ATACCCCTGAGTTGTAGTGGGATGGATTGAAGATAAT
* * *
97066616 ACAAATCCTATACCCTTGATTTGTAGTGGGATGGATGGAAGA
1 ACAAATCCTATACCCCTGAGTTGTAGTGGGATGGATTGAAGA
97066658 AACCATAAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
45 2 0.03
46 74 0.95
47 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGTTGTAGTGGGATGGATTGAAGATAAT
Found at i:97071097 original size:17 final size:17
Alignment explanation
Indices: 97071077--97071109 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
97071067 TACTGGTGAG
97071077 GTTATTATACTGAGTCC
1 GTTATTATACTGAGTCC
97071094 GTTATTATACTGAGTC
1 GTTATTATACTGAGTC
97071110 GTACTTGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (17 bp):
GTTATTATACTGAGTCC
Found at i:97075215 original size:93 final size:93
Alignment explanation
Indices: 97075103--97075274 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
97075093 CGCCCATAAG
*
97075103 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
97075167 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
97075196 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
97075261 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
97075275 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:97075269 original size:46 final size:46
Alignment explanation
Indices: 97075096--97075271 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
97075086 TGTAACCCGC
* *
97075096 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
97075142 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
97075192 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
97075235 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
97075272 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:97083024 original size:42 final size:43
Alignment explanation
Indices: 97082916--97083029 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
97082906 AGCTCGTACA
* * * * *
97082916 ATGCTAACGTCCCAGACGTGGTATTACATGTAATTAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
*
97082959 ATGCC-ACTATCCCAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATATCG
*
97083001 ATTCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
97083030 AATATCACTT
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 26 0.44
43 31 0.53
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:97084094 original size:76 final size:76
Alignment explanation
Indices: 97084002--97084154 Score: 279
Period size: 76 Copynumber: 2.0 Consensus size: 76
97083992 AATGGTCAAA
* *
97084002 TAACCACTTAAGGACCTTACAATTTATAAGCCATATCAAACAGACACTTCTAACATATAACAAGC
1 TAACCACATAAGGACCTCACAATTTATAAGCCATATCAAACAGACACTTCTAACATATAACAAGC
*
97084067 AACTTTTGCAT
66 AACTTTTACAT
97084078 TAACCACATAAGGACCTCACAATTTATAAGCCATATCAAACAGACACTTCTAACATATAACAAGC
1 TAACCACATAAGGACCTCACAATTTATAAGCCATATCAAACAGACACTTCTAACATATAACAAGC
97084143 AACTTTTACAT
66 AACTTTTACAT
97084154 T
1 T
97084155 TTATGTGATT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (76 bp):
TAACCACATAAGGACCTCACAATTTATAAGCCATATCAAACAGACACTTCTAACATATAACAAGC
AACTTTTACAT
Found at i:97085330 original size:28 final size:28
Alignment explanation
Indices: 97085290--97085450 Score: 191
Period size: 28 Copynumber: 5.8 Consensus size: 28
97085280 AAAATGTATA
*
97085290 AAAATGGACACCTTTGTGGCAATTTATG
1 AAAATGGACACCTTTGTGGCAATATATG
*
97085318 AAAATGGACACCTTTGTGACAATATATG
1 AAAATGGACACCTTTGTGGCAATATATG
* *
97085346 AAAATGGAGACCTTTGTGACAATATATG
1 AAAATGGACACCTTTGTGGCAATATATG
* *
97085374 AAAATGGACACCTTTGTGGCAATCTAGG
1 AAAATGGACACCTTTGTGGCAATATATG
** *
97085402 AAAACAGA-AGCCTTTGTGGCAATCTATG
1 AAAATGGACA-CCTTTGTGGCAATATATG
* *
97085430 GAAA-GGAACACCTTCGTGGCA
1 AAAATGG-ACACCTTTGTGGCA
97085451 TTATCTAAAG
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 2 0.02
28 114 0.97
29 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (28 bp):
AAAATGGACACCTTTGTGGCAATATATG
Found at i:97091643 original size:2 final size:2
Alignment explanation
Indices: 97091636--97091661 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
97091626 CGGCTCTTGC
97091636 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
97091662 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97092458 original size:40 final size:40
Alignment explanation
Indices: 97092367--97092547 Score: 229
Period size: 40 Copynumber: 4.5 Consensus size: 40
97092357 TTTGAATGGT
* * * *
97092367 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
97092408 ATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
97092448 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
97092488 AACCGGGTTAAGTCCCGAGGGCATTTGTGCGAATTACTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
97092529 A-CCGGGCTATGTCCCGAAG
1 ATCCGGGTTAAGTCCCGAAG
97092548 ACAATCGAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 94 0.76
41 29 0.24
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:97097666 original size:18 final size:18
Alignment explanation
Indices: 97097639--97097676 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
97097629 AGAGCGAAAG
97097639 AAACGAG-AAACGGGCCA
1 AAACGAGAAAACGGGCCA
*
97097656 AAACAGAGAAAATGGGCCA
1 AAAC-GAGAAAACGGGCCA
97097675 AA
1 AA
97097677 GTACGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 3 0.17
19 11 0.61
ACGTcount: A:0.53, C:0.18, G:0.26, T:0.03
Consensus pattern (18 bp):
AAACGAGAAAACGGGCCA
Found at i:97100051 original size:22 final size:21
Alignment explanation
Indices: 97100021--97100086 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
97100011 TACAAATTAA
97100021 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
97100043 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
97100064 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
97100083 ATCT
1 ATCT
97100087 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:97100073 original size:19 final size:19
Alignment explanation
Indices: 97100038--97100135 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
97100028 AGATTACAAG
97100038 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
97100059 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
97100078 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
97100095 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
97100114 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
97100133 ATC
1 ATC
97100136 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:97100102 original size:36 final size:37
Alignment explanation
Indices: 97100038--97100135 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
97100028 AGATTACAAG
97100038 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
97100078 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
97100114 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
97100136 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:97101996 original size:93 final size:93
Alignment explanation
Indices: 97101884--97102055 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
97101874 CGCCCATAAG
* *
97101884 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
97101949 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
97101977 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
97102042 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
97102056 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:97102052 original size:46 final size:46
Alignment explanation
Indices: 97101877--97102052 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
97101867 TGTAACCCGC
* * *
97101877 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
97101923 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
97101973 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
97102016 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
97102053 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:97109550 original size:93 final size:93
Alignment explanation
Indices: 97109438--97109609 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
97109428 CGCCCATAAG
* *
97109438 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
97109503 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
97109531 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
97109596 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
97109610 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:97109606 original size:46 final size:46
Alignment explanation
Indices: 97109431--97109606 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
97109421 TGTAACCCGC
* * *
97109431 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
97109477 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
97109527 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
97109570 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
97109607 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:97111191 original size:87 final size:87
Alignment explanation
Indices: 97111096--97111366 Score: 261
Period size: 87 Copynumber: 3.1 Consensus size: 87
97111086 AAAGTCAAAT
97111096 CTGCTATGTCTTTAATTTGTTCCTTGTAAACACAAGAGTGCCAAATCATCTTGGATCTGCTTAAG
1 CTGCTATGTCTTTAATTTGTTCCTTGTAAACACAAGAGTGCCAAATCATCTTGGATCTGCTTAAG
97111161 TATAAACATCTGAAGGTTAGAC
66 TATAAACATCTGAAGGTTAGAC
* * * ** *
97111183 CTGCTATGTAC-CT--TCT-CTCC--GTCAAA-A-TGGAGATGCCAGATCTATTATCTTGGATCT
1 CTGCTATGT-CTTTAATTTGTTCCTTGT-AAACACAAGAG-TGCCA-A---ATCATCTTGGATCT
** * * * * * *
97111240 GCTTTGGTGTAAGAACATCCGAAAGTCAAAT
59 GCTTAAGTAT-A-AACATCTGAAGGTTAGAC
* *
97111271 CTGCTATGTCTTTAATTTGTTCCTTGTAAACACAAGAGTGCCAAATCATCTTGGATCTACTTCAG
1 CTGCTATGTCTTTAATTTGTTCCTTGTAAACACAAGAGTGCCAAATCATCTTGGATCTGCTTAAG
97111336 TATAAACATCTGAAGGTTAGAC
66 TATAAACATCTGAAGGTTAGAC
97111358 CTGCTATGT
1 CTGCTATGT
97111367 ACCTGCTCTC
Statistics
Matches: 138, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
81 3 0.02
82 8 0.06
83 4 0.03
84 3 0.02
85 2 0.01
86 20 0.14
87 34 0.25
88 25 0.18
89 19 0.14
90 2 0.01
91 3 0.02
92 4 0.03
93 8 0.06
94 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (87 bp):
CTGCTATGTCTTTAATTTGTTCCTTGTAAACACAAGAGTGCCAAATCATCTTGGATCTGCTTAAG
TATAAACATCTGAAGGTTAGAC
Found at i:97111213 original size:175 final size:175
Alignment explanation
Indices: 97110910--97111492 Score: 956
Period size: 175 Copynumber: 3.3 Consensus size: 175
97110900 GTAAACACGT
* * * *
97110910 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
* * * *
97110975 ATCTGCTTCAGTA-AAATCATCTGAAGGTTACATCTGCTATGTATCTACTCTCCGTCGAAATGGA
66 ATCTGCTTCAGTATAAA-CATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCAAAATGGA
97111039 GATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTAAGAACATCC
130 GATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTAAGAACATCC
*
97111085 GAAAGTCAAATCTGCTATGTCTTTAATTTGTTCCTTGTAAACACAA-GAGTGCCAAATCATCTTG
1 GAAAGTCAAATCTGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGA-TGCCAAATCATCTTG
* *
97111149 GATCTGCTTAAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTTCTCTCCGTCAAAATGGA
65 GATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCAAAATGGA
97111214 GATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTAAGAACATCC
130 GATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTAAGAACATCC
*
97111260 GAAAGTCAAATCTGCTATGTCTTTAATTTGTTCCTTGTAAACACAA-GAGTGCCAAATCATCTTG
1 GAAAGTCAAATCTGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGA-TGCCAAATCATCTTG
* *
97111324 GATCTACTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCAAAATGGA
65 GATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCAAAATGGA
* * *
97111389 GATGCCAAATCTGTTATCTTGGATCTGCTTTGGTGTAAGAACATCT
130 GATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTAAGAACATCC
*
97111435 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATC
1 GAAAGTCAAATCTGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAATC
97111493 TGCTATCTTC
Statistics
Matches: 386, Mismatches: 19, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
174 2 0.01
175 379 0.98
176 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCAAAATGGAG
ATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTAAGAACATCC
Found at i:97111279 original size:88 final size:87
Alignment explanation
Indices: 97110968--97111454 Score: 310
Period size: 88 Copynumber: 5.6 Consensus size: 87
97110958 ATGCCAAATC
** * * * * *
97110968 ATCTTGGATCTGC-TT-CAGTAA-AATCATCTGAAGGTTACATCTGCTATGTATCTACTCTCCGT
1 ATCTTGGATCTGCTTTGGTGTAAGAA-CATCTGAAAGTCAAATCTGCTATGTACCTTCTCTCCGT
*
97111030 CGAAATGGAGATGCCAGATCTATT
65 CAAAATGGAGATGCCA-ATCTATT
* * * *
97111054 ATCTTGGATCTGCTTTGGTGTAAGAACATCCGAAAGTCAAATCTGCTATGT-CTTTAATTTGTTC
1 ATCTTGGATCTGCTTTGGTGTAAGAACATCTGAAAGTCAAATCTGCTATGTAC-CT--TCT-CTC
** *
97111118 CTTGT-AAACA-CAAGAGTGCCAA---ATC
62 C--GTCAAA-ATGGAGA-TGCCAATCTATT
** * * * * *
97111143 ATCTTGGATCTGCTTAAGTAT-A-AACATCTGAAGGTTAGACCTGCTATGTACCTTCTCTCCGTC
1 ATCTTGGATCTGCTTTGGTGTAAGAACATCTGAAAGTCAAATCTGCTATGTACCTTCTCTCCGTC
97111206 AAAATGGAGATGCCAGATCTATT
66 AAAATGGAGATGCCA-ATCTATT
* * * *
97111229 ATCTTGGATCTGCTTTGGTGTAAGAACATCCGAAAGTCAAATCTGCTATGT-CTTTAATTTGTTC
1 ATCTTGGATCTGCTTTGGTGTAAGAACATCTGAAAGTCAAATCTGCTATGTAC-CT--TCT-CTC
** *
97111293 CTTGT-AAACA-CAAGAGTGCCAA---ATC
62 C--GTCAAA-ATGGAGA-TGCCAATCTATT
* ** * * * * * *
97111318 ATCTTGGATCTACTTCAGTAT-A-AACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTC
1 ATCTTGGATCTGCTTTGGTGTAAGAACATCTGAAAGTCAAATCTGCTATGTACCTTCTCTCCGTC
*
97111381 AAAATGGAGATGCCAAATCTGTT
66 AAAATGGAGATGCC-AATCTATT
97111404 ATCTTGGATCTGCTTTGGTGTAAGAACATCTGAAAGTCAAATCTGCTATGT
1 ATCTTGGATCTGCTTTGGTGTAAGAACATCTGAAAGTCAAATCTGCTATGT
97111455 CTTCGATTTG
Statistics
Matches: 296, Mismatches: 68, Indels: 72
0.68 0.16 0.17
Matches are distributed among these distances:
82 15 0.05
83 15 0.05
84 6 0.02
85 3 0.01
86 51 0.17
87 51 0.17
88 76 0.26
89 41 0.14
90 3 0.01
91 6 0.02
92 13 0.04
93 16 0.05
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (87 bp):
ATCTTGGATCTGCTTTGGTGTAAGAACATCTGAAAGTCAAATCTGCTATGTACCTTCTCTCCGTC
AAAATGGAGATGCCAATCTATT
Found at i:97111512 original size:44 final size:43
Alignment explanation
Indices: 97111441--97111758 Score: 221
Period size: 44 Copynumber: 7.2 Consensus size: 43
97111431 ATCTGAAAGT
* * *
97111441 CAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGC
1 CAAATCTGCTA--TCTTCGA-TTGTTCCCTATAAACACAGGGATGC
*
97111487 CAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAGGGATGC
** *** * * * * * *
97111531 CAGGT-TAAAATCTTTGATCTGTTTCACTGTAACCACAGGAATGT
1 CAAATCTGCTATCTTCGAT-TG-TTCCCTATAAACACAGGGATGC
*
97111575 CAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGAT-TGTTCCCTATAAACACAGGGATGC
* * *
97111619 CAAATCTGCTATCTTCAACCTGTTCCCTATAAACATAGGGATGC
1 CAAATCTGCTATCTTCGA-TTGTTCCCTATAAACACAGGGATGC
** * * ** **
97111663 C--ATGCTGAAATCTTCGATCTGCTTCGCTGTAGGCACA-GGAGTTT
1 CAAAT-CTGCTATCTTCGAT-TG-TTCCCTATAAACACAGGGA-TGC
* *
97111707 CAGATCTGTTATCTTCGATCTGTTTCCCTATAAACACAGGGATGC
1 CAAATCTGCTATCTTCGAT-TG-TTCCCTATAAACACAGGGATGC
97111752 CAAATCT
1 CAAATCT
97111759 TGTTTCTTTG
Statistics
Matches: 209, Mismatches: 52, Indels: 23
0.74 0.18 0.08
Matches are distributed among these distances:
42 3 0.01
43 24 0.11
44 121 0.58
45 45 0.22
46 16 0.08
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (43 bp):
CAAATCTGCTATCTTCGATTGTTCCCTATAAACACAGGGATGC
Found at i:97111611 original size:132 final size:132
Alignment explanation
Indices: 97111439--97111758 Score: 451
Period size: 132 Copynumber: 2.4 Consensus size: 132
97111429 ACATCTGAAA
* * * * *
97111439 GTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCTGCTATCTTCA
1 GTCAGATCTGCTA--TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCA
* * * *
97111504 ACTTGTTCCCTATAAACACAGGGATGCCAGGTTAAAATCTTTGATCTGTTTCACTGTAACCACAG
64 ACCTGTTCCCTATAAACACAGGGATGCCAGGCTAAAATCTTCGATCTGCTTCACTGTAACCACAG
97111569 GAAT
129 GAAT
97111573 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* * * * **
97111638 CTGTTCCCTATAAACATAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAGGCACAGGA
66 CTGTTCCCTATAAACACAGGGATGCCAGGCTAAAATCTTCGATCTGCTTCACTGTAACCACAGGA
*
97111703 GT
131 AT
* *
97111705 TTCAGATCTGTTATCTTCGATCTGTTTCCCTATAAACACAGGGATGCCAAATCT
1 GTCAGATCTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAAATCT
97111759 TGTTTCTTTG
Statistics
Matches: 167, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
132 126 0.75
133 29 0.17
134 12 0.07
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (132 bp):
GTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
CTGTTCCCTATAAACACAGGGATGCCAGGCTAAAATCTTCGATCTGCTTCACTGTAACCACAGGA
AT
Done.