Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007947.1 Hibiscus syriacus cultivar Beakdansim tig00110369_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: 254465
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:2431 original size:31 final size:31
Alignment explanation
Indices: 2393--2566 Score: 330
Period size: 31 Copynumber: 5.6 Consensus size: 31
2383 CCTATAGATT
*
2393 CCGAAGAACCTAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
2424 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
2455 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
2486 CCGAAGAACATAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
*
2517 CCGAAGAACATAGGTAAACAATCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
2548 CCGAAGAACATAGGTAAAC
1 CCGAAGAACATAGGTAAAC
2567 CCTCGACCCT
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 141 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (31 bp):
CCGAAGAACATAGGTAAACAGTCCATATGTC
Found at i:9380 original size:21 final size:21
Alignment explanation
Indices: 9356--9411 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
9346 CAGAAATATT
*
9356 CATTTTAGGTAGCAAAATTAA
1 CATTTTAGGTAGCAAAAATAA
*
9377 CATTTCT-GGTAGAAAAAAATAA
1 CATTT-TAGGTAG-CAAAAATAA
9399 CATTTTAGGTAGC
1 CATTTTAGGTAGC
9412 GCCCGATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (21 bp):
CATTTTAGGTAGCAAAAATAA
Found at i:12373 original size:17 final size:17
Alignment explanation
Indices: 12346--12382 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
12336 AAACCATTTG
12346 TTTTATTTTCTTTTTCTA
1 TTTTATTTTCTTTTT-TA
12364 TTTT-TTTTCTTTTTTA
1 TTTTATTTTCTTTTTTA
12380 TTT
1 TTT
12383 GAATATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 10 0.53
18 4 0.21
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTATTTTCTTTTTTA
Found at i:17739 original size:20 final size:20
Alignment explanation
Indices: 17712--17755 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
17702 ACATAAACTA
* *
17712 AAATAAAATTCAATATT-AT
1 AAATAAAAATCAAAATTAAT
17731 AAATAAAAAATCAAAATTAAT
1 AAAT-AAAAATCAAAATTAAT
17752 AAAT
1 AAAT
17756 GTATATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATAAAAATCAAAATTAAT
Found at i:18170 original size:14 final size:14
Alignment explanation
Indices: 18151--18202 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
18141 ATAAATAAAT
18151 AAATAAATTATTCA
1 AAATAAATTATTCA
*
18165 AAATAAATATATACA
1 AAATAAAT-TATTCA
18180 TAAATAAAATT-TTCA
1 -AAAT-AAATTATTCA
18195 AAATAAAT
1 AAATAAAT
18203 AATATTTTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 4 0.12
14 12 0.36
15 8 0.24
16 5 0.15
17 4 0.12
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAAATTATTCA
Found at i:18170 original size:18 final size:17
Alignment explanation
Indices: 18147--18223 Score: 65
Period size: 18 Copynumber: 4.6 Consensus size: 17
18137 ATAAATAAAT
18147 AAATAAATAAATTATTCA
1 AAATAAATAAATT-TTCA
*
18165 AAATAAAT--A-TAT--
1 AAATAAATAAATTTTCA
*
18177 ACATAAATAAAATTTTCA
1 AAATAAAT-AAATTTTCA
*
18195 AAATAAATAATATTTTCG
1 AAATAAATAA-ATTTTCA
18213 AAATAAATAAA
1 AAATAAATAAA
18224 AAGGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
12 7 0.15
14 1 0.02
15 2 0.04
16 3 0.06
17 3 0.06
18 31 0.66
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.32
Consensus pattern (17 bp):
AAATAAATAAATTTTCA
Found at i:18170 original size:30 final size:30
Alignment explanation
Indices: 18134--18204 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
18124 CATACTCCTT
18134 AAAATAAATAAATAAATAAAT-AAATTATTC
1 AAAATAAATAAATAAATAAATAAAATT-TTC
* *
18164 AAAATAAATATATACATAAATAAAATTTTC
1 AAAATAAATAAATAAATAAATAAAATTTTC
18194 AAAATAAATAA
1 AAAATAAATAA
18205 TATTTTCGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 32 0.86
31 5 0.14
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (30 bp):
AAAATAAATAAATAAATAAATAAAATTTTC
Found at i:18204 original size:4 final size:4
Alignment explanation
Indices: 18135--18187 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
18125 ATACTCCTTA
* * * *
18135 AAAT AAAT AAAT AAAT AAAT AAAT TATT CAAAAT AAAT ATAT ACAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT --AAAT AAAT AAAT AAAT AAAT
18185 AAA
1 AAA
18188 ATTTTCAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
4 38 0.95
6 2 0.05
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:21919 original size:18 final size:18
Alignment explanation
Indices: 21896--22010 Score: 95
Period size: 18 Copynumber: 5.9 Consensus size: 18
21886 CTGAATATTT
21896 GTCCCGAAGGACCACTAC
1 GTCCCGAAGGACCACTAC
*
21914 GTCCCGAAGGACCACTGGATAT
1 GTCCCGAAGGACCAC----TAC
21936 GTCCCGAAGGACCACTAC
1 GTCCCGAAGGACCACTAC
* *
21954 GTCACGAAGGACCACTGGATAT
1 GTCCCGAAGGACCAC----TAC
* * *
21976 GTCTCAAAGAACCACTAC
1 GTCCCGAAGGACCACTAC
*
21994 GTCCCGAAAGACCACTA
1 GTCCCGAAGGACCACTA
22011 TAACCCTCGA
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
18 46 0.60
22 31 0.40
ACGTcount: A:0.31, C:0.32, G:0.22, T:0.15
Consensus pattern (18 bp):
GTCCCGAAGGACCACTAC
Found at i:21939 original size:40 final size:40
Alignment explanation
Indices: 21895--22009 Score: 185
Period size: 40 Copynumber: 2.9 Consensus size: 40
21885 ACTGAATATT
21895 TGTCCCGAAGGACCACTACGTCCCGAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTACGTCCCGAAGGACCACTGGATA
*
21935 TGTCCCGAAGGACCACTACGTCACGAAGGACCACTGGATA
1 TGTCCCGAAGGACCACTACGTCCCGAAGGACCACTGGATA
* * * *
21975 TGTCTCAAAGAACCACTACGTCCCGAAAGACCACT
1 TGTCCCGAAGGACCACTACGTCCCGAAGGACCACT
22010 ATAACCCTCG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (40 bp):
TGTCCCGAAGGACCACTACGTCCCGAAGGACCACTGGATA
Found at i:28719 original size:18 final size:18
Alignment explanation
Indices: 28693--28729 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
28683 ACTGAATATT
*
28693 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
*
28711 TGTCTCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
28729 T
1 T
28730 AACCCTCGAC
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:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:30360 original size:14 final size:14
Alignment explanation
Indices: 30340--30374 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
30330 CAAATAGTTA
30340 GAAGCCAATGTTTT
1 GAAGCCAATGTTTT
*
30354 TAAGCCAATGTTTT
1 GAAGCCAATGTTTT
30368 GAAGCCA
1 GAAGCCA
30375 CTAAATGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (14 bp):
GAAGCCAATGTTTT
Found at i:30797 original size:21 final size:21
Alignment explanation
Indices: 30759--30798 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30749 TAAAAAAGTA
* * *
30759 TAAATAATATTATTAAAATTG
1 TAAATAAAATGATAAAAATTG
30780 TAAATAAAATGATAAAAAT
1 TAAATAAAATGATAAAAAT
30799 GAGAATAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
TAAATAAAATGATAAAAATTG
Found at i:31513 original size:15 final size:15
Alignment explanation
Indices: 31493--31527 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
31483 GATTAAAAGC
31493 TTTGTAATAGAAGTT
1 TTTGTAATAGAAGTT
*
31508 TTTGTAATGGAAGTT
1 TTTGTAATAGAAGTT
31523 TTTGT
1 TTTGT
31528 GTGTTTCCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
TTTGTAATAGAAGTT
Found at i:31635 original size:22 final size:21
Alignment explanation
Indices: 31602--31642 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
31592 ATAAACTTTG
31602 ATTTTTTGCATTGTGCATTTA
1 ATTTTTTGCATTGTGCATTTA
* *
31623 ATTTTTCTTCATTTTGCATT
1 ATTTTT-TGCATTGTGCATT
31643 GAACTGCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.61
Consensus pattern (21 bp):
ATTTTTTGCATTGTGCATTTA
Found at i:36185 original size:22 final size:21
Alignment explanation
Indices: 36153--36193 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
36143 CTTGTAGTTC
36153 AATGCAAAATGAAGAAAAATTA
1 AATGCAAAATGAA-AAAAATTA
* *
36175 AATGCACAATGCAAAAAAT
1 AATGCAAAATGAAAAAAAT
36194 CAAAGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.17
Consensus pattern (21 bp):
AATGCAAAATGAAAAAAATTA
Found at i:37521 original size:22 final size:22
Alignment explanation
Indices: 37476--37532 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
37466 TAATTTTTTG
* ** *
37476 TTTATTTATATATTTTGAATAA
1 TTTATTTATGTATTTCAAAAAA
37498 TTTATTTATGTATTTCAAAAAA
1 TTTATTTATGTATTTCAAAAAA
*
37520 TTTATTGATGTAT
1 TTTATTTATGTAT
37533 ATATTTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (22 bp):
TTTATTTATGTATTTCAAAAAA
Found at i:39186 original size:3 final size:3
Alignment explanation
Indices: 39173--39214 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
39163 AAAAATTACA
*
39173 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
39215 TTCAAATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:44435 original size:201 final size:200
Alignment explanation
Indices: 44078--44515 Score: 441
Period size: 201 Copynumber: 2.2 Consensus size: 200
44068 TTTTGGTTTT
* * * * *
44078 GAACCATTTTGAACATGATTTTTACACTGTTTAGAATGTCTCCTATGTGTCGATACTAACCAAAA
1 GAACCATTTTGAACGTGATTTTTACCCTGCTTACAATGTCTCCTATGTGCCGATACTAACCAAAA
* * *
44143 TTGAAATATAAGTATCAATACTACACCTCTAATCTTATAAATGACGAAAAATTTCAAACTAACTT
66 TTGAAAGATAAGTATCAATACTACACCTATAATCTTATAAATGACGAAAAATTTCAAACTAACTA
* ** * ** * * ** *
44208 CCGAAAAGTACTCCCCGAACATGTCTATCAAGTCATGTTAGCTTTTTCTTCATGTAGAAAATCAA
131 CCCAAAAAAACTCACCGAACATGTCTATCAAACCATGTTAACATTTTCTTCATACACAAAA-CAA
44273 GCTCTG
195 GCTCTG
* * * * * **
44279 TAACCATTTTGAACGTGATTTTTACCCTGCTTACAATGTTTCGTATGTGCCGATATTATCCTGAA
1 GAACCATTTTGAACGTGATTTTTACCCTGCTTACAATGTCTCCTATGTGCCGATACTAACCAAAA
* *** * * * *
44344 TTGAAAGATAAGT-TACAATATTATGTCTATAATCTTATAAAT-TCTGAAAATTTTCATATTAAC
66 TTGAAAGATAAGTAT-CAATACTACACCTATAATCTTATAAATGAC-GAAAAATTTCAAACTAAC
** * *
44407 TACCCAAAAAAACTCATTGAATATGTCTATCAAACCATTTTAACATTTTCTTCATACACAAAACA
129 TACCCAAAAAAACTCACCGAACATGTCTATCAAACCATGTTAACATTTTCTTCATACACAAAACA
*
44472 AGCTTTG
194 AGCTCTG
* * *
44479 GAACCATTTTTAATGCGATTTTTAACCC-GCTTACAAT
1 GAACCATTTTGAACGTGATTTTT-ACCCTGCTTACAAT
44516 ATCACATATG
Statistics
Matches: 191, Mismatches: 43, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
200 38 0.20
201 153 0.80
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (200 bp):
GAACCATTTTGAACGTGATTTTTACCCTGCTTACAATGTCTCCTATGTGCCGATACTAACCAAAA
TTGAAAGATAAGTATCAATACTACACCTATAATCTTATAAATGACGAAAAATTTCAAACTAACTA
CCCAAAAAAACTCACCGAACATGTCTATCAAACCATGTTAACATTTTCTTCATACACAAAACAAG
CTCTG
Found at i:47706 original size:31 final size:27
Alignment explanation
Indices: 47671--47762 Score: 85
Period size: 31 Copynumber: 3.1 Consensus size: 27
47661 GTATCTTAAG
*
47671 TATTTTTTGTCAAAATAAATACTTAAACTTA
1 TATTTTTTGTCAAAATAAGTA-TTAAA---A
* *
47702 TATTTTTAGTTAAAATAAGTATCTAAAA
1 TATTTTTTGTCAAAATAAGTAT-TAAAA
*
47730 TATTTTTTGATCAAAATAAGTATTTAAAG
1 TATTTTTTG-TCAAAATAAGTA-TTAAAA
47759 TATT
1 TATT
47763 CAATTTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
28 9 0.17
29 19 0.37
30 2 0.04
31 22 0.42
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (27 bp):
TATTTTTTGTCAAAATAAGTATTAAAA
Found at i:47745 original size:29 final size:29
Alignment explanation
Indices: 47659--47762 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 29
47649 TTTTTCATAA
*
47659 AAGTATCTTAAGTATTTTTTG-TCAAAAT
1 AAGTATCTAAAGTATTTTTTGATCAAAAT
* * *
47687 AAATA-CTTAAACTTATATTTTT-AGTTAAAAT
1 AAGTATC-TAAA-GTAT-TTTTTGA-TCAAAAT
*
47718 AAGTATCTAAAATATTTTTTGATCAAAAT
1 AAGTATCTAAAGTATTTTTTGATCAAAAT
*
47747 AAGTATTTAAAGTATT
1 AAGTATCTAAAGTATT
47763 CAATTTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
27 1 0.02
28 7 0.12
29 28 0.47
30 9 0.15
31 14 0.23
32 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (29 bp):
AAGTATCTAAAGTATTTTTTGATCAAAAT
Found at i:47894 original size:29 final size:28
Alignment explanation
Indices: 47852--47932 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 28
47842 TTTGATATCG
* *
47852 ATTTTGACATAAAATATTTT-AGATATTT
1 ATTTTGACAAAAAATATTTTAAG-GATTT
*
47880 ATTTTGACAAAAAAATAACTTTAAGGATTT
1 ATTTTGAC-AAAAAAT-ATTTTAAGGATTT
47910 ATTTTGATCAAAAAATATTTTAA
1 ATTTTGA-CAAAAAATATTTTAA
47933 ATACTTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
28 8 0.18
29 12 0.27
30 22 0.49
31 3 0.07
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.43
Consensus pattern (28 bp):
ATTTTGACAAAAAATATTTTAAGGATTT
Found at i:53362 original size:51 final size:50
Alignment explanation
Indices: 53271--53374 Score: 136
Period size: 51 Copynumber: 2.1 Consensus size: 50
53261 ATCCTTTGCA
* *
53271 GTAAGGCGCGCCCCTACAGCGCGTTTTACATTGATATGGCGCCACGTGGG
1 GTAAGGCGCGCCCCTACAACGCGCTTTACATTGATATGGCGCCACGTGGG
* * * * *
53321 GTAAGGTGCGCCCTCTGCAACGCGCTTTACGTTGATTTGGCGTCACGTGGG
1 GTAAGGCGCGCCC-CTACAACGCGCTTTACATTGATATGGCGCCACGTGGG
53372 GTA
1 GTA
53375 TAGCGCGGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
50 12 0.26
51 34 0.74
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.25
Consensus pattern (50 bp):
GTAAGGCGCGCCCCTACAACGCGCTTTACATTGATATGGCGCCACGTGGG
Found at i:54795 original size:22 final size:19
Alignment explanation
Indices: 54753--54808 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
54743 AAAATTGATT
*
54753 TTAGATTATATTTGTATAA
1 TTAGATTATATTTGTAAAA
54772 TTAGATTATTATTTTGATAAAA
1 TTAGATTA-TA-TTTG-TAAAA
*
54794 TT-TATATATATTTGT
1 TTAGAT-TATATTTGT
54809 TTTAGTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 9 0.29
20 6 0.19
21 8 0.26
22 8 0.26
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (19 bp):
TTAGATTATATTTGTAAAA
Found at i:58661 original size:16 final size:16
Alignment explanation
Indices: 58640--58672 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
58630 CCAACGTTTA
58640 TGTTCGCTTATGTTCG
1 TGTTCGCTTATGTTCG
*
58656 TGTTCGTTTATGTTCG
1 TGTTCGCTTATGTTCG
58672 T
1 T
58673 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.15, G:0.24, T:0.55
Consensus pattern (16 bp):
TGTTCGCTTATGTTCG
Found at i:62618 original size:31 final size:30
Alignment explanation
Indices: 62553--62628 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
62543 CTTCCAAATT
*
62553 TTAAAACTTTCAAATTTGGACCCAAAATTTA
1 TTAAAA-TTTCAATTTTGGACCCAAAATTTA
* *
62584 TTAAAATTT-AATTTTGGTCCCCAAATTATAA
1 TTAAAATTTCAATTTTGGACCCAAAATT-T-A
62615 TT-AAATTTCAATTT
1 TTAAAATTTCAATTT
62629 AGTTCTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
29 15 0.38
30 10 0.26
31 14 0.36
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (30 bp):
TTAAAATTTCAATTTTGGACCCAAAATTTA
Found at i:64892 original size:13 final size:13
Alignment explanation
Indices: 64874--64913 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
64864 TTAATGTCGA
64874 TCAACGGTCAAAG
1 TCAACGGTCAAAG
*
64887 TCAAC-GT--AGG
1 TCAACGGTCAAAG
64897 TCAACGGTCAAAG
1 TCAACGGTCAAAG
64910 TCAA
1 TCAA
64914 TGGCTAGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
10 7 0.32
11 2 0.09
12 2 0.09
13 11 0.50
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (13 bp):
TCAACGGTCAAAG
Found at i:71533 original size:12 final size:12
Alignment explanation
Indices: 71513--71543 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
71503 TAATCCCGGG
*
71513 TTTGTTTTTTCA
1 TTTGATTTTTCA
71525 TTTGATTTTTCA
1 TTTGATTTTTCA
71537 TTTGATT
1 TTTGATT
71544 ATCAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (12 bp):
TTTGATTTTTCA
Found at i:73038 original size:2 final size:2
Alignment explanation
Indices: 73031--73071 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
73021 TTAATCTACA
73031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
73072 ATTTCTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:73323 original size:85 final size:84
Alignment explanation
Indices: 73128--73425 Score: 409
Period size: 85 Copynumber: 3.5 Consensus size: 84
73118 AATGACGTAT
* * *
73128 GCTTCAATGACACGCAATGTAAGTCATATATGCGTGTCATAAATTTATGACACACAAATGTATGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTGTGT
**
73193 CA-AAAGATTTATGACGGGG
66 CATTTA-ATTTATGACGGGG
*
73212 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTGTGT
*
73277 CATCTTAATTTATGGCGGGG
66 CAT-TTAATTTATGACGGGG
* * * *
73297 GCTTTAATGACGCGCAATATAAGTCATACATGTGTGTCATAAATTTATGACACACAAATGTGTAT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTGTGT
* **
73362 CATATTAATTTATGACAGAA
66 CAT-TTAATTTATGACGGGG
* * *
73382 GCTTTAATGACTCGCAATGTAAGTCATACATGCGCGTCATAAAT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAAT
73426 GCGCGTCATA
Statistics
Matches: 191, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
84 63 0.33
85 127 0.66
86 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (84 bp):
GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTGTGT
CATTTAATTTATGACGGGG
Found at i:73422 original size:13 final size:13
Alignment explanation
Indices: 73404--73438 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
73394 CGCAATGTAA
*
73404 GTCATACATGCGC
1 GTCATAAATGCGC
73417 GTCATAAATGCGC
1 GTCATAAATGCGC
73430 GTCATAAAT
1 GTCATAAAT
73439 TTATGACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:77170 original size:24 final size:24
Alignment explanation
Indices: 77129--77186 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
77119 TTAAGCCTCT
* * * *
77129 ATAAATTCATTATTTAGTAATGCA
1 ATAAATTTATGATCTAGTAAAGCA
*
77153 ATAAATTTATGATCTAGTAAAGTA
1 ATAAATTTATGATCTAGTAAAGCA
*
77177 ATAAAATTAT
1 ATAAATTTAT
77187 AATTTAATCG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (24 bp):
ATAAATTTATGATCTAGTAAAGCA
Found at i:78997 original size:14 final size:14
Alignment explanation
Indices: 78965--79074 Score: 52
Period size: 14 Copynumber: 7.9 Consensus size: 14
78955 TGATACTTCT
*
78965 TTTA-TATTATATA
1 TTTATTATTATTTA
*
78978 TATATTATTATTTA
1 TTTATTATTATTTA
* *
78992 TTTATTTTTTAATT-
1 TTTA-TTATTATTTA
*
79006 TTTATTACTTATTTT
1 TTTATTA-TTATTTA
79021 TTGTATTATATATTT-
1 TT-TATTAT-TATTTA
* *
79036 TATATTATT-TTAA
1 TTTATTATTATTTA
* *
79049 TTTTTTATT-TTCTT
1 TTTATTATTATT-TA
79063 TTTATT-TTATTT
1 TTTATTATTATTT
79075 CCTTTTTTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
12 2 0.03
13 18 0.24
14 33 0.45
15 11 0.15
16 10 0.14
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (14 bp):
TTTATTATTATTTA
Found at i:79059 original size:7 final size:7
Alignment explanation
Indices: 78985--79074 Score: 54
Period size: 7 Copynumber: 11.9 Consensus size: 7
78975 ATATATATTA
78985 TTATTTAT
1 TTATTT-T
78993 TTATTTT
1 TTATTTT
*
79000 TTAATTT
1 TTATTTT
**
79007 TTATTAC
1 TTATTTT
79014 TTATTTTT
1 TTA-TTTT
*
79022 TGTATTAT
1 T-TATTTT
*
79030 ATATTTT
1 TTATTTT
*
79037 ATATTATT
1 TTATT-TT
79045 TTAATTTT
1 TT-ATTTT
79053 TTATTTT
1 TTATTTT
*
79060 CTTTTTATT
1 -TTATT-TT
79069 TTATTT
1 TTATTT
79075 CCTTTTTTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
7 30 0.47
8 27 0.42
9 7 0.11
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.74
Consensus pattern (7 bp):
TTATTTT
Found at i:79070 original size:16 final size:16
Alignment explanation
Indices: 79051--79081 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79041 TATTTTAATT
*
79051 TTTTATTTTCTTTTTA
1 TTTTATTTCCTTTTTA
79067 TTTTATTTCCTTTTT
1 TTTTATTTCCTTTTT
79082 TAAACTAACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTCCTTTTTA
Found at i:83252 original size:84 final size:83
Alignment explanation
Indices: 83105--84132 Score: 923
Period size: 84 Copynumber: 12.4 Consensus size: 83
83095 TGAAGAAACT
* * * * *
83105 ATTTGCAGCTTAACTCAAGGCCAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCAACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
83170 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * *
83189 ATTTGCAGCATATCTCAAGGCCAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTAGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
*
83254 CTCAGCTCCAAGACACATC
65 CTCAGCTCCAAGGCACATC
* * * * * * **
83273 ATTTGTAACATAACTTAAGTCGAGAAGGGTTATCTACCAACTAAAGACCTTCGAGTTTGACTATA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
83338 CTCAGCTCCAAGGCACATC
65 CTCAGCTCCAAGGCACATC
* * * * *
83357 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGCCCCTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * *
83419 TCAGCTTCGAGGGCATATC
66 TCAGC-TCCAAGGCACATC
* * * * * * * * * *
83438 ATTTACAACTTAACTCAAGGCTAGAAGGGTTATCTGTCACCAAATACCTTCGAGTTCGACTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
*
83503 TCAGCTCCAAGGCATATC
66 TCAGCTCCAAGGCACATC
* * * * * * * * *
83521 ATTTGCAACACAACTTAAGTCTAGAA-GGTTGTTTTCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
*
83585 CTCAGCT-CAACGTCACATC
65 CTCAGCTCCAA-GGCACATC
* * * *
83604 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * * *
83666 TCAGCTTCGAGGGTACGTC
66 TCAGC-TCCAAGGCACATC
* * *
83685 ATTTGCAGCATAACTTAAGTCGAGAAGAGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACG
*
83750 CTCAGCTCCAAGGCACATT
65 CTCAGCTCCAAGGCACATC
* * * * *
83769 ATTTACAGAATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * * *
83831 TCAACTTCGAGGGCATATC
66 TCAGC-TCCAAGGCACATC
* * * * * * * * * *
83850 ATTTACAACATAACTCAAGGCTAGAAGAGTTATTTGTCACCAAAAGACCTCCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCACC-AAAGACCTTCGAGTTCGACTACG
*
83915 CTCAGCTCCAAGTCACATC
65 CTCAGCTCCAAGGCACATC
* * * * *
83934 ATTTGCAGCATAGCTTAAGTCGAGAAGGGATGTCTGCCA--AAA-ACCTTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
* * *
83996 TCAGCTTCGAGGGCACACC
66 TCAGC-TCCAAGGCACATC
* * * * * * * * *
84015 ATTTGCAGCGTAACTCAAGGCTAGAAGGGTTATCTACCAACAAAAACCTTCGAGTTCGACTATGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
**
84080 TCAGCTCTTAGGCACATC
66 TCAGCTCCAAGGCACATC
* * * * *
84098 ATTTACAGCATAACTCAGGGCAAGAAGGGCTATCT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCT
84133 ATCAGTAAAA
Statistics
Matches: 763, Mismatches: 159, Indels: 45
0.79 0.16 0.05
Matches are distributed among these distances:
80 100 0.13
81 156 0.20
82 11 0.01
83 131 0.17
84 313 0.41
85 52 0.07
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (83 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATC
Found at i:83636 original size:247 final size:249
Alignment explanation
Indices: 83127--84132 Score: 910
Period size: 248 Copynumber: 4.1 Consensus size: 249
83117 ACTCAAGGCC
* * * * * *
83127 AGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCAACTACGCTCAGC-TCCAAGGCACATCAT
1 AGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
* * * * *
83191 TTGCAGCATATCTCAAGGCCAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTAGACTACGCT
62 TTACAACATAACTCAAGGCCAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCT
* * * *
83256 CAGCTCCAAGACACATCATTTGTAACATAACTTAAGTCGAGAAGGGTTATCTACCAACTAAAGAC
127 CAGCTCCAAGGCACATCATTTGCAACACAACTTAAGTCGAGAAGGGTTATCTACCAACAAAAGAC
* *
83321 CTTCGAGTTTGACTATACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
192 CTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* *
83379 AGAAGGGCTATCTGCCAAAGCCCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTAC
1 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
* * * * *
83444 AACTTAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAATACCTTCGAGTTCGACTACACTCAGC
66 AACATAACTCAAGGCCAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* * * * * *
83508 TCCAAGGCATATCATTTGCAACACAACTTAAGTCTAGAA-GGTTGTTTTCCAACAAAAGACCTTT
131 TCCAAGGCACATCATTTGCAACACAACTTAAGTCGAGAAGGGTTATCTACCAACAAAAGACCTTC
* *
83572 GAGTTCGACTACGCTCAGCT-CAACGTCACATCATTTGCAGCATAGCTTAAGTCG
196 GAGTTCGACTACACTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCG
* * *
83626 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGTACGTCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
* * * * * *
83691 AGCATAACTTAAGTCGAGAAGAGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGC
66 AACATAACTCAAGGCCAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* * * * * * *
83756 TCCAAGGCACATTATTTACAGA-ATAGCTTAAGTCGAGAAGGGCTATCT-GC--C-AAAGACCCT
131 TCCAAGGCACATCATTTGCA-ACACAACTTAAGTCGAGAAGGGTTATCTACCAACAAAAGACCTT
* * * * * * * * * * * *
83816 CGAGTTCGATTACGCTCAACTTCGAGGGCATATCATTTACAACATAACTCAAGGCT
195 CGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* * * * * * * *
83872 AGAAGAGTTATTTGTCACCAAAAGA-CCTCCGAGTTCGACTACGCTCAGC-TCCAAGTCACATCA
1 AGAAGGGCTATCTG---CC-AAAGACCCT-CGAGTTCGATTACACTCAGCTTCGAGGGCACATCA
* * * * * * * * * *
83935 TTTGCAGCATAGCTTAAGTCGAGAAGGGATGTCTGCC-A--AAA-ACCTTCGAGTTCGATTACAC
61 TTTACAACATAACTCAAGGCCAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGC
* * * * ** * * *
83996 TCAGCTTCGAGGGCACACCATTTGCAGCGTAACTCAAGGCTAGAAGGGTTATCTACCAACAAAA-
126 TCAGC-TCCAAGGCACATCATTTGCAACACAACTTAAGTCGAGAAGGGTTATCTACCAACAAAAG
** ** * * * * * *
84060 ACCTTCGAGTTCGACTATGCTCAGCTCTTAGGCACATCATTTACAGCATAACTCAGGGCA
190 ACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
84120 AGAAGGGCTATCT
1 AGAAGGGCTATCT
84133 ATCAGTAAAA
Statistics
Matches: 621, Mismatches: 115, Indels: 40
0.80 0.15 0.05
Matches are distributed among these distances:
245 47 0.08
246 76 0.12
247 153 0.25
248 189 0.30
249 116 0.19
250 26 0.04
252 14 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (249 bp):
AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
AACATAACTCAAGGCCAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
TCCAAGGCACATCATTTGCAACACAACTTAAGTCGAGAAGGGTTATCTACCAACAAAAGACCTTC
GAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
Found at i:83755 original size:165 final size:165
Alignment explanation
Indices: 83127--84132 Score: 972
Period size: 165 Copynumber: 6.1 Consensus size: 165
83117 ACTCAAGGCC
* * * *
83127 AGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCAACTACGCTCAGC-TCCAAGGCACATCAT
1 AGAAGGGCTATCTG----CCAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACATCAT
* * * *
83191 TTGCAGCATATCTCAAGGCCAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTAGACTACGCT
62 TTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCT
* ** *
83256 CAGCTCCAAGACACATCATTTGTAACATAACTTAAGTCG
127 CAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
* * * * * *
83295 AGAAGGGTTATCTACCAACTAAAGACCTTCGAGTTTGACTATACTCAGC-TCCAAGGCACATCAT
1 AGAAGGGCTATCT-GC--C-AAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACATCAT
* * * * * * * * *
83359 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGCCCCTCGAGTTCGATTACACT
62 TTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCT
* * * * * * * *
83420 CAGCTTCGAGGGCATATCATTTACAACTTAACTCAAGGCT
127 CAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGTCG
* * * * *
83460 AGAAGGGTTATCTGTCACCAAATACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATT
1 AGAAGGGCTATCTG---CCAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACATCATT
* * * * * * * * *
83524 TGCAACACAACTTAAGTCTAGAA-GGTTGTTTTCCAACAAAAGACCTTTGAGTTCGACTACGCTC
63 TGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTC
* * *
83588 AGCT-CAACGTCACATCATTTGCAGCATAGCTTAAGTCG
128 AGCTCCAA-GGCACATCATTTACAGCATAACTTAAGTCG
* * * *
83626 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGTACGTCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACATCATTTGC
* * * * *
83691 AGCATAACTTAAGTCGAGAAGAGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGC
66 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
* * *
83756 TCCAAGGCACATTATTTACAGAATAGCTTAAGTCG
131 TCCAAGGCACATCATTTACAGCATAACTTAAGTCG
* * * * * *
83791 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACGCTCAACTTCGAGGGCATATCATTTAC
1 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACATCATTTGC
* * * * *
83856 AACATAACTCAAGGCTAGAAGAGTTATTTGTC-ACCAAAAGACCTCCGAGTTCGACTACGCTCAG
66 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTACGCTCAG
* * *
83920 CTCCAAGTCACATCATTTGCAGCATAGCTTAAGTCG
130 CTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
* * * * *
83956 AGAAGGGATGTCTGCCAAAAACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACACCATTTGC
1 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACATCATTTGC
* * * *
84021 AGCGTAACTCAAGGCTAGAAGGGTTATCTACCAA-CAAAAACCTTCGAGTTCGACTATGCTCAGC
66 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
** * * * *
84085 TCTTAGGCACATCATTTACAGCATAACTCAGGGCA
131 TCCAAGGCACATCATTTACAGCATAACTTAAGTCG
84120 AGAAGGGCTATCT
1 AGAAGGGCTATCT
84133 ATCAGTAAAA
Statistics
Matches: 695, Mismatches: 125, Indels: 40
0.81 0.15 0.05
Matches are distributed among these distances:
163 33 0.05
164 183 0.26
165 331 0.48
166 39 0.06
167 27 0.04
168 82 0.12
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (165 bp):
AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACATCATTTGC
AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC
TCCAAGGCACATCATTTACAGCATAACTTAAGTCG
Found at i:85593 original size:4 final size:4
Alignment explanation
Indices: 85586--85610 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
85576 TTATATATAC
85586 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
85611 TTATTACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:86452 original size:19 final size:19
Alignment explanation
Indices: 86428--86536 Score: 119
Period size: 19 Copynumber: 5.4 Consensus size: 19
86418 TTATTTTGGA
86428 TTTTTCACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
86447 TTTTTCACTATCGCAACAACAC
1 TTTTTCACTATCG---CAACAC
86469 GTTTTTCAAACTATCGCAACAC
1 -TTTTTC--ACTATCGCAACAC
* *
86491 ATTTTAACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
* *
86510 ATTTTAACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
86529 ATTTTTCA
1 -TTTTTCA
86537 AAATCGCGTT
Statistics
Matches: 79, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
19 45 0.57
20 5 0.06
21 4 0.05
22 12 0.15
23 6 0.08
25 7 0.09
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.35
Consensus pattern (19 bp):
TTTTTCACTATCGCAACAC
Found at i:86489 original size:44 final size:38
Alignment explanation
Indices: 86429--86536 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 38
86419 TATTTTGGAT
*
86429 TTTTCACTATCGCAACACTTTTTCACTATCGCAACAACA
1 TTTTAACTATCGCAACACTTTTTCACTATCGCAAC-ACA
* *
86468 CGTTTTTCAAACTATCGCAACACATTTTAACTATCGCAACACA
1 ---TTTT--AACTATCGCAACACTTTTTCACTATCGCAACACA
86511 TTTTAACTATCGCAACACATTTTTCA
1 TTTTAACTATCGCAACAC-TTTTTCA
86537 AAATCGCGTT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
38 14 0.24
39 5 0.09
40 4 0.07
42 4 0.07
43 3 0.05
44 28 0.48
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (38 bp):
TTTTAACTATCGCAACACTTTTTCACTATCGCAACACA
Found at i:86881 original size:40 final size:41
Alignment explanation
Indices: 86822--86921 Score: 139
Period size: 40 Copynumber: 2.4 Consensus size: 41
86812 ATAAGGCGGC
* * * *
86822 TTTTTTTGTAAATGTCACGACCGACCTGTACTTTAGCACCG
1 TTTTTTTGTAAACGCCACGACCGACCTATACTTTAGCAACG
*
86863 -TTTTTTGTAAACGCCACGATCGACCTATACTTTAGCAACG
1 TTTTTTTGTAAACGCCACGACCGACCTATACTTTAGCAACG
86903 TTTTTATTGTAAACGCCAC
1 TTTTT-TTGTAAACGCCAC
86922 AACTGTCTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 35 0.67
41 4 0.08
42 13 0.25
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (41 bp):
TTTTTTTGTAAACGCCACGACCGACCTATACTTTAGCAACG
Found at i:88470 original size:25 final size:25
Alignment explanation
Indices: 88442--88494 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
88432 GTAGTAAGTA
*
88442 TCAAGTAAGTTGTATATTGATTCTT
1 TCAAGTAAGTTGTATATCGATTCTT
88467 TCAAGTAAGTTGTATATCGATTCTT
1 TCAAGTAAGTTGTATATCGATTCTT
88492 TCA
1 TCA
88495 TTTCTATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (25 bp):
TCAAGTAAGTTGTATATCGATTCTT
Found at i:89355 original size:43 final size:43
Alignment explanation
Indices: 89232--89377 Score: 121
Period size: 43 Copynumber: 3.4 Consensus size: 43
89222 TTAGCGGTGT
* * * * * *
89232 TAAATGTTTGAATCTATTGCGGCATTTGTAATAAAAACACTGC
1 TAAATGTCTGAACCTATTACGGTATTTGTAAAAAAAACACAGC
** * * ** * *
89275 TAAATGTCTGAACCTATTATAGTCTTTATTGAGAAAACGCAGC
1 TAAATGTCTGAACCTATTACGGTATTTGTAAAAAAAACACAGC
* * *
89318 TAAATGTCTGAACCTATTACGGTGTTTGTAAAAAAAACCCCGC
1 TAAATGTCTGAACCTATTACGGTATTTGTAAAAAAAACACAGC
* *
89361 TATATGTCTAAACCTAT
1 TAAATGTCTGAACCTAT
89378 GCAGCATTTT
Statistics
Matches: 78, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (43 bp):
TAAATGTCTGAACCTATTACGGTATTTGTAAAAAAAACACAGC
Found at i:92340 original size:3 final size:3
Alignment explanation
Indices: 92332--92383 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
92322 CTCAAATGAG
*
92332 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
92379 ATT AT
1 ATT AT
92384 GAAGATGCCC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:93546 original size:22 final size:23
Alignment explanation
Indices: 93503--93546 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
93493 ATGAAGTCTT
*
93503 AAACAATTTATTATAACATAAAG
1 AAACAATTTATTAAAACATAAAG
93526 AAACAA-TTATATAAAAC-TAAA
1 AAACAATTTAT-TAAAACATAAA
93547 TTTAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.27
Consensus pattern (23 bp):
AAACAATTTATTAAAACATAAAG
Found at i:101813 original size:22 final size:21
Alignment explanation
Indices: 101773--101824 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
101763 TTTTTATCGA
* *
101773 TAATAAAATTTAGATAATAAT
1 TAATAAAATTTAAAAAATAAT
*
101794 TAATCAAAATTTAAAAAATAAC
1 TAAT-AAAATTTAAAAAATAAT
101816 TAA-AAAATT
1 TAATAAAATT
101825 AATAATAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 4 0.15
22 17 0.63
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
TAATAAAATTTAAAAAATAAT
Found at i:102169 original size:10 final size:10
Alignment explanation
Indices: 102154--102201 Score: 60
Period size: 10 Copynumber: 4.4 Consensus size: 10
102144 CATTTAAATG
102154 ATAAACGAAC
1 ATAAACGAAC
102164 ATAAACGAACAC
1 ATAAACG-A-AC
102176 ATATGAACGAAC
1 ATA--AACGAAC
102188 ATAAACGAAC
1 ATAAACGAAC
102198 ATAA
1 ATAA
102202 TAAATGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 18 0.53
11 1 0.03
12 10 0.29
13 1 0.03
14 4 0.12
ACGTcount: A:0.58, C:0.19, G:0.10, T:0.12
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:102186 original size:24 final size:23
Alignment explanation
Indices: 102154--102221 Score: 91
Period size: 24 Copynumber: 2.9 Consensus size: 23
102144 CATTTAAATG
102154 ATAAACGAACATAAACGAACACA
1 ATAAACGAACATAAACGAACACA
* *
102177 TATGAACGAACATAAACGAACATA
1 -ATAAACGAACATAAACGAACACA
* *
102201 ATAAATGAAAATAAACGAACA
1 ATAAACGAACATAAACGAACA
102222 ACACAAACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 18 0.46
24 21 0.54
ACGTcount: A:0.60, C:0.16, G:0.10, T:0.13
Consensus pattern (23 bp):
ATAAACGAACATAAACGAACACA
Found at i:103637 original size:21 final size:21
Alignment explanation
Indices: 103611--103655 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
103601 GATGATTATG
103611 TTTAACCTCTTTTGAAGTATA
1 TTTAACCTCTTTTGAAGTATA
103632 TTTAACCTCTTTTGAAGTATA
1 TTTAACCTCTTTTGAAGTATA
103653 TTT
1 TTT
103656 TGACATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (21 bp):
TTTAACCTCTTTTGAAGTATA
Found at i:104833 original size:35 final size:35
Alignment explanation
Indices: 104792--104862 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
104782 AAACAGGAAA
*
104792 AAATGGTAGTTTTAGGATAAATTATCACGTGCAGT
1 AAATGGTAGTTTTAGGATAAATGATCACGTGCAGT
104827 AAATGGTAGTTTTAGGATAAATGATCACGTGCAGT
1 AAATGGTAGTTTTAGGATAAATGATCACGTGCAGT
104862 A
1 A
104863 CTATTGTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.32
Consensus pattern (35 bp):
AAATGGTAGTTTTAGGATAAATGATCACGTGCAGT
Found at i:108282 original size:14 final size:14
Alignment explanation
Indices: 108263--108291 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
108253 GCCCTCTGTT
108263 CGAACATAAATGAA
1 CGAACATAAATGAA
108277 CGAACATAAATGAA
1 CGAACATAAATGAA
108291 C
1 C
108292 ATATAATCGA
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:0.55, C:0.17, G:0.14, T:0.14
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:110066 original size:21 final size:20
Alignment explanation
Indices: 110042--110081 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
110032 AGTTTTATTA
110042 AAGTTTTCTTTTTTACTTTTC
1 AAGTTTTCTTTTTT-CTTTTC
110063 AAGTTTTCTTTTTTCTTTT
1 AAGTTTTCTTTTTTCTTTT
110082 ATTTTCAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.70
Consensus pattern (20 bp):
AAGTTTTCTTTTTTCTTTTC
Found at i:110099 original size:25 final size:25
Alignment explanation
Indices: 110044--110100 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
110034 TTTTATTAAA
*
110044 GTTTTCTTTTTTACTTTTCAAGTTTT
1 GTTTT-TTTTTTACTTTTCAAGCTTT
*
110070 CTTTTTTCTTTTA-TTTTCAAGCTTT
1 GTTTTTT-TTTTACTTTTCAAGCTTT
110095 GTTTTT
1 GTTTTT
110101 AATATGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.11, C:0.12, G:0.07, T:0.70
Consensus pattern (25 bp):
GTTTTTTTTTTACTTTTCAAGCTTT
Found at i:114340 original size:12 final size:14
Alignment explanation
Indices: 114310--114341 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
114300 AAAAGATAAA
114310 AGAAAAAAGAAATG
1 AGAAAAAAGAAATG
114324 AGAAAAAA-AAATG
1 AGAAAAAAGAAATG
114337 -GAAAA
1 AGAAAA
114342 CGAAACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 5 0.28
14 8 0.44
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (14 bp):
AGAAAAAAGAAATG
Found at i:115385 original size:26 final size:25
Alignment explanation
Indices: 115351--115405 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
115341 TTTATTAAAG
*
115351 TTTTCCTTTTACTTTTCAAGTTTTAT
1 TTTTCCTTTTA-TTTTCAAGCTTTAT
* *
115377 TTTTTCTTTTATTTTCAAGCTTTGT
1 TTTTCCTTTTATTTTCAAGCTTTAT
115402 TTTT
1 TTTT
115406 AATATGCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.13, C:0.13, G:0.05, T:0.69
Consensus pattern (25 bp):
TTTTCCTTTTATTTTCAAGCTTTAT
Found at i:116020 original size:27 final size:27
Alignment explanation
Indices: 115961--116020 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
115951 GTTTTTACCA
*
115961 TATTTATTTTTCGACTTTAAAATCCTT
1 TATTTATTTTTCGACTTTAAAATCCCT
* **
115988 TCTTTATTTTTTTACTTT-AAATCGCCT
1 TATTTATTTTTCGACTTTAAAATC-CCT
116015 TATTTA
1 TATTTA
116021 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.23, C:0.15, G:0.03, T:0.58
Consensus pattern (27 bp):
TATTTATTTTTCGACTTTAAAATCCCT
Found at i:117178 original size:13 final size:13
Alignment explanation
Indices: 117162--117192 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
117152 TTTTTTCTCT
117162 TTTTATTTTTTTA
1 TTTTATTTTTTTA
117175 TTTTA-TTTTTTA
1 TTTTATTTTTTTA
117187 TTTTAT
1 TTTTAT
117193 CATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:117254 original size:37 final size:36
Alignment explanation
Indices: 117198--117493 Score: 210
Period size: 36 Copynumber: 8.2 Consensus size: 36
117188 TTTATCATAT
* * *
117198 ATATATAGTATATAG-TTTGAAAATATTTTTAAAAA
1 ATATATAATATATAGTTTTAAAAACATTTTTAAAAA
* * *
117233 CATATATAATATATGGTTTTGAAAACATATTTGAAAACA
1 -ATATATAATATATAGTTTTAAAAACAT-TTTTAAAA-A
* * * *
117272 TTTATATATTATATAGTTTTTAAAAATATTTTGAAAATA
1 -ATATATAATATATAG-TTTTAAAAACATTTTTAAAA-A
* * * *
117311 A-ATATAATATATATTTTTTAAAATATTTTT-GAAA
1 ATATATAATATATAGTTTTAAAAACATTTTTAAAAA
* * * *
117345 ATATATATTATATAGTTTTTAAAACATTTTGAAAAT
1 ATATATAATATATAGTTTTAAAAACATTTTTAAAAA
* ** * *
117381 ATATATAGT-T-T--TTAAAAAAACATTTTGAAAAC
1 ATATATAATATATAGTTTTAAAAACATTTTTAAAAA
* * * *
117413 ATATATATTATATAATTTTGAAAACATTTTGAAAAA
1 ATATATAATATATAGTTTTAAAAACATTTTTAAAAA
* * *
117449 TTATATAGTATATAGTTTTAAAAACATTTTTGAAAA
1 ATATATAATATATAGTTTTAAAAACATTTTTAAAAA
*
117485 TTATATAAT
1 ATATATAAT
117494 TTTGAAAACA
Statistics
Matches: 210, Mismatches: 40, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
32 25 0.12
33 1 0.00
34 4 0.02
35 28 0.13
36 92 0.44
37 21 0.10
38 7 0.03
39 22 0.10
40 10 0.05
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (36 bp):
ATATATAATATATAGTTTTAAAAACATTTTTAAAAA
Found at i:117401 original size:32 final size:29
Alignment explanation
Indices: 117353--117419 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 29
117343 AAATATATAT
*
117353 TATATAGTTTTTAAAACATTTTGAAAATA
1 TATATAGTTTTTAAAACATTTTGAAAACA
117382 TATATAGTTTTTAAAAAAACATTTTGAAAACA
1 TATATAGTTTTT---AAAACATTTTGAAAACA
117414 TATATA
1 TATATA
117420 TTATATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 12 0.35
32 22 0.65
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (29 bp):
TATATAGTTTTTAAAACATTTTGAAAACA
Found at i:117442 original size:103 final size:99
Alignment explanation
Indices: 117279--117568 Score: 316
Period size: 103 Copynumber: 2.8 Consensus size: 99
117269 ACATTTATAT
* * * *
117279 ATTATATAGTTTTTAAAAATATTTTGAAAATAAATATAATATATATTTTTTAAAATATTTTTGAA
1 ATTATATAGTTTTTAAAAACATTTTGAAAATATATATATTATATA-ATTTTAAAATA-TTTTGAA
*
117344 AATATATATTATATAGTTTTTAAAACA-TTTTGAAA
64 AATATATATTATATAGTTTTAAAAACATTTTTGAAA
* *
117379 ATATATATAGTTTTTAAAAAAACATTTTGAAAACATATATATTATATAATTTTGAAAACATTTTG
1 AT-TATATAGTTTTT--AAAAACATTTTGAAAATATATATATTATATAATTTT-AAAATATTTTG
*
117444 AAAAATTATATAGTATATAGTTTTAAAAACATTTTTGAAA
62 -AAAA-TATATATTATATAGTTTTAAAAACATTTTTGAAA
* *
117484 ATTATATA-ATTTTGAAAACATTTAAT-ATATATATATATATATATAATATAATTTTAAAATACT
1 ATTATATAGTTTTTAAAAACATTT--TGA-A-A-ATATATATAT-T-ATATAATTTTAAAATA-T
*
117547 TTTGAAAATATAAATTATATAG
58 TTTGAAAATATATATTATATAG
117569 GTTTCAGAAA
Statistics
Matches: 161, Mismatches: 14, Indels: 25
0.81 0.07 0.12
Matches are distributed among these distances:
100 2 0.01
101 21 0.13
102 10 0.06
103 42 0.26
104 30 0.19
105 31 0.19
106 10 0.06
107 15 0.09
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (99 bp):
ATTATATAGTTTTTAAAAACATTTTGAAAATATATATATTATATAATTTTAAAATATTTTGAAAA
TATATATTATATAGTTTTAAAAACATTTTTGAAA
Found at i:117558 original size:42 final size:41
Alignment explanation
Indices: 117487--117567 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 41
117477 TTTGAAAATT
* *
117487 ATATAATTTTGAAAACATTTAATATATATATATATATATATA
1 ATATAATTTTAAAAACATTTAATATATATAAAT-TATATATA
*
117529 ATATAATTTTAAAATACTTTTGAA-A-ATATAAATTATATA
1 ATATAATTTTAAAA-ACATTT-AATATATATAAATTATATA
117568 GGTTTCAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
41 6 0.18
42 20 0.59
43 6 0.18
44 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (41 bp):
ATATAATTTTAAAAACATTTAATATATATAAATTATATATA
Found at i:117640 original size:9 final size:9
Alignment explanation
Indices: 117622--117671 Score: 57
Period size: 9 Copynumber: 5.2 Consensus size: 9
117612 AACTTTATTA
117622 TTTA-TTTT
1 TTTATTTTT
117630 TTTATTTTT
1 TTTATTTTT
117639 TTTATTTTT
1 TTTATTTTT
117648 TATTAATTTTAT
1 T-TT-ATTTT-T
117660 TTTCATTTTT
1 TTT-ATTTTT
117670 TT
1 TT
117672 GTAGGGTCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
8 4 0.11
9 14 0.38
10 5 0.14
11 12 0.32
12 2 0.05
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTATTTTT
Found at i:117643 original size:24 final size:25
Alignment explanation
Indices: 117615--117662 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
117605 TATTGTTAAC
*
117615 TTTATTATTTATT-TTTTTATTTTT
1 TTTATTATTTATTAATTTTATTTTT
*
117639 TTTATTTTTTATTAATTTTATTTT
1 TTTATTATTTATTAATTTTATTTT
117663 CATTTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTATTATTTATTAATTTTATTTTT
Found at i:117648 original size:16 final size:16
Alignment explanation
Indices: 117622--117671 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
117612 AACTTTATTA
117622 TTTATTTTTTTATTTTT
1 TTTA-TTTTTTATTTTT
**
117639 TTTATTTTTTATTAAT
1 TTTATTTTTTATTTTT
*
117655 TTTA-TTTTCATTTTT
1 TTTATTTTTTATTTTT
117670 TT
1 TT
117672 GTAGGGTCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 10 0.36
16 14 0.50
17 4 0.14
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTATTTTTTATTTTT
Found at i:118852 original size:20 final size:20
Alignment explanation
Indices: 118827--118865 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
118817 TAATTATTTT
*
118827 TTTATTTAACATTTTTTTCA
1 TTTATTTAACATTTGTTTCA
118847 TTTATTTAACATTTGTTTC
1 TTTATTTAACATTTGTTTC
118866 TAACTATTTT
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:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTATTTAACATTTGTTTCA
Found at i:123071 original size:93 final size:93
Alignment explanation
Indices: 122912--123099 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 93
122902 GGAGTCATTC
122912 AAAGATCGTCTCATTTGGTTCAGACTCACTCAAAGGAACCACCTGAAGAATCATGACCAACTTCG
1 AAAGATCGTCTCATTTGGTTCAGACTCACTCAAAGGAACCACCTGAAGAATCATGACCAACTTCG
122977 ACCCATGAAGGGAAGCCATTTTTAAACA
66 ACCCATGAAGGGAAGCCATTTTTAAACA
*
123005 AAAGATCGTCTTATTTGGTTCAGACTCACTCAAAGGAACCACCTGAAGAATCATGACCAACTTCG
1 AAAGATCGTCTCATTTGGTTCAGACTCACTCAAAGGAACCACCTGAAGAATCATGACCAACTTCG
123070 ACCCATGAAGGGAAGCCATTTTTAAACA
66 ACCCATGAAGGGAAGCCATTTTTAAACA
123098 AA
1 AA
123100 CTATTTGTAG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (93 bp):
AAAGATCGTCTCATTTGGTTCAGACTCACTCAAAGGAACCACCTGAAGAATCATGACCAACTTCG
ACCCATGAAGGGAAGCCATTTTTAAACA
Found at i:123317 original size:84 final size:84
Alignment explanation
Indices: 123223--123822 Score: 619
Period size: 84 Copynumber: 7.2 Consensus size: 84
123213 ATATGTCAGG
* * * *
123223 AAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGTATATCATTTGCAGCATAACTTAAATCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
123288 GAAGGGTTATCTGCCAACC
66 GAAGGGTTATCTGCCAACC
* * * *
123307 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATTTACAACATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
123372 GAAGGGCTATCTGCCAA-C
66 GAAGGGTTATCTGCCAACC
* * * ** * * ** *
123390 ---GACCCTT-AAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATAACCCAAGAC
1 AAAGA-CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* * *
123451 TAAAAGGGTTATCTGTC-ACC
64 GAGAAGGGTTATCTGCCAACC
* * *
123471 AAAAGACCTTTGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
123536 AGAAGGGTTATCTGCCAACC
65 AGAAGGGTTATCTGCCAACC
* * *
123556 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCAA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
123621 GAAGGGTTGTCTGCC-A--
66 GAAGGGTTATCTGCCAACC
* * * * * * * * * * * * *
123637 AAA-ACCCTCAAGTTCGATTACACTCAACTTCGAGGGCACATCATTTACAACATAACTCAGGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
*
123701 AGAAGGGTTATCTGTC-ACC
65 AGAAGGGTTATCTGCCAACC
* * * * * *
123720 AAAGACCTTCGAGTTCAACTGCGCTTAGCTCTAATGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
* *
123785 GAAGGGATATCTGCCAACT
66 GAAGGGTTATCTGCCAACC
123804 AAAGACCTTTCGAGTTCGA
1 AAAGACC-TTCGAGTTCGA
123823 TTTCATTCAG
Statistics
Matches: 419, Mismatches: 82, Indels: 29
0.79 0.15 0.05
Matches are distributed among these distances:
80 39 0.09
81 86 0.21
83 44 0.11
84 218 0.52
85 32 0.08
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (84 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
GAAGGGTTATCTGCCAACC
Found at i:123559 original size:249 final size:248
Alignment explanation
Indices: 123111--123822 Score: 1057
Period size: 249 Copynumber: 2.9 Consensus size: 248
123101 TATTTGTAGT
* * *
123111 ATAGCTTAAGT-GAGAAGGGCTATTTGCCAACCACCCTCAAGTTTGATTACACTCAGCTTCGAGG
1 ATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAACCCTCAAGTTCGATTACACTCAGCTTCGAGG
* * ** *
123175 GTACATCATTTACAGCATAACCCAAGACTAAAAGGGTTATATGTCAGGAAAGACCTTCGAGTTTG
66 GCACATCATTTACAGCATAACCCAAGACTAAAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCG
* *
123240 ACTACGCTCAGCTCCAAGGTATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAA
131 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
*
123305 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATTTACAAC
196 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAAC
* * *
123358 ATAGCTTAAGTCGAGAAGGGCTATCTGCCAACGACCCTTAAGTTCGATTACACTCAGCTTTGAGG
1 ATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAACCCTCAAGTTCGATTACACTCAGCTTCGAGG
*
123423 GCACATCATTTACAGCATAACCCAAGACTAAAAGGGTTATCTGTCACCAAAAGACCTTTGAGTTC
66 GCACATCATTTACAGCATAACCCAAGACTAAAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTC
*
123488 GACTACACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCA
130 GACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCA
* * *
123553 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGC
195 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAAC
* * * * *
123607 ATAGCTTAAGTCAAGAAGGGTTGTCTGCCAAAAACCCTCAAGTTCGATTACACTCAACTTCGAGG
1 ATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAACCCTCAAGTTCGATTACACTCAGCTTCGAGG
* * * * * *
123672 GCACATCATTTACAACATAACTCAGGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCA
66 GCACATCATTTACAGCATAACCCAAGACTAAAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCG
* * * * * * *
123737 ACTGCGCTTAGCTCTAATGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAA
131 ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
*
123802 CTAAAGACCTTTCGAGTTCGA
196 CCAAAGACC-TTCGAGTTCGA
123823 TTTCATTCAG
Statistics
Matches: 420, Mismatches: 42, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
247 11 0.03
248 172 0.41
249 237 0.56
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (248 bp):
ATAGCTTAAGTCGAGAAGGGCTATCTGCCAACAACCCTCAAGTTCGATTACACTCAGCTTCGAGG
GCACATCATTTACAGCATAACCCAAGACTAAAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCG
ACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAAC
Found at i:124217 original size:13 final size:13
Alignment explanation
Indices: 124194--124224 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
124184 TTTTTTCTCT
124194 TTTTATTTTTTTA
1 TTTTATTTTTTTA
124207 TTTTA-TTTTTTA
1 TTTTATTTTTTTA
124219 TTTTAT
1 TTTTAT
124225 CATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:124363 original size:37 final size:37
Alignment explanation
Indices: 124234--124621 Score: 249
Period size: 36 Copynumber: 10.9 Consensus size: 37
124224 TCATATATAT
* * * *
124234 ATATATATAGTATATAG-TTTGAAAATA-TTTTTAAAA
1 ATATATATAATATATAGTTTTTAAAA-ACATTTTGAAA
* * *
124270 ACATATATAATATAT-GGTTTTGAAAACATGTTTGAAA
1 ATATATATAATATATAGTTTTTAAAAACAT-TTTGAAA
*
124307 ATATTTATATATTATATAGTTTTTAAAAACATTTTGAAA
1 ATA--TATATAATATATAGTTTTTAAAAACATTTTGAAA
* *
124346 ATAAATATAATATATAGTTTTTAAAATA-TTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAA-ACATTTTGAAA
124383 ATATATAT--TATATAGTTTTT-AAAACATTTTG---
1 ATATATATAATATATAGTTTTTAAAAACATTTTGAAA
*
124414 A-A-A-AT-ATATATAGTTTTTAAAAAACATTTTTAAA
1 ATATATATAATATATAGTTTTT-AAAAACATTTTGAAA
* * * *
124448 ACATATATATTATATA-ATTTTGAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAAACATTTTGAAA
* *
124484 A-ATTATATAGTATATAG-TTTTAAAAACATTTT-AGA
1 ATA-TATATAATATATAGTTTTTAAAAACATTTTGAAA
* * *
124519 A-A-A-CT-ATATA-A--TTTTGAAAACATTTTAAAAAAA
1 ATATATATAATATATAGTTTTTAAAAACATTTT---GAAA
*
124552 TATATATATAATATATA-ATTTTAAAATAC-TTTTGAAA
1 -ATATATATAATATATAGTTTTTAAAA-ACATTTTGAAA
*
124589 ATATATAT--TATATAGGTTTTTGAAAAATATTTT
1 ATATATATAATATATA-GTTTTT-AAAAACATTTT
124622 TTTATATAAT
Statistics
Matches: 284, Mismatches: 32, Indels: 71
0.73 0.08 0.18
Matches are distributed among these distances:
28 2 0.01
29 27 0.10
30 2 0.01
31 15 0.05
32 1 0.00
33 4 0.01
34 16 0.06
35 21 0.07
36 75 0.26
37 62 0.22
38 12 0.04
39 22 0.08
40 23 0.08
41 2 0.01
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTAAAAACATTTTGAAA
Found at i:124474 original size:67 final size:63
Alignment explanation
Indices: 124354--124494 Score: 201
Period size: 67 Copynumber: 2.2 Consensus size: 63
124344 AAATAAATAT
* * * *
124354 AATATATAGTTTTTAAAATATTTTTGAAAATATATATTATATAGTTTTTAAAACATTTTGAAA
1 AATATATAGTTTTTAAAACATTTTTAAAAATATATATTATATAATTTTGAAAACATTTTGAAA
124417 ATATATATAGTTTTTAAAAAACATTTTTAAAACATATATATTATATAATTTTGAAAACATTTTGA
1 A-ATATATAGTTTTT--AAAACATTTTTAAAA-ATATATATTATATAATTTTGAAAACATTTTGA
124482 AA
62 AA
124484 AATTATATAGT
1 AA-TATATAGT
124495 ATATAGTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
63 1 0.01
64 13 0.19
66 14 0.20
67 41 0.59
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (63 bp):
AATATATAGTTTTTAAAACATTTTTAAAAATATATATTATATAATTTTGAAAACATTTTGAAA
Found at i:124538 original size:29 final size:29
Alignment explanation
Indices: 124391--124557 Score: 109
Period size: 29 Copynumber: 5.2 Consensus size: 29
124381 AAATATATAT
* * * *
124391 TATATAGTTTTTAAAACATTTTGAAAATA
1 TATATAATTTTAAAAACATTTTAAAAAAA
*
124420 TATATAGTTTTTAAAAAACATTTTTAAAACATATATA
1 TATATA-ATTTT-AAAAACA-TTTT-AAA-A-A-A-A
*
124457 TTATATAATTTTGAAAACATTTTGAAAAATTATA
1 -TATATAATTTTAAAAACATTTT-AAAAA--A-A
* *
124491 TAGTATATAGTTTTAAAAACATTTTAGAAAAC
1 TA-TATA-A-TTTTAAAAACATTTTAAAAAAA
*
124523 TATATAATTTTGAAAACATTTTAAAAAAA
1 TATATAATTTTAAAAACATTTTAAAAAAA
124552 TATATA
1 TATATA
124558 TATAATATAT
Statistics
Matches: 112, Mismatches: 13, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
29 31 0.28
30 5 0.04
31 10 0.09
32 6 0.05
33 6 0.05
34 10 0.09
35 13 0.12
36 20 0.18
37 5 0.04
38 6 0.05
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (29 bp):
TATATAATTTTAAAAACATTTTAAAAAAA
Found at i:124557 original size:103 final size:100
Alignment explanation
Indices: 124319--124608 Score: 331
Period size: 103 Copynumber: 2.8 Consensus size: 100
124309 ATTTATATAT
* * *
124319 TATATAGTTTTTAAAAACATTTTGAAAATAAATATA-A-TATATAGTTTTTAAAATATTTTTGAA
1 TATATAG-TTTTAAAAACATTTT-AAAAAAAATATATATTATATA-ATTTTAAAATACTTTTGAA
*
124382 AATATATATTATATAGTTTTTAAAACATTTTGAAAATA
63 AATATATATTATATAGTTTTAAAAACATTTTGAAAATA
* * *
124420 TATATAGTTTTTAAAAAACATTTT-TAAAACATATATATTATATAATTTTGAAA-ACATTTTGAA
1 TATATAG-TTTT-AAAAACATTTTAAAAAAAATATATATTATATAATTTTAAAATAC-TTTTG-A
*
124483 AAATTATATAGTATATAGTTTTAAAAACATTTTAGAAAACTA
62 AAA-TATATATTATATAGTTTTAAAAACATTTT-GAAAA-TA
*
124525 TATA-A-TTTTGAAAACATTTTAAAAAAATATATATATAATATATAATTTTAAAATACTTTTGAA
1 TATATAGTTTTAAAAACATTTTAAAAAAA-ATATATAT--TATATAATTTTAAAATACTTTTGAA
124588 AATATATATTATATAGGTTTT
63 AATATATATTATATA-GTTTT
124609 TGAAAAATAT
Statistics
Matches: 162, Mismatches: 13, Indels: 25
0.81 0.06 0.12
Matches are distributed among these distances:
100 9 0.06
101 35 0.22
102 29 0.18
103 47 0.29
104 15 0.09
105 25 0.15
106 2 0.01
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (100 bp):
TATATAGTTTTAAAAACATTTTAAAAAAAATATATATTATATAATTTTAAAATACTTTTGAAAAT
ATATATTATATAGTTTTAAAAACATTTTGAAAATA
Found at i:124567 original size:40 final size:41
Alignment explanation
Indices: 124523--124602 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
124513 TTTAGAAAAC
124523 TATATAATTTTGAAAACA-TTTTAAAAAAATATA-TATATAA
1 TATATAATTTT-AAAACACTTTTAAAAAAATATATTATATAA
* * *
124563 TATATAATTTTAAAATACTTTTGAAAATATATATTATATA
1 TATATAATTTTAAAACACTTTTAAAAAAATATATTATATA
124603 GGTTTTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
39 5 0.14
40 24 0.69
41 6 0.17
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (41 bp):
TATATAATTTTAAAACACTTTTAAAAAAATATATTATATAA
Found at i:125886 original size:20 final size:20
Alignment explanation
Indices: 125861--125899 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
125851 TTTTATTTTT
*
125861 TTTATTTAACATTTTTTTCA
1 TTTATTTAACATTTGTTTCA
125881 TTTATTTAACATTTGTTTC
1 TTTATTTAACATTTGTTTC
125900 TAACTATTTT
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:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTATTTAACATTTGTTTCA
Found at i:125941 original size:33 final size:31
Alignment explanation
Indices: 125849--125952 Score: 93
Period size: 33 Copynumber: 3.2 Consensus size: 31
125839 TTACGCGTGT
*
125849 TTTTTTATTTTTTTTATTTAACATTTTTTTCA
1 TTTTTTATTTTTTTTATTTAATATTTTTTT-A
** * *
125881 TTTATTTAACATTTGTT-TCTAACTATTTTTTTA
1 TTT-TTT-ATTTTTTTTATTTAA-TATTTTTTTA
125914 TTTTTTATTTTTTATTCATTTAATATTTTTTTA
1 TTTTTTATTTTTT-TT-ATTTAATATTTTTTTA
*
125947 TCTTTT
1 TTTTTT
125953 GATCTATAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
31 4 0.07
32 8 0.14
33 26 0.46
34 18 0.32
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (31 bp):
TTTTTTATTTTTTTTATTTAATATTTTTTTA
Found at i:148236 original size:37 final size:36
Alignment explanation
Indices: 148176--148295 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
148166 ATCCCATTAT
* **
148176 CATTTTTC-AACAAACATCAACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
148212 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
148248 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
148283 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
148296 TTGGTTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
35 35 0.46
36 13 0.17
37 28 0.37
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:148251 original size:21 final size:21
Alignment explanation
Indices: 148227--148287 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
148217 TTCAAAGAAA
148227 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
148248 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
148262 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
148283 CATTT
1 CATTT
148288 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:148304 original size:35 final size:36
Alignment explanation
Indices: 148195--148322 Score: 140
Period size: 35 Copynumber: 3.6 Consensus size: 36
148185 ACAAACATCA
* *
148195 ACCAAACTTTGAAAAAC-TATTTTTCAAAGAAACATTT
1 ACCAAACTTTGAAAACCAT-TTTTTCAAAG-AACAGTT
*
148232 ACCAAACTTTGAAAACCA--TTTTCAAAGAAACATTT
1 ACCAAACTTTGAAAACCATTTTTTCAAAG-AACAGTT
***
148267 ACCAAACTTTGAAAACCATTTTTTCAAAG-TTGGTT
1 ACCAAACTTTGAAAACCATTTTTTCAAAGAACAGTT
148302 ACCAAAC-TTGAAAACCATTTT
1 ACCAAACTTTGAAAACCATTTT
148323 AATACTTTCA
Statistics
Matches: 83, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
34 14 0.17
35 44 0.53
37 25 0.30
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (36 bp):
ACCAAACTTTGAAAACCATTTTTTCAAAGAACAGTT
Found at i:152844 original size:37 final size:36
Alignment explanation
Indices: 152785--152904 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
152775 ATCCCATTAT
* *
152785 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
* *
152821 TATTTTTCAAAGAAACATTTACCAAACTTTGAAACC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
152857 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
152892 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
152905 TTGGTTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
35 34 0.45
36 12 0.16
37 29 0.39
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:152861 original size:21 final size:20
Alignment explanation
Indices: 152832--152896 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 20
152822 ATTTTTCAAA
152832 GAAA-CATTTACCAAACTTT
1 GAAACCATTTACCAAACTTT
*
152851 GAAACCCATTT-TCAAA----
1 GAAA-CCATTTACCAAACTTT
152867 GAAA-CATTTACCAAACTTT
1 GAAACCATTTACCAAACTTT
152886 GAAAACCATTT
1 G-AAACCATTT
152897 TTTCAAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 16
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
19 5 0.14
20 7 0.20
21 10 0.29
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (20 bp):
GAAACCATTTACCAAACTTT
Found at i:153038 original size:49 final size:49
Alignment explanation
Indices: 152966--153101 Score: 209
Period size: 49 Copynumber: 2.8 Consensus size: 49
152956 CCCAACGTAA
*
152966 CCATCCATTTACCCATACGATGTCGTTCTAAACATAAGCCATACAATAG
1 CCATCCATTTACCCATACGATGTCGTTCCAAACATAAGCCATACAATAG
***
153015 CCATCCATTTACCCATACGATGTCGTTCCAAACATAAGCCATGTGATAG
1 CCATCCATTTACCCATACGATGTCGTTCCAAACATAAGCCATACAATAG
** *
153064 CCATCCATTTACCTGTACGATGCCGTTCCAAACATAAG
1 CCATCCATTTACCCATACGATGTCGTTCCAAACATAAG
153102 TCATGCGATG
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 80 1.00
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.26
Consensus pattern (49 bp):
CCATCCATTTACCCATACGATGTCGTTCCAAACATAAGCCATACAATAG
Found at i:154349 original size:19 final size:19
Alignment explanation
Indices: 154313--154359 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
154303 CAAAAACCCT
154313 AAAAAATAATATTCAAAAC
1 AAAAAATAATATTCAAAAC
*
154332 AAAAGATAAT-TTCTAAAA-
1 AAAAAATAATATTC-AAAAC
154350 ATAAAAATAA
1 A-AAAAATAA
154360 GATAAATGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAAATAATATTCAAAAC
Found at i:155297 original size:20 final size:20
Alignment explanation
Indices: 155250--155297 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
155240 AGTGTGTACA
155250 AGAACTTTCAATAAGGTTTT
1 AGAACTTTCAATAAGGTTTT
* * * * *
155270 ATATCTTTCCATTATGTTTT
1 AGAACTTTCAATAAGGTTTT
155290 AGAACTTT
1 AGAACTTT
155298 TCGTTATATT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.48
Consensus pattern (20 bp):
AGAACTTTCAATAAGGTTTT
Found at i:161097 original size:14 final size:16
Alignment explanation
Indices: 161065--161099 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
161055 TTATTTCATT
161065 ATTTTTAGAATTCTTA
1 ATTTTTAGAATTCTTA
161081 ATTTTTA-AATT-TTA
1 ATTTTTAGAATTCTTA
161095 ATTTT
1 ATTTT
161100 GTAGGTACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 4 0.21
16 7 0.37
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (16 bp):
ATTTTTAGAATTCTTA
Found at i:162432 original size:23 final size:23
Alignment explanation
Indices: 162406--162456 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
162396 TGAATCTTTT
162406 ATGAGGGTATTGAGTTTTGCATC
1 ATGAGGGTATTGAGTTTTGCATC
162429 ATGAGGGTATTGAGTTTTGCATC
1 ATGAGGGTATTGAGTTTTGCATC
162452 ATGAG
1 ATGAG
162457 ACTTGTGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.24, C:0.08, G:0.31, T:0.37
Consensus pattern (23 bp):
ATGAGGGTATTGAGTTTTGCATC
Found at i:162465 original size:23 final size:23
Alignment explanation
Indices: 162413--162467 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
162403 TTTATGAGGG
**
162413 TATTGAGTTTTGCATCATGAGGG
1 TATTGAGTTTTGCATCATGAGAC
162436 TATTGAGTTTTGCATCATGAGAC
1 TATTGAGTTTTGCATCATGAGAC
162459 T-TGTGAGTT
1 TAT-TGAGTT
162468 ATTGGAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 1 0.03
23 28 0.97
ACGTcount: A:0.22, C:0.09, G:0.27, T:0.42
Consensus pattern (23 bp):
TATTGAGTTTTGCATCATGAGAC
Found at i:164013 original size:2 final size:2
Alignment explanation
Indices: 163955--163997 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
163945 CTAAATTTAT
163955 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
163997 T
1 T
163998 TAAAATGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:185140 original size:89 final size:89
Alignment explanation
Indices: 184954--185617 Score: 706
Period size: 89 Copynumber: 7.4 Consensus size: 89
184944 AAGGCTAAGA
* *
184954 TTGATTTGATTCACTGCTATT-CCAGGAAGACCAAATCTGGGATGGAGAAGAATCTATTCCATTA
1 TTGATTTGATTCACTGCT-TTGCCAGGAAGACCAAATCTGGGAT-GAGAAGAATCTGTTCCACTA
** ** * *
185018 CTCTTTTGTGGGGATTAGACTCGAGG
64 CTCTTCCGTGAAGATCAGACTTGAGG
* * * * * *
185044 TTCATTTGATTCACTGCTTTGCCAGTAAGACCAAATATGGGATGAAAAGAATATGTTCCACTCCT
1 TTGATTTGATTCACTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTGTTCCACTACT
* **
185109 TTTTTGTGAAGATCAGACTTGAGG
66 CTTCCGTGAAGATCAGACTTGAGG
* * * * * *
185133 TTGATTTGATTCACTACTTTGCTAAGAAGACCAAATCT-GCATGAGAAGAATCTGTTTCATTACT
1 TTGATTTGATTCACTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTGTTCCACTACT
* * * *
185197 ATTCCATGAAGAGCAGACTCGAGG
66 CTTCCGTGAAGATCAGACTTGAGG
* * * *
185221 TTGATTTGATTCGCTGCTTTGCTAGGAAGACCAAATCTGGGATGAAAAGAATATGTTCCACTACT
1 TTGATTTGATTCACTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTGTTCCACTACT
*
185286 ATTCCGTGAAGATCAGACTTGAGG
66 CTTCCGTGAAGATCAGACTTGAGG
* * * * *** *
185310 TTGATTTGATTCACTGCTTTTCCAGAAAGAACAAATAT-ACTTGAGAAGAATCTATTCCACTACT
1 TTGATTTGATTCACTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTGTT-C-C-ACT
* *
185374 ACTCTTCTGTGAAGATCAGACTCGAGG
63 ACTCTTCCGTGAAGATCAGACTTGAGG
** *
185401 TTGATTTGATTCGTTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTGTTTCACTACT
1 TTGATTTGATTCACTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTGTTCCACTACT
* *
185466 CTTCCGTGAAGATCATAGTCT-AGG
66 CTTCCGTGAAGATCAGACT-TGAGG
* * * * *
185490 TTGATTTGATTCGCTTCTTTGCCGGGAAGACCAAATCTGGAATGAGAAGAATCTTTTCCACTACT
1 TTGATTTGATTCACTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTGTTCCACTACT
* * *
185555 CTTCCGTGGAGATCAAACTTAAGG
66 CTTCCGTGAAGATCAGACTTGAGG
* * * **
185579 TTGATTTGATTCGCTGCTTTTCCAAGAAGAATAAATCTG
1 TTGATTTGATTCACTGCTTTGCCAGGAAGACCAAATCTG
185618 CAATATTGAC
Statistics
Matches: 479, Mismatches: 87, Indels: 17
0.82 0.15 0.03
Matches are distributed among these distances:
88 86 0.18
89 281 0.59
90 39 0.08
91 59 0.12
92 14 0.03
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (89 bp):
TTGATTTGATTCACTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTGTTCCACTACT
CTTCCGTGAAGATCAGACTTGAGG
Found at i:185253 original size:177 final size:178
Alignment explanation
Indices: 184954--185617 Score: 771
Period size: 177 Copynumber: 3.7 Consensus size: 178
184944 AAGGCTAAGA
* *
184954 TTGATTTGATTCACTGCTATT-CCAGGAAGACCAAATCTGGGATGGAGAAGAATCTATTCCATTA
1 TTGATTTGATTCACTGCT-TTGCCAAGAAGACCAAATCTGGCAT-GAGAAGAATCTATTCCATTA
** ** * * * * *
185018 CTCTTTTGTGGGGATTAGACTCGAGGTTCATTTGATTCACTGCTTTGCCAGTAAGACCAAATATG
64 CTCTTCCGTGAAGATCAGACTCGAGGTTGATTTGATTCGCTGCTTTGCCAGGAAGACCAAATCTG
* * **
185083 GGATGAAAAGAATATGTTCCACTCCTTTTTTGTGAAGATCAGACTTGAGG
129 GGATGAAAAGAATATGTTCCACTACTATTCCGTGAAGATCAGACTTGAGG
* * * *
185133 TTGATTTGATTCACTACTTTGCTAAGAAGACCAAATCT-GCATGAGAAGAATCTGTTTCATTACT
1 TTGATTTGATTCACTGCTTTGCCAAGAAGACCAAATCTGGCATGAGAAGAATCTATTCCATTACT
* * * *
185197 ATTCCATGAAGAGCAGACTCGAGGTTGATTTGATTCGCTGCTTTGCTAGGAAGACCAAATCTGGG
66 CTTCCGTGAAGATCAGACTCGAGGTTGATTTGATTCGCTGCTTTGCCAGGAAGACCAAATCTGGG
185262 ATGAAAAGAATATGTTCCACTACTATTCCGTGAAGATCAGACTTGAGG
131 ATGAAAAGAATATGTTCCACTACTATTCCGTGAAGATCAGACTTGAGG
* * * * *
185310 TTGATTTGATTCACTGCTTTTCC-AGAAAGAACAAATAT-ACTTGAGAAGAATCTATTCCACTAC
1 TTGATTTGATTCACTGCTTTGCCAAG-AAGACCAAATCTGGCATGAGAAGAATCTATTCCA-T--
* *
185373 TACTCTTCTGTGAAGATCAGACTCGAGGTTGATTTGATTCGTTGCTTTGCCAGGAAGACCAAATC
62 TACTCTTCCGTGAAGATCAGACTCGAGGTTGATTTGATTCGCTGCTTTGCCAGGAAGACCAAATC
* * * * * *
185438 TGGGATGAGAAGAATCTGTTTCACTACTCTTCCGTGAAGATCATAGTCT-AGG
127 TGGGATGAAAAGAATATGTTCCACTACTATTCCGTGAAGATCAGACT-TGAGG
* * ** * * *
185490 TTGATTTGATTCGCTTCTTTGCCGGGAAGACCAAATCTGGAATGAGAAGAATCTTTTCCACTACT
1 TTGATTTGATTCACTGCTTTGCCAAGAAGACCAAATCTGGCATGAGAAGAATCTATTCCATTACT
* * ** * * **
185555 CTTCCGTGGAGATCAAACTTAAGGTTGATTTGATTCGCTGCTTTTCCAAGAAGAATAAATCTG
66 CTTCCGTGAAGATCAGACTCGAGGTTGATTTGATTCGCTGCTTTGCCAGGAAGACCAAATCTG
185618 CAATATTGAC
Statistics
Matches: 412, Mismatches: 65, Indels: 17
0.83 0.13 0.03
Matches are distributed among these distances:
176 2 0.00
177 163 0.40
178 63 0.15
179 32 0.08
180 133 0.32
181 19 0.05
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (178 bp):
TTGATTTGATTCACTGCTTTGCCAAGAAGACCAAATCTGGCATGAGAAGAATCTATTCCATTACT
CTTCCGTGAAGATCAGACTCGAGGTTGATTTGATTCGCTGCTTTGCCAGGAAGACCAAATCTGGG
ATGAAAAGAATATGTTCCACTACTATTCCGTGAAGATCAGACTTGAGG
Found at i:185521 original size:269 final size:266
Alignment explanation
Indices: 184954--185602 Score: 816
Period size: 269 Copynumber: 2.4 Consensus size: 266
184944 AAGGCTAAGA
* *
184954 TTGATTTGATTCACTGCTATT-CCAGGAAGACCAAATCTGGGATGGAGAAGAATCTATTCCATTA
1 TTGATTTGATTCGCTGCT-TTGCCAGGAAGACCAAATCTGGGAT-GAGAAGAATCTATTCCACTA
** * * * * * * *
185018 CTCTTTTGTGGGGATTAGACTCGAGGTTCATTTGATTCACTGCTTTGCCAGTAAGACCAAATATG
64 CTCTTCCGTGGAGATCAGACTTGAGGTTGATTTGATTCACTGCTTTTCCAGAAAGAACAAATATG
** * * * *
185083 GGATGAAAAGAATATGTTCCACTCCTTTTTTGTGAAGATCAGACTTGAGGTTGATTTGATTCACT
129 ACATGAAAAGAATATATTCCACTCCTCTTCTGTGAAGATCAGACTCGAGGTTGATTTGATTCACT
* *
185148 ACTTTGCTAAGAAGACCAAATCTGCATGAGAAGAATCTGTTTCATTACTATTCCATGAAGAGCAG
194 ACTTTGCCAAGAAGACCAAATCTGCATGAGAAGAATCTGTTTCACTACTATTCCATGAAGAGCAG
185213 ACTCGAGG
259 ACTCGAGG
* * * *
185221 TTGATTTGATTCGCTGCTTTGCTAGGAAGACCAAATCTGGGATGAAAAGAATATGTTCCACTACT
1 TTGATTTGATTCGCTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTATTCCACTACT
* *
185286 ATTCCGTGAAGATCAGACTTGAGGTTGATTTGATTCACTGCTTTTCCAGAAAGAACAAATAT-AC
66 CTTCCGTGGAGATCAGACTTGAGGTTGATTTGATTCACTGCTTTTCCAGAAAGAACAAATATGAC
* * * **
185350 TTGAGAAGAATCTATTCCACTACTACTCTTCTGTGAAGATCAGACTCGAGGTTGATTTGATTCGT
131 ATGAAAAGAATATATTCCACT-C--CTCTTCTGTGAAGATCAGACTCGAGGTTGATTTGATTCAC
* * * * * *
185415 TGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTGTTTCACTACTCTTCCGTGAAGATC
193 TACTTTGCCAAGAAGACCAAATCT-GCATGAGAAGAATCTGTTTCACTACTATTCCATGAAGAGC
* * *
185480 ATAGTCTAGG
257 AGACTCGAGG
* * * *
185490 TTGATTTGATTCGCTTCTTTGCCGGGAAGACCAAATCTGGAATGAGAAGAATCTTTTCCACTACT
1 TTGATTTGATTCGCTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTATTCCACTACT
* * *
185555 CTTCCGTGGAGATCAAACTTAAGGTTGATTTGATTCGCTGCTTTTCCA
66 CTTCCGTGGAGATCAGACTTGAGGTTGATTTGATTCACTGCTTTTCCA
185603 AGAAGAATAA
Statistics
Matches: 326, Mismatches: 51, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
265 17 0.05
266 72 0.22
267 38 0.12
268 56 0.17
269 143 0.44
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (266 bp):
TTGATTTGATTCGCTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATCTATTCCACTACT
CTTCCGTGGAGATCAGACTTGAGGTTGATTTGATTCACTGCTTTTCCAGAAAGAACAAATATGAC
ATGAAAAGAATATATTCCACTCCTCTTCTGTGAAGATCAGACTCGAGGTTGATTTGATTCACTAC
TTTGCCAAGAAGACCAAATCTGCATGAGAAGAATCTGTTTCACTACTATTCCATGAAGAGCAGAC
TCGAGG
Found at i:186850 original size:38 final size:38
Alignment explanation
Indices: 186770--186904 Score: 189
Period size: 38 Copynumber: 3.5 Consensus size: 38
186760 GATACGAACG
* *
186770 TTCAAAATGGCCCAACATTATTTCTTGCTGATATGAGCC
1 TTCAAAATGCCCCAACATT-TTTCATGCTGATATGAGCC
* *
186809 TTCAAAATACCCCAACATTTTTCATGCTGATATGAGTC
1 TTCAAAATGCCCCAACATTTTTCATGCTGATATGAGCC
* * *
186847 TTCAAAATGCCCTAACATTTTTCATGCTGATGTTAGCC
1 TTCAAAATGCCCCAACATTTTTCATGCTGATATGAGCC
*
186885 TTCAAAATGTCCCAACATTT
1 TTCAAAATGCCCCAACATTT
186905 CAAGTTGTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 68 0.80
39 17 0.20
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (38 bp):
TTCAAAATGCCCCAACATTTTTCATGCTGATATGAGCC
Found at i:193427 original size:30 final size:32
Alignment explanation
Indices: 193391--193455 Score: 116
Period size: 30 Copynumber: 2.1 Consensus size: 32
193381 AATTACCATT
193391 AAACCAAGACACCTAACC-TTATCATCTTC-A
1 AAACCAAGACACCTAACCATTATCATCTTCTA
193421 AAACCAAGACACCTAACCATTATCATCTTCTA
1 AAACCAAGACACCTAACCATTATCATCTTCTA
193453 AAA
1 AAA
193456 GTCAAAGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 18 0.55
31 11 0.33
32 4 0.12
ACGTcount: A:0.43, C:0.31, G:0.03, T:0.23
Consensus pattern (32 bp):
AAACCAAGACACCTAACCATTATCATCTTCTA
Found at i:195264 original size:15 final size:15
Alignment explanation
Indices: 195244--195280 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
195234 TAAACAGATT
195244 GAATTCAATTCGAGA
1 GAATTCAATTCGAGA
*
195259 GAATTCAATTTGAGA
1 GAATTCAATTCGAGA
*
195274 GGATTCA
1 GAATTCA
195281 TTTCCCCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.30
Consensus pattern (15 bp):
GAATTCAATTCGAGA
Found at i:197265 original size:59 final size:59
Alignment explanation
Indices: 197140--197310 Score: 229
Period size: 59 Copynumber: 2.9 Consensus size: 59
197130 TCCCATGTGA
* * * * * * *
197140 AAATTCATACCCTTAGTATTAGTTTCTTATC-TTTT-TGCACATAAAGTGCCTAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAT-CACACATAGTGCCCAATACGG
197198 AAATTCATACACTTAGTATGAATTTCTTAACATTTTATCACACATAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTATCACACATAGTGCCCAATACGG
* * *
197257 AAATTCATACACTTATTATGAATTTCTTAACATTTTAGCACACATAGCGCCCAA
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTATCACACATAGTGCCCAA
197311 ACAGTTATTC
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
58 27 0.27
59 73 0.72
60 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATTTTATCACACATAGTGCCCAATACGG
Found at i:197373 original size:54 final size:54
Alignment explanation
Indices: 197294--197785 Score: 741
Period size: 54 Copynumber: 9.1 Consensus size: 54
197284 TAACATTTTA
* * * * * *
197294 GCACACATAGCGCCCAAACAGTTATTCATCCACATAGGATCAATTCCGTAAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
** * * *
197348 GCACACTTAGTGTTGAAACGATTATTCATCCACATATGATGAATTCCATGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
*
197402 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
*
197456 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTCAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* *
197510 GCACACTTAGTGCCGAAACGGTTATTCATCAACATAGGATGAATTCCATGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
*
197564 GCACACTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
** * *
197618 GCACACTTAGTGTTGAAATGGTTATTCATCCACATAGGATAAATTCCGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* * *
197672 GCACACTTAGTGACTAAACAGTTATTCATCCACATAGGATGAATTCCGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
* * * *
197726 GCACACATAATGCTGAAACGATTATTCATCCACATAGGATGAATTCCGTGAAAT
1 GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
197780 GCACAC
1 GCACAC
197786 CGAGTGCCTA
Statistics
Matches: 397, Mismatches: 41, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 397 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (54 bp):
GCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAAT
Found at i:198311 original size:94 final size:95
Alignment explanation
Indices: 198139--198336 Score: 256
Period size: 94 Copynumber: 2.1 Consensus size: 95
198129 ACCTTGGTAC
* * * * * * * *
198139 CGATACTTCTATATTATGGTACCGATACCCCCTTTTGGTATCAATACTAATTTTAGGTTCGATGT
1 CGATACTACCATACTATGGTACCAATACCCCCTTCTGGTATCAATACCAATTTTAGATTCAATGT
* *
198204 TGCTTGGTATCGATACCCTTACCATAGTAT
66 TGCCTGGTATCGATACCCTCACCATAGTAT
198234 CGATACTACCATACTATGGTACCAATA-CCCCTTCTGGTATCAATACCAATTTTAGATTCAATGA
1 CGATACTACCATACTATGGTACCAATACCCCCTTCTGGTATCAATACCAATTTTAGATTCAATG-
* * *
198298 TT-CCTGGTGTCGATACCCTCATCATGGTAT
65 TTGCCTGGTATCGATACCCTCACCATAGTAT
198328 CGATACTAC
1 CGATACTAC
198337 TCAACGAATT
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
94 64 0.72
95 25 0.28
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (95 bp):
CGATACTACCATACTATGGTACCAATACCCCCTTCTGGTATCAATACCAATTTTAGATTCAATGT
TGCCTGGTATCGATACCCTCACCATAGTAT
Found at i:198755 original size:30 final size:30
Alignment explanation
Indices: 198719--198796 Score: 147
Period size: 30 Copynumber: 2.6 Consensus size: 30
198709 AACTGACTGA
198719 ACCGAATTAGTTCGGTTAATTCGGTCGGCC
1 ACCGAATTAGTTCGGTTAATTCGGTCGGCC
198749 ACCGAATTAGTTCGGTTAATTCGGTCGGCC
1 ACCGAATTAGTTCGGTTAATTCGGTCGGCC
*
198779 ACCGAATTAGTTTGGTTA
1 ACCGAATTAGTTCGGTTA
198797 GTTAACGGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (30 bp):
ACCGAATTAGTTCGGTTAATTCGGTCGGCC
Found at i:212734 original size:12 final size:12
Alignment explanation
Indices: 212709--212778 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
212699 ACGGAGATAT
* *
212709 CAGAAATCAAAA
1 CAGAATTCAGAA
212721 CAGAATTCAGAA
1 CAGAATTCAGAA
212733 CAGATATT-AGAA
1 CAGA-ATTCAGAA
* * *
212745 CAGAATCCATAT
1 CAGAATTCAGAA
*
212757 CAGAAATCAGAA
1 CAGAATTCAGAA
212769 CAGAATTCAG
1 CAGAATTCAG
212779 GTCATGTATC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 41 0.89
13 3 0.07
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:212736 original size:24 final size:24
Alignment explanation
Indices: 212707--212801 Score: 93
Period size: 24 Copynumber: 4.0 Consensus size: 24
212697 AAACGGAGAT
212707 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * * *
212731 AACAGATATTAGAACAGAATCCAT
1 ATCAGAAATCAAAACAGAATTCAG
*
212755 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* *
212779 GTCATG-TATCAAAACAGAATTCA
1 ATCA-GAAATCAAAACAGAATTCA
212802 AGTCGAAAAA
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 55 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:212795 original size:48 final size:48
Alignment explanation
Indices: 212705--212798 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
212695 TTAAACGGAG
* *
212705 ATATCAGAAATCAAAACAGAATTCAGAACAGATATTAGAACAGAATCC
1 ATATCAGAAATCAAAACAGAATTCAGAACAGATATCAAAACAGAATCC
* **
212753 ATATCAGAAATCAGAACAGAATTCAGGTCATG-TATCAAAACAGAAT
1 ATATCAGAAATCAAAACAGAATTCAGAACA-GATATCAAAACAGAAT
212799 TCAAGTCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (48 bp):
ATATCAGAAATCAAAACAGAATTCAGAACAGATATCAAAACAGAATCC
Found at i:217134 original size:20 final size:21
Alignment explanation
Indices: 217109--217153 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
217099 CAACCACTTT
*
217109 TTTTTCCTTCTTGA-AAGTTA
1 TTTTTCCTTCTTGAGAAGTGA
*
217129 TTTTTCTTTCTTGAGAAGTGA
1 TTTTTCCTTCTTGAGAAGTGA
217150 TTTT
1 TTTT
217154 CTTGAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.18, C:0.11, G:0.13, T:0.58
Consensus pattern (21 bp):
TTTTTCCTTCTTGAGAAGTGA
Found at i:217860 original size:24 final size:21
Alignment explanation
Indices: 217807--217858 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
217797 ACTGGCTCTT
217807 CATCTTCTTCAACTCATTCCC
1 CATCTTCTTCAACTCATTCCC
217828 CATCTTCTTCAACTCATTCCC
1 CATCTTCTTCAACTCATTCCC
*
217849 TATCTTCTTC
1 CATCTTCTTC
217859 TTCTTTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.40, G:0.00, T:0.42
Consensus pattern (21 bp):
CATCTTCTTCAACTCATTCCC
Found at i:226827 original size:16 final size:16
Alignment explanation
Indices: 226795--226825 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
226785 TTTATCTTTC
226795 TTTAGAATTTTATAAA
1 TTTAGAATTTTATAAA
226811 TTTA-AATTTTATAAA
1 TTTAGAATTTTATAAA
226826 ATAAAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTAGAATTTTATAAA
Found at i:226832 original size:15 final size:15
Alignment explanation
Indices: 226800--226833 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
226790 CTTTCTTTAG
* *
226800 AATTTTATAAATTTA
1 AATTTTATAAAATAA
226815 AATTTTATAAAATAA
1 AATTTTATAAAATAA
226830 AATT
1 AATT
226834 GTGTTTATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTTATAAAATAA
Found at i:231654 original size:14 final size:14
Alignment explanation
Indices: 231631--231662 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
231621 TAACTACTCA
*
231631 TAACATCTAACAAC
1 TAACAGCTAACAAC
231645 TAACAGCTAACAAC
1 TAACAGCTAACAAC
231659 TAAC
1 TAAC
231663 CTTTACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.19
Consensus pattern (14 bp):
TAACAGCTAACAAC
Found at i:232963 original size:229 final size:227
Alignment explanation
Indices: 232558--233006 Score: 785
Period size: 229 Copynumber: 2.0 Consensus size: 227
232548 GTAAATTATC
* * *
232558 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
232623 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
232688 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-TT
232752 GAAACATAAATTACATAACTTTCAAAAAAGTATA
195 GAAACATAAATTACATAACTTT-AAAAAAGTATA
*
232786 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
232851 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
232915 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
232980 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
233007 GCAGTTTTAA
Statistics
Matches: 211, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
228 44 0.21
229 164 0.78
230 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:233095 original size:20 final size:19
Alignment explanation
Indices: 233072--233117 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
233062 CGATATACCA
233072 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
233092 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
233112 GGTAAA
1 GGTAAA
233118 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:233262 original size:20 final size:19
Alignment explanation
Indices: 233239--233285 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
233229 CGATATAACA
*
233239 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
233259 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
233279 GGTAAAA
1 GGTAAAA
233286 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:235628 original size:33 final size:33
Alignment explanation
Indices: 235586--235651 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
235576 AAATAGATGG
*
235586 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
235619 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
235652 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:237484 original size:19 final size:19
Alignment explanation
Indices: 237441--237484 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
237431 TGTCGAGTTA
237441 ATTTTTGTATAAGATTTAT
1 ATTTTTGTATAAGATTTAT
* *
237460 AATTTTGTATACGATTTAT
1 ATTTTTGTATAAGATTTAT
237479 ATTTTT
1 ATTTTT
237485 TTATGTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (19 bp):
ATTTTTGTATAAGATTTAT
Found at i:238191 original size:199 final size:199
Alignment explanation
Indices: 237566--238370 Score: 1510
Period size: 199 Copynumber: 4.1 Consensus size: 199
237556 TTAAGGGTCA
* *
237566 TGTCGATACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
237630 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
237695 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
237760 AATG
196 AATG
*
237764 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
237829 AATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAA-CCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
237892 TAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
237957 AATG
196 AATG
237961 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
238026 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
238091 GTAATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
238155 TAATG
195 TAATG
238160 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
238225 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
238290 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
238355 AATG
196 AATG
238359 TGTCGACACTAA
1 TGTCGACACTAA
238371 ATACCCCGTT
Statistics
Matches: 594, Mismatches: 8, Indels: 9
0.97 0.01 0.01
Matches are distributed among these distances:
197 166 0.28
198 113 0.19
199 287 0.48
200 28 0.05
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATG
Found at i:238705 original size:18 final size:18
Alignment explanation
Indices: 238682--238749 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
238672 ATCGGTCGCA
238682 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
238700 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
238721 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
238742 GAAGATGA
1 GAAGATGA
238750 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:238706 original size:6 final size:6
Alignment explanation
Indices: 238682--238779 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
238672 ATCGGTCGCA
* * * * * *
238682 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
238730 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
238778 GA
1 GA
238780 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:238717 original size:3 final size:3
Alignment explanation
Indices: 238697--238783 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
238687 TGAAGCTGAC
* * * * * ** *
238697 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
238745 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
238784 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:238732 original size:42 final size:42
Alignment explanation
Indices: 238685--238775 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
238675 GGTCGCAGAA
*
238685 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
238727 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
238769 GATGAAG
1 GATGAAG
238776 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:238783 original size:18 final size:18
Alignment explanation
Indices: 238682--238779 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
238672 ATCGGTCGCA
* *
238682 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
238700 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
238718 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
238736 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
238754 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
238772 GAAGATGA
1 GAAGATGA
238780 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:240557 original size:184 final size:184
Alignment explanation
Indices: 240237--240894 Score: 1246
Period size: 184 Copynumber: 3.6 Consensus size: 184
240227 ATAATAAAAC
*
240237 AGATAA-TTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACCTA
1 AGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAACCTA
240301 TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATAC
66 TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATAC
240366 GATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
131 GATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
* *
240420 AGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCCAATAGGTCTACAACCTA
1 AGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAACCTA
240485 TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATAC
66 TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATAC
*
240550 AATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
131 GATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
*
240604 AGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACCTA
1 AGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAACCTA
240669 TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATAC
66 TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATAC
240734 GATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
131 GATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
*
240788 AGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTA
1 AGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAACCTA
*
240853 TATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
240895 CCATTTAAAA
Statistics
Matches: 463, Mismatches: 11, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
183 6 0.01
184 457 0.99
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
AGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAACCTA
TATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATAC
GATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
Found at i:243480 original size:23 final size:23
Alignment explanation
Indices: 243449--243512 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
243439 ATAGGTAAAC
*
243449 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
243472 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
243495 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
243513 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Done.