Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009261.1 Hibiscus syriacus cultivar Beakdansim tig00112912_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: 923215
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:445334 original size:52 final size:50
Alignment explanation
Indices: 444872--445315 Score: 811
Period size: 50 Copynumber: 8.8 Consensus size: 50
444862 AGAAGACTCA
444872 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA-AGAAC
444924 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAAC
444974 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAAC
445024 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAAC
445074 ATAGCA-CTTCTGGAAGTGTT-TTTGAGTTATCTGATCTGGTTGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAAC
445122 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAAC
445172 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA-AGAAC
*
445224 ATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA-AGAAC
445276 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
445316 ATTGGACAGA
Statistics
Matches: 385, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
48 34 0.09
49 28 0.07
50 182 0.47
51 4 0.01
52 137 0.36
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (50 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAAC
Found at i:446779 original size:42 final size:42
Alignment explanation
Indices: 446732--446816 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
446722 TGGGTTTAAT
446732 AAAGAAGATTCTCAGAATATAGATTATAAGAGAAAGCAAAAC
1 AAAGAAGATTCTCAGAATATAGATTATAAGAGAAAGCAAAAC
446774 AAAGAAGATTCTCAGAATATAGATTATAAGAGAAAGCAAAAC
1 AAAGAAGATTCTCAGAATATAGATTATAAGAGAAAGCAAAAC
446816 A
1 A
446817 TGTAAATTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.19
Consensus pattern (42 bp):
AAAGAAGATTCTCAGAATATAGATTATAAGAGAAAGCAAAAC
Found at i:447987 original size:20 final size:20
Alignment explanation
Indices: 447955--448010 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
447945 AATTTATTTT
*
447955 AACTATTTACTTTTAATCTC
1 AACTATTTGCTTTTAATCTC
* * * *
447975 AATTATTTGCTTTTAGTTTT
1 AACTATTTGCTTTTAATCTC
447995 AACTATTTGCTTTTAA
1 AACTATTTGCTTTTAA
448011 AGTTGGGTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.55
Consensus pattern (20 bp):
AACTATTTGCTTTTAATCTC
Found at i:449953 original size:31 final size:31
Alignment explanation
Indices: 449915--449980 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
449905 GTGGGTGGCC
*
449915 ACCGTCGAGCGGTGGTCAGTGTGCGAGAGAG
1 ACCGTCGAGCGGTGGCCAGTGTGCGAGAGAG
*
449946 ACCGTCGAGCGGTGGCCGGTGTGCGAGAGAG
1 ACCGTCGAGCGGTGGCCAGTGTGCGAGAGAG
449977 ACCG
1 ACCG
449981 ACATACGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.18, C:0.23, G:0.45, T:0.14
Consensus pattern (31 bp):
ACCGTCGAGCGGTGGCCAGTGTGCGAGAGAG
Found at i:451016 original size:12 final size:13
Alignment explanation
Indices: 450999--451045 Score: 62
Period size: 12 Copynumber: 3.7 Consensus size: 13
450989 TTTGTACTTA
450999 TTTTATTTTAT-T
1 TTTTATTTTATGT
451011 TTTTATTTTATGT
1 TTTTATTTTATGT
*
451024 TGTTT-TTTAATGT
1 T-TTTATTTTATGT
451037 TTTTATTTT
1 TTTTATTTT
451046 TTATATTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 14 0.47
13 13 0.43
14 3 0.10
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTATTTTATGT
Found at i:451018 original size:17 final size:17
Alignment explanation
Indices: 450996--451078 Score: 69
Period size: 17 Copynumber: 4.6 Consensus size: 17
450986 GTCTTTGTAC
450996 TTATTTTATTTTATTTT
1 TTATTTTATTTTATTTT
* *
451013 TTATTTTATGTTGTTTT
1 TTATTTTATTTTATTTT
* *
451030 TTAATGT-TTTTATTTT
1 TTATTTTATTTTATTTT
*
451046 TTATATTTACTTGTTGTTTT
1 TTAT-TTTA-TT-TTATTTT
451066 AATTATTTTATTT
1 --TTATTTTATTT
451079 AAGTTTATTA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
16 10 0.20
17 22 0.43
19 3 0.06
20 8 0.16
21 4 0.08
22 4 0.08
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.75
Consensus pattern (17 bp):
TTATTTTATTTTATTTT
Found at i:451041 original size:33 final size:34
Alignment explanation
Indices: 451001--451078 Score: 108
Period size: 33 Copynumber: 2.3 Consensus size: 34
450991 TGTACTTATT
*
451001 TTATTTTATTTTTTAT-TTTATGTTGTT-TTTTAA
1 TTATTTTATTTTTTATATTTA-CTTGTTGTTTTAA
451034 TGT-TTTTATTTTTTATATTTACTTGTTGTTTTAA
1 T-TATTTTATTTTTTATATTTACTTGTTGTTTTAA
451068 TTATTTTATTT
1 TTATTTTATTT
451079 AAGTTTATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
33 20 0.50
34 20 0.50
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.74
Consensus pattern (34 bp):
TTATTTTATTTTTTATATTTACTTGTTGTTTTAA
Found at i:453148 original size:87 final size:86
Alignment explanation
Indices: 453036--453209 Score: 330
Period size: 87 Copynumber: 2.0 Consensus size: 86
453026 CGACTCTAAA
*
453036 TCAAATTCTTTTAAGACCTAAATTTCACCACATTTTCTAAAATTCAAAAATTTTAAGTCTAACCG
1 TCAAATTCTTTTAAAACCTAAATTTCACCACATTTTCTAAAATTCAAAAATTTTAAGTCTAACCG
453101 ATTCTGCTCGTCGTTGAGCCG
66 ATTCTGCTCGTCGTTGAGCCG
453122 TCAAATTCTTTTAAAACCTTAAATTTCACCACATTTTCTAAAATTCAAAAATTTTAAGTCTAACC
1 TCAAATTCTTTTAAAACC-TAAATTTCACCACATTTTCTAAAATTCAAAAATTTTAAGTCTAACC
453187 GATTCTGCTCGTCGTTGAGCCG
65 GATTCTGCTCGTCGTTGAGCCG
453209 T
1 T
453210 TGAGGGAGAC
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 17 0.20
87 69 0.80
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (86 bp):
TCAAATTCTTTTAAAACCTAAATTTCACCACATTTTCTAAAATTCAAAAATTTTAAGTCTAACCG
ATTCTGCTCGTCGTTGAGCCG
Found at i:454128 original size:13 final size:13
Alignment explanation
Indices: 454110--454134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
454100 TTCTTCCTAT
454110 TTTCTTCTTTTTA
1 TTTCTTCTTTTTA
454123 TTTCTTCTTTTT
1 TTTCTTCTTTTT
454135 CTCTCTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTTCTTTTTA
Found at i:454810 original size:37 final size:37
Alignment explanation
Indices: 454766--454870 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
454756 CTTTTTCGTC
454766 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
454803 TTGCTAGGATTCAAACTTCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
454840 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
454871 CCACAAGCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:455349 original size:20 final size:19
Alignment explanation
Indices: 455317--455354 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
455307 TTCTTTTTAG
455317 TTTTTGCCTTATATATATT
1 TTTTTGCCTTATATATATT
*
455336 TTTTTTCCTATATATATAT
1 TTTTTGCCT-TATATATAT
455355 ATATATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.24, C:0.11, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTTGCCTTATATATATT
Found at i:455604 original size:50 final size:49
Alignment explanation
Indices: 455449--455609 Score: 127
Period size: 50 Copynumber: 3.2 Consensus size: 49
455439 ATATTTCTAT
* *
455449 TATTACTATTTTGTAGTTA-ATTATATATATAGTTA-TTTTCATTTATT-
1 TATTACTATTTTTTAGTTATATTATAT-TATATTTATTTTTCATTTATTA
* * * *
455496 TATTTTCTATATTTTA-TTATATACATATTACTTCATTTTATTTTAT-ATTT-CTA
1 TA-TTACTATTTTTTAGTTATAT-TATATTA--T-A-TTTATTTT-TCATTTATTA
455549 TTATTACTATTTTTTAGTTATATTATATGTATATTTATTTTTCATTTATTA
1 -TATTACTATTTTTTAGTTATATTATAT-TATATTTATTTTTCATTTATTA
*
455600 TATTATTATT
1 TATTACTATT
455610 ATTATTACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 27
0.70 0.09 0.21
Matches are distributed among these distances:
47 5 0.06
48 14 0.16
49 5 0.06
50 22 0.25
51 4 0.05
52 5 0.06
53 22 0.25
54 11 0.12
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (49 bp):
TATTACTATTTTTTAGTTATATTATATTATATTTATTTTTCATTTATTA
Found at i:455656 original size:19 final size:19
Alignment explanation
Indices: 455632--455677 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
455622 TAGTATTTTA
455632 TTATATTATACATACATTT
1 TTATATTATACATACATTT
* * *
455651 TTATATTTTATATATATTT
1 TTATATTATACATACATTT
455670 TT-TATTAT
1 TTATATTAT
455678 TTTATTTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATATTATACATACATTT
Found at i:455680 original size:28 final size:28
Alignment explanation
Indices: 455649--455715 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
455639 ATACATACAT
455649 TTTTATATTTTA-TATATATTT-TTTATTA
1 TTTTAT-TTTTACTATATATTTATTT-TTA
* *
455677 TTTTATTTATACTATTTATTTATTTTTA
1 TTTTATTTTTACTATATATTTATTTTTA
*
455705 TTATATTTTTA
1 TTTTATTTTTA
455716 GTTTATTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 4 0.12
28 26 0.79
29 3 0.09
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (28 bp):
TTTTATTTTTACTATATATTTATTTTTA
Found at i:455687 original size:21 final size:21
Alignment explanation
Indices: 455556--455714 Score: 80
Period size: 21 Copynumber: 7.3 Consensus size: 21
455546 CTATTATTAC
*
455556 TATTTTTTAGTTATATTATATGTA
1 TATTTTTTA-TTAT-TT-TATTTA
455580 TATTTATTT-TTCA-TTTA-TTA
1 TATTT-TTTATT-ATTTTATTTA
*
455600 TATTATTATTATTATTACTATTTA
1 TATT-TT-TTATTATT-TTATTTA
* **
455624 GTA--TTTTATTATATTATACA
1 -TATTTTTTATTATTTTATTTA
* *
455644 TACATTTTTA-TATTTTATATA
1 TA-TTTTTTATTATTTTATTTA
455665 TATTTTTTATTATTTTATTTA
1 TATTTTTTATTATTTTATTTA
* *
455686 TACTATTTATTTATTTT-TATTA
1 TATTTTTTA-TTATTTTAT-TTA
455708 TATTTTT
1 TATTTTT
455715 AGTTTATTTG
Statistics
Matches: 106, Mismatches: 14, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
19 2 0.02
20 17 0.16
21 42 0.40
22 27 0.25
23 4 0.04
24 9 0.08
25 5 0.05
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (21 bp):
TATTTTTTATTATTTTATTTA
Found at i:455715 original size:21 final size:21
Alignment explanation
Indices: 455650--455723 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 21
455640 TACATACATT
455650 TTTATATTTTATATATATTTTT-
1 TTTAT-TTTTAT-TATATTTTTA
*
455672 TATTA-TTTTATTTATACTATTTA
1 T-TTATTTTTA-TTATA-TTTTTA
455695 TTTATTTTTATTATATTTTTA
1 TTTATTTTTATTATATTTTTA
455716 GTTTATTT
1 -TTTATTT
455724 GCTCTTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
21 14 0.32
22 21 0.48
23 9 0.20
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (21 bp):
TTTATTTTTATTATATTTTTA
Found at i:455721 original size:13 final size:11
Alignment explanation
Indices: 455651--455715 Score: 57
Period size: 11 Copynumber: 6.0 Consensus size: 11
455641 ACATACATTT
455651 TTATA-TTTTA
1 TTATATTTTTA
455661 TATATATTTTTTA
1 T-TATA-TTTTTA
*
455674 TTAT-TTTAT-
1 TTATATTTTTA
*
455683 TTATACTATTTA
1 TTATA-TTTTTA
455695 TT-TATTTTTA
1 TTATATTTTTA
455705 TTATATTTTTA
1 TTATATTTTTA
455716 GTTTATTTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
9 4 0.09
10 12 0.27
11 17 0.39
12 5 0.11
13 6 0.14
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATATTTTTA
Found at i:455722 original size:11 final size:10
Alignment explanation
Indices: 455654--455723 Score: 54
Period size: 11 Copynumber: 6.5 Consensus size: 10
455644 TACATTTTTA
*
455654 TATTTTATATA
1 TATTTT-TATT
455665 TATTTTT-TAT
1 TATTTTTAT-T
455675 TA-TTTTATT
1 TATTTTTATT
455684 TATACTATTTATT
1 TAT--T-TTTATT
455697 TATTTTTATT
1 TATTTTTATT
455707 ATATTTTTAGTT
1 -TATTTTTA-TT
455719 TATTT
1 TATTT
455724 GCTCTTATTA
Statistics
Matches: 50, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
9 8 0.16
10 10 0.20
11 20 0.40
12 3 0.06
13 9 0.18
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (10 bp):
TATTTTTATT
Found at i:455828 original size:20 final size:19
Alignment explanation
Indices: 455801--455856 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
455791 TTTTATCTTC
455801 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
455820 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
455840 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
455857 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:459568 original size:7 final size:7
Alignment explanation
Indices: 459552--459609 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
459542 CAAAAAGGGC
*
459552 AAAAACA
1 AAAAAGA
459559 AAAAAGA
1 AAAAAGA
459566 AAAGAAGA
1 AAA-AAGA
459574 AAAAAG-
1 AAAAAGA
*
459580 AAGAA-A
1 AAAAAGA
*
459586 AAAAA-C
1 AAAAAGA
459592 AAAAAGA
1 AAAAAGA
459599 AAAAAGA
1 AAAAAGA
459606 AAAA
1 AAAA
459610 GGGACAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 13 0.30
7 23 0.53
8 7 0.16
ACGTcount: A:0.84, C:0.03, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:459585 original size:18 final size:16
Alignment explanation
Indices: 459558--459609 Score: 70
Period size: 15 Copynumber: 3.2 Consensus size: 16
459548 GGGCAAAAAC
459558 AAAAAAGAAAAGAAGAA
1 AAAAAAGAAAA-AAGAA
459575 AAAAGAAGAAAAAA-AA
1 AAAA-AAGAAAAAAGAA
*
459591 CAAAAAGAAAAAAGAA
1 AAAAAAGAAAAAAGAA
459607 AAA
1 AAA
459610 GGGACAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 9 0.29
16 9 0.29
17 6 0.19
18 7 0.23
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAGAA
Found at i:462979 original size:106 final size:106
Alignment explanation
Indices: 461069--462978 Score: 2867
Period size: 106 Copynumber: 18.0 Consensus size: 106
461059 ATATCGTGCA
* * * * *
461069 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
461133 AATTTC-GTAGCCAATTTCAACTTCACAGCGAAGGATATTGC
66 AATTTCAG-AGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
461174 ACTCCAGAGAACGCAAGTTCAACTTGACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
461239 AATTTCATATCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
461280 GCTCCAGGCAACACATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
461345 AATTTCAGTGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
461386 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
461451 AATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
461492 ACTCCAAACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
461557 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
461598 ACTCCAGACAACGCAAGTTCAACTTTACCACGAAGGGATCGCTGGTTGTCAACAAACAACTTCAC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
461663 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
461704 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
461769 AATTTCAGAGCCAATTTCAACTTCACAACAAAGGGTATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * **
461810 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTTGTTGTCAACAAACAACTTCTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
461875 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
461916 ACTCCAGACAACGCAAGTTCAACTTTACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
461981 AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
462022 ACTCAAGACAACGCAAGTTCAACTTCATGATGAAGGGACCGTTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
462087 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
462128 ACTCCAGACAACGCAAGTTCAACATCACGACAAATGGACCGCTGG-TGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
462192 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
462233 ACTCCAGACAACGCAAGTTTAACTTCACGATGAAGGGACCACTGGTTGTCAACAAACAAATTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** *
462298 AATTTCAGAGATAATTTCAACTTCACAGCGAAGGATATCGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * *
462339 ACTTGAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTTTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
462404 AATTTCGGAGCCGATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
462445 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTTTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
462510 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
462551 ACTCTAGACAACGCAAGTTCAACTCCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
462616 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
462657 ACTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
462722 AATTTCAGAGCCAATTTCAACTTCAGAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
462763 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACAGCTGATTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
462828 AATTTTGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
462869 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
462934 GATTCCAGAGCAAATTTCAACTTCACGATG-G-AGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAC-A-GCGAAGGATATTGG
462975 ACTC
1 ACTC
462979 GGAACAATGC
Statistics
Matches: 1641, Mismatches: 159, Indels: 9
0.91 0.09 0.00
Matches are distributed among these distances:
105 142 0.09
106 1498 0.91
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:463781 original size:37 final size:37
Alignment explanation
Indices: 463728--463832 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
463718 CCTTTTCGTC
463728 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
463765 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
463802 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
463833 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:464729 original size:20 final size:19
Alignment explanation
Indices: 464702--464757 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
464692 TTTTATCTTC
464702 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
464721 ATTTCATTTT-TTTTCATCCA
1 ATTT-ATTTTATTTT-ATTCA
464741 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
464758 ATTATTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 13 0.42
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:465945 original size:19 final size:19
Alignment explanation
Indices: 465909--465946 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
465899 TATCGGTGTT
*
465909 CAATAATTAAATATATTTG
1 CAATAATTAAATAAATTTG
465928 CAATAAATTAAA-AAATTTG
1 CAAT-AATTAAATAAATTTG
465947 TATTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (19 bp):
CAATAATTAAATAAATTTG
Found at i:466194 original size:15 final size:16
Alignment explanation
Indices: 466173--466214 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
466163 ATAATATTAA
466173 ATATTAAAATTA-AAG
1 ATATTAAAATTATAAG
*
466188 GTATT-AAATTATAAG
1 ATATTAAAATTATAAG
*
466203 ATACTAAAATTA
1 ATATTAAAATTA
466215 CTAAACATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.27
15 10 0.45
16 6 0.27
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (16 bp):
ATATTAAAATTATAAG
Found at i:467802 original size:36 final size:37
Alignment explanation
Indices: 467639--467879 Score: 256
Period size: 36 Copynumber: 6.4 Consensus size: 37
467629 TATTAACTTG
* *
467639 CTTCACTACTCTTCCGTGAAGGCTGAATCTAATG-ACTGA
1 CTTCACTACTCTTCCGTGAAGGCTGAAT-T--TGCATTTA
*
467678 CTTCACTACTCTTCCGTGAAGGCTGAATCTGATCAATTTA
1 CTTCACTACTCTTCCGTGAAGGCTGAATTTG--C-ATTTA
** *
467718 CTTCACTACTCTTATGTGAAGGCTGAATCTGATCGATTTA
1 CTTCACTACTCTTCCGTGAAGGCTGAATTTG--C-ATTTA
* *
467758 CTTCACTACTATTCCGTGAAGGTTGAATTTGCA-TTA
1 CTTCACTACTCTTCCGTGAAGGCTGAATTTGCATTTA
* * *
467794 CTTCACTACACTTCCATGAAGGTTGAATTTGCA-TTA
1 CTTCACTACTCTTCCGTGAAGGCTGAATTTGCATTTA
* *
467830 CTTCACTACTCTTCCGTGGAGGATGAATTTGCA-TTA
1 CTTCACTACTCTTCCGTGAAGGCTGAATTTGCATTTA
467866 CTTCACTACTCTTC
1 CTTCACTACTCTTC
467880 TATGAAGGTT
Statistics
Matches: 180, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
36 84 0.47
37 1 0.01
38 1 0.01
39 28 0.16
40 66 0.37
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (37 bp):
CTTCACTACTCTTCCGTGAAGGCTGAATTTGCATTTA
Found at i:468067 original size:117 final size:117
Alignment explanation
Indices: 467861--468096 Score: 445
Period size: 117 Copynumber: 2.0 Consensus size: 117
467851 GATGAATTTG
467861 CATTACTTCACTACTCTTCTATGAAGGTTCAGATTTGAGATTAATTTGCTTCCACTACTCTGACG
1 CATTACTTCACTACTCTTCTATGAAGGTTCAGATTTGAGATTAATTTGCTTCCACTACTCTGACG
*
467926 TGGAGATTTTACGAATGGGTCTAAGGATTTATCATCTGGCTCGAAAGACTAA
66 TGGAGATTTTACGAATGGATCTAAGGATTTATCATCTGGCTCGAAAGACTAA
**
467978 CATTACTTCACTACTCTTCTATGAAGGTTCAGATTTGAGATTAATTTGCTTCCACTACTCTTCCG
1 CATTACTTCACTACTCTTCTATGAAGGTTCAGATTTGAGATTAATTTGCTTCCACTACTCTGACG
468043 TGGAGATTTTACGAATGGATCTAAGGATTTATCATCTGGCTCGAAAGACTAA
66 TGGAGATTTTACGAATGGATCTAAGGATTTATCATCTGGCTCGAAAGACTAA
468095 CA
1 CA
468097 GACGACCCGT
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (117 bp):
CATTACTTCACTACTCTTCTATGAAGGTTCAGATTTGAGATTAATTTGCTTCCACTACTCTGACG
TGGAGATTTTACGAATGGATCTAAGGATTTATCATCTGGCTCGAAAGACTAA
Found at i:468167 original size:20 final size:20
Alignment explanation
Indices: 468144--468185 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
468134 TTGACATATG
*
468144 ACCCGAATGATTTACAAATT
1 ACCCGAAGGATTTACAAATT
* *
468164 ACCCGGAGGTTTTACAAATT
1 ACCCGAAGGATTTACAAATT
468184 AC
1 AC
468186 TCAGAGGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (20 bp):
ACCCGAAGGATTTACAAATT
Found at i:468192 original size:20 final size:20
Alignment explanation
Indices: 468154--468202 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
468144 ACCCGAATGA
*
468154 TTTACAAATTACCCGGAGGT
1 TTTACAAATTACCCAGAGGT
*
468174 TTTACAAATTACTCAGAGGT
1 TTTACAAATTACCCAGAGGT
468194 TTTACAAAT
1 TTTACAAAT
468203 GTGAGAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
TTTACAAATTACCCAGAGGT
Found at i:478701 original size:13 final size:12
Alignment explanation
Indices: 478683--478722 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
478673 TCGGGTCTTG
478683 TAATATAATATAA
1 TAATAT-ATATAA
478696 TAATAT-TATATA
1 TAATATATATA-A
478708 TAATATATATAA
1 TAATATATATAA
478720 TAA
1 TAA
478723 CAATAACACT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 11 0.44
13 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATATATATAA
Found at i:490146 original size:17 final size:17
Alignment explanation
Indices: 490124--490162 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
490114 TGAATCAAAT
490124 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
490141 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
490158 -AATTA
1 TAATTA
490163 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:493636 original size:11 final size:11
Alignment explanation
Indices: 493622--493647 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
493612 TTGTTCTTTC
493622 TATTTTTATTT
1 TATTTTTATTT
493633 TATTTTTATTT
1 TATTTTTATTT
493644 TATT
1 TATT
493648 CTTGATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:504784 original size:20 final size:21
Alignment explanation
Indices: 504759--504980 Score: 122
Period size: 20 Copynumber: 11.1 Consensus size: 21
504749 ATGCTACATA
*
504759 ATATTTATGTTATATAGTA-T
1 ATATTTATATTATATAGTATT
504779 ATATTTATATTATATAGTATT
1 ATATTTATATTATATAGTATT
* *
504800 ATATTACATATTATATAATATT
1 ATATT-TATATTATATAGTATT
*
504822 ATA-GTATATTATAT--TA-T
1 ATATTTATATTATATAGTATT
* *
504839 AGTATATAGTATTATATAATA-T
1 A-TATTTA-TATTATATAGTATT
* *
504861 ATTTATTATATTATATGGTA-T
1 ATAT-TTATATTATATAGTATT
504882 AGTATTTATA-TAT-TA-T-TT
1 A-TATTTATATTATATAGTATT
504900 ATA--T-TATTATATAGTATAT
1 ATATTTATATTATATAGTAT-T
* *
504919 AGTATTTATATAATATATTATT
1 A-TATTTATATTATATAGTATT
*
504941 A-ATATATATGTATAT--TATT
1 ATATTTATAT-TATATAGTATT
* *
504960 TTA-TT-TATTATATAGTGTT
1 ATATTTATATTATATAGTATT
504979 AT
1 AT
504981 TAATATACTA
Statistics
Matches: 159, Mismatches: 20, Indels: 47
0.70 0.09 0.21
Matches are distributed among these distances:
14 2 0.01
15 4 0.03
16 2 0.01
17 10 0.06
18 11 0.07
19 14 0.09
20 48 0.30
21 29 0.18
22 28 0.18
23 11 0.07
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (21 bp):
ATATTTATATTATATAGTATT
Found at i:504788 original size:15 final size:15
Alignment explanation
Indices: 504768--504960 Score: 50
Period size: 19 Copynumber: 11.1 Consensus size: 15
504758 AATATTTATG
504768 TTATATAGTATATAT
1 TTATATAGTATATAT
504783 TTATAT--TATATAGT
1 TTATATAGTATATA-T
*
504797 ATTATATTACATATTATAT
1 -TTATA-TA-GTA-TATAT
*
504816 AATATTATAGTATAT-T
1 -TTA-TATAGTATATAT
*
504832 ATATTATAGTATATAGT
1 TTA-TATAGTATATA-T
*
504849 ATTATATAATATATTTAT
1 -TTATATAGTATA--TAT
504867 TATATTATATGGTATAGTAT
1 T-TA-TATA--GTATA-TAT
*
504887 TTATATATTATTTATATT
1 TTATATAGTA--TATA-T
504905 ATTATATAGTATATAGTAT
1 -TTATATAG--TATA-TAT
*
504924 TTATATAATATATTAT
1 TTATATAGTATA-TAT
504940 TAATATATATGTATATTAT
1 T--TATATA-GTATA-TAT
504959 TT
1 TT
504961 TATTTATTAT
Statistics
Matches: 140, Mismatches: 11, Indels: 52
0.69 0.05 0.26
Matches are distributed among these distances:
13 6 0.04
14 1 0.01
15 25 0.18
16 12 0.09
17 16 0.11
18 27 0.19
19 35 0.25
20 12 0.09
21 6 0.04
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.54
Consensus pattern (15 bp):
TTATATAGTATATAT
Found at i:504791 original size:5 final size:5
Alignment explanation
Indices: 504778--504972 Score: 110
Period size: 5 Copynumber: 39.0 Consensus size: 5
504768 TTATATAGTA
* *
504778 TATATT TATAT TATA- TAGTAT TATAT TACATAT TATAT AATAT TATAG
1 TATA-T TATAT TATAT TA-TAT TATAT T--ATAT TATAT TATAT TATAT
*
504826 TATAT TATAT TATAG TATA- TAGTAT TATAT AATATAT T-TAT TATAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT --TATAT TATAT TATAT
* * *
504872 TATAT GGTATAG TATTT ATATAT TAT-T TATAT TAT-T ATATAG TATA-
1 TATAT --TATAT TATAT -TATAT TATAT TATAT TATAT -TATAT TATAT
* *
504918 TAGTAT T-TA- TATAA TATAT TAT-T AATA- TATAT GTATAT TAT-T T-TAT
1 TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TATAT
504964 T-TAT TATAT
1 TATAT TATAT
504973 AGTGTTATTA
Statistics
Matches: 152, Mismatches: 13, Indels: 49
0.71 0.06 0.23
Matches are distributed among these distances:
3 2 0.01
4 33 0.22
5 85 0.56
6 18 0.12
7 14 0.09
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:505007 original size:61 final size:61
Alignment explanation
Indices: 504719--505007 Score: 156
Period size: 61 Copynumber: 4.7 Consensus size: 61
504709 GAAATTTTTC
* ** * *
504719 TTATTATATAGCCAATATAGTATATAT-T-ATATGCTACATAATATTTATGT-TA-TATAGTATA
1 TTATTATATAG--TATATAGTATATATATAATATAATAC-TAATATATATGTATATTAT-TTATA
* *
504780 -TATT-TATATTATATAGTAT-TATATTACATATTATA-TAATAT-TATAGTATATTATATTATA
1 TTATTATATAGTATATAGTATATATA-TA-ATATAATACTAATATATAT-GTATATTAT-TTATA
* * * * * * * * *
504840 GTA-TATAGTATTATATAATATATTTATTATATTATA-TGGTATAGTATTTATATATTATTTATA
1 TTATTATA-TAGTATATAGTATATATATAATATAATACT--AATA-TATATGTATATTATTTATA
* * *
504903 TTATTATATAGTATATAGTATTTATATAATATATTATTAATATATATGTATATTATTT-TA
1 TTATTATATAGTATATAGTATATATATAATATAATACTAATATATATGTATATTATTTATA
* *
504963 TTTATTATATAGTGT-TATTAATATACTATAATATAATACT-ATATA
1 -TTATTATATAGTATATAGT-ATATA-TATAATATAATACTAATATA
505008 ATATTATTAT
Statistics
Matches: 181, Mismatches: 27, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
56 3 0.02
57 12 0.07
58 9 0.05
59 6 0.03
60 24 0.13
61 49 0.27
62 28 0.15
63 34 0.19
64 14 0.08
65 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (61 bp):
TTATTATATAGTATATAGTATATATATAATATAATACTAATATATATGTATATTATTTATA
Found at i:505019 original size:125 final size:123
Alignment explanation
Indices: 504776--505012 Score: 277
Period size: 125 Copynumber: 1.9 Consensus size: 123
504766 TGTTATATAG
* *
504776 TATATATTTATATTATATAGTATTATATTACATATTATATAATATTATAGTATATTATATTATAG
1 TATATATTTATAGTATATAGTATTATATAACATATTATATAATATTATAGTATATTATATTATAG
* * * * *
504841 TATATAGTATTATATAATATATTTATTATATTATATGGTATAGTATTTATATATTATT
66 TATATAGTATTATATAATATATCTATAATATAATATGATATAATATTTATATATTATT
* *
504899 TATATTATTATATAGTATATAGTATTTATATAATATATTAT-TAATA-TATATGTATATTATTTT
1 TATA-TATT-TATAGTATATAGTA-TTATATAACATATTATATAATATTATA-GTATATTATATT
* *
504962 ATTTATTATATAGTGTTAT-TAATATA-CTATAATATAATACT-ATATAATATT
62 A--TAGTATATAGTATTATATAATATATCTATAATATAATA-TGATATAATATT
505013 ATTATATAGT
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
123 4 0.04
124 8 0.08
125 48 0.50
126 22 0.23
127 14 0.15
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (123 bp):
TATATATTTATAGTATATAGTATTATATAACATATTATATAATATTATAGTATATTATATTATAG
TATATAGTATTATATAATATATCTATAATATAATATGATATAATATTTATATATTATT
Found at i:509376 original size:15 final size:15
Alignment explanation
Indices: 509356--509387 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
509346 TAATACATGC
509356 GAGTATATATATTAT
1 GAGTATATATATTAT
509371 GAGTATATATATTAT
1 GAGTATATATATTAT
509386 GA
1 GA
509388 ATATTTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (15 bp):
GAGTATATATATTAT
Found at i:524710 original size:55 final size:55
Alignment explanation
Indices: 524605--525090 Score: 430
Period size: 55 Copynumber: 9.0 Consensus size: 55
524595 GCAAATCAAT
* * *
524605 TTCGAG-TCTTATACTCCCTGAAAGAATAAGGAGCAGACACAGTTGT-AGAAGATTG
1 TTCGAGTTC-TATACTCCCTGAAAGAATAGGGAGCAGACCCA-TTTTCAGAAGATTG
* * *
524660 TTCGAGTTCTATACTCTCTGAAAGAATAGGGAGTAGACCCATTTACAGAAGATTG
1 TTCGAGTTCTATACTCCCTGAAAGAATAGGGAGCAGACCCATTTTCAGAAGATTG
* * * * * *
524715 TTCGAGTTCTATACTCACTGAAAGAATAAGGAGCGGACTCGTTTACAGAAGATTG
1 TTCGAGTTCTATACTCCCTGAAAGAATAGGGAGCAGACCCATTTTCAGAAGATTG
** * *
524770 TTCGAGTTCTATACTCCCTGAAAGAATAGGGAGTGGACCC-TTTTACAAAAAATTG
1 TTCGAGTTCTATACTCCCTGAAAGAATAGGGAGCAGACCCATTTT-CAGAAGATTG
* * * *
524825 TTCAAGTTC--TA-----T--AAGAATA-TGAGCAGACCCATTTTCATAAGATTA
1 TTCGAGTTCTATACTCCCTGAAAGAATAGGGAGCAGACCCATTTTCAGAAGATTG
* * * * * * *
524870 TTCAAGTTTTATACACCCTGAAAGAATAGGGAAC-GAATCCATTTTTCAAAAGATTA
1 TTCGAGTTCTATACTCCCTGAAAGAATAGGGAGCAG-ACCCA-TTTTCAGAAGATTG
* * * *
524926 TTCGAGTTATA-ATCTTCCTGAAAGAATAGGGAGCATACCCATTTTCAGAAGACTG
1 TTCGAGTTCTATA-CTCCCTGAAAGAATAGGGAGCAGACCCATTTTCAGAAGATTG
* * **
524981 TTCGAGTTTTATACTCCCTGAAAGGAATAGAGAGC-GAACCTGTTTTCAGAAGATTG
1 TTCGAGTTCTATACTCCCTGAAA-GAATAGGGAGCAG-ACCCATTTTCAGAAGATTG
* * *
525037 TTCAAGTTCTATACTCCCTGAAATAATAGGGAGCAGACACATTTTTC-GAAGATT
1 TTCGAGTTCTATACTCCCTGAAAGAATAGGGAGCAGACCCA-TTTTCAGAAGATT
525091 TTTCAAGTCC
Statistics
Matches: 353, Mismatches: 55, Indels: 46
0.78 0.12 0.10
Matches are distributed among these distances:
45 23 0.07
46 11 0.03
47 2 0.01
48 1 0.00
52 1 0.00
53 2 0.01
54 13 0.04
55 200 0.57
56 100 0.28
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (55 bp):
TTCGAGTTCTATACTCCCTGAAAGAATAGGGAGCAGACCCATTTTCAGAAGATTG
Found at i:524923 original size:56 final size:55
Alignment explanation
Indices: 524856--525098 Score: 237
Period size: 56 Copynumber: 4.4 Consensus size: 55
524846 AGCAGACCCA
* * *
524856 TTTTCATAAGATTATTCAAGTTTTATACACCCTGAAAGAATAGGGAACGAATCCAT
1 TTTTCAGAAGATTATTCAAGTTTTATACTCCCTGAAAGAATAGGGAGCGAA-CCAT
* * * *
524912 TTTTCAAAAGATTATTCGAGTTATA-ATCTTCCTGAAAGAATAGGGAGC-ATACCCA-
1 TTTTCAGAAGATTATTCAAGTTTTATA-CTCCCTGAAAGAATAGGGAGCGA-A-CCAT
* * * *
524967 TTTTCAGAAGACTGTTCGAGTTTTATACTCCCTGAAAGGAATAGAGAGCGAACC-T
1 TTTTCAGAAGATTATTCAAGTTTTATACTCCCTGAAA-GAATAGGGAGCGAACCAT
* * *
525022 GTTTTCAGAAGATTGTTCAAGTTCTATACTCCCTGAAATAATAGGGAGC-AGACACAT
1 -TTTTCAGAAGATTATTCAAGTTTTATACTCCCTGAAAGAATAGGGAGCGA-AC-CAT
*
525079 TTTTC-GAAGATTTTTCAAGT
1 TTTTCAGAAGATTATTCAAGT
525099 CCTACTTATC
Statistics
Matches: 158, Mismatches: 19, Indels: 21
0.80 0.10 0.11
Matches are distributed among these distances:
54 1 0.01
55 59 0.37
56 96 0.61
57 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (55 bp):
TTTTCAGAAGATTATTCAAGTTTTATACTCCCTGAAAGAATAGGGAGCGAACCAT
Found at i:530909 original size:14 final size:14
Alignment explanation
Indices: 530890--530916 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
530880 TGATATAATC
530890 ACTGAGTCAACTCG
1 ACTGAGTCAACTCG
530904 ACTGAGTCAACTC
1 ACTGAGTCAACTC
530917 ATTGACTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (14 bp):
ACTGAGTCAACTCG
Found at i:530933 original size:23 final size:23
Alignment explanation
Indices: 530907--530975 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
530897 CAACTCGACT
* *
530907 GAGTCAACTCATTGACTTTGATC
1 GAGTCAACCCATTGACTTTGACC
530930 GAGTCAACCCATTGACTTTGACC
1 GAGTCAACCCATTGACTTTGACC
530953 GAGTCAACCCATTGACTGTTGAC
1 GAGTCAACCCATTGACT-TTGAC
530976 TAGTATGACT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
23 38 0.88
24 5 0.12
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (23 bp):
GAGTCAACCCATTGACTTTGACC
Found at i:535209 original size:13 final size:14
Alignment explanation
Indices: 535193--535232 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
535183 AATAAATACC
535193 TAATAAAAATAAA-
1 TAATAAAAATAAAT
535206 TAATAAAAATAAAAT
1 TAATAAAAAT-AAAT
535221 TAAT-AAAATAAA
1 TAATAAAAATAAA
535233 AGGGGTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.52
14 8 0.32
15 4 0.16
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
TAATAAAAATAAAT
Found at i:535218 original size:19 final size:20
Alignment explanation
Indices: 535194--535233 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
535184 ATAAATACCT
*
535194 AATAAAAATAA-ATAATAAA
1 AATAAAAATAATAAAATAAA
*
535213 AATAAAATTAATAAAATAAA
1 AATAAAAATAATAAAATAAA
535233 A
1 A
535234 GGGGTTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AATAAAAATAATAAAATAAA
Found at i:535220 original size:14 final size:15
Alignment explanation
Indices: 535193--535233 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
535183 AATAAATACC
535193 TAATAAAAAT-AAA-
1 TAATAAAAATAAAAT
535206 TAATAAAAATAAAAT
1 TAATAAAAATAAAAT
535221 TAAT-AAAATAAAA
1 TAATAAAAATAAAA
535234 GGGGTTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.38
14 12 0.46
15 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TAATAAAAATAAAAT
Found at i:542358 original size:21 final size:22
Alignment explanation
Indices: 542314--542359 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
542304 AGCAGTTAAA
**
542314 AAACTAAAATCGAAAAAACTAG
1 AAACTAAAATCGAAAAAAAAAG
542336 AAACTAAAAT-GAAAAAAAAAG
1 AAACTAAAATCGAAAAAAAAAG
542357 AAA
1 AAA
542360 TATTTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.72, C:0.09, G:0.09, T:0.11
Consensus pattern (22 bp):
AAACTAAAATCGAAAAAAAAAG
Found at i:556519 original size:8 final size:9
Alignment explanation
Indices: 556489--556526 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
556479 ATTTTATCCC
556489 TTTTTCCTA
1 TTTTTCCTA
556498 TTTTTCTCT-
1 TTTTTC-CTA
*
556507 TTTTTTCTA
1 TTTTTCCTA
556516 TTTTTCCTA
1 TTTTTCCTA
556525 TT
1 TT
556527 ACAATTATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 2 0.08
9 21 0.84
10 2 0.08
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTCCTA
Found at i:557651 original size:10 final size:9
Alignment explanation
Indices: 557633--557676 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
557623 CTTTAATGTG
*
557633 TTTAATTTT
1 TTTAAATTT
557642 TTTAAATTT
1 TTTAAATTT
557651 TTTAAATTT
1 TTTAAATTT
557660 TTTAAATAATT
1 TTTAAAT--TT
557671 TTTAAA
1 TTTAAA
557677 ATATAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 24 0.75
11 8 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTAAATTT
Found at i:557747 original size:25 final size:25
Alignment explanation
Indices: 557719--557773 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
557709 CCCTCCACCT
*
557719 TTTAGAATTTATAATTTAATACTTA
1 TTTAAAATTTATAATTTAATACTTA
* **
557744 TTTAAAATTTATACTTTAATTTTTA
1 TTTAAAATTTATAATTTAATACTTA
557769 TTTAA
1 TTTAA
557774 TTTAGTCCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
TTTAAAATTTATAATTTAATACTTA
Found at i:557752 original size:18 final size:17
Alignment explanation
Indices: 557725--557759 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
557715 ACCTTTTAGA
*
557725 ATTTATAATTTAATACTT
1 ATTTAAAATTT-ATACTT
557743 ATTTAAAATTTATACTT
1 ATTTAAAATTTATACTT
557760 TAATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTAAAATTTATACTT
Found at i:563858 original size:36 final size:35
Alignment explanation
Indices: 563802--563883 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 35
563792 AACCATTTTC
**
563802 TTTTTTGCTAAATGTTTTTCAAACTTTGGTAAATG
1 TTTTTTGAAAAATGTTTTTCAAACTTTGGTAAATG
* *
563837 TTTCTTTGAAAAATGTTTTTCAAAGTTTGGTAGATG
1 TTT-TTTGAAAAATGTTTTTCAAACTTTGGTAAATG
563873 TTTTTTGAAAA
1 TTTTTTGAAAA
563884 TAGGAATGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
35 11 0.26
36 31 0.74
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (35 bp):
TTTTTTGAAAAATGTTTTTCAAACTTTGGTAAATG
Found at i:573699 original size:42 final size:42
Alignment explanation
Indices: 573652--573822 Score: 173
Period size: 42 Copynumber: 4.0 Consensus size: 42
573642 ATGCTGCAAC
*
573652 ATGTTTTGTTATATAGTGGCATTTTAGGCACAAACGCCGCTA
1 ATGTTTTGTTATATAGTGACATTTTAGGCACAAACGCCGCTA
* * * *
573694 ATGTTTGGTTATATAGTGGCATTTTAGGCACAAGCGCCACTA
1 ATGTTTTGTTATATAGTGACATTTTAGGCACAAACGCCGCTA
* * * *** * *
573736 ATGTTGTGATATATAGCGACATTTTTTTCTGCAAATGCCGC-A
1 ATGTTTTGTTATATAGTGACATTTTAGGC-ACAAACGCCGCTA
* *
573778 ATGTGATTGATTATATAATGACATTTTAGGCACAAACGCCGCTA
1 ATGT-TTTG-TTATATAGTGACATTTTAGGCACAAACGCCGCTA
573822 A
1 A
573823 ATGTCGTAAA
Statistics
Matches: 100, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 65 0.65
43 18 0.18
44 17 0.17
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (42 bp):
ATGTTTTGTTATATAGTGACATTTTAGGCACAAACGCCGCTA
Found at i:575713 original size:19 final size:17
Alignment explanation
Indices: 575689--575738 Score: 75
Period size: 16 Copynumber: 2.9 Consensus size: 17
575679 AACCTGACCC
575689 GTTGACTTTGACCCAGCCA
1 GTTGACTTTGACCCAG--A
575708 GTTGACTTTGA-CCAGA
1 GTTGACTTTGACCCAGA
575724 GTTGACTTTGACCCA
1 GTTGACTTTGACCCA
575739 AAAAGTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.40
17 3 0.10
18 4 0.13
19 11 0.37
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (17 bp):
GTTGACTTTGACCCAGA
Found at i:579014 original size:90 final size:89
Alignment explanation
Indices: 578900--579074 Score: 278
Period size: 90 Copynumber: 2.0 Consensus size: 89
578890 TCCCGAATAT
* * * *
578900 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCACTGATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACACTAATATGACTAG
578965 GGTAACTTGAATATAAAAGGATTA
66 GGTAACTTGAATATAAAAGGATTA
*
578989 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGACTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACACTAATATGACTA
**
579054 GGGTAACTTGGCTATAAAAGG
65 GGGTAACTTGAATATAAAAGG
579075 GTGTGTTAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACACTAATATGACTAG
GGTAACTTGAATATAAAAGGATTA
Found at i:586067 original size:193 final size:192
Alignment explanation
Indices: 585681--586090 Score: 428
Period size: 193 Copynumber: 2.1 Consensus size: 192
585671 GTGTTTTGCT
** * *
585681 ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGACAATATAAATTATGA
1 ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCGGTGACAATATAAATCATCA
** **
585746 ATAACAAAATTTTATTTAATTTAGTGATGTAACCAACTGTCATAGAATATAAATTATAAAGTGAC
66 ATAACAAAATTTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAAGTGAC
* * * * *
585811 GTAATGCATAACATCATTCATAATATTATTAGGTAACATTTATATTATGTCACTAAAAATGTG
131 GTAATACATAACATCATTCATAATACTATTAGGT-ACATATATACTACGTCACTAAAAATGTG
* * * * *
585874 ATAATATCTCTTTCGTCACATATAGGTTTATTTTAATGTATTATCGGTGACTATATAAATCATCA
1 ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCGGTGACAATATAAATCATCA
* * ** ** ** * *
585939 ATAACGAAATTTTACATAATTTGGTGACATAATTAGTTGTCATTTAATATTAATTATATAGTGAC
66 ATAACAAAATTTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAAGTGAC
* * ** ** * * *
586004 GTTATATATAAGTGTCATTCATGCTACTATTAGGT-GATGATATACTACGTTACTAACAATGTG
131 GTAATACATAA-CATCATTCATAATACTATTAGGTACAT-ATATACTACGTCACTAAAAATGTG
*
586067 ACAAT-TTTCTTTTCGTCACATATA
1 ACAATATCTC-TTTCGTCACATATA
586091 TAACGAAATT
Statistics
Matches: 175, Mismatches: 39, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
192 5 0.03
193 152 0.87
194 18 0.10
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (192 bp):
ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCGGTGACAATATAAATCATCA
ATAACAAAATTTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAAGTGAC
GTAATACATAACATCATTCATAATACTATTAGGTACATATATACTACGTCACTAAAAATGTG
Found at i:597567 original size:64 final size:64
Alignment explanation
Indices: 597473--597632 Score: 191
Period size: 65 Copynumber: 2.5 Consensus size: 64
597463 TGCACTAAGA
* * * * *
597473 GTGCATCGATGCATGAAGTGCACTCAATGTTTT-A-AAATAGCCTGAGTGCATCGATGTAT-GTC
1 GTGCATCGATGCAT-AAATGCATTCGATGTTTTCATAAA-AACCTGAGTGCATCGATGCATGGT-
597535 TT
63 TT
597537 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACCTGAGTGCATCGATGCATGGTTT
1 GTGCATCGATGCAT-AAATGCATTCGATGTTTTCATAAAAACCTGAGTGCATCGATGCATGGTTT
* *
597602 ATGCATCGATGCATATAATGCATTTGATGTT
1 GTGCATCGATGCATA-AATGCATTCGATGTT
597633 CAATTTATTC
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 30 0.36
65 49 0.58
66 5 0.06
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (64 bp):
GTGCATCGATGCATAAATGCATTCGATGTTTTCATAAAAACCTGAGTGCATCGATGCATGGTTT
Found at i:600366 original size:23 final size:22
Alignment explanation
Indices: 600332--600412 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
600322 CCCCGATGGT
600332 TGCATCGATGCACATTCAAGGAG
1 TGCATCGATGCACATTCAAGG-G
* * *
600355 TGCATCGGTGCACCTTC-ATGG
1 TGCATCGATGCACATTCAAGGG
*
600376 TGTATCGATGCACATTCAAAGGG
1 TGCATCGATGCACATTC-AAGGG
*
600399 ATGTATCGATGCAC
1 -TGCATCGATGCAC
600413 TGTTTAGTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 18 0.38
24 13 0.27
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGG
Found at i:600387 original size:21 final size:22
Alignment explanation
Indices: 600335--600412 Score: 86
Period size: 21 Copynumber: 3.5 Consensus size: 22
600325 CGATGGTTGC
*
600335 ATCGATGCACATTCAAGGAGTGC
1 ATCGATGCACATTCAAGG-GTGT
* * *
600358 ATCGGTGCACCTTC-ATGGTGT
1 ATCGATGCACATTCAAGGGTGT
600379 ATCGATGCACATTCAAAGGGATGT
1 ATCGATGCACATTC-AAGGG-TGT
600403 ATCGATGCAC
1 ATCGATGCAC
600413 TGTTTAGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 15 0.33
24 13 0.29
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGGTGT
Found at i:612692 original size:19 final size:19
Alignment explanation
Indices: 612668--612712 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
612658 GGGGAAAATA
612668 TTCTTTTTGATATATTCCT
1 TTCTTTTTGATATATTCCT
* *
612687 TTCTTTTTTATTTATTCCT
1 TTCTTTTTGATATATTCCT
612706 TTCTTTT
1 TTCTTTT
612713 AATTTTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.71
Consensus pattern (19 bp):
TTCTTTTTGATATATTCCT
Found at i:612719 original size:19 final size:19
Alignment explanation
Indices: 612680--612717 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
612670 CTTTTTGATA
*
612680 TATTCCTTTCTTTTTTATT
1 TATTCCTTTCTTTTATATT
612699 TATTCCTTTCTTTTA-ATT
1 TATTCCTTTCTTTTATATT
612717 T
1 T
612718 TACATTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTCCTTTCTTTTATATT
Found at i:618179 original size:6 final size:6
Alignment explanation
Indices: 618170--618222 Score: 97
Period size: 6 Copynumber: 8.7 Consensus size: 6
618160 TTTGTTTTTT
618170 CAAAAA CAAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
1 CAAAAA C-AAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
618219 CAAA
1 CAAA
618223 CAAAGCCAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 40 0.87
7 6 0.13
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:626424 original size:123 final size:124
Alignment explanation
Indices: 626189--626473 Score: 396
Period size: 123 Copynumber: 2.3 Consensus size: 124
626179 TGTTATGGCT
* * * *
626189 GATATTTT-TATGTTACGTTTTCCATGTTGGTTTTGAATGATATGGGTCAATGGGTTATTGAATA
1 GATATTTTGTATGTAAGGTTTTCCGTGTTGGTTTTGAATGATATGGGTCAATGGGTTACTGAATA
* * * * *
626253 TGTTATTAATTGTTCAATTATAAATTTAGAGTTGTTAACGAATGTGTTAAATAATGAGA
66 TGTTATTAATTGTGCAATTATAAATTTACAGTTGCTAACAAATATGTTAAATAATGAGA
* *
626312 GAT-TTTTGTATGTAAGGTTTTCCGTGTTGGCTTTGAATGATATGTGTCAATGGGTTACTGAATA
1 GATATTTTGTATGTAAGGTTTTCCGTGTTGGTTTTGAATGATATGGGTCAATGGGTTACTGAATA
* * *
626376 TGTTATTAATTGTGCAATTATAAATTTACAGTTGCTAACAAATATGTTAGATGATGGGA
66 TGTTATTAATTGTGCAATTATAAATTTACAGTTGCTAACAAATATGTTAAATAATGAGA
* *
626435 TATATTTTGTATGTAAGG-TTTCCGATGTTAGTTTTGAAT
1 GATATTTTGTATGTAAGGTTTTCCG-TGTTGGTTTTGAAT
626474 ATGTTATTAA
Statistics
Matches: 142, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
122 4 0.03
123 112 0.79
124 26 0.18
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.44
Consensus pattern (124 bp):
GATATTTTGTATGTAAGGTTTTCCGTGTTGGTTTTGAATGATATGGGTCAATGGGTTACTGAATA
TGTTATTAATTGTGCAATTATAAATTTACAGTTGCTAACAAATATGTTAAATAATGAGA
Found at i:626821 original size:28 final size:27
Alignment explanation
Indices: 626769--626823 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
626759 GAACGAGGGC
*
626769 CGAGGAGATTTCAAAGGGAATGGGGGA
1 CGAGGAGATTTCAAAGAGAATGGGGGA
*
626796 CGAGGAGAGTTTCAGCAGAGAA-GGGGGA
1 CGAGGAGA-TTTCA-AAGAGAATGGGGGA
626824 AGAAGGATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 11 0.46
29 5 0.21
ACGTcount: A:0.33, C:0.09, G:0.45, T:0.13
Consensus pattern (27 bp):
CGAGGAGATTTCAAAGAGAATGGGGGA
Found at i:629910 original size:61 final size:61
Alignment explanation
Indices: 629794--629910 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 61
629784 GCTAAACCCG
* * * *
629794 CACTAAGCTTACTCCATAGTGCTAATCCGGATATGACACATACGGTCGTGCCCACCACCTA
1 CACTAAGCTTACTCCATAGTGCTAATCCAGACATGACACATAAGGTCGTACCCACCACCTA
* * *
629855 CACTAAGCTTA-TGCTATAGTGCTAATCCAGACATGATACATAAGGTCGTATCCACC
1 CACTAAGCTTACT-CCATAGTGCTAATCCAGACATGACACATAAGGTCGTACCCACC
629911 TTCCTCCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 1 0.02
61 47 0.98
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (61 bp):
CACTAAGCTTACTCCATAGTGCTAATCCAGACATGACACATAAGGTCGTACCCACCACCTA
Found at i:631844 original size:19 final size:18
Alignment explanation
Indices: 631805--631846 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
631795 CCTGGTTAGT
631805 AAAAAAATAAAAAAATCAG
1 AAAAAAATAAAAAAA-CAG
631824 AAAAAAATTCAAAAAAA-AG
1 AAAAAAA-T-AAAAAAACAG
631843 AAAA
1 AAAA
631847 TTTTTAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 13 0.62
20 1 0.05
21 7 0.33
ACGTcount: A:0.81, C:0.05, G:0.05, T:0.10
Consensus pattern (18 bp):
AAAAAAATAAAAAAACAG
Found at i:637875 original size:9 final size:9
Alignment explanation
Indices: 637844--637894 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
637834 TATTTATTTA
*
637844 TTTTTCTTC
1 TTTTTTTTC
*
637853 TTCTTCTTTC
1 TT-TTTTTTC
637863 -TTTTTTTC
1 TTTTTTTTC
637871 TTTTTTTTC
1 TTTTTTTTC
*
637880 TTTTTCTTC
1 TTTTTTTTC
637889 TTTTTT
1 TTTTTT
637895 AAGCTTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 6 0.17
9 24 0.69
10 5 0.14
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:640593 original size:7 final size:7
Alignment explanation
Indices: 640578--640630 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
640568 TACCATTTAT
640578 AACCAATA
1 AACC-ATA
640586 AACCATA
1 AACCATA
640593 AACCATA
1 AACCATA
* * *
640600 TACAAGA
1 AACCATA
640607 AACCATA
1 AACCATA
640614 AACCATA
1 AACCATA
* *
640621 GACAATA
1 AACCATA
640628 AAC
1 AAC
640631 AATAGCCCAA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
7 32 0.89
8 4 0.11
ACGTcount: A:0.58, C:0.25, G:0.04, T:0.13
Consensus pattern (7 bp):
AACCATA
Found at i:640610 original size:21 final size:21
Alignment explanation
Indices: 640585--640630 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
640575 TATAACCAAT
*
640585 AAACCATAAACCATATACAAG
1 AAACCATAAACCATAGACAAG
*
640606 AAACCATAAACCATAGACAAT
1 AAACCATAAACCATAGACAAG
640627 AAAC
1 AAAC
640631 AATAGCCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.59, C:0.24, G:0.04, T:0.13
Consensus pattern (21 bp):
AAACCATAAACCATAGACAAG
Found at i:640818 original size:61 final size:61
Alignment explanation
Indices: 640703--640818 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
640693 TTAAACCTGC
* * * *
640703 ACTAAGCTTACGCCATAGTGCTAATCCGGATATGACACATAAGGTCGTGCCCACCACCTAA
1 ACTAAGCTTACACCATAGTGCTAATCCGGACATGACACATAAGGTCATACCCACCACCTAA
* * * *
640764 ACTAAGCTTACACTATAGTGCTAATCCTGACAT-ATTACATAAGGTCATATCCACC
1 ACTAAGCTTACACCATAGTGCTAATCCGGACATGA-CACATAAGGTCATACCCACC
640819 TTCCCGCACT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 1 0.02
61 45 0.98
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (61 bp):
ACTAAGCTTACACCATAGTGCTAATCCGGACATGACACATAAGGTCATACCCACCACCTAA
Found at i:641760 original size:30 final size:31
Alignment explanation
Indices: 641702--641760 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
641692 AACCATTCAC
* * *
641702 AACTTTTCTAAAATTGCTAAATTGGTCCCTT
1 AACTTTTCAAAAATTACTAAAATGGTCCCTT
641733 AACTTTTCAAAAATTAC-AAAATGGTCCC
1 AACTTTTCAAAAATTACTAAAATGGTCCC
641761 CAATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (31 bp):
AACTTTTCAAAAATTACTAAAATGGTCCCTT
Found at i:645920 original size:30 final size:30
Alignment explanation
Indices: 645880--645966 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
645870 TCATATTATA
*
645880 TCATATCATAGCATGT-TCCATTCACTTAAT
1 TCATTTCATAGCATGTAT-CATTCACTTAAT
* *
645910 TTATTTCATAGCATGTATCATTCATTTAAT
1 TCATTTCATAGCATGTATCATTCACTTAAT
* * *
645940 TCGTTTCGTAACATGTATCATTCACTT
1 TCATTTCATAGCATGTATCATTCACTT
645967 TCATCTCATA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 47 0.98
31 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.45
Consensus pattern (30 bp):
TCATTTCATAGCATGTATCATTCACTTAAT
Found at i:649773 original size:41 final size:43
Alignment explanation
Indices: 649727--649808 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
649717 TGCTTCCACC
649727 TATTGTCTTTC-T-TCTCTTGAAATTATTTTTACTATTTTTCG
1 TATTGTCTTTCTTCTCTCTTGAAATTATTTTTACTATTTTTCG
649768 TATTGTCTTTCTTCTCTCTTGAAATTATTTTTACTATTTTT
1 TATTGTCTTTCTTCTCTCTTGAAATTATTTTTACTATTTTT
649809 GAACTTCCCC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 11 0.28
42 1 0.03
43 27 0.69
ACGTcount: A:0.17, C:0.15, G:0.06, T:0.62
Consensus pattern (43 bp):
TATTGTCTTTCTTCTCTCTTGAAATTATTTTTACTATTTTTCG
Found at i:653066 original size:84 final size:85
Alignment explanation
Indices: 652923--653096 Score: 316
Period size: 84 Copynumber: 2.0 Consensus size: 85
652913 ATATACCAAT
652923 TTTTAGAATAATTTGGGTTCTACTTGAAGTTCATCGAGTAAAAACCATGAAGAATTCA-TTATAG
1 TTTTAGAATAATTTGGGTTCTACTTGAAGTTCATCGAGTAAAAACCATGAAGAATTCATTTATAG
652987 GAAGCATTCATAGTATCACA
66 GAAGCATTCATAGTATCACA
653007 TTTTAGAATAATTTGGGTTCTACTTGAAGTTCATCGAGTAAAAACCATGAAG-ATCTCATTTTAT
1 TTTTAGAATAATTTGGGTTCTACTTGAAGTTCATCGAGTAAAAACCATGAAGAAT-TCA-TTTAT
653071 AGGAAGCATTCATAGTATCACA
64 AGGAAGCATTCATAGTATCACA
653093 TTTT
1 TTTT
653097 TATACAGTCA
Statistics
Matches: 87, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
83 2 0.02
84 55 0.63
86 30 0.34
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (85 bp):
TTTTAGAATAATTTGGGTTCTACTTGAAGTTCATCGAGTAAAAACCATGAAGAATTCATTTATAG
GAAGCATTCATAGTATCACA
Found at i:656690 original size:29 final size:31
Alignment explanation
Indices: 656567--656731 Score: 154
Period size: 31 Copynumber: 5.4 Consensus size: 31
656557 GGGCCTGAGA
* *
656567 GCCTACCCAAGAAAGTTCTCAGGGCCACGGG
1 GCCTACCCAAGAAAGATCTCAGGGCCACAGG
* *
656598 GCCTACCCAAGAAAGATCTCAGAGCCGCAGG
1 GCCTACCCAAGAAAGATCTCAGGGCCACAGG
* * * * * *
656629 ACCTAGCTAATAATGATCTCAGGGCCACGGG
1 GCCTACCCAAGAAAGATCTCAGGGCCACAGG
* *
656660 GCCTACCCAAGAAA-ATC-CAGGGTCGCAGG
1 GCCTACCCAAGAAAGATCTCAGGGCCACAGG
* * ** **
656689 GCCTACCCAAGAATGATATCAGGGCTGCATA
1 GCCTACCCAAGAAAGATCTCAGGGCCACAGG
656720 GCCTACCCAAGA
1 GCCTACCCAAGA
656732 GTCACATTAG
Statistics
Matches: 106, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
29 22 0.21
30 5 0.05
31 79 0.75
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.14
Consensus pattern (31 bp):
GCCTACCCAAGAAAGATCTCAGGGCCACAGG
Found at i:665218 original size:17 final size:17
Alignment explanation
Indices: 665196--665229 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
665186 TGTCAAAAAA
665196 CATAAAATATGACTTTT
1 CATAAAATATGACTTTT
*
665213 CATAAAATTTGACTTTT
1 CATAAAATATGACTTTT
665230 TGGTCAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
CATAAAATATGACTTTT
Found at i:669816 original size:41 final size:41
Alignment explanation
Indices: 669759--669841 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
669749 GTGAAAACTT
669759 GTTACACAATGTAAAACTCTTTTAGTTTTACACAAAATTAA
1 GTTACACAATGTAAAACTCTTTTAGTTTTACACAAAATTAA
669800 GTTACACAATGTAAAACTCTTTTAGTTTTACACAAAATTAA
1 GTTACACAATGTAAAACTCTTTTAGTTTTACACAAAATTAA
669841 G
1 G
669842 ACTGTTGGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (41 bp):
GTTACACAATGTAAAACTCTTTTAGTTTTACACAAAATTAA
Found at i:677983 original size:112 final size:109
Alignment explanation
Indices: 677819--678046 Score: 341
Period size: 112 Copynumber: 2.1 Consensus size: 109
677809 GTTATAGGTG
* * * *
677819 CATTTCAACATACTTTGTATGATAGTATCGATCGATTTTGTATAATGTATAACATTGCATTTTCG
1 CATTTCAACATACTTTGTATGAAAGTATCGATAGATTTTGTATAATGCATAACAGTGCATTTTCG
* *
677884 GCATAAAAGGTGTCGCCCATGGTATTCATAACGAGGTGAATTAC
66 GCATAAAAGGTGCCACCCATGGTATTCATAACGAGGTGAATTAC
*
677928 CATTTCGACATACTTCGTGTATGAAAGTTATCGATAGATTTTGCT-TAATGCATAACAGTGCATT
1 CATTTCAACATACTT--TGTATGAAAG-TATCGATAGATTTTG-TATAATGCATAACAGTGCATT
*
677992 TTCGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
62 TTCGGCATAAAAGGTGCCACCCATGGTATTCATAACGAGGTGAATTAC
678040 CATTTCA
1 CATTTCA
678047 GCACTTTGGT
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
109 14 0.13
111 9 0.08
112 82 0.77
113 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (109 bp):
CATTTCAACATACTTTGTATGAAAGTATCGATAGATTTTGTATAATGCATAACAGTGCATTTTCG
GCATAAAAGGTGCCACCCATGGTATTCATAACGAGGTGAATTAC
Found at i:680744 original size:16 final size:17
Alignment explanation
Indices: 680718--680750 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
680708 AGGTTTGCGC
680718 TAATCCAACTTCTTATA
1 TAATCCAACTTCTTATA
*
680735 TAAT-CAACTTGTTATA
1 TAATCCAACTTCTTATA
680751 CAATTGGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (17 bp):
TAATCCAACTTCTTATA
Found at i:682992 original size:12 final size:12
Alignment explanation
Indices: 682962--683002 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
682952 AAATAAATCA
682962 AAAT-TATAA-T
1 AAATATATAATT
*
682972 AAGTATATAATT
1 AAATATATAATT
682984 AAATATATAATT
1 AAATATATAATT
682996 GAAATAT
1 -AAATAT
683003 TTTTCTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 3 0.12
11 5 0.19
12 12 0.46
13 6 0.23
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (12 bp):
AAATATATAATT
Found at i:683362 original size:16 final size:17
Alignment explanation
Indices: 683341--683373 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
683331 AAAATGTGCC
*
683341 ATAAAA-ACAGAGAAAA
1 ATAAAAGACAAAGAAAA
683357 ATAAAAGACAAAGAAAA
1 ATAAAAGACAAAGAAAA
683374 CGTACCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (17 bp):
ATAAAAGACAAAGAAAA
Found at i:690385 original size:4 final size:4
Alignment explanation
Indices: 690376--690449 Score: 55
Period size: 4 Copynumber: 18.8 Consensus size: 4
690366 TATTTTATGC
* * * * * *
690376 TTAT TTAT TTAA TTAT TTGT TTGT TTAT TTTT TTTT TTAT TTAT TTTT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
690424 ATTA- TTAT TTA- TT-T TTATT TTAT TTA
1 -TTAT TTAT TTAT TTAT TTA-T TTAT TTA
690450 GGACCAAGTC
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
3 7 0.12
4 44 0.77
5 6 0.11
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:690393 original size:12 final size:12
Alignment explanation
Indices: 690376--690447 Score: 62
Period size: 12 Copynumber: 6.2 Consensus size: 12
690366 TATTTTATGC
*
690376 TTATTTATTTAA
1 TTATTTATTTTA
*
690388 TTATTTGTTTGT-
1 TTATTTATTT-TA
* *
690400 TTATTTTTTTTT
1 TTATTTATTTTA
690412 TTATTTATTTTTA
1 TTATTTA-TTTTA
690425 TTA-TTA-TTTA
1 TTATTTATTTTA
690435 TT-TTTATTTTA
1 TTATTTATTTTA
690446 TT
1 TT
690448 TAGGACCAAG
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
10 9 0.18
11 7 0.14
12 27 0.54
13 7 0.14
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:690418 original size:16 final size:16
Alignment explanation
Indices: 690379--690449 Score: 72
Period size: 16 Copynumber: 4.5 Consensus size: 16
690369 TTTATGCTTA
* * *
690379 TTTATTTAATTATTTG
1 TTTATTTATTTTTTTT
*
690395 TTTGTTTATTTTTTTT
1 TTTATTTATTTTTTTT
*
690411 TTTATTTATTTTTATT
1 TTTATTTATTTTTTTT
* *
690427 ATTATTTA-TTTTTAT
1 TTTATTTATTTTTTTT
690442 TTTATTTA
1 TTTATTTA
690450 GGACCAAGTC
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
15 12 0.27
16 33 0.73
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTATTTATTTTTTTT
Found at i:690424 original size:6 final size:6
Alignment explanation
Indices: 690399--690448 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
690389 TATTTGTTTG
*
690399 TTTATT TTTTTT TTTATT TATT-TT TATTATT ATTTATT TTTA-T TTTATT
1 TTTATT TTTATT TTTATT T-TTATT T-TTATT -TTTATT TTTATT TTTATT
690448 T
1 T
690449 AGGACCAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 5 0.13
6 23 0.61
7 9 0.24
8 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:690424 original size:10 final size:10
Alignment explanation
Indices: 690399--690448 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
690389 TATTTGTTTG
690399 TTTATTT-TT
1 TTTATTTATT
690408 TTT-TTTATT
1 TTTATTTATT
690417 TATT-TTTATT
1 T-TTATTTATT
*
690427 ATTATTTATT
1 TTTATTTATT
690437 TTTATTTTATT
1 TTTA-TTTATT
690448 T
1 T
690449 AGGACCAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 3 0.09
9 8 0.23
10 17 0.49
11 7 0.20
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTATTTATT
Found at i:691625 original size:15 final size:15
Alignment explanation
Indices: 691602--691652 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
691592 TTTTTTTTGG
*
691602 TTTTGTATTATTTTTA
1 TTTT-TATTATTTATA
*
691618 TTTTTATTAATTATA
1 TTTTTATTATTTATA
*
691633 TTATTATTATTTAATA
1 TTTTTATTATTT-ATA
691649 TTTT
1 TTTT
691653 AATACTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTTTATTATTTATA
Found at i:692081 original size:44 final size:43
Alignment explanation
Indices: 691971--692266 Score: 366
Period size: 42 Copynumber: 6.9 Consensus size: 43
691961 TGAGTGTCAC
* *
691971 CTTTCTTCCAATAATGCACCGTTATGCATTTTCATTTGTGGCA
1 CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCA
* * *
692014 CCTT-TGCCAATAATACACCGTTATGCATTTTCATTTATGGCGT
1 CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGC-A
*
692057 CTTTCTGCCAATAATGCATCGTTATGCATTTTCATTTATGGCA
1 CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCA
*
692100 CTTT-TGCCAATAATGCACTGTTATGCATTTTCATTTATGGCA
1 CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCA
* * * *
692142 CCTTTCTTCTAGTAATGCACCGTTATGCATTTTCATTTATTGCA
1 -CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCA
* * * *
692186 CTTTATGCTAATAATGCACCATTATACATTTTCATTTATGGCA
1 CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCA
* * * *
692229 TCTTTCT-AC-ATAATGTAACATTATGCATTTTCATTTAT
1 -CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
692267 TTGGTAACAT
Statistics
Matches: 220, Mismatches: 28, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
42 96 0.44
43 51 0.23
44 73 0.33
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (43 bp):
CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCA
Found at i:692123 original size:86 final size:86
Alignment explanation
Indices: 691971--692266 Score: 407
Period size: 86 Copynumber: 3.5 Consensus size: 86
691961 TGAGTGTCAC
* * *
691971 CTTTCTTCCAATAATGCACCGTTATGCATTTTCATTTGTGGCACCTTTGCCAATAATACACCGTT
1 CTTTCTTCCAATAATGCACCGTTATGCATTTTCATTTATGGCACTTTTGCCAATAATGCACCGTT
*
692036 ATGCATTTTCATTTATGGCGT
66 ATGCATTTTCATTTATGGCAT
* * *
692057 CTTTCTGCCAATAATGCATCGTTATGCATTTTCATTTATGGCACTTTTGCCAATAATGCACTGTT
1 CTTTCTTCCAATAATGCACCGTTATGCATTTTCATTTATGGCACTTTTGCCAATAATGCACCGTT
*
692122 ATGCATTTTCATTTATGGCAC
66 ATGCATTTTCATTTATGGCAT
* * * * *
692143 CTTTCTTCTAGTAATGCACCGTTATGCATTTTCATTTATTGCACTTTATGCTAATAATGCACCAT
1 CTTTCTTCCAATAATGCACCGTTATGCATTTTCATTTATGGCACTTT-TGCCAATAATGCACCGT
*
692208 TATACATTTTCATTTATGGCAT
65 TATGCATTTTCATTTATGGCAT
* * * *
692230 CTTTC-TAC-ATAATGTAACATTATGCATTTTCATTTAT
1 CTTTCTTCCAATAATGCACCGTTATGCATTTTCATTTAT
692267 TTGGTAACAT
Statistics
Matches: 185, Mismatches: 24, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
85 25 0.14
86 121 0.65
87 39 0.21
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (86 bp):
CTTTCTTCCAATAATGCACCGTTATGCATTTTCATTTATGGCACTTTTGCCAATAATGCACCGTT
ATGCATTTTCATTTATGGCAT
Found at i:693759 original size:10 final size:10
Alignment explanation
Indices: 693734--693791 Score: 55
Period size: 10 Copynumber: 5.5 Consensus size: 10
693724 AATCCCATTA
693734 AAAAATACATAC
1 AAAAATA-A-AC
693746 AAAAATAAAC
1 AAAAATAAAC
*
693756 AAAAA-AAAT
1 AAAAATAAAC
*
693765 ACAAATACATAC
1 AAAAATA-A-AC
693777 AAAAATAAAC
1 AAAAATAAAC
693787 AAAAA
1 AAAAA
693792 ATACAAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 7 0.18
10 15 0.38
11 3 0.08
12 14 0.36
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAATAAAC
Found at i:693800 original size:29 final size:30
Alignment explanation
Indices: 693736--693800 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 30
693726 TCCCATTAAA
693736 AAATACATACAAAAATAAACAAAAAAAATAC
1 AAATACATACAAAAATAAAC-AAAAAAATAC
693767 AAATACATACAAAAATAAAC-AAAAAATAC
1 AAATACATACAAAAATAAACAAAAAAATAC
693796 AAATA
1 AAATA
693801 TGAATCAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 14 0.41
31 20 0.59
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.14
Consensus pattern (30 bp):
AAATACATACAAAAATAAACAAAAAAATAC
Found at i:696757 original size:42 final size:42
Alignment explanation
Indices: 696663--696763 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
696653 GGTCTTATGA
* * *
696663 ATGGCCCGAAGGACTT-ATCATATTGCTCGAAAGGCTTATAG
1 ATGGCCCGAAGGACTTAAGCATATTGCTCGAAAGACTCATAG
* * *
696704 ATGACCTGAAGGATTTAAGCATCA-TGCTCGAAAGACTCACT-G
1 ATGGCCCGAAGGACTTAAGCAT-ATTGCTCGAAAGACTCA-TAG
696746 ATGGCCCGAAGGACTTAA
1 ATGGCCCGAAGGACTTAA
696764 TAATTAAGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
41 13 0.27
42 33 0.69
43 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (42 bp):
ATGGCCCGAAGGACTTAAGCATATTGCTCGAAAGACTCATAG
Found at i:696758 original size:197 final size:195
Alignment explanation
Indices: 696400--696768 Score: 535
Period size: 197 Copynumber: 1.9 Consensus size: 195
696390 TTAAATGAGA
* * * *
696400 AAACTTGAAAATCGTTTCTTATTTTTTGAAAATCATGTGAGAATATCCTGCCCGAGGGTCTTATG
1 AAACTTGAAAATCGTTTCTCATCTTTTGAAAATCATGTGAGAATATCCTGCCCAAAGGTCTTATG
* * * * * *
696465 GATGACCTGAGTGACTTGTCTTCTTGCTCGAAAGACTTATAGATTACCTGAAGGATTTAAGCATC
66 AATGACCCGAGTGACTTATCATATTGCTCGAAAGACTTATAGATGACCTGAAGGATTTAAGCATC
* *
696530 ATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACTAATTTTAAAAATAGTTTACTAGGTAAG
131 ATGCTCAAAAGACTCACTGATGGCCCGAAGGACTTAATAATTTTAAAAATAGTTTACTAGGTAAG
* *
696595 AAACTTTGGAAATCGTTTTCTCATCTTTTGAAAATCATGTGA-AATCATCCTTCCCAAAGGTCTT
1 AAAC-TTGAAAATCG-TTTCTCATCTTTTGAAAATCATGTGAGAAT-ATCCTGCCCAAAGGTCTT
* *
696659 ATGAATGGCCCGAAG-GACTTATCATATTGCTCGAAAGGCTTATAGATGACCTGAAGGATTTAAG
63 ATGAATGACCCG-AGTGACTTATCATATTGCTCGAAAGACTTATAGATGACCTGAAGGATTTAAG
*
696723 CATCATGCTCGAAAGACTCACTGATGGCCCGAAGGACTTAATAATT
127 CATCATGCTCAAAAGACTCACTGATGGCCCGAAGGACTTAATAATT
696769 AAGAAACTTT
Statistics
Matches: 153, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
195 4 0.03
196 12 0.08
197 135 0.88
198 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (195 bp):
AAACTTGAAAATCGTTTCTCATCTTTTGAAAATCATGTGAGAATATCCTGCCCAAAGGTCTTATG
AATGACCCGAGTGACTTATCATATTGCTCGAAAGACTTATAGATGACCTGAAGGATTTAAGCATC
ATGCTCAAAAGACTCACTGATGGCCCGAAGGACTTAATAATTTTAAAAATAGTTTACTAGGTAAG
Found at i:696967 original size:20 final size:20
Alignment explanation
Indices: 696937--696988 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
696927 TTATCATGCT
*
696937 CGAAAGACTTACTGATGACC
1 CGAAGGACTTACTGATGACC
*
696957 CTAAGGACTTACTGATGACC
1 CGAAGGACTTACTGATGACC
696977 CGAAGGACTTAC
1 CGAAGGACTTAC
696989 GAATTTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (20 bp):
CGAAGGACTTACTGATGACC
Found at i:697193 original size:41 final size:41
Alignment explanation
Indices: 697135--697247 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
697125 CAACCTGTCC
* * *
697135 AAAGGTCTTATGGATGACCCAAAGGACTTATCATCTTGCTCA
1 AAAGG-CTTATAGATGACCCAAAGGACTTAGCATCATGCTCA
* * *
697177 AAAGGCTTATAGATGACCCAAAGAATTTAAGCATCATGCTCG
1 AAAGGCTTATAGATGACCCAAAGGACTT-AGCATCATGCTCA
* * * *
697219 AAAGACTTATTGACGACTCAAAGGACTTA
1 AAAGGCTTATAGATGACCCAAAGGACTTA
697248 CTAAGTAAGA
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
41 21 0.36
42 37 0.64
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (41 bp):
AAAGGCTTATAGATGACCCAAAGGACTTAGCATCATGCTCA
Found at i:697463 original size:220 final size:225
Alignment explanation
Indices: 697063--697728 Score: 792
Period size: 220 Copynumber: 2.9 Consensus size: 225
697053 TCAATATTCT
697063 GAAAAGATTTAAATGAGAAACTTTGGAAATCATTTTCTCATCTTTTGAAAATCATGTGAAATCAA
1 GAAAAGATTTAAATGAGAAACTTTGGAAATCATTTTCTCATCTTTTGAAAATCATGTGAAATCAA
** *
697128 CCTGTCCAAAGGTCTTATGGATGACCCAAAGGACTTATCATCTTGCTCAAAAGGCTTATAGATGA
66 CCTACCCAAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCAAAAGGCTTATAGATGA
** * * * * *
697193 CCCAAAGAATTTAAGCATCATGCTCGAAAGACTTATTGA-CGACTCAAAGGACTTACTAAGTAAG
131 ATCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATAG-CCCAAAGGACTTACTAA-TAAG
697257 AAACTTTGGAA-TTTTCTTAC-T-TTTC-A-A
194 AAACTTTGGAACTTTTCTTACTTATTTCAATA
* * * * *
697284 -AAAAGATTTTAATGAGAAACTTTGGAAATCATTTTCTCATTTTTTGCAAATCATGTGAAAACAT
1 GAAAAGATTTAAATGAGAAACTTTGGAAATCATTTTCTCATCTTTTGAAAATCATGTGAAATCAA
* * * *
697348 CCCACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTATAGATGA
66 CCTACCCAAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCAAAAGGCTTATAGATGA
* * *
697413 TTCGAAGGATTTAAGCATCATGCTAGAAAAACTTACTGATAGCCCAAAGGACTTACTACATAAGA
131 ATCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATAGCCCAAAGGACTTACTA-ATAAGA
697478 AACTTTGGAAATCGTTTTCTTACTTTTCAAAAAATTTCAATTTTCA
195 AACTTTGG-AA-C-TTTTCTTAC--TT------ATTTCAA---T-A
* * *
697524 GAAAAGATTTAAATGAGAAACTTTGGAAATCGTTTTCTCATCTTTTGAAAATCATGTTAAATCAG
1 GAAAAGATTTAAATGAGAAACTTTGGAAATCATTTTCTCATCTTTTGAAAATCATGTGAAATCAA
* * * * *
697589 CCTACCCAAAGGTCTTATGGATGGCCCTAAGGATTTAATCATCATGTTCGAAAGGCTTATAGATG
66 CCTACCCAAAGGTCTTATGGATGGCCCAAAGGACTT-ATCATCTTGCTCAAAAGGCTTATAGATG
* *
697654 ACAT-GAAGGATTTAAGAATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTACTAATTAA
130 A-ATCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATAGCCCAAAGGACTTACTAA-TAA
697718 G-AACTTTGGAA
193 GAAACTTTGGAA
697729 ATTGTTTTCA
Statistics
Matches: 378, Mismatches: 41, Indels: 33
0.84 0.09 0.07
Matches are distributed among these distances:
220 177 0.47
221 4 0.01
224 9 0.02
227 1 0.00
234 4 0.01
235 1 0.00
240 3 0.01
241 98 0.26
242 80 0.21
243 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (225 bp):
GAAAAGATTTAAATGAGAAACTTTGGAAATCATTTTCTCATCTTTTGAAAATCATGTGAAATCAA
CCTACCCAAAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCAAAAGGCTTATAGATGA
ATCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATAGCCCAAAGGACTTACTAATAAGAA
ACTTTGGAACTTTTCTTACTTATTTCAATA
Found at i:697608 original size:241 final size:241
Alignment explanation
Indices: 697277--697745 Score: 683
Period size: 241 Copynumber: 1.9 Consensus size: 241
697267 ATTTTCTTAC
* * *
697277 TTTTCAAAAAAGATTTTAATGAGAAACTTTGGAAATCATTTTCTCATTTTTTGCAAATCATGTGA
1 TTTTCAAAAAAGATTTAAATGAGAAACTTTGGAAATCATTTTCTCATCTTTTGAAAATCATGTGA
* * *
697342 AAACATCCCACCCGAAGGTCTTATGGATGGCCCGAAGGACTT-ATCATCTTGCTCAAAAGACTTA
66 AAACAGCCCACCCAAAGGTCTTATGGATGGCCCGAAGGACTTAATCATCATGCTCAAAAGACTTA
* *
697406 TAGATGA-TTCGAAGGATTTAAGCATCATGCTAGAAAAACTTACTGATAGCCCAAAGGACTTACT
131 TAGATGACAT-GAAGGATTTAAGAATCATGCTAGAAAAACTTACTGATAGCCCAAAGGACTTACT
*
697470 ACA-TAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAAATTTCAA
195 A-ATTAAG-AACTTTGGAAATCGTTTTCATACTTTTCAAAAAATTTCAA
* * *
697518 TTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCGTTTTCTCATCTTTTGAAAATCATGTTA
1 TTTTCAAAAAAGATTTAAATGAGAAACTTTGGAAATCATTTTCTCATCTTTTGAAAATCATGTGA
* * * * * * *
697583 AATCAGCCTACCCAAAGGTCTTATGGATGGCCCTAAGGATTTAATCATCATGTTCGAAAGGCTTA
66 AAACAGCCCACCCAAAGGTCTTATGGATGGCCCGAAGGACTTAATCATCATGCTCAAAAGACTTA
* * *
697648 TAGATGACATGAAGGATTTAAGAATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTACTA
131 TAGATGACATGAAGGATTTAAGAATCATGCTAGAAAAACTTACTGATAGCCCAAAGGACTTACTA
*
697713 ATTAAGAACTTTGGAAATTGTTTTCATACTTTT
196 ATTAAGAACTTTGGAAATCGTTTTCATACTTTT
697746 TAACTTATAA
Statistics
Matches: 202, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
241 121 0.60
242 80 0.40
243 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (241 bp):
TTTTCAAAAAAGATTTAAATGAGAAACTTTGGAAATCATTTTCTCATCTTTTGAAAATCATGTGA
AAACAGCCCACCCAAAGGTCTTATGGATGGCCCGAAGGACTTAATCATCATGCTCAAAAGACTTA
TAGATGACATGAAGGATTTAAGAATCATGCTAGAAAAACTTACTGATAGCCCAAAGGACTTACTA
ATTAAGAACTTTGGAAATCGTTTTCATACTTTTCAAAAAATTTCAA
Found at i:700281 original size:54 final size:54
Alignment explanation
Indices: 700194--700560 Score: 502
Period size: 54 Copynumber: 6.8 Consensus size: 54
700184 TAGTTAAATG
* * * *
700194 CATATGTTGATGAATGACCGTATAGGCAATATGTGTGCAAGCCACATAATTCAT
1 CATATGTTGATGAACGACCGTATAGGCACTATGTGTGCAACCCACAAAATTCAT
* * *
700248 CATATGTTGGTGAACGACCATATAGGCACTATGTGTGCAACCCACAGAATTCAT
1 CATATGTTGATGAACGACCGTATAGGCACTATGTGTGCAACCCACAAAATTCAT
** *
700302 CATATGTTGATGAACGACCGTATAACCACTATGTGTGTAACCCA-AGAAATTCAT
1 CATATGTTGATGAACGACCGTATAGGCACTATGTGTGCAACCCACA-AAATTCAT
* *
700356 CATATGTTGATGAACGACCGTATAGGCACTATGTGTGCAACCCACAGAATTTAT
1 CATATGTTGATGAACGACCGTATAGGCACTATGTGTGCAACCCACAAAATTCAT
*
700410 CATATGTTGATGAACAACCGTATAGGCACTATGTGTGCAACCCACAAAATTCAT
1 CATATGTTGATGAACGACCGTATAGGCACTATGTGTGCAACCCACAAAATTCAT
* * * ***
700464 CACATGTTGATGAACGACTGTATAGGCACTATGTGTACAACCCATGGAATTCAT
1 CATATGTTGATGAACGACCGTATAGGCACTATGTGTGCAACCCACAAAATTCAT
* * * * *
700518 CATATGTTGATGAACAATCATATAGGGACTAAGTGTGCAACCC
1 CATATGTTGATGAACGACCGTATAGGCACTATGTGTGCAACCC
700561 TTTTTCAATG
Statistics
Matches: 276, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
53 1 0.00
54 274 0.99
55 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (54 bp):
CATATGTTGATGAACGACCGTATAGGCACTATGTGTGCAACCCACAAAATTCAT
Found at i:705583 original size:54 final size:54
Alignment explanation
Indices: 705497--705804 Score: 388
Period size: 54 Copynumber: 5.7 Consensus size: 54
705487 AAATATATAC
*
705497 GTTGATGAACGACCGTATATA-CACTATGTGTGCAACCCACAGAAATCATCATAT
1 GTTGATGAACGACCGTATA-AGCACTATGTGTGCAACCCACAGAATTCATCATAT
* * *
705551 GTTGATGAATC-ACCGTATAAGCACTATATGTGCAACCCACATAATTGATCATAT
1 GTTGATGAA-CGACCGTATAAGCACTATGTGTGCAACCCACAGAATTCATCATAT
* * * * * * *
705605 TTTGATGAACGACTGTATATGCACTATGTATGTAACCCACGGCATTCATCATAT
1 GTTGATGAACGACCGTATAAGCACTATGTGTGCAACCCACAGAATTCATCATAT
* * *
705659 GTTGATGAACGACCGTATAGGCACTATGTGTGCAACCCACATAATTCATCATTT
1 GTTGATGAACGACCGTATAAGCACTATGTGTGCAACCCACAGAATTCATCATAT
* * * *
705713 GTTGATGAATGACCGTATAGGCACTATGTGTGTAATCCAC-GAAATTCATCATAT
1 GTTGATGAACGACCGTATAAGCACTATGTGTGCAACCCACAG-AATTCATCATAT
* *
705767 GTTGATGAACGACCGTATAACCACTATGTGTGAAACCC
1 GTTGATGAACGACCGTATAAGCACTATGTGTGCAACCC
705805 TTTTTCAATG
Statistics
Matches: 217, Mismatches: 33, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
53 2 0.01
54 214 0.99
55 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (54 bp):
GTTGATGAACGACCGTATAAGCACTATGTGTGCAACCCACAGAATTCATCATAT
Found at i:705691 original size:108 final size:108
Alignment explanation
Indices: 705497--705804 Score: 440
Period size: 108 Copynumber: 2.9 Consensus size: 108
705487 AAATATATAC
* * * *
705497 GTTGATGAACGACCGTATATACACTATGTGTGCAACCCACAGAAATCATCATATGTTGATGAATC
1 GTTGATGAACGACCGTATATGCACTATGTGTGTAACCCACGGAATTCATCATATGTTGATGAA-C
* *
705562 -ACCGTATAAGCACTATATGTGCAACCCACATAATTGATCATATT
65 GACCGTATAAGCACTATGTGTGCAACCCACATAATTCATCAT-TT
* * *
705606 -TTGATGAACGACTGTATATGCACTATGTATGTAACCCACGGCATTCATCATATGTTGATGAACG
1 GTTGATGAACGACCGTATATGCACTATGTGTGTAACCCACGGAATTCATCATATGTTGATGAACG
*
705670 ACCGTATAGGCACTATGTGTGCAACCCACATAATTCATCATTT
66 ACCGTATAAGCACTATGTGTGCAACCCACATAATTCATCATTT
* * * *
705713 GTTGATGAATGACCGTATAGGCACTATGTGTGTAATCCACGAAATTCATCATATGTTGATGAACG
1 GTTGATGAACGACCGTATATGCACTATGTGTGTAACCCACGGAATTCATCATATGTTGATGAACG
* *
705778 ACCGTATAACCACTATGTGTGAAACCC
66 ACCGTATAAGCACTATGTGTGCAACCC
705805 TTTTTCAATG
Statistics
Matches: 177, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
107 3 0.02
108 174 0.98
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (108 bp):
GTTGATGAACGACCGTATATGCACTATGTGTGTAACCCACGGAATTCATCATATGTTGATGAACG
ACCGTATAAGCACTATGTGTGCAACCCACATAATTCATCATTT
Found at i:705766 original size:162 final size:162
Alignment explanation
Indices: 705497--705804 Score: 447
Period size: 162 Copynumber: 1.9 Consensus size: 162
705487 AAATATATAC
*
705497 GTTGATGAACGACCGTATATACACTATGTGTGCAACCCACAGAAATCATCATATGTTGATGAATC
1 GTTGATGAACGACCGTATAGACACTATGTGTGCAACCCACAGAAATCATCATATGTTGATGAATC
* * * **
705562 ACCGTATAAGCACTATATGTGCAACCCACATAATTGATCATATTTTGATGAACGACTGTATATGC
66 ACCGTATAAGCACTATATGTGCAACCCACATAATTCATCATATGTTGATGAACGACCGTATAACC
*
705627 ACTATGTATGTAACCCACGGCATTCATCATAT
131 ACTATGTATGAAACCCACGGCATTCATCATAT
* * * * *
705659 GTTGATGAACGACCGTATAGGCACTATGTGTGCAACCCACATAATTCATCATTTGTTGATGAATG
1 GTTGATGAACGACCGTATAGACACTATGTGTGCAACCCACAGAAATCATCATATGTTGATGAATC
* * * *
705724 ACCGTATAGGCACTATGTGTGTAATCCACGA-AATTCATCATATGTTGATGAACGACCGTATAAC
66 ACCGTATAAGCACTATATGTGCAACCCAC-ATAATTCATCATATGTTGATGAACGACCGTATAAC
*
705788 CACTATGTGTGAAACCC
130 CACTATGTATGAAACCC
705805 TTTTTCAATG
Statistics
Matches: 128, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
162 127 0.99
163 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (162 bp):
GTTGATGAACGACCGTATAGACACTATGTGTGCAACCCACAGAAATCATCATATGTTGATGAATC
ACCGTATAAGCACTATATGTGCAACCCACATAATTCATCATATGTTGATGAACGACCGTATAACC
ACTATGTATGAAACCCACGGCATTCATCATAT
Found at i:713096 original size:45 final size:45
Alignment explanation
Indices: 713047--713370 Score: 354
Period size: 45 Copynumber: 7.2 Consensus size: 45
713037 AAACGAATAT
* * * *
713047 ATAAATGAAATGTATAAAGGTGCATTATCGGTATAAAAGGATGCC
1 ATAAATGAAATGCATAAAGGTGCATTATCAGCATGAAAGGATGCC
** *
713092 ATAAATGAAATGCAT-AAGGCACATTATCAGCATGAAATGATGCC
1 ATAAATGAAATGCATAAAGGTGCATTATCAGCATGAAAGGATGCC
* * * *
713136 AAAAATGAAATGTATAACGGTGCATTAT-ACGCAAGAAAGGATGCC
1 ATAAATGAAATGCATAAAGGTGCATTATCA-GCATGAAAGGATGCC
* *
713181 ATAAGTGAAATGCATAATA-GTGCA-TATCGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAA-AGGTGCATTATCAGCATGAAAGGATGCC
* *
713225 ATAAATGAAATGCA-AAATGGTGCATTATCAGCATAAAAGGAAGCC
1 ATAAATGAAATGCATAAA-GGTGCATTATCAGCATGAAAGGATGCC
* * *
713270 ATAAATGAATTGCATAATA-GTGTATTATCGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAA-AGGTGCATTATCAGCATGAAAGGATGCC
* * * * *
713315 ATAAATTAAAATGCATAATGGTGCATTATAAGCATGAACGGATTCC
1 ATAAA-TGAAATGCATAAAGGTGCATTATCAGCATGAAAGGATGCC
713361 ATAAATGAAA
1 ATAAATGAAA
713371 ATAAAGAATA
Statistics
Matches: 230, Mismatches: 38, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 72 0.31
45 116 0.50
46 38 0.17
47 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (45 bp):
ATAAATGAAATGCATAAAGGTGCATTATCAGCATGAAAGGATGCC
Found at i:713149 original size:89 final size:90
Alignment explanation
Indices: 713049--713370 Score: 375
Period size: 89 Copynumber: 3.6 Consensus size: 90
713039 ACGAATATAT
* * * * **
713049 AAATGAAATGTATAAAGGTGCATTATCGGTATAAAAGGATGCCATAAATGAAATGCATAA-GGCA
1 AAATGAAATGCATAAAGGTGCATTATCAGCATAAAAGGATGCCATAAATGAAATGCATAATAGTG
* *
713113 CATTATCAGCATGAAATGATGCCAA
66 CATTATCGGCATGAAAGGATGCCAA
* * *
713138 AAATGAAATGTATAACGGTGCATTAT-ACGCA-AGAAAGGATGCCATAAGTGAAATGCATAATAG
1 AAATGAAATGCATAAAGGTGCATTATCA-GCATA-AAAGGATGCCATAAATGAAATGCATAATAG
*
713201 TGCA-TATCGGCATGAAAGGATGCCAT
64 TGCATTATCGGCATGAAAGGATGCCAA
* *
713227 AAATGAAATGCA-AAATGGTGCATTATCAGCATAAAAGGAAGCCATAAATGAATTGCATAATAGT
1 AAATGAAATGCATAAA-GGTGCATTATCAGCATAAAAGGATGCCATAAATGAAATGCATAATAGT
*
713291 GTATTATCGGCATGAAAGGATGCCATA
65 GCATTATCGGCATGAAAGGATGCCA-A
* * * * * * *
713318 AATTAAAATGCATAATGGTGCATTATAAGCATGAACGGATTCCATAAATGAAA
1 AAATGAAATGCATAAAGGTGCATTATCAGCATAAAAGGATGCCATAAATGAAA
713371 ATAAAGAATA
Statistics
Matches: 198, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
88 3 0.02
89 126 0.64
90 26 0.13
91 41 0.21
92 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (90 bp):
AAATGAAATGCATAAAGGTGCATTATCAGCATAAAAGGATGCCATAAATGAAATGCATAATAGTG
CATTATCGGCATGAAAGGATGCCAA
Found at i:713258 original size:134 final size:134
Alignment explanation
Indices: 713047--713370 Score: 384
Period size: 134 Copynumber: 2.4 Consensus size: 134
713037 AAACGAATAT
* * * *
713047 ATAAATGAAATGTATAA-AGGTGCATTATCGGTATAAAAGGATGCCATAAATGAAATGCATAAGG
1 ATAAATGAAATGCATAATA-GTGCATTATCGGCATGAAAGGATGCCATAAATGAAATGCAAAAGG
* * * * *
713111 CACATTATCAGCATGAAATGATGCCAAAAATGAAATGTATAACGGTGCATTATAC-GCAAGAAAG
65 CACATTATCAGCATAAAAGGAAGCCAAAAATGAAATGCATAACAGTGCATTAT-CGGCAAGAAAG
713175 GATGCC
129 GATGCC
*
713181 ATAAGTGAAATGCATAATAGTGCA-TATCGGCATGAAAGGATGCCATAAATGAAATGCAAAATGG
1 ATAAATGAAATGCATAATAGTGCATTATCGGCATGAAAGGATGCCATAAATGAAATGCAAAA-GG
** * * * * *
713245 TGCATTATCAGCATAAAAGGAAGCCATAAATGAATTGCATAATAGTGTATTATCGGCATGAAAGG
65 CACATTATCAGCATAAAAGGAAGCCAAAAATGAAATGCATAACAGTGCATTATCGGCAAGAAAGG
713310 ATGCC
130 ATGCC
* * ** * *
713315 ATAAATTAAAATGCATAATGGTGCATTATAAGCATGAACGGATTCCATAAATGAAA
1 ATAAA-TGAAATGCATAATAGTGCATTATCGGCATGAAAGGATGCCATAAATGAAA
713371 ATAAAGAATA
Statistics
Matches: 161, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
133 35 0.22
134 82 0.51
135 18 0.11
136 26 0.16
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (134 bp):
ATAAATGAAATGCATAATAGTGCATTATCGGCATGAAAGGATGCCATAAATGAAATGCAAAAGGC
ACATTATCAGCATAAAAGGAAGCCAAAAATGAAATGCATAACAGTGCATTATCGGCAAGAAAGGA
TGCC
Found at i:719572 original size:22 final size:21
Alignment explanation
Indices: 719537--719596 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
719527 TATCGATACT
* *
719537 GAAAGGTATTGATACCATAGTA
1 GAAAAGTATCGATACCATAG-A
* * *
719559 TAGAAGTATCGATACTA-AGA
1 GAAAAGTATCGATACCATAGA
719579 GAAAAGTATCGATACCAT
1 GAAAAGTATCGATACCAT
719597 GAATTACAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
20 15 0.52
21 2 0.07
22 12 0.41
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (21 bp):
GAAAAGTATCGATACCATAGA
Found at i:720158 original size:45 final size:45
Alignment explanation
Indices: 720094--720365 Score: 375
Period size: 45 Copynumber: 6.0 Consensus size: 45
720084 AATATATTAT
*
720094 TGAAATGCATAACAGTGCATTATCAGCATGAAAGGATGCCATAAA
1 TGAAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAA
* * * *
720139 TGAAATGTATAACGGTGCATTATCGGCATGAAATGATGCTATAAA
1 TGAAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAA
* * *
720184 TGAAATGCATAATGGTGCATTATCGGCATGAAATGATGCCATAAA
1 TGAAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAA
* * *
720229 TGAAATGCTTAACGTTGCATTATCAGAATGAAAGGATGCCATAAA
1 TGAAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAA
* * *
720274 TGAAATGCTTAACGGTGCATTATCGGCATGAAAGGATGTCATAAA
1 TGAAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAA
* *
720319 TGAAAATGCATAATGGTGCATTATAAGCATGAACA-GATGCCATAAA
1 TG-AAATGCATAACGGTGCATTATCAGCATGAA-AGGATGCCATAAA
720365 T
1 T
720366 TAAAATAAAG
Statistics
Matches: 202, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
45 164 0.81
46 37 0.18
47 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (45 bp):
TGAAATGCATAACGGTGCATTATCAGCATGAAAGGATGCCATAAA
Found at i:720218 original size:21 final size:21
Alignment explanation
Indices: 720152--720218 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 21
720142 AATGTATAAC
720152 GGTGCATTATCGGCATGAAAT
1 GGTGCATTATCGGCATGAAAT
* * **
720173 GATGCTATAAAT-GAAATGCATAAT
1 GGTGC-AT-TATCGGCATG-A-AAT
720197 GGTGCATTATCGGCATGAAAT
1 GGTGCATTATCGGCATGAAAT
720218 G
1 G
720219 ATGCCATAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
21 8 0.24
22 9 0.27
23 9 0.27
24 7 0.21
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (21 bp):
GGTGCATTATCGGCATGAAAT
Found at i:720290 original size:135 final size:136
Alignment explanation
Indices: 720094--720365 Score: 428
Period size: 135 Copynumber: 2.0 Consensus size: 136
720084 AATATATTAT
*
720094 TGAAATGCATAACAGTGCATTATCAGCATGAAAGGATGCCATAAATGAAATGTATAACGGTGCAT
1 TGAAATGCATAACAGTGCATTATCAGAATGAAAGGATGCCATAAATGAAATGTATAACGGTGCAT
* **
720159 TATCGGCATGAAATGATG-CTATAAATG-AAATGCATAATGGTGCATTATCGGCATGAA-ATGAT
66 TATCGGCATGAAAGGATGTC-ATAAATGAAAATGCATAATGGTGCATTATAAGCATGAACA-GAT
720221 GCCATAAA
129 GCCATAAA
*
720229 TGAAATGCTTAAC-GTTGCATTATCAGAATGAAAGGATGCCATAAATGAAATGCT-TAACGGTGC
1 TGAAATGCATAACAG-TGCATTATCAGAATGAAAGGATGCCATAAATGAAATG-TATAACGGTGC
720292 ATTATCGGCATGAAAGGATGTCATAAATGAAAATGCATAATGGTGCATTATAAGCATGAACAGAT
64 ATTATCGGCATGAAAGGATGTCATAAATGAAAATGCATAATGGTGCATTATAAGCATGAACAGAT
720357 GCCATAAA
129 GCCATAAA
720365 T
1 T
720366 TAAAATAAAG
Statistics
Matches: 127, Mismatches: 5, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
134 1 0.01
135 83 0.65
136 42 0.33
137 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (136 bp):
TGAAATGCATAACAGTGCATTATCAGAATGAAAGGATGCCATAAATGAAATGTATAACGGTGCAT
TATCGGCATGAAAGGATGTCATAAATGAAAATGCATAATGGTGCATTATAAGCATGAACAGATGC
CATAAA
Found at i:726157 original size:45 final size:45
Alignment explanation
Indices: 726106--726432 Score: 399
Period size: 45 Copynumber: 7.2 Consensus size: 45
726096 AAAACGAATA
* * * * **
726106 CATAAATGAAATTAATAACAGTGCATTATTGACTTGAAAATATGC
1 CATAAATGAAATTCATAACGGTGCATTATCGACATGAAAGGATGC
* *
726151 CATAAATGAAATGCATAATGGTGCATTATCGACATGAAAGGATGC
1 CATAAATGAAATTCATAACGGTGCATTATCGACATGAAAGGATGC
* *
726196 CATAAATGAAATGCATAACAGTGCATTATCGACATGAATA-GATGC
1 CATAAATGAAATTCATAACGGTGCATTATCGACATGAA-AGGATGC
* *
726241 CATAAATGAAATAT-ATAATGTTGCATTATCGACATGAAAGGATGC
1 CATAAATGAAAT-TCATAACGGTGCATTATCGACATGAAAGGATGC
* * *
726286 CATAAATGAAATACATAACTGTGCATTATCAACATGAAAGGATGC
1 CATAAATGAAATTCATAACGGTGCATTATCGACATGAAAGGATGC
* * *
726331 CATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGT
1 CATAAATGAAATTCATAACGGTGCATTATCGACATGAAAGGATGC
* * * *
726376 CATAAATGAAAATTCATAATGGTGCATTAT-AAGCATGAATGGATTC
1 CATAAATG-AAATTCATAACGGTGCATTATCGA-CATGAAAGGATGC
726422 CATAAATGAAA
1 CATAAATGAAA
726433 ATAAAGAATA
Statistics
Matches: 245, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.00
45 206 0.84
46 38 0.16
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.27
Consensus pattern (45 bp):
CATAAATGAAATTCATAACGGTGCATTATCGACATGAAAGGATGC
Found at i:729356 original size:110 final size:109
Alignment explanation
Indices: 729160--729414 Score: 284
Period size: 110 Copynumber: 2.3 Consensus size: 109
729150 TTAGTACATA
* * * * * *
729160 TGACCAAAATGCAAAATCACTCTTAAA-TATGGGGAACTAAACAGAAAATGTTCCAAAAATATAT
1 TGACCAAAATGCAAAAACACGC-TAAACTACGGGGGACTAAACAGAAAATATCCCAAAAATATAT
* **
729224 AAAATATAGGAAAACATGGTAAATAATAGA-TTTGATCCTTGCAGG
65 AAAATACAGGAAAACATGGTAAATAATA-ATTTTGATCCTCACAGG
*
729269 TGACCAAAATGCAAAAAACACGCTAAACTACGGGGGACTAAATAGAAAATATCCCAAACAATATA
1 TGACCAAAATGC-AAAAACACGCTAAACTACGGGGGACTAAACAGAAAATATCCCAAA-AATATA
* * * *
729334 TAACATGCATGAAAA-A-GAGTAAATAATAATTTTGGTCCTCACAGG
64 TAAAATACAGGAAAACATG-GTAAATAATAATTTTGATCCTCACAGG
* * *
729379 TGACCAACATGCAAAAATACGTTAAACTACGGGGGA
1 TGACCAAAATGCAAAAACACGCTAAACTACGGGGGA
729415 GCTATGCGTG
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
109 40 0.32
110 67 0.54
111 17 0.14
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (109 bp):
TGACCAAAATGCAAAAACACGCTAAACTACGGGGGACTAAACAGAAAATATCCCAAAAATATATA
AAATACAGGAAAACATGGTAAATAATAATTTTGATCCTCACAGG
Found at i:735086 original size:3 final size:3
Alignment explanation
Indices: 735072--735136 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
735062 CCTAGAGACC
*
735072 ATT ATT AAT ATT 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 ATT ATT
735120 ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT
735137 TTTGTTGTAG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:736895 original size:144 final size:145
Alignment explanation
Indices: 736635--736922 Score: 569
Period size: 144 Copynumber: 2.0 Consensus size: 145
736625 TGTTGATAGG
736635 CACCATATGAAGAGTTTTTACAATTAAAAGAAAACAATCACCTAAATGCAATTGAATTCAATTAA
1 CACCATATGAAGAGTTTTTACAATTAAAAGAAAACAATCACCTAAATGCAATTGAATTCAATTAA
736700 ATGACTTGTCATTCTTCTTATCCTTTGATGGCTGGCCATGTAGATTGAAAATGGATGAATTAAGA
66 ATGACTTGTCATTCTTCTTATCCTTTGATGGCTGGCCATGTAGATTGAAAATGGATGAATTAAGA
736765 TTTAA-TTGAGAAAT
131 TTTAATTTGAGAAAT
736779 CACCATATGAAGAGTTTTTACAATTAAAAGAAAACAATCACCTAAATGCAATTGAATTCAATTAA
1 CACCATATGAAGAGTTTTTACAATTAAAAGAAAACAATCACCTAAATGCAATTGAATTCAATTAA
736844 ATGACTTGTCATTCTTCTTATCCTTTGATGGCTGGCCATGTAGATTGAAAATGGATGAATTAAGA
66 ATGACTTGTCATTCTTCTTATCCTTTGATGGCTGGCCATGTAGATTGAAAATGGATGAATTAAGA
736909 TTTAATTTGAGAAA
131 TTTAATTTGAGAAA
736923 ATTTCAGCCT
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
144 135 0.94
145 8 0.06
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (145 bp):
CACCATATGAAGAGTTTTTACAATTAAAAGAAAACAATCACCTAAATGCAATTGAATTCAATTAA
ATGACTTGTCATTCTTCTTATCCTTTGATGGCTGGCCATGTAGATTGAAAATGGATGAATTAAGA
TTTAATTTGAGAAAT
Found at i:737692 original size:18 final size:18
Alignment explanation
Indices: 737669--737710 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
737659 TAGTTTGATT
737669 AATGAAATAACATTATTC
1 AATGAAATAACATTATTC
* *
737687 AATGAAGTAACTTTATTC
1 AATGAAATAACATTATTC
737705 AATGAA
1 AATGAA
737711 CTAAATGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (18 bp):
AATGAAATAACATTATTC
Found at i:737790 original size:17 final size:17
Alignment explanation
Indices: 737770--737822 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
737760 ACTACTTCCC
737770 TAAATGAAATACATGCT
1 TAAATGAAATACATGCT
* *
737787 TAAATGCAATGCATGCT
1 TAAATGAAATACATGCT
* * *
737804 TTAATGAAAAACATACT
1 TAAATGAAATACATGCT
737821 TA
1 TA
737823 TTAAATGCAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.30
Consensus pattern (17 bp):
TAAATGAAATACATGCT
Found at i:744741 original size:18 final size:19
Alignment explanation
Indices: 744698--744741 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
744688 TTTGGTTCAT
* *
744698 GGAATATAAGATTACCAGTG
1 GGAATGTAAGATTACCAG-A
744718 GGAATGTAAGATTACCA-A
1 GGAATGTAAGATTACCAGA
744736 GGAATG
1 GGAATG
744742 CACTGGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.41, C:0.09, G:0.27, T:0.23
Consensus pattern (19 bp):
GGAATGTAAGATTACCAGA
Found at i:745706 original size:2 final size:2
Alignment explanation
Indices: 745701--745725 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
745691 ATTATGTGTG
745701 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
745726 TATTTCATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:750850 original size:130 final size:131
Alignment explanation
Indices: 750544--750894 Score: 395
Period size: 130 Copynumber: 2.7 Consensus size: 131
750534 CAAGAGAAGA
* * * * *
750544 AAATCTACCTTGATTCAATCTTTCCTGAAGAGCAGTGGAATGAATCAATGTTTTCATATATGATC
1 AAATCTACCTTGATTCAATCTCT-CAGAAGAGCAGTGGAATGAATCAATGTTTCCAGATCTGATC
* * * * * * *
750609 TACCCTGAAGAGCATTAGAGTAGATCCCCTTGTTTTAGATTTCATTTTCCCTGAAGAGAAGTGCA
65 TACCATGAAGAGCATTGGAGCAGATCCCCTTGTTTCAGATTTCATATTCCATGAAGAGAAGTACA
750674 AC
130 AC
* *
750676 AAATCTACCTTGATTCAATCTTCCCTA-AAGAGCAGTAGAATGAATCAATGTTTCCAGATCTGAT
1 AAATCTACCTTGATTCAATC-TCTC-AGAAGAGCAGTGGAATGAATCAATGTTTCCAGATCTGAT
* * * * *
750740 CTACCATGAAGAGCATTGGAGCATA-CCCCTT-TTTCAGATTTGATATTCCATGAGGAGCAGTAT
64 CTACCATGAAGAGCATTGGAGCAGATCCCCTTGTTTCAGATTTCATATTCCATGAAGAGAAGTAC
*
750803 AGC
129 AAC
* * * **
750806 AAATCTACCTCGATTCAATCTACTCAGAAGAGTAGTGGAGTGAATCAAAATTTCCAGATCTGATC
1 AAATCTACCTTGATTCAATCT-CTCAGAAGAGCAGTGGAATGAATCAATGTTTCCAGATCTGATC
*
750871 TA-CACTGAAGAGCAGTGGAGCAGA
65 TACCA-TGAAGAGCATTGGAGCAGA
750895 AACCTTCAGG
Statistics
Matches: 185, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
129 4 0.02
130 99 0.54
131 6 0.03
132 75 0.41
133 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (131 bp):
AAATCTACCTTGATTCAATCTCTCAGAAGAGCAGTGGAATGAATCAATGTTTCCAGATCTGATCT
ACCATGAAGAGCATTGGAGCAGATCCCCTTGTTTCAGATTTCATATTCCATGAAGAGAAGTACAA
C
Found at i:751159 original size:41 final size:41
Alignment explanation
Indices: 751099--751179 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
751089 TGAGATTATG
*
751099 GAACAAATATACCTTGATTCAATCTTCCCTGAAGAGCAGTA
1 GAACAAATATACCTCGATTCAATCTTCCCTGAAGAGCAGTA
*
751140 GAACAAATCTACCTCGATTCAATCTTCCCTGAAGAGCAGT
1 GAACAAATATACCTCGATTCAATCTTCCCTGAAGAGCAGT
751180 GGAGTGAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.26
Consensus pattern (41 bp):
GAACAAATATACCTCGATTCAATCTTCCCTGAAGAGCAGTA
Found at i:753821 original size:103 final size:104
Alignment explanation
Indices: 753657--753843 Score: 259
Period size: 103 Copynumber: 1.8 Consensus size: 104
753647 AAGCAAAAAA
* * * * * * *
753657 CATATAATAATTCGCATAAAAATCAAATATGAAGCACAATCCATCAAGACCCCGATCATAATTCA
1 CATATAATAATTCACATAAAAAGCAAACATGAAACACAATACATAAAGACCCAGATCATAATTCA
*
753722 GCATTTAAAGCCGACCCAAGCACAAAATTCAATATAACC
66 GCATCTAAAGCCGACCCAAGCACAAAATTCAATATAACC
* * *
753761 CATA-AATAATTCACATAAAAAGCACACATGAAACACCATACATAAAGACCCAGATCATAATTTA
1 CATATAATAATTCACATAAAAAGCAAACATGAAACACAATACATAAAGACCCAGATCATAATTCA
*
753825 GCATCTAAAGCTGACCCAA
66 GCATCTAAAGCCGACCCAA
753844 AGCGCAGAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
103 67 0.94
104 4 0.06
ACGTcount: A:0.47, C:0.25, G:0.09, T:0.20
Consensus pattern (104 bp):
CATATAATAATTCACATAAAAAGCAAACATGAAACACAATACATAAAGACCCAGATCATAATTCA
GCATCTAAAGCCGACCCAAGCACAAAATTCAATATAACC
Found at i:754580 original size:78 final size:78
Alignment explanation
Indices: 754481--754628 Score: 190
Period size: 78 Copynumber: 1.9 Consensus size: 78
754471 GTATTTTTGA
* ** ** *
754481 AAAAAATGCCACTACAGATGAAT-CTAATTGTGGTATTTATATAAAAACGCCGCTAAAATACTAC
1 AAAAAATACCACTACAGATGAATACT-ATTACGACATTTATATAAAAACGCCACTAAAATACTAC
754545 TCTGTTGTTTGTTG
65 TCTGTTGTTTGTTG
* * * *
754559 AAAAAATACCACTACATATGAATACTATTACGACATTTGTATAAAAACGTCACTAAAGTACTACT
1 AAAAAATACCACTACAGATGAATACTATTACGACATTTATATAAAAACGCCACTAAAATACTACT
754624 CTGTT
66 CTGTT
754629 ACGGTATTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
78 57 0.97
79 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (78 bp):
AAAAAATACCACTACAGATGAATACTATTACGACATTTATATAAAAACGCCACTAAAATACTACT
CTGTTGTTTGTTG
Done.