Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001673.1 Hibiscus syriacus cultivar Beakdansim tig00003347_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: 58975
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:3757 original size:24 final size:23
Alignment explanation
Indices: 3725--3769 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
3715 CATAAGGTAA
3725 GAGAAAATTTCATTTT-GATTTTTT
1 GAGAAAA-TTC-TTTTGGATTTTTT
3749 GAGAAAATTCTTTTGGATTTT
1 GAGAAAATTCTTTTGGATTTT
3770 GGATTATGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 9 0.45
24 7 0.35
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (23 bp):
GAGAAAATTCTTTTGGATTTTTT
Found at i:6712 original size:410 final size:413
Alignment explanation
Indices: 6082--6894 Score: 1267
Period size: 410 Copynumber: 2.0 Consensus size: 413
6072 ATTGAGAGCC
6082 AAGAAAGAACGATCAAGTTACAGCGATCCCACTAAGAATGTAAACTTGGTTCAAAATCAGCCTTC
1 AAGAAAGAACGATCAAGTTACAGCGATCCCACTAAGAATGTAAACTTGGTTCAAAATCAGCCTTC
* * * * *
6147 TGGCAAGAACCATCAACAAAGCCAAGTTTATTTTTGGCGAGAAGCGTAATTCTTAACAAACGACT
66 TGGCAAGAACCATAAAAAAAGCCAAGTTTATTTTTGGCAAAAAGCGCAATTCTTAACAAACGACT
* * *
6212 CCAAATGTTGTAATTTTCAATACCCGTGTGCAAGTGTGAAACGAGAACAATCCCAGAAGTATCAG
131 CCAAACGTTGTAATTTTCAATACCCGTGAGAAAGTGTGAAACGAGAACAATCCCAGAAGTATCAG
*
6277 ACATGTGAAGAAAAATGAAATGCATGAAATCAATAGATAAAGCCTCAATTGGAGCCATGAAAGAA
196 ACATGTGAAGAAAAAGGAAATGCATGAAATCAATAGATAAAGCCTCAATTGGAGCCATGAAAGAA
*
6342 GATCAAAGAGAAAAAATCACAGAAAGAAAGAGAGGGAAGCCAAACAGAGAAGAAATGAAGAAAGA
261 GATCAAAGAGAAAAAATCACAGAAAGAAAGAGAGGGAAGCCAAACAGAAAAGAAATGAA-AAA-A
* **
6407 -CCCTAATTAAAATG-AAG-T-GAAACCCCTGAAAGAACAAAATGAGTCGAGAAGGAAAACCAAA
324 TCCCTAATTAAAATGAAAGATCGAAACCCATGAAAGAACAAAATGAACCGAGAAGGAAAACCAAA
6468 GAAATTCCTAGCAATTCTTGGTTCA
389 GAAATTCCTAGCAATTCTTGGTTCA
* * * * ** *
6493 AAGAAAGAATGATCATGTTACAGCGATCCCACTGAGGATGTAAACTTGGTTCAAAATCAGTTTTT
1 AAGAAAGAACGATCAAGTTACAGCGATCCCACTAAGAATGTAAACTTGGTTCAAAATCAGCCTTC
*
6558 TGGCAAGAACCATAAAAAAAGCCATGTTT-TTTTTGGCAAAAAGCGCAATTCTTAACAAACGACT
66 TGGCAAGAACCATAAAAAAAGCCAAGTTTATTTTTGGCAAAAAGCGCAATTCTTAACAAACGACT
* * **
6622 CCAAACGTTGTAATTTTCAATACCCTTGAGAAAGTGTGAAACGAGAACAGTCCTTGAAGTATCAG
131 CCAAACGTTGTAATTTTCAATACCCGTGAGAAAGTGTGAAACGAGAACAATCCCAGAAGTATCAG
* *
6687 ACATGTGAAGAAAAAGGACATGCATGAAATCAATAGATGAAGCCTCAATTGGAGCCATGAAAGAA
196 ACATGTGAAGAAAAAGGAAATGCATGAAATCAATAGATAAAGCCTCAATTGGAGCCATGAAAGAA
* * *
6752 GATCAAAGAGAAAAAATCGCAGAAAGAAAGAGAGGGAAGCCAAACAGAAAATAAATGAAAAAATG
261 GATCAAAGAGAAAAAATCACAGAAAGAAAGAGAGGGAAGCCAAACAGAAAAGAAATGAAAAAATC
* * *
6817 CCTAATTGAAATGAAAGACTCGAAACCCATGAAAGAACAAGATGAACCGAGAAGGAAACCCAAAG
326 CCTAATTAAAATGAAAGA-TCGAAACCCATGAAAGAACAAAATGAACCGAGAAGGAAAACCAAAG
6882 AAATTCCTAGCAA
390 AAATTCCTAGCAA
6895 ACTGATACCA
Statistics
Matches: 364, Mismatches: 33, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
408 1 0.00
409 15 0.04
410 211 0.58
411 84 0.23
412 1 0.00
413 52 0.14
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (413 bp):
AAGAAAGAACGATCAAGTTACAGCGATCCCACTAAGAATGTAAACTTGGTTCAAAATCAGCCTTC
TGGCAAGAACCATAAAAAAAGCCAAGTTTATTTTTGGCAAAAAGCGCAATTCTTAACAAACGACT
CCAAACGTTGTAATTTTCAATACCCGTGAGAAAGTGTGAAACGAGAACAATCCCAGAAGTATCAG
ACATGTGAAGAAAAAGGAAATGCATGAAATCAATAGATAAAGCCTCAATTGGAGCCATGAAAGAA
GATCAAAGAGAAAAAATCACAGAAAGAAAGAGAGGGAAGCCAAACAGAAAAGAAATGAAAAAATC
CCTAATTAAAATGAAAGATCGAAACCCATGAAAGAACAAAATGAACCGAGAAGGAAAACCAAAGA
AATTCCTAGCAATTCTTGGTTCA
Found at i:18237 original size:110 final size:110
Alignment explanation
Indices: 18035--18237 Score: 244
Period size: 110 Copynumber: 1.8 Consensus size: 110
18025 AAAGGTACTC
* * * * * **
18035 AACCATTCATCTAACTTGCATATTTGACACTTTTCTATCAAATGTACCACTAATTCATTATTCTT
1 AACCATTCATCTAACTGGCATAATTGACACATTTCTATCAAATGCACAACTAAGCCATTATTCTT
* * * ** * *
18100 TTATTTAATAGTGTTTTACCGTACATCTTATACTCAACAATATTT
66 TTACTCAACAGTACTTAACCATACATCTTATACTCAACAATATTT
* * *
18145 AACCGTTCATTTAACTGGCATAATTGACACATTTCTATCAAATGCACAACTAGGCCATTATTCTT
1 AACCATTCATCTAACTGGCATAATTGACACATTTCTATCAAATGCACAACTAAGCCATTATTCTT
*
18210 TTACTCAACAGTACTTAACCATTCATCT
66 TTACTCAACAGTACTTAACCATACATCT
18238 AACTGCTAGA
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
110 75 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (110 bp):
AACCATTCATCTAACTGGCATAATTGACACATTTCTATCAAATGCACAACTAAGCCATTATTCTT
TTACTCAACAGTACTTAACCATACATCTTATACTCAACAATATTT
Found at i:18517 original size:81 final size:81
Alignment explanation
Indices: 18125--18516 Score: 552
Period size: 81 Copynumber: 4.8 Consensus size: 81
18115 TTACCGTACA
* ** * * * *
18125 TCTTATACTCAACAATATTTAACCGTTCATTTAACTGGCATAATTGACACATTTCTATCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
18190 ACAACTAGGCCATTAT
66 ACAACTAGGCCATTAT
* * * * *
18206 TCTTTTACTCAACAGTACTTAACCATTCATCTAACT-GCTAGAATTGACACCATTATGTCAAATG
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGC-ATAATTGACACCTTTCTGTCAAATG
18270 CACAACTAGGCCATTAT
65 CACAACTAGGCCATTAT
* * * *
18287 TCTTTTAGTCAACGGTACTTAACTGTTCATCTAACTGGCATAATTGATACCTTTTTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
18352 ACAACTAAGCCATTAT
66 ACAACTAGGCCATTAT
* * *
18368 TCTTTTATTCAACGGTACTTAACCATTCATCTAAGTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
18433 ACAGCTAGGTCATTAT
66 ACAACTAGGCCATTAT
* *
18449 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGAATAATTGAAACCTTTCTGTCAAATGC
1 TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
18514 ACA
66 ACA
18517 GTTAGGCCTC
Statistics
Matches: 276, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
80 2 0.01
81 272 0.99
82 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCCATTAT
Found at i:18569 original size:68 final size:68
Alignment explanation
Indices: 18456--18729 Score: 361
Period size: 68 Copynumber: 4.0 Consensus size: 68
18446 TATTCTTTTA
* * * * * * *
18456 CTCAACGGTACTTAACCGTTCATCTAACTGGAATAATTGAA-ACCTTTCTGTCAAATGCACAGTT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAAT-AACACCTTTCTGTCATATGCACAGTT
18520 AGGC
65 AGGC
* *
18524 CTCAAAGGCACTTAGCCTTTCATCTATCTGGCATAAATAACACCTTTCTGTCATATGCTCAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATAACACCTTTCTGTCATATGCACAGTTA
18589 GGC
66 GGC
* * * * *
18592 CTCAAAGGCACTTAGTCTTTCATCTAACTGCCAGAAATGACACCTTTCTGTCATATACACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATAACACCTTTCTGTCATATGCACAGTTA
18657 GGC
66 GGC
* * * * *
18660 CTCAAAGGCACTTAGTCTCTCATCTAACTGGCATAAATGACACATTTCTGTCATATTCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATAACACCTTTCTGTCATATGCACAGTTA
18725 GGC
66 GGC
18728 CT
1 CT
18730 TAAATCTTTT
Statistics
Matches: 184, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
67 2 0.01
68 182 0.99
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAAATAACACCTTTCTGTCATATGCACAGTTA
GGC
Found at i:19079 original size:60 final size:59
Alignment explanation
Indices: 19015--19176 Score: 200
Period size: 60 Copynumber: 2.7 Consensus size: 59
19005 TCCCATATGG
* * * *
19015 AAATTCATACATTTAGTATTAATCTT-TTATCATTTTAGCACACAAGGTGCCCAATACAGA
1 AAATTCATACACTTAGTATGAAT-TTCTTAACATTTTAGCACACAAAGTGCCCAATAC-GA
* ** * *
19075 AAATTCATACACTTAGTATGAATTTCCTAACATTTTAGCACACAAAGTGTTCTATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGA
* *
19134 TAATTCATACACTGAGTATGAATTTCTTAACATTTTAGCACAC
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
19177 TTAGTGCCAT
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
59 43 0.48
60 46 0.52
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATACGA
Found at i:19203 original size:59 final size:58
Alignment explanation
Indices: 19045--19176 Score: 156
Period size: 59 Copynumber: 2.2 Consensus size: 58
19035 AATCTTTTAT
* * ** * *
19045 CATTTTAGCACACAAGGTGCCCAATACAGAAAATTCATACACTTAGTATGAATTTCCTAA
1 CATTTTAGCACACAAAGTGTCC-ATAC-GGTAATCCATACACTGAGTATGAATTTCCTAA
* * *
19105 CATTTTAGCACACAAAGTGTTCTATACGGTAATTCATACACTGAGTATGAATTTCTTAA
1 CATTTTAGCACACAAAGTG-TCCATACGGTAATCCATACACTGAGTATGAATTTCCTAA
19164 CATTTTAGCACAC
1 CATTTTAGCACAC
19177 TTAGTGCCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
59 41 0.64
60 22 0.34
61 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (58 bp):
CATTTTAGCACACAAAGTGTCCATACGGTAATCCATACACTGAGTATGAATTTCCTAA
Found at i:19664 original size:95 final size:95
Alignment explanation
Indices: 19493--19683 Score: 240
Period size: 95 Copynumber: 2.0 Consensus size: 95
19483 CCCTTAGTAC
* * * ** *
19493 CGATACTTCTATACTATGGTACTGATACCCCCTTATGGTATCGATGTCAATTTTAGGTTCGAAGT
1 CGATACTACTATACTATGGTACCGATACCCCCTTACGGTATCGATACCAATTTTAGATTCGAAGT
* *
19558 TACCTATTATCGATACCCTTACCATGGTAT
66 TACCTAGTATCGATACCCTTACCACGGTAT
* *
19588 CGATACTACTATACTATGTTACCGATACCCCGTTACGGTATCGATACCAATTTTAGATTCGATA-
1 CGATACTACTATACTATGGTACCGATACCCCCTTACGGTATCGATACCAATTTTAGATTCGA-AG
* * * *
19652 TTGCTTGGTATCGATACCCTTATCACGGTAT
65 TTACCTAGTATCGATACCCTTACCACGGTAT
19683 C
1 C
19684 AATATTATCT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 80 0.99
96 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (95 bp):
CGATACTACTATACTATGGTACCGATACCCCCTTACGGTATCGATACCAATTTTAGATTCGAAGT
TACCTAGTATCGATACCCTTACCACGGTAT
Found at i:33139 original size:20 final size:19
Alignment explanation
Indices: 33114--33182 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 19
33104 GTGTCAAAGG
*
33114 GTATCCATACACCCTGCAGT
1 GTATCAATACACCCTG-AGT
*
33134 GTATCCATACA--CT-AGT
1 GTATCAATACACCCTGAGT
*
33150 GTATCAATACGCCCTGTAGGT
1 GTATCAATACACCCTG-A-GT
33171 GTATCAATACAC
1 GTATCAATACAC
33183 ATATGACTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
16 12 0.29
18 4 0.10
20 12 0.29
21 13 0.32
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (19 bp):
GTATCAATACACCCTGAGT
Found at i:33260 original size:36 final size:36
Alignment explanation
Indices: 33213--33282 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
33203 AATGAAAATA
* *
33213 GTGTACCGATACAGCTATG-AGTGTATCCATACACTG
1 GTGTACCGATAC-CCCATGCAGTGTATCCATACACTG
* *
33249 GTGTATCGATACCCCCTGCAGTGTATCCATACAC
1 GTGTACCGATACCCCATGCAGTGTATCCATACAC
33283 CCTGGCTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 3 0.10
36 26 0.90
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (36 bp):
GTGTACCGATACCCCATGCAGTGTATCCATACACTG
Found at i:33274 original size:20 final size:20
Alignment explanation
Indices: 33232--33286 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
33222 TACAGCTATG
33232 AGTGTATCCATACA--CTG-
1 AGTGTATCCATACACCCTGC
* *
33249 -GTGTATCGATACCCCCTGC
1 AGTGTATCCATACACCCTGC
33268 AGTGTATCCATACACCCTG
1 AGTGTATCCATACACCCTG
33287 GCTGCAACGG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 11 0.37
18 3 0.10
20 16 0.53
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (20 bp):
AGTGTATCCATACACCCTGC
Found at i:33413 original size:21 final size:21
Alignment explanation
Indices: 33384--33423 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
33374 TTTTTGTAGA
33384 AAAATCATCCCAAAACGGCTCC
1 AAAATCATCCC-AAACGGCTCC
*
33406 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
33424 ATATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.40, C:0.38, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:33695 original size:34 final size:33
Alignment explanation
Indices: 33638--33706 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
33628 TTTTGTAAAG
*
33638 GGAAAAGATTCTAGCTAAGCCCGTGTAAAAGCTA
1 GGAAAAGATTCTAGCTAAGCCCGTG-AAAAACTA
* * * *
33672 GGAAAAGGTTCTAGTTTATCCCGTGAAAAACTA
1 GGAAAAGATTCTAGCTAAGCCCGTGAAAAACTA
33705 GG
1 GG
33707 GAGTTGTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 9 0.30
34 21 0.70
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (33 bp):
GGAAAAGATTCTAGCTAAGCCCGTGAAAAACTA
Found at i:34887 original size:136 final size:135
Alignment explanation
Indices: 34581--35102 Score: 514
Period size: 135 Copynumber: 3.8 Consensus size: 135
34571 ATTTTTCTCA
* * * **
34581 AGTCTGATCTCCCCTGAAAGAAAAGTGGAGCAGACTCATCTTCCAACATTGATCTGACTACCCTA
1 AGTCTTATCT-CCCTGAAAGAAGAG-GTAGCAGACTCATCTTCCAACATTGATCTGACTACCAGA
* * * * * * *
34646 AAAAGAGGAATAGATCAAGTATGATCTTCCATGAAAGAAGAGTGGAGCATACCTGTCTTCAAAAG
64 AAAAGAGGAACAAATCAAGTCTTATC-TCCCTGAAAGAAGAGTGGAGCAAACCTGTCTTCCAAAG
* *
34711 GTTTATCC
128 ATTTATCG
* * * * * *
34719 AGTTTTATCTCCCTGAAAGAATAGTTGAGCAGACTCGTCTTCCAACATTGCTCTGACTACTAGAA
1 AGTCTTATCTCCCTGAAAGAAGAGGT-AGCAGACTCATCTTCCAACATTGATCTGACTACCAGAA
** * *
34784 AAAGAAAAACAAATCAAGTCTTATCTCCCTGAAAGAAGAGTGGAGAAAACATGTCTTCCAAAGAT
65 AAAGAGGAACAAATCAAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAAACCTGTCTTCCAAAGAT
*
34849 TTCTCG
130 TTATCG
* * * * *
34855 AGTCTTATCTCCCTGAAAGAAGAGCGTAGCAGAAT-TTTTTCCGAA-ATTGATCTGAATACCCGA
1 AGTCTTATCTCCCTGAAAGAAGAG-GTAGCAGACTCATCTTCC-AACATTGATCTGACTACCAGA
* * * ** *
34918 AAAAGAGGAACATATCAAGTCTTATCTCCCTAAAAGAATAGTGGAGCGGACCCGTCTTCCAAAGA
64 AAAAGAGGAACAAATCAAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAAACCTGTCTTCCAAAGA
34983 TTTATCG
129 TTTATCG
* * * *
34990 AGTCTTATTTCCCTGAAAGAAGA-GTAGAGTAGACTCATTTTCCAAAATTGATCTGACTACCCA-
1 AGTCTTATCTCCCTGAAAGAAGAGGT--AGCAGACTCATCTTCCAACATTGATCTGACTA-CCAG
* * * *
35053 AAAAAGAGCAACAAATCAAGGT-TCATGTCCCCTGAAAGAATAGTGGAGCA
63 AAAAAGAGGAACAAATCAA-GTCTTATCT-CCCTGAAAGAAGAGTGGAGCA
35103 GATTTCCCAT
Statistics
Matches: 317, Mismatches: 57, Indels: 21
0.80 0.14 0.05
Matches are distributed among these distances:
133 2 0.01
135 110 0.35
136 108 0.34
137 89 0.28
138 8 0.03
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (135 bp):
AGTCTTATCTCCCTGAAAGAAGAGGTAGCAGACTCATCTTCCAACATTGATCTGACTACCAGAAA
AAGAGGAACAAATCAAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAAACCTGTCTTCCAAAGATT
TATCG
Found at i:34975 original size:135 final size:135
Alignment explanation
Indices: 34581--35102 Score: 530
Period size: 136 Copynumber: 3.8 Consensus size: 135
34571 ATTTTTCTCA
* * * *
34581 AGTCTGATCTCCCCTGAAAGAAAAGTGGAGCAGACTCATCTTCCAACATTGATCTGACTACCCTA
1 AGTCTTATCT-CCCTGAAAGAAGAG-GTAGCAGACTCATCTTCCAACATTGATCTGACTACCCGA
* * * * * * *
34646 AAAAGAGGAATAGATCAAGTATGATCTTCCATGAAAGAAGAGTGGAGCATACCTGTCTTCAAAAG
64 AAAAGAGGAACAAATCAAGTCTTATC-TCCCTGAAAGAAGAGTGGAGCAAACCTGTCTTCCAAAG
* *
34711 GTTTATCC
128 ATTTATCG
* * * * * **
34719 AGTTTTATCTCCCTGAAAGAATAGTTGAGCAGACTCGTCTTCCAACATTGCTCTGACTACTAGAA
1 AGTCTTATCTCCCTGAAAGAAGAGGT-AGCAGACTCATCTTCCAACATTGATCTGACTACCCGAA
** * *
34784 AAAGAAAAACAAATCAAGTCTTATCTCCCTGAAAGAAGAGTGGAGAAAACATGTCTTCCAAAGAT
65 AAAGAGGAACAAATCAAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAAACCTGTCTTCCAAAGAT
*
34849 TTCTCG
130 TTATCG
* * * *
34855 AGTCTTATCTCCCTGAAAGAAGAGCGTAGCAGAAT-TTTTTCCGAA-ATTGATCTGAATACCCGA
1 AGTCTTATCTCCCTGAAAGAAGAG-GTAGCAGACTCATCTTCC-AACATTGATCTGACTACCCGA
* * * ** *
34918 AAAAGAGGAACATATCAAGTCTTATCTCCCTAAAAGAATAGTGGAGCGGACCCGTCTTCCAAAGA
64 AAAAGAGGAACAAATCAAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAAACCTGTCTTCCAAAGA
34983 TTTATCG
129 TTTATCG
* * * * *
34990 AGTCTTATTTCCCTGAAAGAAGA-GTAGAGTAGACTCATTTTCCAAAATTGATCTGACTACCCAA
1 AGTCTTATCTCCCTGAAAGAAGAGGT--AGCAGACTCATCTTCCAACATTGATCTGACTACCCGA
* * * *
35054 AAAAGAGCAACAAATCAAGGT-TCATGTCCCCTGAAAGAATAGTGGAGCA
64 AAAAGAGGAACAAATCAA-GTCTTATCT-CCCTGAAAGAAGAGTGGAGCA
35103 GATTTCCCAT
Statistics
Matches: 318, Mismatches: 57, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
133 2 0.01
135 110 0.35
136 111 0.35
137 87 0.27
138 8 0.03
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (135 bp):
AGTCTTATCTCCCTGAAAGAAGAGGTAGCAGACTCATCTTCCAACATTGATCTGACTACCCGAAA
AAGAGGAACAAATCAAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAAACCTGTCTTCCAAAGATT
TATCG
Found at i:36931 original size:20 final size:20
Alignment explanation
Indices: 36898--36935 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36888 CTTGGCAGGG
36898 GTATCAGTACTGGAAGAACA
1 GTATCAGTACTGGAAGAACA
* *
36918 GTATCGGTATTGGAAGAA
1 GTATCAGTACTGGAAGAA
36936 TAATACCGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GTATCAGTACTGGAAGAACA
Found at i:37581 original size:44 final size:44
Alignment explanation
Indices: 37531--37805 Score: 277
Period size: 45 Copynumber: 6.0 Consensus size: 44
37521 AAATGAATGA
*
37531 ATAAATGAAAATGCATAACGGTGCATTATTGGAAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
37575 ATAAATGAAAATGCATAACGCTGCGTTATTGACAGAAAGGTGGCAGAAAGGTTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGT-GC---------C
* * *
37629 TATAAATGAAAAAGCATAACGGTGCATTATTGGCAGAAAAGTGAC
1 -ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * *
37674 ATAAATGAAAAATACATAACGGTGCATTATTGGTAGGAAGGTGTC
1 ATAAATG-AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
*
37719 AT-AA--AAAATGCATAACGATGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
37760 ATAAATGAAAAATTCATAACGATGAATTATTGGCAGAAAGGTGCC
1 ATAAATG-AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
37805 A
1 A
37806 CTCATGGTAT
Statistics
Matches: 192, Mismatches: 23, Indels: 31
0.78 0.09 0.13
Matches are distributed among these distances:
41 34 0.18
42 2 0.01
44 46 0.24
45 72 0.38
54 2 0.01
55 36 0.19
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:37625 original size:55 final size:55
Alignment explanation
Indices: 37564--37667 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 55
37554 CATTATTGGA
* *
37564 AGAAAGGTGCCATAAATGAAAATGCATAACGCTGCGTTATTGACAGAAAGGTGGC
1 AGAAAGGTGCCATAAATGAAAAAGCATAACGCTGCATTATTGACAGAAAGGTGGC
* * * *
37619 AGAAAGGTTCTATAAATGAAAAAGCATAACGGTGCATTATTGGCAGAAA
1 AGAAAGGTGCCATAAATGAAAAAGCATAACGCTGCATTATTGACAGAAA
37668 AGTGACATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.21
Consensus pattern (55 bp):
AGAAAGGTGCCATAAATGAAAAAGCATAACGCTGCATTATTGACAGAAAGGTGGC
Found at i:37741 original size:86 final size:85
Alignment explanation
Indices: 37637--37802 Score: 251
Period size: 86 Copynumber: 1.9 Consensus size: 85
37627 TCTATAAATG
* * *
37637 AAAAAGCATAACGGTGCATTATTGGCAGAAAAGTGACATAAATGAAAAATACATAACGGTGCATT
1 AAAAAGCATAACGATGCATTATTGGCAGAAAAGTGACATAAATGAAAAATACATAACGATGAATT
* *
37702 ATTGGTAGGAAGGTGTCATA
66 ATTGGCAGAAAGGTGTCATA
* * *
37722 AAAAATGCATAACGATGCATTATTGGCAGAAAGGTGCCATAAATGAAAAATTCATAACGATGAAT
1 AAAAA-GCATAACGATGCATTATTGGCAGAAAAGTGACATAAATGAAAAATACATAACGATGAAT
37787 TATTGGCAGAAAGGTG
65 TATTGGCAGAAAGGTG
37803 CCACTCATGG
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 5 0.07
86 67 0.93
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (85 bp):
AAAAAGCATAACGATGCATTATTGGCAGAAAAGTGACATAAATGAAAAATACATAACGATGAATT
ATTGGCAGAAAGGTGTCATA
Found at i:40754 original size:17 final size:18
Alignment explanation
Indices: 40732--40775 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
40722 AAGTGTGATG
40732 TTCATTTAAA-CATGCAT
1 TTCATTTAAAGCATGCAT
**
40749 TTCATTTAAAGCATTTAT
1 TTCATTTAAAGCATGCAT
40767 TTCATTTAA
1 TTCATTTAA
40776 GAAAGTAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.48
Consensus pattern (18 bp):
TTCATTTAAAGCATGCAT
Found at i:40874 original size:17 final size:17
Alignment explanation
Indices: 40834--40904 Score: 81
Period size: 17 Copynumber: 4.1 Consensus size: 17
40824 TTCATGCATA
*
40834 TAGTTCATTGAA-TAAAGT
1 TAGTTCATT-AATTAAA-C
40852 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
40869 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
*
40886 TAGTTCATTCATTAAAC
1 TAGTTCATTAATTAAAC
40903 TA
1 TA
40905 ACTCTTAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
17 35 0.73
18 13 0.27
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.39
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:51103 original size:58 final size:57
Alignment explanation
Indices: 51034--51210 Score: 180
Period size: 58 Copynumber: 3.1 Consensus size: 57
51024 CCCAAACAAC
*
51034 ATGATATTTTCAAAAGAATTTTTAAAGAAACTAAGCCTTGTTTTCAGGGGTTTCTTG
1 ATGACATTTTCAAAAGAATTTTTAAAGAAACTAAGCCTTGTTTTCAGGGGTTTCTTG
* ** * *
51091 ATGACGATTTTC-AAAGAATTTTTCAAAGAAGCTAAGCCTAATTTTTAGGGGTTCCTTG
1 ATGAC-ATTTTCAAAAGAATTTTT-AAAGAAACTAAGCCTTGTTTTCAGGGGTTTCTTG
** * * * *
51149 ATGACA-ACTGAAAATGAAATATTTGAAGAAACTAAG-CTTGATTTTCAAGGGTTTCTTG
1 ATGACATTTTCAAAA-G-AATTTTTAAAGAAACTAAGCCTTG-TTTTCAGGGGTTTCTTG
51207 ATGA
1 ATGA
51211 GCAAGTCTTT
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
56 1 0.01
57 21 0.22
58 69 0.71
59 6 0.06
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (57 bp):
ATGACATTTTCAAAAGAATTTTTAAAGAAACTAAGCCTTGTTTTCAGGGGTTTCTTG
Found at i:51714 original size:210 final size:210
Alignment explanation
Indices: 51309--51742 Score: 480
Period size: 211 Copynumber: 2.1 Consensus size: 210
51299 TCATTCGAGC
* ** * * * *
51309 CCATCCATAAGACCTTTGGGTAGGTTATTTTCAAATGAGTTTTTAGAAACTAAGCCATATTTTCA
1 CCAT-CATAAGTCCTTTGGCCAGGATATTTTAAAATCAGTTATTAGAAACTAAGCCATATTTTCA
* * * * ** *
51374 GGGGTTTCTTGATGATTTTCTATAAAGAATTTTTAAAGTAATTTAAGCCTAATTTTTAGGGGTTT
65 GGGGTTTCTTGATGATTATCTACAAAGAAGTTTTAAAATAAGCTAAGCCTAATTTTTAAGGGTTT
* ** * * *
51439 CCTTGATGACAACTGAAAATGGAAGATTTTAAGAAATTATACTTAATTTTTAAGGGTTTCTTGAT
130 CCTTGATAACAACTGAAAATAAAAGAATTTAAGAAACTATACTTAATTTTCAAGGGTTTCTTGAT
*
51504 GAGTAACTCCTTCGGG
195 GAGTAACTCCATCGGG
* * *
51520 CCATACATAAGTCCTTTGGCCAGGATGTTTTAAAATCAGTTATTAGAAACTAAGCC-TGCTTTTT
1 CCAT-CATAAGTCCTTTGGCCAGGATATTTTAAAATCAGTTATTAGAAACTAAGCCAT-ATTTTC
* * * *
51584 AGTGGTTTCTTGATTATTATCTCCAAAG-AGTTTTAAAATAAAGCTATGCCTAATTTTTAAGGG-
64 AGGGGTTTCTTGATGATTATCTACAAAGAAGTTTTAAAAT-AAGCTAAGCCTAATTTTTAAGGGT
* * * * *
51647 TTCCTTGATAATAACTGAAAATAAAATAATTTAAGACACTA-AGCTTGATTTTCAAGTGTTTCTT
128 TTCCTTGATAACAACTGAAAATAAAAGAATTTAAGAAACTATA-CTTAATTTTCAAGGGTTTCTT
*
51711 GATGAGTAAGTCCATCGGG
192 GATGAGTAACTCCATCGGG
51730 CCATCAATAAGTC
1 CCATC-ATAAGTC
51743 TTTCGAGCAT
Statistics
Matches: 184, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
209 2 0.01
210 89 0.48
211 93 0.51
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (210 bp):
CCATCATAAGTCCTTTGGCCAGGATATTTTAAAATCAGTTATTAGAAACTAAGCCATATTTTCAG
GGGTTTCTTGATGATTATCTACAAAGAAGTTTTAAAATAAGCTAAGCCTAATTTTTAAGGGTTTC
CTTGATAACAACTGAAAATAAAAGAATTTAAGAAACTATACTTAATTTTCAAGGGTTTCTTGATG
AGTAACTCCATCGGG
Found at i:51817 original size:41 final size:42
Alignment explanation
Indices: 51731--51840 Score: 118
Period size: 41 Copynumber: 2.6 Consensus size: 42
51721 TCCATCGGGC
* * *
51731 CATCAATAAGTCTTTCGAGCATA-ATGTTTAAATCTTTTAGGT
1 CATCTATAAGTCTTTCGAGCA-AGATGTGTAAATCTCTTAGGT
*
51773 CATCTATAAGTCTTTCGAGCAAGATG-GTAAATC-CTTCGGAT
1 CATCTATAAGTCTTTCGAGCAAGATGTGTAAATCTCTTAGG-T
* * *
51814 CATCTATAAGACCTTCGGGCAAGATGT
1 CATCTATAAGTCTTTCGAGCAAGATGT
51841 TTTCAAATGA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 4 0.07
41 31 0.53
42 23 0.40
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (42 bp):
CATCTATAAGTCTTTCGAGCAAGATGTGTAAATCTCTTAGGT
Found at i:52115 original size:290 final size:292
Alignment explanation
Indices: 51501--54630 Score: 3383
Period size: 291 Copynumber: 10.8 Consensus size: 292
51491 AGGGTTTCTT
* ** * * * * * * *
51501 GATGAGTAACTCCTTCGGGCCATACATAAGTCCTTTGGCCAGGATGTTTTAAAATCAGTTATTAG
1 GATG-GTAAGTCCTTCGAACCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAG
* * * * * * *
51566 AAACTAAGCCTGCTTTTTAGTGGTTTCTTGATTATTATCTCCAAAGAGTTTTAAAATAAAGCTAT
65 AAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAAGAAAGCTAA
* * * * * * *
51631 GCCTAATTTTTAAGGGTTCCTTGATAATAACTGAAAATAAAATAATTTAAGACACTAAGCTTGAT
130 GCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGAT
* * * * *
51696 TTTCAAGTGTTTCTTGATGAGTAAGTCCATCGGGCCATCAATAAGTCTTTCGAGCATAATGTTTA
195 TTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTA
* *
51761 AATCTTTTAGGTCATCTATAAGTCTTTCGAGCAA
260 AATC-CTTCGGTCATCTATAAGTCTTTCGAGCAA
* * * * *
51795 GATGGTAAATCCTTCGGATCATCTATAAGACCTTCGGGCAAGATGTTTTCAAATGAG-TTTTAGA
1 GATGGTAAGTCCTTCGAACCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGA
* * ** * *
51859 AACTAGGCCTGATTTTCAGTTGTTTCTTGATTATTATCTCCAAAGAATTTTTAAAGAAAGGTAAG
66 AACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAAGAAAGCTAAG
* * * **
51924 CCTAATTTTTAGGGGTTGCTCGATGACAACTGAAAATGAAATATTTTAAGAAACTAATATTGA-T
131 CCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATT
* * * *
51988 TT-AAGGGTTTTTTTATGAGTAATTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAA
196 TTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
*
52052 ATCCTTCGGCTCATTTATAAGTCTTTCGAGCAA
261 ATCCTTCGG-TCATCTATAAGTCTTTCGAGCAA
* * * *
52085 GATGGTAAGTCCTTCGAACCATCCATAAGACCATCGGGCGGGAAGTTTTCAAATAAGTTTTTAGA
1 GATGGTAAGTCCTTCGAACCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGA
** * * * * *
52150 AACTAAGTATGATTTTAATGTGTTTCTTGATAATTATCTCCAAAGAATTTTAAAAG-AAGCTAAG
66 AACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAAGAAAGCTAAG
*
52214 CCTAATTTTTAGGGGTTCCTT-ATTGACAA-TAGAAAATGAAATATTTTAA-AAACTAAGCTTGA
131 CCTAATTTTTAGGGGTTCCTTGA-TGACAACT-GAAAATGAAAGATTTTAAGAAACTAAGCTTGA
* * * * *
52276 TTTTCAAAGGTTTCTTGAAGAGTAATTCCATT-GGGCCATCAGTCAGTCTTTCAAGCATGATGCT
194 TTTTCAAGGGTTTCTTGATGAGTAAGTCC-TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCT
52340 TAAATCCTTCGGCTCATCTATAAGTCTTT-GAGCAA
258 TAAATCCTTCGG-TCATCTATAAGTCTTTCGAGCAA
* * * * * ** *
52375 GATGGTAAGTCTTTTGAACCATACC-CAAGACATTCAGGTGGGATGTTTTCCAATGAGTTTTTAG
1 GATGGTAAGTCCTTCGAACCAT-CCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAG
* * * * ** *
52439 AAACTAAGCCTGATTTTTAGGGATTTCCTT-ATTATTATCACCAAAAAAAATTTAAAGGAAGCTA
65 AAACTAAGCCTGATTTTTAGGGGTTT-CTTGATGATTATCTCCAAAGAATTTTTAAAGAAAGCTA
*
52503 AGCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAA-GTAAAGATTTTAAG-AGCATAAGCTT
129 AGCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATG-AAAGATTTTAAGAAAC-TAAGCTT
* * * * * *
52566 GATTTTCAAGGGTTTCTTGATGAGTAAGTCATTCGAGCCATCACTAAATCTTTTGAGCATGATGT
192 GATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
52631 TTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
257 TTAAATCCTTC-GGTCATCTATAAGTCTTTCGAGCAA
* *
52668 GATGGTATA-TCCTTC-AGACCATCCATAAGA-TTTCGGGTAGGAT-TTTTCAAATGAGTTTTTA
1 GATGGTA-AGTCCTTCGA-ACCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTA
* * *
52729 GAAACTAAGCCTGATTTTCAGGGGTTTCATGATGATTATCTCCAAAGAATTTTTAAAGGAAGCTA
64 GAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAAGAAAGCTA
52794 AGCCTAATTCTTT-GGGGTTCCTTGATGAC-ACATAGAAACA--AAAGATTTTAA-ATAACTAAG
129 AGCCTAATT-TTTAGGGGTTCCTTGATGACAAC-T-GAAA-ATGAAAGATTTTAAGA-AACTAAG
* * * ** *
52854 -TTGTATTTTCAAGGATTTTTTAATGAGTAAGTGTTTCGGGCCATCAGTAAGTCTTTCGAGAATG
189 CTTG-ATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
*
52918 ATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTTGAGCAA
253 ATGCTTAAATCCTTC-GGTCATCTATAAGTCTTTCGAGCAA
* * * * * * * * * *
52959 GATGATAATTCCATCGAGCAATCTATAAGACCTTCAGGCAAGATATCTTT-AAATGAGATTTTAG
1 GATGGTAAGTCCTTCGAACCATCCATAAGACCTTCGGGCAGGATGT-TTTCAAATGAGTTTTTAG
* * * *
53023 AAACTAAGCCTGATATTTAAGGGTTTC-T--TGATTATTTCCAAAGAAATTTTAAATGAAA-CTA
65 AAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAA-GAAAGCTA
* * * * *
53084 AGCCAAAATTTTAGTGGTTCCTTAATGACAACTGAAAACGAAAGATTTTAAGAAACTAAGCTTGA
129 AGCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGA
* * *
53149 TTTTCAAGGGTTTTCTTGATTAGTAAATCCTTTGGGCCATC----AG----T--A--A--A--C-
194 TTTTCAAGGG-TTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCT
*
53197 -----CCTTCGAGTCATCTATAAGTCTTTCTAGCAA
258 TAAATCCTTCG-GTCATCTATAAGTCTTTCGAGCAA
* * * * *
53228 GATGGTAAGTCCTTCAGATA--ATCCATAAGACCTTTGGGAAAGATGTTTTCCAATGATTTTTTA
1 GATGGTAAGTCCTTC-GA-ACCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTA
* * *
53291 GAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATCATCTCCAAAGAATTTTTAATGAAAGCTA
64 GAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAAGAAAGCTA
* * *
53356 AGCCTAATTTTTAGGGGTTCCTTGATGATAACAGAAAATGAAAGATTTTAGGAAACTAAGCTTGA
129 AGCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGA
**** * * *
53421 TTTTCAAGGGTTTCTTGATGAGTAAGTCCTAATAGCCATCAGTAACTCTATCGATCATGATGCTT
194 TTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTT
* * *
53486 AAATCTTTCGGGTTATCTATAAGTCTTTCGAGTAA
259 AAATCCTTC-GGTCATCTATAAGTCTTTCGAGCAA
* * *** ** *
53521 GTTGGTAAGTTCTTCCTTCCATTTATAGGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGA
1 GATGGTAAGTCCTTCGAACCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGA
* * * * * *
53586 AACTAAGCATGATTTTTAGGGGTTTCTTGATTATTATCTCCAAATATTTTTTAAAGGAAGCCAAG
66 AACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAAGAAAGCTAAG
* * * * * *
53651 CCTAATTTTTAGGGGCTCCTTGATGACAATTGAAAACGAAATATTTTAAAAAACTAAACTTGATT
131 CCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATT
* * *
53716 TTCAAGGGTTTCTAGATGAGTAAGTCCTTCAGGCCATCA-AAAGTCTTTCGAGCATGATGCTTAA
196 TTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
* * *
53780 ATCCTTCGGGTCATCAATAAGTCTTTCAAGTAA
261 ATCCTTC-GGTCATCTATAAGTCTTTCGAGCAA
* *
53813 GAT-GTAAGTCCTTCGGACCATCCGTAAGACCTTCGGGC---ATG---T----TG-G-TTTTAGA
1 GATGGTAAGTCCTTCGAACCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGA
* * * *
53865 AACTAAACCTGATTTTCAGGGGTTTCTTAATGATTATCTCCAAAGAATTTTTAAAGGAAGCTAAG
66 AACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAAGAAAGCTAAG
* * * *
53930 TCTAATTTTTAGCGATTCC-TGATGACAACTGAAAATGAAAGATTTTAAGAAACTATGCTTGATT
131 CCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATT
* * * *
53994 TTCAAGAGTTTCTTGGTGAGTAAGTTCTTCGGGCCATCAGCAAGTCTTTCGAGCATGATGCTTAA
196 TTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
* * *
54059 ATCCTTCAGGTCATCTATAACTCTTTTGAGAAA
261 ATCCTTC-GGTCATCTATAAGTCTTTCGAGCAA
* * *
54092 GATGGTAAGTCCTTCGGACCATCTATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTTGA
1 GATGGTAAGTCCTTCGAACCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGA
* ** * *
54157 AATTAAGCCCAATTTTTAGAGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAATAAAAGCTAA
66 AACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAA-GAAAGCTAA
* * *
54222 GCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAATATTTTAAGAATCTAAACTTGAT
130 GCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGA-
* * * ** * *
54287 TTTTCAAGGGTTTCTTGATGACTAAGTTCTTCGGGCCATCAGAAACACTTTTGAGCATGATGTTT
194 TTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTT
* ** * *
54352 AAATCCTTCTGGTCATCTATATGTCTTTTAACCTA
259 AAATCCTTC-GGTCATCTATAAGTCTTTCGAGCAA
** * ** * * * *
54387 GATAATAAGTCCATCGGGCCATCCATAAGACCTTCGGGTAAGATGTTTTCAAATTAGTTTCTAGA
1 GATGGTAAGTCCTTCGAACCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGA
* * * * *
54452 AAGTACGCCTGATTTTTAGGGGTTTCTTGAAGATTATCTCC-AAGGATTTATAAAG-AAGCTAAG
66 AACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAAGAAAGCTAAG
* *
54515 CCTAGTTTTTAGGGGTTCCTTGATGACAACTGAAAATTAAAGATTTTAAGAAACTAAGCTTGATT
131 CCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATT
* * * *
54580 TTCAAAGGTTTCTTTATGAGTAAGTCCATCGGGCCGTCAGTAAGTCTTTCG
196 TTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCG
54631 TGCAAGTTTG
Statistics
Matches: 2391, Mismatches: 353, Indels: 187
0.82 0.12 0.06
Matches are distributed among these distances:
268 4 0.00
269 95 0.04
270 3 0.00
271 28 0.01
272 91 0.04
275 2 0.00
277 1 0.00
278 73 0.03
279 135 0.06
280 34 0.01
281 4 0.00
283 5 0.00
285 2 0.00
286 1 0.00
287 3 0.00
288 4 0.00
289 24 0.01
290 364 0.15
291 521 0.22
292 409 0.17
293 354 0.15
294 59 0.02
295 175 0.07
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (292 bp):
GATGGTAAGTCCTTCGAACCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGA
AACTAAGCCTGATTTTTAGGGGTTTCTTGATGATTATCTCCAAAGAATTTTTAAAGAAAGCTAAG
CCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATT
TTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
ATCCTTCGGTCATCTATAAGTCTTTCGAGCAA
Found at i:53415 original size:58 final size:55
Alignment explanation
Indices: 53286--53441 Score: 152
Period size: 58 Copynumber: 2.7 Consensus size: 55
53276 TCCAATGATT
* * * *
53286 TTTTAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATCATCTCCAAAGAAT
1 TTTTAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATCAACACAAAAGAAA
* *
53341 TTTTAATGAAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGAT-AACAGAAAATGAAAGA
1 TTTT-A-GAAA-CTAAGCCTAATTTTTAGGGGTTTCTTGATGATCAACACAAAA-G-AA-A
* * * *
53401 TTTTAGGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGA
1 TTTTA-GAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGA
53442 GTAAGTCCTA
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
55 4 0.05
56 1 0.01
57 9 0.11
58 58 0.70
59 7 0.08
60 4 0.05
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (55 bp):
TTTTAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATCAACACAAAAGAAA
Found at i:53736 original size:293 final size:293
Alignment explanation
Indices: 53192--54630 Score: 1701
Period size: 293 Copynumber: 5.0 Consensus size: 293
53182 GGGCCATCAG
* * * * * **
53192 TAAACCCTTCGAGTCATCTATAAGTCTTTCTAGCAAGATGGTAAGTCCTTCAGATAATCCATAAG
1 TAAATCCTTCGGGTCATCTATAAGTCTTTCAAGTAAGATGGTAAGTCCTTCGGACCATCCATAAG
* * * * * *
53257 ACCTTTGGGAAAGATGTTTTCCAATGATTTTTTAGAAACTAAGCCTAATTTTTAGGGGTTTCTTG
66 ACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
* * * *
53322 ATGATCATCTCCAAAGAATTTTTAATGAAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGATAA
131 ATGATTATCTCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAA
* * *
53387 CAGAAAATGAAAGATTTTAGGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTA
196 CTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTT
** * * *
53452 ATAGCCATCAGTAACTCTATCGATCATGATGCT
261 CGAGCCATCAGAAACTCTTTCGAGCATGATGCT
* * * * * *** ** *
53485 TAAATCTTTCGGGTTATCTATAAGTCTTTCGAGTAAGTTGGTAAGTTCTTCCTTCCATTTATAGG
1 TAAATCCTTCGGGTCATCTATAAGTCTTTCAAGTAAGATGGTAAGTCCTTCGGACCATCCATAAG
*
53550 ACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCATGATTTTTAGGGGTTTCTTG
66 ACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
* * * * *
53615 ATTATTATCTCCAAATATTTTTTAAAGGAAGCCAAGCCTAATTTTTAGGGGCTCCTTGATGACAA
131 ATGATTATCTCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAA
* * * * * *
53680 TTGAAAACGAAATATTTTAAAAAACTAAACTTGATTTTCAAGGGTTTCTAGATGAGTAAGTCCTT
196 CTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTT
*
53745 C-AGGCCATCA-AAAGTCTTTCGAGCATGATGCT
261 CGA-GCCATCAGAAACTCTTTCGAGCATGATGCT
* *
53777 TAAATCCTTCGGGTCATCAATAAGTCTTTCAAGTAAGAT-GTAAGTCCTTCGGACCATCCGTAAG
1 TAAATCCTTCGGGTCATCTATAAGTCTTTCAAGTAAGATGGTAAGTCCTTCGGACCATCCATAAG
* * *
53841 ACCTTCGGGC---ATG---T----TG-G-TTTTAGAAACTAAACCTGATTTTCAGGGGTTTCTTA
66 ACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
* * *
53894 ATGATTATCTCCAAAGAATTTTTAAAGGAAGCTAAGTCTAATTTTTAGCGATTCC-TGATGACAA
131 ATGATTATCTCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAA
* * * *
53958 CTGAAAATGAAAGATTTTAAGAAACTATGCTTGATTTTCAAGAGTTTCTTGGTGAGTAAGTTCTT
196 CTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTT
* * *
54023 CGGGCCATCAGCAAGTCTTTCGAGCATGATGCT
261 CGAGCCATCAGAAACTCTTTCGAGCATGATGCT
* * ** * *
54056 TAAATCCTTCAGGTCATCTATAACTCTTTTGAGAAAGATGGTAAGTCCTTCGGACCATCTATAAG
1 TAAATCCTTCGGGTCATCTATAAGTCTTTCAAGTAAGATGGTAAGTCCTTCGGACCATCCATAAG
* * ** *
54121 ACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTTGAAATTAAGCCCAATTTTTAGAGGTTTCTTG
66 ACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
**
54186 ATGATTATCTCCAAAGAATTTTTAAATAAAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACA
131 ATGATTATCTCCAAAGAATTTTTAAA-GGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACA
* * * * *
54251 ACTGAAAATGAAATATTTTAAGAATCTAAACTTGATTTTTCAAGGGTTTCTTGATGACTAAGTTC
195 ACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGA-TTTTCAAGGGTTTCTTGATGAGTAAGTCC
* * * *
54316 TTCGGGCCATCAGAAACACTTTTGAGCATGATGTT
259 TTCGAGCCATCAGAAACTCTTTCGAGCATGATGCT
* * * * ** * *
54351 TAAATCCTTCTGGTCATCTATATGTCTTTTAACCT-AGATAATAAGTCCATCGGGCCATCCATAA
1 TAAATCCTTCGGGTCATCTATAAGTCTTTCAA-GTAAGATGGTAAGTCCTTCGGACCATCCATAA
* * * * * *
54415 GACCTTCGGGTAAGATGTTTTCAAATTAGTTTCTAGAAAGTACGCCTGATTTTTAGGGGTTTCTT
65 GACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTT
* * * *
54480 GAAGATTATCTCC-AAGGATTTATAAA-GAAGCTAAGCCTAGTTTTTAGGGGTTCCTTGATGACA
130 GATGATTATCTCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACA
* * * *
54543 ACTGAAAATTAAAGATTTTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTTATGAGTAAGTCCA
195 ACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCT
* * * *
54608 TCGGGCCGTCAGTAAGTCTTTCG
260 TCGAGCCATCAGAAACTCTTTCG
54631 TGCAAGTTTG
Statistics
Matches: 970, Mismatches: 156, Indels: 42
0.83 0.13 0.04
Matches are distributed among these distances:
278 72 0.07
279 133 0.14
280 34 0.04
281 2 0.00
283 3 0.00
285 1 0.00
286 1 0.00
288 3 0.00
290 2 0.00
291 71 0.07
292 173 0.18
293 250 0.26
294 50 0.05
295 175 0.18
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (293 bp):
TAAATCCTTCGGGTCATCTATAAGTCTTTCAAGTAAGATGGTAAGTCCTTCGGACCATCCATAAG
ACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTTAGGGGTTTCTTG
ATGATTATCTCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAA
CTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTT
CGAGCCATCAGAAACTCTTTCGAGCATGATGCT
Found at i:55149 original size:293 final size:292
Alignment explanation
Indices: 54641--57590 Score: 2845
Period size: 292 Copynumber: 10.1 Consensus size: 292
54631 TGCAAGTTTG
* * * * * * * *
54641 TAAGTTCTTCGGGCCATCCATAAAACTTTCGGTCATGATGTTTCCAAATGAGTTTTTAGAAAATA
1 TAAGTCCTTC-GGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGATTTTTTAGAAACTA
* * * * ** * *
54706 AGCTTGATTTTCAGGGGTTTCTT-AATGATTATCTCCCAATATTTTTTAAAGGGAGTTAAACCTA
65 AGCCTGATTTTCAGGGGTTTCTTGAA-GATTATCTCCAAAGAATTTTTAAAGAAAGCTAAGCCTA
* *
54770 AGTTTTT-GGGGTTCCTTGATGACAACTG-AAACGAAAGATTTTAAGATACTAAGCTTGATTTTC
129 A-TTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTTC
* * * *
54833 AAGGGATTCTTGATGACTAAGTCCTTCAGGCCATCAGAAAGTCTTTCGAGCAAGATGCTTAAATC
193 AAGGGTTTCTTGATGAGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATC
* * * * **
54898 CTTTGGATCATATAAAAGTCTTTTGAATAAGATGA
258 CTTCGGGTCATCTATAAGTCTTTTGAGCAAGATGA
* * * * *
54933 TAAGTCCTTCTGCCAATCCATAAGACCTTCTGGCAAGATGTTTTTAAATGATTTTTTGGAAACTA
1 TAAGTCCTTCGGCC-ATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGATTTTTTAGAAACTA
* * ** * * *
54998 AGCATGATTTTTAGGGGTTTCTTGAAGATTATCAACAAATAATTTTTTAAAGAAAGCTTAGCTTA
65 AGCCTGATTTTCAGGGGTTTCTTGAAGATTATCTCCAAAGAA-TTTTTAAAGAAAGCTAAGCCTA
* * * *
55063 ATTTTTAGGTGTTCCTTGATGACAATTGAAAATGAAAGATTTT-AGAAATTAAGCTTGATATTCA
129 ATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTTCA
*
55127 AGGGTTTCTTGATGAGTAAGTCCTTC-GGACCATCAG-ATAGTCTTTCAAGCATGATGCTTAAAT
194 AGGGTTTCTTGATGAGTAAGTCCTTCAGG-CCATCAGTA-AGTCTTTCGAGCATGATGCTTAAAT
*
55190 CCTTCGTGTCATCTATAAGTCTTTT-ACGCAAGATGA
257 CCTTCGGGTCATCTATAAGTCTTTTGA-GCAAGATGA
* * * * * * *
55226 TAAGTTCGTT-GTACCATCCGTAAGACCTTCGAGCAAGATGTTTTTAAATG-TGTTTTTAAAAAC
1 TAAG-TCCTTCG-GCCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAT-TTTTTAGAAAC
* * *
55289 TAAGCCTAATATTCAGGGGCTTCTTGATA-ATTATCTCCAAAGAATTTTTAAAGGAAA-CTAAGC
63 TAAGCCTGATTTTCAGGGGTTTCTTGA-AGATTATCTCCAAAGAATTTTTAAA-GAAAGCTAAGC
* * * * **
55352 CTAATTCTT-GGGATTCCCTGATGGCAACTGAAAATGAAATG-TTTTAAGAGTCTAAGCTTGATT
126 CTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAA-GATTTTAAGAAACTAAGCTTGATT
* *
55415 TTCAAGGGTTTCTTGATGAGTAAGTCCTTCAGGCCATCAATAAGTCTTTCAAGCATGATGCTTAA
190 TTCAAGGGTTTCTTGATGAGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
*
55480 ATCCTTCAGGTCATCTATAAGTCTTTT-ACGCAAGATGA
255 ATCCTTCGGGTCATCTATAAGTCTTTTGA-GCAAGATGA
* * * *
55518 TAAGTCCGTTGGGCCATCCATAAGACCTTCAGGCAAGATGTTTTCAAATG-TGCTTTTAGAAACT
1 TAAGTCC-TTCGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAT-TTTTTAGAAACT
* * * *
55582 AAGCCTAATATTCAGGGGTTTCTTGATA-ATTACCTCCAAAGAATTTTTAAAGTAAGCTAAGCCT
64 AAGCCTGATTTTCAGGGGTTTCTTGA-AGATTATCTCCAAAGAATTTTTAAAGAAAGCTAAGCCT
* * * * * *
55646 AAATTTTAGTGGTTCCAT-ATTGACAAATAAAAATGAAAGATTTTAAGAAACTATGCTTGATTTT
128 AATTTTTAGGGGTTCCTTGA-TGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTT
* * *
55710 CAAGGTTTTCTTGATGAGTAGGTCCTTC-GAGCCATCTGTAAGTCTTTCGAGCATGATGCTTAAA
192 CAAGGGTTTCTTGATGAGTAAGTCCTTCAG-GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
*
55774 TCCTTCGGGTCATCTAT--GTCTTTAGAGCAAGATGGA
256 TCCTTCGGGTCATCTATAAGTCTTTTGAGCAAGAT-GA
* * * ** *
55810 -AAGTCCTTCGGGCCAACTATAGGACCTTCGGGCAGGATGTTTTCAAATGGGTTTTTAAAAACTA
1 TAAGTCCTTC-GGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGATTTTTTAGAAACTA
* * * * * * *
55874 AGCCTGATTTCCAGGGGTTTCTTGAAGATCATCTCCAAATAGTTTTTAAAGGAATCTAAGACTAA
65 AGCCTGATTTTCAGGGGTTTCTTGAAGATTATCTCCAAAGAATTTTTAAAGAAAGCTAAGCCTAA
* * *
55939 TTATTAGGGGTTCCTTGATGAAAACTGAAAACGAAAGATTTTAAGAAACTAAGCTTGATTTTCAA
130 TTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTTCAA
* * * * * *
56004 GGGTTTATCGATGAGTAAGTCCTTTTA-GCCATTAGTAAGTCATTCGAACATGATGCTTAAATCC
195 GGGTTTCTTGATGAGTAAGTCC-TTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
* * * *
56068 TTCGGGTCATCTATTAGTCTTTAGATCAAGATGG
259 TTCGGGTCATCTATAAGTCTTTTGAGCAAGATGA
* * * * * * *
56102 TAAGTCCATCGG-GATAACTATAGGACATTCGGGTAGGATGTTTTCAAATG-TGGTTTTA-AAAC
1 TAAGTCCTTCGGCCAT--CCATAAGACCTTCGGGCAGGATGTTTTCAAATGAT-TTTTTAGAAAC
* * * * *
56164 TAAGCCTGATTTTCAGGGGTTTCATGATGATTATCTCTAAAGAATTTTTAAAGGAAG-TAAAACC
63 TAAGCCTGATTTTCAGGGGTTTCTTGAAGATTATCTCCAAAGAATTTTTAAAGAAAGCT-AAGCC
* * *
56228 TAATTTTTAGGGGTTCCTTGATGTCAATTGAAAATGAAAGATTTTAA-AAACTAAGCTTTATTTT
127 TAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTT
** * * *
56292 CAAGATTTTCTTGATGAGTAAG----T-A-ACCATTAGTAAGTCTTTCAAGCATGATGCTTAAAT
192 CAAGGGTTTCTTGATGAGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAT
** * *
56351 CCTTCGCATCATCTATAAGTCTTTCGAGCAAGATGG
257 CCTTCGGGTCATCTATAAGTCTTTTGAGCAAGATGA
* * *
56387 TAAGTCCTTCAGACCATCCATAAGTCCATT-GGGTAGGATGTTTT----T-A------A-AAACT
1 TAAGTCCTTC-GGCCATCCATAAGACC-TTCGGGCAGGATGTTTTCAAATGATTTTTTAGAAACT
* * * *
56439 AAGCCTGATTTTTAGGGGTTT-TTTAATGATTATCTTCAAA-AAGTTTTAAAGGAAA-CTAAGCC
64 AAGCCTGATTTTCAGGGGTTTCTTGAA-GATTATCTCCAAAGAATTTTTAAA-GAAAGCTAAGCC
* * * *
56501 TAATTTTTAGGGGTTCATTGATGACAACTTG-AGATGAAAAATTTT-AGAAATTAAGCTTGATTT
127 TAATTTTTAGGGGTTCCTTGATGACAAC-TGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTT
* * * *
56564 TCAAGGGTCTCTTGATGAGTAAGTCATT-TGGACCATCTGTAAGTCTTTCGAGCATGATGCTTAA
191 TCAAGGGTTTCTTGATGAGTAAGTCCTTCAGG-CCATCAGTAAGTCTTTCGAGCATGATGCTTAA
* ** *
56628 ATCTTTCGGGTCATCTATAAGTCTTCCGAGCAAAAT-A
255 ATCCTTCGGGTCATCTATAAGTCTTTTGAGCAAGATGA
* * * * ** * * *
56665 GTAAGTACTTCGAACCATCTAAAAGAAATTCGGGCGGGATGTTTTCAAATAAGTTTTTAGAAACT
1 -TAAGTCCTTCG-GCCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGATTTTTTAGAAACT
* * * * *
56730 ATGCCTGATTTTCAAGGGTTTCTTGATGATTATATCCAAAGAATTTTTAAAGGAAA-CTAGGCCT
64 AAGCCTGATTTTCAGGGGTTTCTTGAAGATTATCTCCAAAGAATTTTTAAA-GAAAGCTAAGCCT
* * **
56794 AATTCTT-GGGGTTTCCTT-ATGACAACTGGAAATGAAATG-TTTTAAGAGTCTAAGCTTGATTT
128 AATTTTTAGGGG-TTCCTTGATGACAACTGAAAATGAAA-GATTTTAAGAAACTAAGCTTGATTT
* * * * * *
56856 TGAAGGTTTTCTTGATGACTAAGTCATTCGGGTCATCAGTAAGTCTTTCAAGCACTTTCAAGCAT
191 TCAAGGGTTTCTTGATGAGTAAGTCCTTCAGGCCATCAGTAAGTCTTTC--G--------AGCAT
56921 GATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTT-ACGCAAGATGA
246 GATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTTGA-GCAAGATGA
* * * *
56968 TAAGTCCGTTGGGCCATCCATAAGACCTTCAGGAAAGATGTATTT-AAATG-TGTTTTTAGAAAC
1 TAAGTCC-TTCGGCCATCCATAAGACCTTCGGGCAGGATGT-TTTCAAATGAT-TTTTTAGAAAC
* * ** * *
57031 TAAGCCTAATATTCAGGGGTTTCTTGTTGATTATCTCCAAAGAACTTTTAAAGCAAGCTAAGCCT
63 TAAGCCTGATTTTCAGGGGTTTCTTGAAGATTATCTCCAAAGAATTTTTAAAGAAAGCTAAGCCT
* * * *
57096 AAATTTTAGTGGTTCCTT-ATTGACAACTGAAAACGAAAGATTTTAATAAACTAAGCTTGATTTT
128 AATTTTTAGGGGTTCCTTGA-TGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTT
* ** ** * * *
57160 CAAGGTTTTCTTGATGAGTAAGTTATTTGGGCTATTAGTAAGTCTTTCAAGCATGATGCTTAAAT
192 CAAGGGTTTCTTGATGAGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAAT
*
57225 CCTTCGGGTCA--TATATGTCTTTAT-AGCAAGATGGA
257 CCTTCGGGTCATCTATAAGTCTTT-TGAGCAAGAT-GA
* * * * * *
57260 -AAGTCCTTCGGCCAACTATAGGACCTT--GGCAGGA--TTTGCAAATGAGTTTTTAAAAACTAA
1 TAAGTCCTTCGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGATTTTTTAGAAACTAA
* * * * * * * *
57320 GCCTGATTTTTAGGGGTTTCTTGAAGATCAACTCAAAATAATTTTTAAAGGAATCTAAGACTAAT
66 GCCTGATTTTCAGGGGTTTCTTGAAGATTATCTCCAAAGAATTTTTAAAGAAAGCTAAGCCTAAT
* * *
57385 TTTTAGGGGATCCTTGATGACAACTAAAAACGAAAGATTTTAAGAAACTAAGCTTGATTTTCAAG
131 TTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTTCAAG
* * * *
57450 GGTTTTTTGATGAGTAAGTCCTTTTA-GCCATTAGTAAGTCTTTCGAACATGATGCTTAAATCCT
196 GGTTTCTTGATGAGTAAGTCC-TTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCT
* * * *
57514 TCGCGTCATCTATAAGTCTTTCGAGCAAAATGG
260 TCGGGTCATCTATAAGTCTTTTGAGCAAGATGA
* * * *
57547 TAAGTTCTTCGGACCATCCATAAGTCCTTTGGGTAGGATGTTTT
1 TAAGTCCTTCGG-CCATCCATAAGACCTTCGGGCAGGATGTTTT
57591 TAGAAACTAA
Statistics
Matches: 2214, Mismatches: 334, Indels: 219
0.80 0.12 0.08
Matches are distributed among these distances:
272 1 0.00
273 86 0.04
274 43 0.02
277 1 0.00
278 3 0.00
279 91 0.04
281 1 0.00
283 1 0.00
284 1 0.00
285 94 0.04
286 192 0.09
287 7 0.00
288 32 0.01
289 12 0.01
290 23 0.01
291 395 0.18
292 537 0.24
293 431 0.19
294 21 0.01
301 4 0.00
302 150 0.07
303 88 0.04
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (292 bp):
TAAGTCCTTCGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGATTTTTTAGAAACTAA
GCCTGATTTTCAGGGGTTTCTTGAAGATTATCTCCAAAGAATTTTTAAAGAAAGCTAAGCCTAAT
TTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAAGAAACTAAGCTTGATTTTCAAG
GGTTTCTTGATGAGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
CGGGTCATCTATAAGTCTTTTGAGCAAGATGA
Found at i:56410 original size:41 final size:42
Alignment explanation
Indices: 56324--56412 Score: 101
Period size: 41 Copynumber: 2.1 Consensus size: 42
56314 TAACCATTAG
* * * *
56324 TAAGTCTTTCAAGCATGATGCTTAAATCCTTCGCATCATCTA
1 TAAGTCTTTCAAGCAAGATGCGTAAATCCTTCGCACCATCCA
* *
56366 TAAGTCTTTCGAGCAAGATG-GTAAGTCCTTCAG-ACCATCCA
1 TAAGTCTTTCAAGCAAGATGCGTAAATCCTTC-GCACCATCCA
56407 TAAGTC
1 TAAGTC
56413 CATTGGGTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 21 0.52
42 19 0.47
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
TAAGTCTTTCAAGCAAGATGCGTAAATCCTTCGCACCATCCA
Found at i:57445 original size:58 final size:55
Alignment explanation
Indices: 57307--57445 Score: 120
Period size: 58 Copynumber: 2.4 Consensus size: 55
57297 GCAAATGAGT
* * * * *
57307 TTTTAA-AAACTAAGCCTGATTTTTAGGGGTTTCTTGAAGATCAACTCAAAATAAT
1 TTTTAAGAAACTAAG-CTGATTTTTAGGGGATCCTTGAAGATCAACTAAAAAAAAA
* * *
57362 TTTTAAAGGAATCTAAGACTAATTTTTAGGGGATCCTTGATGA-CAACTAAAAACGAAAGA
1 TTTT-AA-GAAACTAAG-CTGATTTTTAGGGGATCCTTGAAGATCAACTAAAAA--AAA-A
57422 TTTTAAGAAACTAAGCTTGATTTT
1 TTTTAAGAAACTAAGC-TGATTTT
57446 CAAGGGTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
55 4 0.06
56 2 0.03
57 10 0.15
58 42 0.64
59 4 0.06
60 4 0.06
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (55 bp):
TTTTAAGAAACTAAGCTGATTTTTAGGGGATCCTTGAAGATCAACTAAAAAAAAA
Found at i:57812 original size:247 final size:248
Alignment explanation
Indices: 57363--57817 Score: 664
Period size: 247 Copynumber: 1.8 Consensus size: 248
57353 CAAAATAATT
* *
57363 TTTAAAGGAATCTAAGACTAATTTTTAGGGGATCCTTGATGACAACTAAAAACGAAAGATTTTAA
1 TTTAAAGGAAACTAAGACAAATTTTTAGGGGATCCTTGATGACAACTAAAAACGAAAGATTTTAA
* * * * *
57428 GAAACTAAGCTTGATTTTCAAGGGTTTTTTGATGAGTAAGTCCTTTTAGCCATTAGTAAGTCTTT
66 GAAACTAAGCTTGATTTTCAAGAGTTTCTTGATCAGTAAGTCCTTTGAGCCATCAGTAAGTCTTT
* *
57493 CGAACATGATGCTTAAATCCTTCGCGTCATCTATAAGTCTTTCGAGCAAAATGGTAAGTTCTTCG
131 CGAACATGATGATTAAATCATTCGCGTCATCTATAAGTCTTTCGAGCAAAATGGTAAGTTCTTCG
*
57558 GACCATCCATAAGTCCTTTGGGTAGGATGTTTTTAGAAACTAAGCAAAGAATA
196 AACCATCCATAAGTCCTTTGGGTAGGATGTTTTTAGAAACTAAGCAAAGAATA
* * * *
57611 TTTAAAGGAAACTAAGCCAAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGAAAGATTTTAA
1 TTTAAAGGAAACTAAGACAAATTTTTAGGGGATCCTTGATGACAACTAAAAACGAAAGATTTTAA
* * * *
57676 GAAACTAA-CTTGATTTTTAAGAGTTTCTTGATCCGTAAGTTCTTTGGGCCATCAGTAAGTCTTT
66 GAAACTAAGCTTGATTTTCAAGAGTTTCTTGATCAGTAAGTCCTTTGAGCCATCAGTAAGTCTTT
** * *
57740 CGCGCATGATGATTAAATCATAT-GGGTCATCTATAAGTCTTTCGAGCAAGATGGTAAGTGT-TT
131 CGAACATGATGATTAAATCAT-TCGCGTCATCTATAAGTCTTTCGAGCAAAATGGTAAGT-TCTT
*
57803 CTAACCATCCATAAG
194 CGAACCATCCATAAG
57818 ACTTTCGGAC
Statistics
Matches: 182, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
247 113 0.62
248 69 0.38
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (248 bp):
TTTAAAGGAAACTAAGACAAATTTTTAGGGGATCCTTGATGACAACTAAAAACGAAAGATTTTAA
GAAACTAAGCTTGATTTTCAAGAGTTTCTTGATCAGTAAGTCCTTTGAGCCATCAGTAAGTCTTT
CGAACATGATGATTAAATCATTCGCGTCATCTATAAGTCTTTCGAGCAAAATGGTAAGTTCTTCG
AACCATCCATAAGTCCTTTGGGTAGGATGTTTTTAGAAACTAAGCAAAGAATA
Found at i:58080 original size:539 final size:534
Alignment explanation
Indices: 57068--58080 Score: 1296
Period size: 539 Copynumber: 1.9 Consensus size: 534
57058 TGATTATCTC
* *
57068 CAAAGAACTTTTAAAGCAAGCTAAGCCTAAATTTTAGTGGTTCCTTATTGACAACTGAAAACGAA
1 CAAAGAACTTTTAAAGCAAACTAAGCCTAAATTTTAGGGGTTCCTTATTGACAACTGAAAACGAA
* * * *
57133 AGATTTTAATAAACTAAGCTTGATTTTCAAGGTTTTCTTGATGAGTAAGTTATTTGGGCTATTAG
66 AGATTTTAAGAAACTAAGCTTGATTTTCAAGGTTTTCTTGATCAGTAAGTTATTTGGGCCATCAG
* * * *
57198 TAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATATATGTCTTTATAGCAAGATGGAAAG
131 TAAGTCTTTCAAGCATGATGATTAAATCATTCGGGTCATATAAGTCTTTAGAGCAAGATGGAAAG
** * * *
57263 TCCTTCGGCCAACTATAGGACCTTGGCAGGATTTGCAAATGAGTTTTTAAAAACTAAGCCTGATT
196 TCCTTCAACCAACCATAAGACCTTGGCAGGATTTGCAAATGAGTCTTTAAAAACTAAGCCTGATT
*
57328 TTTAGGGGTTTCTTGAAGATCAACTCAAAATAATTTTTAAAGGAATCTAAGACTAATTTTTAGGG
261 TTTAGGGGTTTCTTGAAGATCAACTCAAAAGAATTTTTAAAGGAATCTAAGACTAATTTTTAGGG
* * * *
57393 GATCCTTGATGACAACTAAAAACGAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTTTT
326 GATCCTTGATGAAAACTAAAAACAAAAGATTTTAAGAAACTAAGCTTGATTTTCAAAGGTTTTCT
* *
57458 GATGAGTAAGTCCTTTTAGCCATTAGTAAGTCTTTCGAACATGATGCTTAAATCCTTCGCGTCAT
391 GATGAGTAAGTCCTTTCAGCCATCAGTAAGTCTTTCGAACATGATGCTTAAATCCTTCGCGTCAT
57523 CTATAAGTCTTTCGAGCAAAATGGTAAGTTCTTCGGACCATCCATAAGTCCTTTGGGTAGGATGT
456 CTATAAGTCTTTCGAGCAAAATGGTAAGTTCTTCGGACCATCCATAAGTCCTTTGGGTAGGATGT
57588 TTTTAGAAACTAAG
521 TTTTAGAAACTAAG
* *
57602 CAAAGAA-TATTTAAAGGAAACTAAGCC-AAATTTTTAGGGGTTCCTTGA-TGACAACTGAAAAT
1 CAAAGAACT-TTTAAAGCAAACTAAGCCTAAA-TTTTAGGGGTTCCTT-ATTGACAACTGAAAAC
* * *
57664 GAAAGATTTTAAGAAACTAA-CTTGATTTTTAAGAG-TTTCTTGATCCGTAAGTTCTTTGGGCCA
63 GAAAGATTTTAAGAAACTAAGCTTGATTTTCAAG-GTTTTCTTGATCAGTAAGTTATTTGGGCCA
** *
57727 TCAGTAAGTCTTTCGCGCATGATGATTAAATCATAT-GGGTCATCTATAAGTCTTTCGAGCAAGA
127 TCAGTAAGTCTTTCAAGCATGATGATTAAATCAT-TCGGGTCA--TATAAGTCTTTAGAGCAAGA
* ** * * *
57791 TGGTAAGTGTTTCTAACCATCCATAAGACTTTCGGACAAGAAGATTT-CAAATGAG-CTTTAGAA
189 TGGAAAGTCCTTC-AACCAACCATAAGACCTT-GG-C-AG--GATTTGCAAATGAGTCTTTAAAA
** * *** * *
57854 ACTATTCCAT-ATTTTTAGGGGTTTCTTGATGATTGTCTCCAAAGAATTTTTAAATGAAGTC-AA
248 ACTAAGCC-TGATTTTTAGGGGTTTCTTGAAGATCAACTCAAAAGAATTTTTAAAGGAA-TCTAA
* * * *
57917 -ACCTAATTTTTAGGGGTTCCTTGATGAAAACTAAAAAATAAAAGATTTTAAGAAGCTAAGTTTG
311 GA-CTAATTTTTAGGGGATCCTTGATGAAAACT-AAAAACAAAAGATTTTAAGAAACTAAGCTTG
* ** *
57981 ATTTTCAAAGG-TTTCTGATGAGTAATTCC-TTCAGGCCATCAGTAAGTCTTTCGAGGATGGTGC
374 ATTTTCAAAGGTTTTCTGATGAGTAAGTCCTTTCA-GCCATCAGTAAGTCTTTCGAACATGATGC
*
58044 TTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
438 TTAAATCCTTCGCGTCATCTATAAGTCTTTCGAGCAA
58081 GATAATAAGT
Statistics
Matches: 408, Mismatches: 53, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
533 75 0.18
534 71 0.17
535 28 0.07
536 12 0.03
537 2 0.00
538 5 0.01
539 162 0.40
540 48 0.12
541 5 0.01
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (534 bp):
CAAAGAACTTTTAAAGCAAACTAAGCCTAAATTTTAGGGGTTCCTTATTGACAACTGAAAACGAA
AGATTTTAAGAAACTAAGCTTGATTTTCAAGGTTTTCTTGATCAGTAAGTTATTTGGGCCATCAG
TAAGTCTTTCAAGCATGATGATTAAATCATTCGGGTCATATAAGTCTTTAGAGCAAGATGGAAAG
TCCTTCAACCAACCATAAGACCTTGGCAGGATTTGCAAATGAGTCTTTAAAAACTAAGCCTGATT
TTTAGGGGTTTCTTGAAGATCAACTCAAAAGAATTTTTAAAGGAATCTAAGACTAATTTTTAGGG
GATCCTTGATGAAAACTAAAAACAAAAGATTTTAAGAAACTAAGCTTGATTTTCAAAGGTTTTCT
GATGAGTAAGTCCTTTCAGCCATCAGTAAGTCTTTCGAACATGATGCTTAAATCCTTCGCGTCAT
CTATAAGTCTTTCGAGCAAAATGGTAAGTTCTTCGGACCATCCATAAGTCCTTTGGGTAGGATGT
TTTTAGAAACTAAG
Found at i:58133 original size:292 final size:291
Alignment explanation
Indices: 57602--58969 Score: 1328
Period size: 292 Copynumber: 4.7 Consensus size: 291
57592 AGAAACTAAG
* * *
57602 CAAAGAATATTT-AAAGGAAACTAAGCCAAATTTTTAGGGGTTCCTTGATGACAACTGAAAATGA
1 CAAAGAAT-TTTAAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATAA
* ** *
57666 AAGATTTTAAGAAACTAA-CTTGATTTT-TAAGAGTTTCTTGATCCGTAAGTT-CTTTGGGCCAT
65 AAGATTTTAAGAAACTAAGCTTGATTTTCAAAG-GTTTCTTGATGAGTAA-TTCCTTCGGGCCAT
* * *
57728 CAGTAAGTCTTTCGCGCATGATGATTAAATCATAT-GGGTCATCTATAAGTCTTTCGAGCAAGAT
128 CAGTAAGTCTTTCGAGCATGATGCTTAAATCCT-TCGGGTCATCTATAAGTCTTTCGAGCAAGAT
** ** * * * * * *
57792 GGTAAGTGTTTCTAACCATCCATAAGACTTTCGGACAAGAAGATTTCAAATGAG-CTTTAGAAAC
192 AATAAGTCATTC-AACCATCCATAAGACCTTCGG-GAACATGTTTTCAAATGAGTTTTTAGAAAC
* *
57856 TATTCCAT-ATTTTTAGGGGTTTCTTGATGATTGTCTC
255 TATTCC-TGATTTTTAGGGGTTTCTTGATGATTATCTA
* * * * *
57893 CAAAGAATTTTTAAATGAAG-TCAAACCTAATTTTTAGGGGTTCCTTGATGAAAACTAAAAAATA
1 CAAAGAATTTTAAAAGGAAGCT-AAGCCTAATTTTTAGGGGTTCCTTGATGACAACT-GAAAATA
* * *
57957 AAAGATTTTAAGAAGCTAAGTTTGATTTTCAAAGGTTTC-TGATGAGTAATTCCTTCAGGCCATC
64 AAAGATTTTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAATTCCTTCGGGCCATC
* *
58021 AGTAAGTCTTTCGAGGATGGTGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATAA
129 AGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATAA
* * *
58086 TAAGTCATTCAGGCAATCCATAAGACCTTCGGGTAACATGTTTTCAAATTAGTTTTTTA-AAACT
194 TAAGTCATTCA-ACCATCCATAAGACCTTCGGG-AACATGTTTTCAAATGAG-TTTTTAGAAACT
* * *
58150 ATTCCTGGTTTTTAGGAGTTTCTTAATGATTATCT-
256 ATTCCTGATTTTTAGGGGTTTCTTGATGATTATCTA
** *
58185 CTCCAGAATTTTAAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTCGATGACAA-TGAAAATGA
1 C-AAAGAATTTTAAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAAT-A
* * *
58249 AAA-ATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTGCTTCGGGCCATC
64 AAAGATTTTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAATTCCTTCGGGCCATC
* ** * * *
58313 AATAAGTCTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTTTAAGTCTTTCGAGTAAGATGA
129 AGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATAA
** * * * * *
58378 TAAGTCATTCGGGCCATACATAAGACCTTCAGGCAGATGTTTTCAAATGAGTTTTTAGAAACTAA
194 TAAGTCATTC-AACCATCCATAAGACCTTCGGGAACATGTTTTCAAATGAGTTTTTAGAAACTAT
* * * *
58443 GCCTGATTTTCAGGGGTTTCTTGATAATTATTTA
258 TCCTGATTTTTAGGGGTTTCTTGATGATTATCTA
* * * * * *
58477 TAAAGAATTTTAAAAGGAAGCTAAGCCTAGTTTTTAAGGGTTTCTTGATGACAATTGAAAATGAA
1 CAAAGAATTTTAAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATAAA
* * *
58542 AGGTTTTAATAAACTAAGCTTGATTTTCAATGGTTTCTTGACGACTAAGTCCTTCAGGCCATCAA
66 AGATTTTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTT---GA-T--G------A-G---T-AA
** * ** *
58607 TAAGTCCTTCAAGCCATCAGTAAGTCTTTCGAGCAAGATTATTAAATCCTTCGGGTCATCTATCA
114 T---TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
* * * * *
58672 GTCTTTAGAGCAAGATAGTAAGTCCTTTCAACCATCCATATGATCTTC-GG-ACATG-------A
176 GTCTTTCGAGCAAGATAATAAGT-CATTCAACCATCCATAAGACCTTCGGGAACATGTTTTCAAA
* ** * *
58728 T--GTTTTTGGAAACTAAGCATGATTTTTAAGGGTTTCTTGATGATTATCTA
240 TGAGTTTTTAGAAACTATTCCTGATTTTTAGGGGTTTCTTGATGATTATCTA
* * *
58778 GAAAGAATATTT-AAAGGAAACTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAAACA
1 CAAAGAAT-TTTAAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTG-AAAATA
* * * * * *
58842 AAAGATTTTAAAAAACTAAACTTGATTTTCAACGATTTTTTGATGAGTAAGTCCTTCGGGCCATC
64 AAAGATTTTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAATTCCTTCGGGCCATC
* * * *
58907 AGTATGTCTTTCGAGCATGATGCTTAAATCTTTCGGGTCATTTTTAAGTCTTTCGAGCAAGAT
129 AGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGAT
58970 GGTAAG
Statistics
Matches: 894, Mismatches: 139, Indels: 97
0.79 0.12 0.09
Matches are distributed among these distances:
282 66 0.07
285 2 0.00
286 1 0.00
289 1 0.00
290 11 0.01
291 183 0.20
292 291 0.33
293 91 0.10
294 8 0.01
295 2 0.00
296 2 0.00
298 2 0.00
299 2 0.00
301 90 0.10
302 42 0.05
303 2 0.00
304 1 0.00
305 1 0.00
308 1 0.00
309 2 0.00
310 4 0.00
311 2 0.00
312 83 0.09
313 4 0.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (291 bp):
CAAAGAATTTTAAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACTGAAAATAAA
AGATTTTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAATTCCTTCGGGCCATCAG
TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATAATA
AGTCATTCAACCATCCATAAGACCTTCGGGAACATGTTTTCAAATGAGTTTTTAGAAACTATTCC
TGATTTTTAGGGGTTTCTTGATGATTATCTA
Found at i:58612 original size:20 final size:20
Alignment explanation
Indices: 58587--58632 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
58577 TCTTGACGAC
*
58587 TAAGTCCTTCAGGCCATCAA
1 TAAGTCCTTCAAGCCATCAA
*
58607 TAAGTCCTTCAAGCCATCAG
1 TAAGTCCTTCAAGCCATCAA
58627 TAAGTC
1 TAAGTC
58633 TTTCGAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (20 bp):
TAAGTCCTTCAAGCCATCAA
Done.