Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008208.1 Hibiscus syriacus cultivar Beakdansim tig00110830_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: 2533913
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:2425 original size:13 final size:13
Alignment explanation
Indices: 2382--2431 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
2372 TTGGAAGTAT
2382 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
2395 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
2409 TTAAGTATTTCAA
1 TTAAGTATTTCAA
2422 TTAAGTATTT
1 TTAAGTATTT
2432 GATTTATCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 3 0.10
13 17 0.57
14 7 0.23
15 3 0.10
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:2836 original size:15 final size:15
Alignment explanation
Indices: 2816--2862 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
2806 ATTAAAATCA
*
2816 GTTTTTTTATAACCG
1 GTTTTTTTAAAACCG
*
2831 GTTTTTTAAAAAAACCG
1 GTTTTTT--TAAAACCG
2848 GTTTTTTTAAAACCG
1 GTTTTTTTAAAACCG
2863 AAACCGGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 14 0.52
17 13 0.48
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (15 bp):
GTTTTTTTAAAACCG
Found at i:2871 original size:21 final size:18
Alignment explanation
Indices: 2826--2859 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2816 GTTTTTTTAT
2826 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
2843 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
2860 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:2979 original size:15 final size:17
Alignment explanation
Indices: 2953--2984 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2943 TTCTATGAGA
2953 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
2969 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
2985 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:15174 original size:27 final size:29
Alignment explanation
Indices: 15141--15208 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 29
15131 TACAAAACCG
*
15141 ATAAAAATATAATATTACA-AAATT-A-TA
1 ATAAAAATATAATAATA-AGAAATTAATTA
15168 ATAAAAATAT-ATAATAAGAAATTAATTA
1 ATAAAAATATAATAATAAGAAATTAATTA
15196 A-AAAAATATAATA
1 ATAAAAATATAATA
15209 GAGTTTGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
25 1 0.03
26 10 0.28
27 19 0.53
28 6 0.17
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (29 bp):
ATAAAAATATAATAATAAGAAATTAATTA
Found at i:15182 original size:13 final size:13
Alignment explanation
Indices: 15141--15208 Score: 61
Period size: 13 Copynumber: 5.2 Consensus size: 13
15131 TACAAAACCG
15141 ATAAAAATATAATA
1 ATAAAAATAT-ATA
*
15155 TTACAAAAT-TATA
1 ATA-AAAATATATA
15168 ATAAAAATATATA
1 ATAAAAATATATA
15181 ATAAGAAAT-TA-A
1 ATAA-AAATATATA
* *
15193 TTAAAAAAATATA
1 ATAAAAATATATA
15206 ATA
1 ATA
15209 GAGTTTGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
11 3 0.07
12 11 0.25
13 18 0.41
14 7 0.16
15 5 0.11
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (13 bp):
ATAAAAATATATA
Found at i:15204 original size:25 final size:26
Alignment explanation
Indices: 15160--15208 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
15150 TAATATTACA
*
15160 AAATTATAATAAAAATATATAATAAG
1 AAATTATAATAAAAAAATATAATAAG
*
15186 AAATTA-ATTAAAAAAATATAATA
1 AAATTATAATAAAAAAATATAATA
15209 GAGTTTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
AAATTATAATAAAAAAATATAATAAG
Found at i:15702 original size:43 final size:42
Alignment explanation
Indices: 15611--15703 Score: 98
Period size: 43 Copynumber: 2.2 Consensus size: 42
15601 ATTAGGATGG
**
15611 AGATATATCCCTCCGTAGAAGATCCCAATAAAAAACAAGATGT
1 AGATAT-TCCCTCCGTAGAAGATCCCAATAAAAAACAAGACAT
* * * *
15654 GGATATTGCCCTCCGTAGAGGTTCCC-ATGCAAAAACAAGACAT
1 AGATATT-CCCTCCGTAGAAGATCCCAAT-AAAAAACAAGACAT
15697 AGATATT
1 AGATATT
15704 ACCTTTCATA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
42 3 0.07
43 38 0.93
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.23
Consensus pattern (42 bp):
AGATATTCCCTCCGTAGAAGATCCCAATAAAAAACAAGACAT
Found at i:17799 original size:25 final size:26
Alignment explanation
Indices: 17748--17802 Score: 78
Period size: 25 Copynumber: 2.1 Consensus size: 26
17738 TGCATGCAAC
17748 ACAAAAACACAAACAAAAAAACTTAAA
1 ACAAAAACAC-AACAAAAAAACTTAAA
17775 ACAAAAACAC-ACAAAATAAAC-TAAA
1 ACAAAAACACAACAAAA-AAACTTAAA
17800 ACA
1 ACA
17803 TGAGAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 13 0.48
26 4 0.15
27 10 0.37
ACGTcount: A:0.73, C:0.20, G:0.00, T:0.07
Consensus pattern (26 bp):
ACAAAAACACAACAAAAAAACTTAAA
Found at i:22883 original size:15 final size:15
Alignment explanation
Indices: 22859--22888 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22849 ATTAAGCTTC
22859 CTGTGATGCTATAAT
1 CTGTGATGCTATAAT
*
22874 CTGTGTTGCTATAAT
1 CTGTGATGCTATAAT
22889 GACTGACAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.43
Consensus pattern (15 bp):
CTGTGATGCTATAAT
Found at i:26359 original size:54 final size:54
Alignment explanation
Indices: 26000--26384 Score: 518
Period size: 54 Copynumber: 7.1 Consensus size: 54
25990 TTACCAAATA
* * * *
26000 GGCACAAAGTGTGCAATTCACGGAATTCATCATATATTGATGGATAACCGTTTT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
26054 GGCACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
26108 GGCACTAAGTGTGCAATTCACGGAATTCATCATATATTGATGAATAATCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
26162 GCCACTAAGTGTGCAATTAACGGAATTCGTTATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
26216 GGCACTAAGTGTGTAATCCACGGAATTCATCATATATTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
26270 GGCACTAAGTGTGCAATTCACGGAATTTATCATATGTTGATGAATAACCGTTTT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* ** *** * * * * *
26324 GGCACTATGTGTGCAAACCATAAAATTCATAATATGTTTATGAATGACCGTATG
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
26378 GGCACTA
1 GGCACTA
26385 CGGGTGTATT
Statistics
Matches: 293, Mismatches: 38, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 293 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:28098 original size:109 final size:108
Alignment explanation
Indices: 27848--28125 Score: 387
Period size: 109 Copynumber: 2.6 Consensus size: 108
27838 TTACCAAATA
* ** * *
27848 GGCACTAAGTATGCAATTCACAGAATTCATCATATGTTGATGCATAACCGTTTCGACACTAAGTG
1 GGCACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
* *
27913 TGCAATTCACGGAATTCATCATATGTTGATGAATAACTGTTTC
66 TGCAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTC
* * * * *
27956 AGTACTAA-TCGCGCAATTCATGAAATTCATCATATGCTGATGAATAACCGTTTCGGCACTAAGT
1 GGCACTAAGT-GTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGT
* *
28020 GTGCAATTCACATAAATTCATCATATGTTGATGAATAACCGTTTT
65 GTGCAATTCAC-GAAATTCATCATATGTTGATGAATAACCGTTTC
* *
28065 GGCACTAAGTGTGTAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTTGGCACTA
1 GGCACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTA
28126 TGTACGCAAA
Statistics
Matches: 146, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
107 1 0.01
108 63 0.43
109 81 0.55
110 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (108 bp):
GGCACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTG
TGCAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:28118 original size:54 final size:54
Alignment explanation
Indices: 27848--28125 Score: 371
Period size: 54 Copynumber: 5.1 Consensus size: 54
27838 TTACCAAATA
* ** *
27848 GGCACTAAGTATGCAATTCACAGAATTCATCATATGTTGATGCATAACCGTTTC
1 GGCACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
27902 GACACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACTGTTTC
1 GGCACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * * *
27956 AGTACTAA-TCGCGCAATTCATGAAATTCATCATATGCTGATGAATAACCGTTTC
1 GGCACTAAGT-GTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
28010 GGCACTAAGTGTGCAATTCACAT-AAATTCATCATATGTTGATGAATAACCGTTTT
1 GGCACTAAGTGTGCAATT--CATGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
28065 GGCACTAAGTGTGTAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTT
1 GGCACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTC
28119 GGCACTA
1 GGCACTA
28126 TGTACGCAAA
Statistics
Matches: 199, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
53 4 0.02
54 144 0.72
55 48 0.24
56 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:34155 original size:20 final size:20
Alignment explanation
Indices: 34130--34179 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
34120 GATGCAATCA
*
34130 GTATCGATACTAAGA-TAAGG
1 GTATCGATACTAAGAGGAA-G
*
34150 GTATCGATACTACGAGGAAG
1 GTATCGATACTAAGAGGAAG
34170 GTATCGATAC
1 GTATCGATAC
34180 CATTGATCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (20 bp):
GTATCGATACTAAGAGGAAG
Found at i:34651 original size:54 final size:54
Alignment explanation
Indices: 34580--34846 Score: 399
Period size: 54 Copynumber: 4.9 Consensus size: 54
34570 TTACCAAATA
34580 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
34634 GACACCAAGTGTTCAATTAACGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
*
34688 GGCACTAAGTGTGCAATTCATGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* *
34742 GGCACTAAGTGTGCAATTCACAGAATTCATCATATGTTGATGAATAACCGTTTT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* ** ** * * *
34796 GGCACTATGTGTGCAAACCACAAAATTCATAATATGTTTATGAATGACCGT
1 GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGT
34847 ATGGGCATTA
Statistics
Matches: 194, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 194 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:34681 original size:27 final size:27
Alignment explanation
Indices: 34599--34681 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
34589 TGTGCAATTC
34599 ACGGAATTCATCATATGTTGATGAATA
1 ACGGAATTCATCATATGTTGATGAATA
* * * * * *
34626 ACCG-TTTCGA-CACCAAG-TGTTCAATTA
1 ACGGAATTC-ATCA-TATGTTGATGAA-TA
34653 ACGGAATTCATCATATGTTGATGAATA
1 ACGGAATTCATCATATGTTGATGAATA
34680 AC
1 AC
34682 CGTTTCGGCA
Statistics
Matches: 38, Mismatches: 12, Indels: 12
0.61 0.19 0.19
Matches are distributed among these distances:
26 10 0.26
27 18 0.47
28 10 0.26
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (27 bp):
ACGGAATTCATCATATGTTGATGAATA
Found at i:40590 original size:26 final size:26
Alignment explanation
Indices: 40561--40619 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
40551 ATAAGAAATG
40561 GTCATTTAGACTTATAAGGTGATTTA
1 GTCATTTAGACTTATAAGGTGATTTA
40587 GTCATTTAGACTTATAAGGTGATTTA
1 GTCATTTAGACTTATAAGGTGATTTA
40613 GTCATTT
1 GTCATTT
40620 CAGTCCCACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (26 bp):
GTCATTTAGACTTATAAGGTGATTTA
Found at i:41347 original size:13 final size:13
Alignment explanation
Indices: 41329--41365 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
41319 AAATCTTTTT
41329 ACTTCATTCTCCC
1 ACTTCATTCTCCC
41342 ACTTCATTCTCCC
1 ACTTCATTCTCCC
41355 ACTTCATTCTC
1 ACTTCATTCTC
41366 ATATTCAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.43, G:0.00, T:0.41
Consensus pattern (13 bp):
ACTTCATTCTCCC
Found at i:43355 original size:46 final size:46
Alignment explanation
Indices: 43299--43394 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
43289 TGAATGGTAC
* *
43299 AATTAAATTCCAATCCCTCCTATTTATGTTTTATTTCAAATAGTTA
1 AATTAAATTCCAACCCCTCCTATTTACGTTTTATTTCAAATAGTTA
* *
43345 AATTACATTCCAACCCCTCCTATTTACGTTTTATTTCAAATGGTTA
1 AATTAAATTCCAACCCCTCCTATTTACGTTTTATTTCAAATAGTTA
43391 AATT
1 AATT
43395 GCATAAAACC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.31, C:0.20, G:0.05, T:0.44
Consensus pattern (46 bp):
AATTAAATTCCAACCCCTCCTATTTACGTTTTATTTCAAATAGTTA
Found at i:43408 original size:46 final size:46
Alignment explanation
Indices: 43313--43406 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 46
43303 AAATTCCAAT
* **
43313 CCCTCCTATTTATGTTTTATTTCAAATAGTTAAATTACATTCCAAC
1 CCCTCCTATTTACGTTTTATTTCAAATAGTTAAATTACATTAAAAC
* *
43359 CCCTCCTATTTACGTTTTATTTCAAATGGTTAAATTGCA-TAAAAC
1 CCCTCCTATTTACGTTTTATTTCAAATAGTTAAATTACATTAAAAC
43404 CCC
1 CCC
43407 CTACAGTTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 7 0.16
46 36 0.84
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.40
Consensus pattern (46 bp):
CCCTCCTATTTACGTTTTATTTCAAATAGTTAAATTACATTAAAAC
Found at i:43704 original size:10 final size:10
Alignment explanation
Indices: 43679--43716 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
43669 ATGTTTTAGC
43679 ATTATTTTCAT
1 ATTATTTTC-T
43690 ATTATTTTCT
1 ATTATTTTCT
43700 ATTATTTGT-T
1 ATTATTT-TCT
43710 ATTATTT
1 ATTATTT
43717 ATCTTAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTATTTTCT
Found at i:45178 original size:14 final size:14
Alignment explanation
Indices: 45146--45198 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
45136 ATCTCATCCT
45146 ATTTCTCTTCTCTTC
1 ATTTCTCTTCT-TTC
45161 ATTTCTTCTTCTTT-
1 ATTTC-TCTTCTTTC
45175 ATTTCCTCTTCTTTC
1 ATTT-CTCTTCTTTC
45190 ATTTTCTCT
1 A-TTTCTCT
45199 AAGTAGCCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 12 0.35
15 13 0.38
16 9 0.26
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTCTCTTCTTTC
Found at i:46015 original size:16 final size:16
Alignment explanation
Indices: 45994--46026 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45984 GATTAAGCGT
45994 TGAATGATTCAAAGGC
1 TGAATGATTCAAAGGC
*
46010 TGAATGATTCAGAGGC
1 TGAATGATTCAAAGGC
46026 T
1 T
46027 CTGTATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (16 bp):
TGAATGATTCAAAGGC
Found at i:51814 original size:137 final size:137
Alignment explanation
Indices: 51590--51842 Score: 312
Period size: 137 Copynumber: 1.8 Consensus size: 137
51580 CATATATACA
* * * * * * *
51590 TATTTGGATAATTTGGAGACAGCCTATTTCCTTCTTGTTGAGTAAGCCTGATTATCTGAGGATGA
1 TATTTAGATAATTTGGAGACAACATAGTTCCTTCATGTTGAGGAAGCCTGATTATCTAAGGATGA
* * * *
51655 CACAGCTCCTCTGCGTTGAGGAGATTTAG-TCGGTGGACT-ACATTGTTCCTTTGTACTGAGGAC
66 CACAGATCCTCTGCATTGAGGAGATAT-GTTCCGTGGA-TGACATTGTTCCTTTGTACTGAGGAC
51718 GTCTAGCCG
129 GTCTAGCCG
* * *
51727 TATTTAGATAATTTGGAGACAACATAGTTCCTTCATGTTGAGGAAGTCTGATTGTCTAAGGGTGA
1 TATTTAGATAATTTGGAGACAACATAGTTCCTTCATGTTGAGGAAGCCTGATTATCTAAGGATGA
** * *
51792 CATTGATCCTTTGCATTTAGGAGATATGTTCCGTGGATGACATTGTTCCTT
66 CACAGATCCTCTGCATTGAGGAGATATGTTCCGTGGATGACATTGTTCCTT
51843 CTTGGTAAGG
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
136 2 0.02
137 94 0.98
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.36
Consensus pattern (137 bp):
TATTTAGATAATTTGGAGACAACATAGTTCCTTCATGTTGAGGAAGCCTGATTATCTAAGGATGA
CACAGATCCTCTGCATTGAGGAGATATGTTCCGTGGATGACATTGTTCCTTTGTACTGAGGACGT
CTAGCCG
Found at i:53956 original size:27 final size:27
Alignment explanation
Indices: 53903--53956 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
53893 TATTTTCAAA
**
53903 TTTTGAAAAAGATCAATTAAAGTTTTT
1 TTTTGAAAAAGATCAATTAAAAATTTT
* * *
53930 TTTTGAAAATGTTTAATTAAAAATTTT
1 TTTTGAAAAAGATCAATTAAAAATTTT
53957 GAAAAATAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (27 bp):
TTTTGAAAAAGATCAATTAAAAATTTT
Found at i:55440 original size:30 final size:30
Alignment explanation
Indices: 55359--55440 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
55349 TTATTTAGTG
*
55359 ACCAAATTATAAA-TTTGGAAAAGTTTGGTA
1 ACCAAAATATAAACTTT-GAAAAGTTTGGTA
*
55389 ACCAAAGTATAAACTTTGAAAAGTTTAGG-A
1 ACCAAAATATAAACTTTGAAAAGTTT-GGTA
* *
55419 ACTAAAATA-AAAGTTTAGAAAA
1 ACCAAAATATAAACTTT-GAAAA
55441 ATTACAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 6 0.13
30 34 0.76
31 5 0.11
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (30 bp):
ACCAAAATATAAACTTTGAAAAGTTTGGTA
Found at i:57508 original size:32 final size:33
Alignment explanation
Indices: 57442--57526 Score: 129
Period size: 32 Copynumber: 2.6 Consensus size: 33
57432 CGAAGTTTTA
*
57442 TGCATCTG-TACACTGTTCATGGTACTGTAGCAG
1 TGCATC-GATACACTGTTCACGGTACTGTAGCAG
*
57475 TGCATCGATACACTGTT-ACGGTATTGTAGCAG
1 TGCATCGATACACTGTTCACGGTACTGTAGCAG
57507 TGCATCGATACACTGTTCAC
1 TGCATCGATACACTGTTCAC
57527 TGTTCATTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
32 31 0.65
33 17 0.35
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (33 bp):
TGCATCGATACACTGTTCACGGTACTGTAGCAG
Found at i:59590 original size:49 final size:49
Alignment explanation
Indices: 59531--59954 Score: 523
Period size: 49 Copynumber: 8.6 Consensus size: 49
59521 AAATGCTCTA
* * * *
59531 TAATGAAAGTTAAATGCATAATGGTGTATTTTTGGTAGAAAAGTGTCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAAGTGCCAC
* *
59580 TAATGCAAGTTAAATGCATAAAGGTGCATTTTTGGCAGAAAAATGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAAGTGCCAC
* * * **
59629 TAATGCAAGTTAAAAGCATAACGGTGCATTTTTGGTAGAACGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAAGTGCCAC
* * *
59678 TAATGCAAGTTAAATGTATAAAGGTGCATTTTTGGCAGAAAAATGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAAGTGCCAC
* **
59727 TAATGCAAGTTAAAAGCATAATGGTGCATTTTTGGCAGAACGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAAGTGCCAC
* *
59776 TAATTCAAGTTAAATGCATAATGGTGCATTTTTGTCA-AAAAGGTGCCAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAA-GTGCCAC
* *
59825 TAATGCAAGTTAAATGCATAATGGTGCATTTTTTTTGCAGAAAAGTGTCAC
1 TAATGCAAGTTAAATGCATAATGGTGCA--TTTTTGGCAGAAAAGTGCCAC
* * * *
59876 TAATGCATGTTAAATGCATAACGATGCATTTTT-GCA-AAAAGGTGCAAC
1 TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAA-GTGCCAC
* **
59924 TAATG-ACAGTTAAATGTATAACAGTGCATTT
1 TAATGCA-AGTTAAATGCATAATGGTGCATTT
59955 CGACATAAAA
Statistics
Matches: 326, Mismatches: 43, Indels: 13
0.85 0.11 0.03
Matches are distributed among these distances:
47 5 0.02
48 35 0.11
49 244 0.75
51 38 0.12
52 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (49 bp):
TAATGCAAGTTAAATGCATAATGGTGCATTTTTGGCAGAAAAGTGCCAC
Found at i:64506 original size:14 final size:14
Alignment explanation
Indices: 64487--64542 Score: 62
Period size: 13 Copynumber: 4.1 Consensus size: 14
64477 AAAAATGTAA
* *
64487 AATAAAATATTATT
1 AATAAAATAATAAT
64501 AATAAAATAATAAT
1 AATAAAATAATAAT
*
64515 AAT-AAATGATAAT
1 AATAAAATAATAAT
*
64528 AAT-AAATAAAAAT
1 AATAAAATAATAAT
64541 AA
1 AA
64543 CTCGTAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
13 22 0.59
14 15 0.41
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:68978 original size:16 final size:16
Alignment explanation
Indices: 68948--68977 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
68938 TTCTTTTGTT
68948 TTTTTGAATTTTTTTA
1 TTTTTGAATTTTTTTA
68964 TTTTTG-ATTTTTTT
1 TTTTTGAATTTTTTT
68978 TCTAACCCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (16 bp):
TTTTTGAATTTTTTTA
Found at i:87242 original size:39 final size:39
Alignment explanation
Indices: 87143--87229 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 39
87133 ATAATTCTCA
87143 AATTATTT-CACTC-TAACATTCTAAATTCCTATTATCTT
1 AATTATTTCCAC-CATAACATTCTAAATTCCTATTATCTT
* *
87181 AATTTTTTCCACCATAACATTCTAAATTCTTCATT-TCTT
1 AATTATTTCCACCATAACATTCTAAATTCCT-ATTATCTT
87220 AAGTTATTTC
1 AA-TTATTTC
87230 AGATCAACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 8 0.19
39 25 0.60
40 9 0.21
ACGTcount: A:0.30, C:0.21, G:0.01, T:0.48
Consensus pattern (39 bp):
AATTATTTCCACCATAACATTCTAAATTCCTATTATCTT
Found at i:87408 original size:2 final size:2
Alignment explanation
Indices: 87401--87440 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
87391 TTTTAGAATC
*
87401 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87441 TAAAATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:89112 original size:28 final size:28
Alignment explanation
Indices: 89080--89142 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
89070 GGATCAATTT
*
89080 GTAAGTTGTTATAGTTGGGGACCAAATA
1 GTAAGTTGTTATAGTTGGGGACAAAATA
89108 GTAAGTTGTTATAGTTGGGGACAAAATA
1 GTAAGTTGTTATAGTTGGGGACAAAATA
*
89136 GCAAGTT
1 GTAAGTT
89143 ATATGAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
GTAAGTTGTTATAGTTGGGGACAAAATA
Found at i:92669 original size:28 final size:28
Alignment explanation
Indices: 92627--92683 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
92617 AATAAATCAT
*
92627 ATCGATGTTCAATTATGGATTGAAGCAC
1 ATCGATGCTCAATTATGGATTGAAGCAC
* **
92655 ATCGATGCTCGATTATTTATTGAAGCAC
1 ATCGATGCTCAATTATGGATTGAAGCAC
92683 A
1 A
92684 GAGGTACCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (28 bp):
ATCGATGCTCAATTATGGATTGAAGCAC
Found at i:95992 original size:47 final size:45
Alignment explanation
Indices: 95898--96023 Score: 184
Period size: 47 Copynumber: 2.8 Consensus size: 45
95888 GTAAGCATAT
* *
95898 AAATAAGCTTACGAGCTTTTGGAAT-AATGGCAAGTATATGAGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGAGTA
*
95942 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTG-GTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTA-TATGAGTA
95989 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
96024 GGATTTTATA
Statistics
Matches: 75, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
44 23 0.31
45 11 0.15
46 1 0.01
47 37 0.49
48 3 0.04
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGAGTA
Found at i:103641 original size:47 final size:45
Alignment explanation
Indices: 103547--103672 Score: 191
Period size: 47 Copynumber: 2.8 Consensus size: 45
103537 GTAAGCATAT
* *
103547 AAATAAGCTTACGAGCTTTTGGAAT-AATGGCAAGTATATGAGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGAGTA
* *
103591 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTAGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGAGTA
103638 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
103673 GGATTTTATA
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
44 23 0.31
45 11 0.15
46 1 0.01
47 40 0.53
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGAGTA
Found at i:110030 original size:29 final size:29
Alignment explanation
Indices: 109997--110052 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
109987 AGTTAAGCAA
*
109997 GATTAGTTAATAAATTGAAATTGTTAGTC
1 GATTAGTTAAGAAATTGAAATTGTTAGTC
* **
110026 GATTAGTTAGGAGGTTGAAATTGTTAG
1 GATTAGTTAAGAAATTGAAATTGTTAG
110053 CAGAGTAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (29 bp):
GATTAGTTAAGAAATTGAAATTGTTAGTC
Found at i:113808 original size:24 final size:24
Alignment explanation
Indices: 113779--113829 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
113769 CAAGATACAT
113779 TCACTAATGC-TTAAGCTATTAATC
1 TCACTAATGCTTTAAGC-ATTAATC
*
113803 TCACTATTGCTTTTAAGCATTAATC
1 TCACTAATGC-TTTAAGCATTAATC
113828 TC
1 TC
113830 GCTATTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 9 0.38
25 9 0.38
26 6 0.25
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (24 bp):
TCACTAATGCTTTAAGCATTAATC
Found at i:113834 original size:25 final size:26
Alignment explanation
Indices: 113789--113841 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
113779 TCACTAATGC
113789 TTAAGCTATTAATCTCACTATTGCTT
1 TTAAGCTATTAATCTCACTATTGCTT
* *
113815 TTAAGC-ATTAATCTCGCTATTGTTT
1 TTAAGCTATTAATCTCACTATTGCTT
113840 TT
1 TT
113842 CTCTTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (26 bp):
TTAAGCTATTAATCTCACTATTGCTT
Found at i:119693 original size:48 final size:48
Alignment explanation
Indices: 119616--119713 Score: 135
Period size: 48 Copynumber: 2.0 Consensus size: 48
119606 TGACCAGGAC
* *
119616 AAGTTAATGATGTTGAAGATGCTACTCAACCA-AATGCATAAGTTTGTG
1 AAGTTAATGATGTTGAAGATGCTACTCAA-CATAATGCACAAGTTCGTG
* **
119664 AAGTTAATGATGTTGAAGATGTTGTTCAACATAATGCACAAGTTCGTG
1 AAGTTAATGATGTTGAAGATGCTACTCAACATAATGCACAAGTTCGTG
119712 AA
1 AA
119714 ATGTGTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
47 2 0.05
48 42 0.95
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (48 bp):
AAGTTAATGATGTTGAAGATGCTACTCAACATAATGCACAAGTTCGTG
Found at i:122691 original size:17 final size:18
Alignment explanation
Indices: 122660--122693 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
122650 CTTGGATTCT
122660 TCTAGCTTCACTAGTTTG
1 TCTAGCTTCACTAGTTTG
*
122678 TCTAG-TTCATTAGTTT
1 TCTAGCTTCACTAGTTT
122694 TATTATTCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (18 bp):
TCTAGCTTCACTAGTTTG
Found at i:135307 original size:18 final size:18
Alignment explanation
Indices: 135284--135329 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
135274 ATTCATGGAT
135284 TTAGTTCATTGAATAACG
1 TTAGTTCATTGAATAACG
*
135302 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAACG
*
135320 TTATTTCATT
1 TTAGTTCATT
135330 AATGCATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAACG
Found at i:138964 original size:18 final size:18
Alignment explanation
Indices: 138920--138965 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
138910 ATTCATGCAT
*
138920 TTAGTTCAGTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
138938 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
138956 TTATTTCATT
1 TTAGTTCATT
138966 AATCAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.46
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:142489 original size:17 final size:17
Alignment explanation
Indices: 142464--142503 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
142454 GTATGTTGTT
*
142464 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
142481 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
142498 CATTTA
1 CATTTA
142504 GGGAAGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:142582 original size:18 final size:18
Alignment explanation
Indices: 142559--142610 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
142549 ATTCATGCAT
142559 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
142577 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
142595 TTATTTCATT-AATAAA
1 TTAGTTCATTGAATAAA
142611 ACAAACTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:146147 original size:17 final size:17
Alignment explanation
Indices: 146122--146161 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
146112 GTATATTGTT
*
146122 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
146139 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
146156 CATTTA
1 CATTTA
146162 GGGAAGTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:146260 original size:18 final size:18
Alignment explanation
Indices: 146215--146262 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
146205 TCATTCATGC
146215 ATTTAGTTCATTGAATAA
1 ATTTAGTTCATTGAATAA
*
146233 AGTTAGTTCATTGAATAA
1 ATTTAGTTCATTGAATAA
* *
146251 TTTTATTTCATT
1 ATTTAGTTCATT
146263 AATCAAACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.50
Consensus pattern (18 bp):
ATTTAGTTCATTGAATAA
Found at i:160064 original size:13 final size:13
Alignment explanation
Indices: 160048--160084 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
160038 CAAAACCTAA
160048 CATCCCATTCATC
1 CATCCCATTCATC
160061 CATCCCATTCATC
1 CATCCCATTCATC
* *
160074 AATCCAATTCA
1 CATCCCATTCA
160085 AGGATGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.41, G:0.00, T:0.30
Consensus pattern (13 bp):
CATCCCATTCATC
Found at i:160092 original size:101 final size:99
Alignment explanation
Indices: 159980--160265 Score: 405
Period size: 101 Copynumber: 3.0 Consensus size: 99
159970 TCAATCAACT
* *
159980 TTCAAGCATGGAAATTATTCAACAACATTAACTACATCATAATCCAACCTTAAAACATCAAAACC
1 TTCAAGGATGGAAATTATTCAACAACATTAACTACATCATAATCCAACCTTAAAACATCAAAACA
*
160045 TAACATCCCATTCATCCATCCCATTCATCAATCCAA
66 TAACATCCC-TTCATCCATCCCATTCAGC-ATCCAA
160081 TTCAAGGATGGAAATTATTCAACAACATTAACTACATCATAATCCAACCTTAAAACATCAAAACA
1 TTCAAGGATGGAAATTATTCAACAACATTAACTACATCATAATCCAACCTTAAAACATCAAAACA
160146 TAACATCCC--C-T---T--CA-T--GCATCCAA
66 TAACATCCCTTCATCCATCCCATTCAGCATCCAA
* *
160169 TTCAAGGATGGAAATTATTCAACAACATTAACTACATCATAATCCAACCTTGAAACAACAAAACA
1 TTCAAGGATGGAAATTATTCAACAACATTAACTACATCATAATCCAACCTTAAAACATCAAAACA
*
160234 TAACATCCCCTTCATCCATCCAATTCAAGCAT
66 TAACAT-CCCTTCATCCATCCCATTC-AGCAT
160266 GGAAAGCATG
Statistics
Matches: 166, Mismatches: 6, Indels: 26
0.84 0.03 0.13
Matches are distributed among these distances:
88 75 0.45
89 4 0.02
91 2 0.01
92 3 0.02
94 1 0.01
95 1 0.01
97 2 0.01
98 2 0.01
101 76 0.46
ACGTcount: A:0.42, C:0.28, G:0.05, T:0.25
Consensus pattern (99 bp):
TTCAAGGATGGAAATTATTCAACAACATTAACTACATCATAATCCAACCTTAAAACATCAAAACA
TAACATCCCTTCATCCATCCCATTCAGCATCCAA
Found at i:160125 original size:47 final size:48
Alignment explanation
Indices: 160069--160215 Score: 113
Period size: 47 Copynumber: 3.2 Consensus size: 48
160059 TCCATCCCAT
160069 TCATCAATCCAATTCAAGGATGGAAATTATTCAACAACATTAACTACA
1 TCATCAATCCAATTCAAGGATGGAAATTATTCAACAACATTAACTACA
* * ** * *
160117 TCAT-AATCCAA--C----CT-TAAAACA-TCAA-AACA-TAACATCCCCT
1 TCATCAATCCAATTCAAGGATGGAAATTATTCAACAACATTAAC-T--ACA
160157 TCATGC-ATCCAATTCAAGGATGGAAATTATTCAACAACATTAACTACA
1 TCAT-CAATCCAATTCAAGGATGGAAATTATTCAACAACATTAACTACA
160205 TCAT-AATCCAA
1 TCATCAATCCAA
160216 CCTTGAAACA
Statistics
Matches: 71, Mismatches: 12, Indels: 33
0.61 0.10 0.28
Matches are distributed among these distances:
37 4 0.06
38 5 0.07
39 4 0.06
40 9 0.13
41 7 0.10
43 1 0.01
45 1 0.01
47 14 0.20
48 13 0.18
49 4 0.06
50 5 0.07
51 4 0.06
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (48 bp):
TCATCAATCCAATTCAAGGATGGAAATTATTCAACAACATTAACTACA
Found at i:160195 original size:88 final size:87
Alignment explanation
Indices: 160061--160270 Score: 357
Period size: 88 Copynumber: 2.4 Consensus size: 87
160051 CCCATTCATC
*
160061 CATCCCATTCATCAATCCAATTCAAGGATGGAAATTATTCAACAACATTAACTACATCATAATCC
1 CATCCCCTTCATC-ATCCAATTCAAGGATGGAAATTATTCAACAACATTAACTACATCATAATCC
*
160126 AACCTTAAAACATCAAAACATAA
65 AACCTTAAAACAACAAAACATAA
160149 CATCCCCTTCATGCATCCAATTCAAGGATGGAAATTATTCAACAACATTAACTACATCATAATCC
1 CATCCCCTTCAT-CATCCAATTCAAGGATGGAAATTATTCAACAACATTAACTACATCATAATCC
*
160214 AACCTTGAAACAACAAAACATAA
65 AACCTTAAAACAACAAAACATAA
*
160237 CATCCCCTTCATCCATCCAATTCAAGCATGGAAA
1 CATCCCCTTCAT-CATCCAATTCAAGGATGGAAA
160271 GCATGTACAA
Statistics
Matches: 116, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
88 115 0.99
89 1 0.01
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.24
Consensus pattern (87 bp):
CATCCCCTTCATCATCCAATTCAAGGATGGAAATTATTCAACAACATTAACTACATCATAATCCA
ACCTTAAAACAACAAAACATAA
Found at i:160329 original size:22 final size:22
Alignment explanation
Indices: 160301--160352 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
160291 ATGATAGAGA
*
160301 ATTTCATGTAGAATAATTTTAT
1 ATTTCATGGAGAATAATTTTAT
160323 ATTTCATGGAGAATAATTTTAT
1 ATTTCATGGAGAATAATTTTAT
160345 ATTTCATG
1 ATTTCATG
160353 CTTTAATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.48
Consensus pattern (22 bp):
ATTTCATGGAGAATAATTTTAT
Found at i:161557 original size:2 final size:2
Alignment explanation
Indices: 161550--161592 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
161540 AAAGATACAT
161550 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
161592 T
1 T
161593 GCAAGAATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:167871 original size:2 final size:2
Alignment explanation
Indices: 167860--167890 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
167850 CTGGAGGGAG
167860 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
167891 AAGAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:172187 original size:18 final size:18
Alignment explanation
Indices: 172164--172198 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
172154 CGGCCAAAAG
172164 CATGTACTTTCATTAAAT
1 CATGTACTTTCATTAAAT
* *
172182 CATGTATTTTTATTAAA
1 CATGTACTTTCATTAAA
172199 AAATCATGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (18 bp):
CATGTACTTTCATTAAAT
Found at i:172908 original size:14 final size:14
Alignment explanation
Indices: 172891--172923 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
172881 CAAGAACTCA
172891 AAAAGAAGAA-AAAG
1 AAAAGAA-AAGAAAG
172905 AAAAGAAAAGAAAG
1 AAAAGAAAAGAAAG
172919 AAAAG
1 AAAAG
172924 TTGAAAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:176210 original size:18 final size:19
Alignment explanation
Indices: 176187--176229 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
176177 AAGCGTATAC
176187 TTTCATT-AAATCATGTAT
1 TTTCATTAAAATCATGTAT
176205 TTTCATTAAAAATCATGTAT
1 TTTCATT-AAAATCATGTAT
176225 TTTCA
1 TTTCA
176230 AAGGGGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTCATTAAAATCATGTAT
Found at i:179186 original size:24 final size:23
Alignment explanation
Indices: 179159--179209 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
179149 TAAAGTCAAT
*
179159 AGGTCTGGTCAAACAGTTTGGGTC
1 AGGTCAGGT-AAACAGTTTGGGTC
* *
179183 AGGTCAGGTTAACGGTTTGGGTC
1 AGGTCAGGTAAACAGTTTGGGTC
179206 AGGT
1 AGGT
179210 TGGGTCGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.20, C:0.14, G:0.37, T:0.29
Consensus pattern (23 bp):
AGGTCAGGTAAACAGTTTGGGTC
Found at i:182382 original size:21 final size:20
Alignment explanation
Indices: 182353--182391 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
182343 TAAGGCATTA
*
182353 AACATCATAAACAAAACAAGC
1 AACAACATAAA-AAAACAAGC
*
182374 AACAACATATAAAAACAA
1 AACAACATAAAAAAACAA
182392 CCATCCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.67, C:0.21, G:0.03, T:0.10
Consensus pattern (20 bp):
AACAACATAAAAAAACAAGC
Found at i:183937 original size:12 final size:12
Alignment explanation
Indices: 183920--183944 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
183910 TAAGTCTTCA
183920 TTCTTCTTATTC
1 TTCTTCTTATTC
183932 TTCTTCTTATTC
1 TTCTTCTTATTC
183944 T
1 T
183945 CCTCATCCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTTCTTATTC
Found at i:187258 original size:70 final size:70
Alignment explanation
Indices: 187143--187275 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 70
187133 CTGCATATCT
* * * * ** *
187143 GGTTTAGCACTATAGTGTATATAAAGGACACTTAGTGCAGGTGGTGGGCGTGACCTTATGTGTCA
1 GGTTTAGCAATATAGTGTAAATAAAGGACAATTAATGCACATGGTGGGCATGACCTTATGTGTCA
187208 TATTC
66 TATTC
* *
187213 GGTTTAGCAATATAGTGTAAATAAAGGACAATTAATTCACATGGTGGGCATGATCTTATGTGT
1 GGTTTAGCAATATAGTGTAAATAAAGGACAATTAATGCACATGGTGGGCATGACCTTATGTGT
187276 ATTGACACTT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 54 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (70 bp):
GGTTTAGCAATATAGTGTAAATAAAGGACAATTAATGCACATGGTGGGCATGACCTTATGTGTCA
TATTC
Found at i:191199 original size:21 final size:21
Alignment explanation
Indices: 191154--191199 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
191144 CTAAAATGTT
* *
191154 ATTTAATCATTTTAAATCAAT
1 ATTTAATCATTTAAAATCAAA
*
191175 ATTTAATCATTTAAAATTAAA
1 ATTTAATCATTTAAAATCAAA
191196 ATTT
1 ATTT
191200 GATATATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTAATCATTTAAAATCAAA
Found at i:191989 original size:18 final size:18
Alignment explanation
Indices: 191966--192011 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
191956 GGTTGGTTTT
191966 GAAGCCTTAAGTGATATA
1 GAAGCCTTAAGTGATATA
191984 GAAGCCTTAAGTGATATA
1 GAAGCCTTAAGTGATATA
192002 GAAG-CTTAAG
1 GAAGCCTTAAG
192012 GAAAGCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 6 0.21
18 22 0.79
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (18 bp):
GAAGCCTTAAGTGATATA
Found at i:192532 original size:20 final size:20
Alignment explanation
Indices: 192502--192540 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
192492 TATCGATATT
192502 ATAATTGAAAAATGGATTTCC
1 ATAATTGAAAAATGG-TTTCC
192523 ATAA-TGAAAAATGGTTTC
1 ATAATTGAAAAATGGTTTC
192541 AATACTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
ATAATTGAAAAATGGTTTCC
Found at i:192549 original size:19 final size:20
Alignment explanation
Indices: 192502--192549 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
192492 TATCGATATT
*
192502 ATAATTGAAAAATGGATTTCC
1 ATAA-TGAAAAATGGATTTCA
192523 ATAATGAAAAATGG-TTTCA
1 ATAATGAAAAATGGATTTCA
*
192542 ATACTGAA
1 ATAATGAA
192550 TTGGGTATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.44
20 10 0.40
21 4 0.16
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (20 bp):
ATAATGAAAAATGGATTTCA
Found at i:193380 original size:143 final size:143
Alignment explanation
Indices: 193118--193394 Score: 491
Period size: 143 Copynumber: 1.9 Consensus size: 143
193108 GTGCATTTCA
* *
193118 ACATACTTTTTTTATGATGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATTA
1 ACATACTTTGTGTATGATGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATTA
* * *
193183 GTACTATATATACTTTTGGCACTATGTGTGCGTCCATGAAATTCATAATGAGTTTTTGAATTACC
66 GTACTATATATACTTTCGGCACTATGTGTGCATCCATGAAATTCATAATAAGTTTTTGAATTACC
193248 ATTTCGACACTAG
131 ATTTCGACACTAG
193261 ACATACTTTGTGTATGATGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATTA
1 ACATACTTTGTGTATGATGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATTA
* *
193326 GTAGTATATGTACTTTCGGCACTATGTGTGCATCCATGAAATTCATAATAAGTTTTTGAATTACC
66 GTACTATATATACTTTCGGCACTATGTGTGCATCCATGAAATTCATAATAAGTTTTTGAATTACC
193391 ATTT
131 ATTT
193395 TGGTATTATG
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
143 127 1.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (143 bp):
ACATACTTTGTGTATGATGGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATTA
GTACTATATATACTTTCGGCACTATGTGTGCATCCATGAAATTCATAATAAGTTTTTGAATTACC
ATTTCGACACTAG
Found at i:193467 original size:62 final size:62
Alignment explanation
Indices: 193360--193486 Score: 200
Period size: 62 Copynumber: 2.0 Consensus size: 62
193350 TGTGTGCATC
* * * * *
193360 CATGAAATTCATAATAAGTTTTTGAATTACCATTTTGGTATTATGTGTGCATCCATGGAATT
1 CATGAAATTCATAATAAGTTTGTGAATTACCATTTCGGCACTATGTGTGCATCCATGAAATT
*
193422 CATGGAATTCATAATAAGTTTGTGAATTACCATTTCGGCACTATGTGTGCATCCATGAAATT
1 CATGAAATTCATAATAAGTTTGTGAATTACCATTTCGGCACTATGTGTGCATCCATGAAATT
193484 CAT
1 CAT
193487 AATGAGTTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (62 bp):
CATGAAATTCATAATAAGTTTGTGAATTACCATTTCGGCACTATGTGTGCATCCATGAAATT
Found at i:195174 original size:7 final size:7
Alignment explanation
Indices: 195164--195189 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
195154 AAATTTTAAG
195164 CTGTTGA
1 CTGTTGA
195171 CTGTTGA
1 CTGTTGA
195178 CTGTTGA
1 CTGTTGA
195185 CTGTT
1 CTGTT
195190 TTCTTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.27, T:0.46
Consensus pattern (7 bp):
CTGTTGA
Found at i:198979 original size:9 final size:9
Alignment explanation
Indices: 198965--198992 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
198955 CATTCCATCA
198965 TAGTTAGGG
1 TAGTTAGGG
198974 TAGTTAGGG
1 TAGTTAGGG
198983 TAGTTAGGG
1 TAGTTAGGG
198992 T
1 T
198993 CACTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (9 bp):
TAGTTAGGG
Found at i:201131 original size:56 final size:56
Alignment explanation
Indices: 200997--201132 Score: 179
Period size: 56 Copynumber: 2.4 Consensus size: 56
200987 CTTTATATAT
*
200997 ATATATATATATATATATATATATATATATATATATTAAAGATATAAAATATTTTTA
1 ATATATATATAT-TATAGATATATATATATATATATTAAAGATATAAAATATTTTTA
* *
201054 ATATATATACT-TT-TAGCATATATATATATATAT-TATATATATATAAAATATTTTTA
1 ATATATATA-TATTATAG-ATATATATATATATATAT-TAAAGATATAAAATATTTTTA
*
201110 ATATATATATATTAAAGATATAT
1 ATATATATATATTATAGATATAT
201133 TAAAGAACAT
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
55 4 0.06
56 53 0.76
57 12 0.17
58 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (56 bp):
ATATATATATATTATAGATATATATATATATATATTAAAGATATAAAATATTTTTA
Found at i:201132 original size:2 final size:2
Alignment explanation
Indices: 200990--201121 Score: 107
Period size: 2 Copynumber: 68.5 Consensus size: 2
200980 TTATATACTT
200990 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
201032 T- TA AA GA TA TA -A AA TA TT TT TA -A TA TA TA TA CT- TT TA GCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * *
201072 TA TA TA TA TA TA TA T- TA TA TA TA TA TA -A AA TA TT TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
201111 TA TA TA TA TA T
1 TA TA TA TA TA T
201122 TAAAGATATA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
1 7 0.06
2 100 0.92
3 2 0.02
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:202245 original size:16 final size:17
Alignment explanation
Indices: 202214--202248 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
202204 TGGATTTTTC
*
202214 TAAAAAATTAATATAAA
1 TAAAAAATTAAAATAAA
202231 TAAAAAA-TAAAATAAA
1 TAAAAAATTAAAATAAA
202247 TA
1 TA
202249 TTAATCGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAATTAAAATAAA
Found at i:208874 original size:11 final size:11
Alignment explanation
Indices: 208858--208884 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
208848 TCCAGTTGGT
208858 TGATCGGTCCG
1 TGATCGGTCCG
208869 TGATCGGTCCG
1 TGATCGGTCCG
208880 TGATC
1 TGATC
208885 TATCCAGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.11, C:0.26, G:0.33, T:0.30
Consensus pattern (11 bp):
TGATCGGTCCG
Found at i:220363 original size:2 final size:2
Alignment explanation
Indices: 220346--220385 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
220336 TCATAATAAC
*
220346 TA TA GA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
220386 GAAAATAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:223306 original size:16 final size:17
Alignment explanation
Indices: 223287--223318 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
223277 TTTCCTGAAT
223287 TTTTC-TTCTTTTTGTC
1 TTTTCTTTCTTTTTGTC
223303 TTTTCTTTCTTTTTGT
1 TTTTCTTTCTTTTTGT
223319 ACTCCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTTCTTTCTTTTTGTC
Found at i:224921 original size:2 final size:2
Alignment explanation
Indices: 224904--224941 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
224894 TCATAATAAC
*
224904 TA TA GA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
224942 GAAAATAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:226076 original size:20 final size:20
Alignment explanation
Indices: 226051--226129 Score: 77
Period size: 20 Copynumber: 3.6 Consensus size: 20
226041 TTAAATTATG
226051 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
226071 GCATCCTTTCATGCATTTTAAATTAT
1 GCATCCTTTCATGC--CTT--A--AT
*
226097 GGCATCCTTTCATGCCTTATT
1 -GCATCCTTTCATGCCTTAAT
226118 GCATCCTTTCAT
1 GCATCCTTTCAT
226130 ACATTTTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
20 26 0.53
21 1 0.02
22 2 0.04
23 1 0.02
24 1 0.02
25 2 0.04
26 2 0.04
27 14 0.29
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.43
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:226088 original size:47 final size:47
Alignment explanation
Indices: 226035--226145 Score: 204
Period size: 47 Copynumber: 2.4 Consensus size: 47
226025 CCTCAATTTT
226035 TACATTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCA
1 TACATTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCA
* *
226082 TGCATTTTAAATTATGGCATCCTTTCATGCCTTATTGCATCCTTTCA
1 TACATTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCA
226129 TACATTTTAAATTATGG
1 TACATTTTAAATTATGG
226146 ATTCGATTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (47 bp):
TACATTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCA
Found at i:226109 original size:27 final size:27
Alignment explanation
Indices: 226071--226145 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
226061 ATGCCTTAAT
226071 GCATCCTTTCATGCATTTTAAATTATG
1 GCATCCTTTCATGCATTTTAAATTATG
*
226098 GCATCCTTTCATGC--CTT--A-T-T-
1 GCATCCTTTCATGCATTTTAAATTATG
*
226118 GCATCCTTTCATACATTTTAAATTATG
1 GCATCCTTTCATGCATTTTAAATTATG
226145 G
1 G
226146 ATTCGATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
20 13 0.34
21 1 0.03
22 3 0.08
23 1 0.03
24 1 0.03
25 3 0.08
26 1 0.03
27 15 0.39
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (27 bp):
GCATCCTTTCATGCATTTTAAATTATG
Found at i:226556 original size:22 final size:19
Alignment explanation
Indices: 226523--226576 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 19
226513 TACCCCTACC
226523 ATGGTATCGATACTACCATATT
1 ATGGTAT-GATAC-ACC-TATT
226545 ATGGTACTGATA-ACCTATT
1 ATGGTA-TGATACACCTATT
226564 ATGGTATTGATAC
1 ATGGTA-TGATAC
226577 CACTTTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 15 0.52
20 3 0.10
22 10 0.34
23 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (19 bp):
ATGGTATGATACACCTATT
Found at i:232165 original size:20 final size:20
Alignment explanation
Indices: 232140--232314 Score: 116
Period size: 20 Copynumber: 7.7 Consensus size: 20
232130 TAAAAGTATG
232140 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
232160 GCATCCTATCATGCATTTTAAATTAT
1 GCATCCTTTCATGC--CTT--A--AT
*
232186 AGCATCCTTTCCTGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
232207 GCATCCTTTCATGCATTTTAAATAAT
1 GCATCCTTTCATGC---CT---TAAT
232233 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
232254 GCATCCTTTCATGCATTTTAAATTAT
1 GCATCCTTTCATGC--CTT--A--AT
232280 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
232301 GCATCCTTTCATGC
1 GCATCCTTTCATGC
232315 ATTTTAAATT
Statistics
Matches: 124, Mismatches: 10, Indels: 42
0.70 0.06 0.24
Matches are distributed among these distances:
20 54 0.44
21 8 0.06
22 4 0.03
23 3 0.02
24 3 0.02
25 4 0.03
26 8 0.06
27 40 0.32
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:232176 original size:47 final size:47
Alignment explanation
Indices: 232124--232328 Score: 356
Period size: 47 Copynumber: 4.4 Consensus size: 47
232114 CCTCCATTTT
* * *
232124 TGCATTTAAAAGTATGGCATCCTTTCATGCCTTAATGCATCCTATCA
1 TGCATTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCA
* *
232171 TGCATTTTAAATTATAGCATCCTTTCCTGCCTTAATGCATCCTTTCA
1 TGCATTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCA
*
232218 TGCATTTTAAATAATGGCATCCTTTCATGCCTTAATGCATCCTTTCA
1 TGCATTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCA
232265 TGCATTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCA
1 TGCATTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCA
232312 TGCATTTTAAATTATGG
1 TGCATTTTAAATTATGG
232329 ATTTGATTTA
Statistics
Matches: 149, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 149 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.41
Consensus pattern (47 bp):
TGCATTTTAAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCA
Found at i:234821 original size:12 final size:12
Alignment explanation
Indices: 234804--234828 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
234794 AAACGATTTA
234804 TATTTAATTATT
1 TATTTAATTATT
234816 TATTTAATTATT
1 TATTTAATTATT
234828 T
1 T
234829 TATTCATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTAATTATT
Found at i:249386 original size:12 final size:13
Alignment explanation
Indices: 249369--249397 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
249359 CATTGACTGA
249369 AAAATA-TTAAAT
1 AAAATATTTAAAT
249381 AAAATATTTAAAT
1 AAAATATTTAAAT
249394 AAAA
1 AAAA
249398 AACCGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATATTTAAAT
Found at i:250892 original size:15 final size:14
Alignment explanation
Indices: 250872--250913 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
250862 TTAATCTATG
250872 ATTAAAATAATATT
1 ATTAAAATAATATT
*
250886 AATTAAATTAATATT
1 -ATTAAAATAATATT
*
250901 -TTAAAATTATATT
1 ATTAAAATAATATT
250914 GGAAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTAAAATAATATT
Found at i:252442 original size:31 final size:31
Alignment explanation
Indices: 252407--252479 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
252397 AAAACATAAA
252407 ATATAGTCACTTTCAT-TTTTATTTAATTAAG
1 ATATAGTCACTTT-ATCTTTTATTTAATTAAG
* *
252438 ATATAGTGACTTTTTCTTTTATTTAATTAAG
1 ATATAGTCACTTTATCTTTTATTTAATTAAG
* *
252469 ATTTGGTCACT
1 ATATAGTCACT
252480 CCGAATTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (31 bp):
ATATAGTCACTTTATCTTTTATTTAATTAAG
Found at i:252612 original size:24 final size:21
Alignment explanation
Indices: 252579--252627 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 21
252569 ATTCTTTTAA
*
252579 TAAATTAAAATAAATTATATATTT
1 TAAATGAAAATAAA--ATAT-TTT
252603 TAAATGAAAATAAAATATTTT
1 TAAATGAAAATAAAATATTTT
252624 TAAA
1 TAAA
252628 CTAAGTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 4 0.17
24 13 0.54
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATGAAAATAAAATATTTT
Found at i:252642 original size:27 final size:25
Alignment explanation
Indices: 252573--252677 Score: 87
Period size: 27 Copynumber: 4.2 Consensus size: 25
252563 TTAGTAATTC
*
252573 TTTT-AATAAATTAAAATAAATTATAT
1 TTTTAAATAAGTTAAAATAAA--ATAT
252599 ATTTTAAAT--G--AAAATAAAATAT
1 -TTTTAAATAAGTTAAAATAAAATAT
252621 TTTTAAACTAAGTTAAAAATAAAATAT
1 TTTTAAA-TAAGTT-AAAATAAAATAT
* *
252648 ATTT-AATAAGTTAATATAAAAATAT
1 TTTTAAATAAGTTAAAAT-AAAATAT
252673 TTTTA
1 TTTTA
252678 GGTTAATATA
Statistics
Matches: 65, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
21 7 0.11
22 5 0.08
24 13 0.20
25 16 0.25
26 2 0.03
27 19 0.29
28 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (25 bp):
TTTTAAATAAGTTAAAATAAAATAT
Found at i:252669 original size:25 final size:26
Alignment explanation
Indices: 252609--252677 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 26
252599 ATTTTAAATG
252609 AAAATAAAATATTTTTAAACTAAGTTA
1 AAAATAAAATATTTTT-AACTAAGTTA
*
252636 AAAATAAAATATATTTAA-TAAGTT-
1 AAAATAAAATATTTTTAACTAAGTTA
*
252660 AATATAAAAATATTTTTA
1 AAAAT-AAAATATTTTTA
252678 GGTTAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 4 0.11
25 17 0.45
26 2 0.05
27 15 0.39
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (26 bp):
AAAATAAAATATTTTTAACTAAGTTA
Found at i:252682 original size:22 final size:24
Alignment explanation
Indices: 252612--252687 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 24
252602 TTAAATGAAA
* *
252612 ATAAAATATTTTTAAACTAAGTTAAAA
1 ATAAAATATATTT-AA-TAAGTT-AAT
252639 ATAAAATATATTTAATAAGTTAAT
1 ATAAAATATATTTAATAAGTTAAT
* *
252663 ATAAAA-ATATTT-TTAGGTTAAT
1 ATAAAATATATTTAATAAGTTAAT
252685 ATA
1 ATA
252688 TATAAAATCA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
22 11 0.24
23 6 0.13
24 8 0.18
25 6 0.13
26 2 0.04
27 12 0.27
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (24 bp):
ATAAAATATATTTAATAAGTTAAT
Found at i:252939 original size:40 final size:40
Alignment explanation
Indices: 252851--252939 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
252841 ACGTTAATGT
* * *
252851 GAAATAA-TTTAAGAAATTAAGAATTTAGAATGTTATGGT
1 GAAATAATTTTAAAAAATTAAGAATTTAGAATGTTATAGC
* * *
252890 GTCAA-AATTTTAAAAAATTAGGATTTTAGAATGTTATAGC
1 G-AAATAATTTTAAAAAATTAAGAATTTAGAATGTTATAGC
252930 GAAATAATTT
1 GAAATAATTT
252940 GAGAATTATG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
39 5 0.12
40 35 0.88
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.37
Consensus pattern (40 bp):
GAAATAATTTTAAAAAATTAAGAATTTAGAATGTTATAGC
Found at i:261088 original size:2 final size:2
Alignment explanation
Indices: 261081--261105 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
261071 GCAGCCCGTC
261081 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
261106 GGCAGTAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:265845 original size:21 final size:19
Alignment explanation
Indices: 265799--265866 Score: 86
Period size: 19 Copynumber: 3.6 Consensus size: 19
265789 ATGCAAAAAT
265799 GGTATCGATACCATAGTAG
1 GGTATCGATACCATAGTAG
*
265818 GGTATCGGTACCATAGTATG
1 GGTATCGATACCATAGTA-G
*
265838 GAGTATCGATACCATGGT--
1 G-GTATCGATACCATAGTAG
265856 GGTATCGATAC
1 GGTATCGATAC
265867 TGAAGAGCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
17 10 0.23
18 1 0.02
19 17 0.39
20 2 0.05
21 14 0.32
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (19 bp):
GGTATCGATACCATAGTAG
Found at i:266528 original size:116 final size:113
Alignment explanation
Indices: 266201--266533 Score: 450
Period size: 116 Copynumber: 2.8 Consensus size: 113
266191 GCACTAAGTG
266201 TGCAAGAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAT
1 TGCAA-AATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATT-GGCACTTTGTGTGCAA-
* * * *
266266 AATGTTAAGAAATTGATACTAAGTGTATGAATTTCCGTATTGGGCACTTTATT
63 AA-GTAAAG-AATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCATA
* * *
266319 TACAAAAATGTAAAGAAATTCATACTAAGTGTATGAATTTTCGTATTAGGCACTTCGTGTGCAAA
1 TGC-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATT-GGCACTTTGTGTGCAAA
* * **
266384 AGTCAAGAATTTCATACTAAATGTATGAATTTCTTTATTGGGCACTTCATA
64 AGTAAAGAA-TTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCATA
*
266435 TGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGACACTTTGTGTGCAAAC
1 TGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGG-CACTTTGTGTGCAAA-
*
266500 CGTAAAGAGATTCATACTAAGTGTATGAATTTCC
64 AGTAAAGA-ATTCATACTAAGTGTATGAATTTCC
266534 ATATGGGAAA
Statistics
Matches: 191, Mismatches: 19, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
114 2 0.01
115 57 0.30
116 70 0.37
117 3 0.02
118 57 0.30
119 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (113 bp):
TGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGCACTTTGTGTGCAAAAG
TAAAGAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCATA
Found at i:266533 original size:58 final size:58
Alignment explanation
Indices: 266198--266533 Score: 431
Period size: 59 Copynumber: 5.8 Consensus size: 58
266188 ATGGCACTAA
* *
266198 GTGTGCAAGAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
1 GTGTGCAA-AATGTAAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
266257 GTGTGCAATAATGTTAAGAAATTGATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAA-AATGTAAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * * * *
266316 ATTTACAAAAATGTAAAGAAATTCATACTAAGTGTATGAATTTTCGTATTAGGCACTTC
1 GTGTGC-AAAATGTAAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * ** *
266375 GTGTGCAAAA-GTCAAGAATTTCATACTAAATGTATGAATTTCTTTATTGGGCACTTC
1 GTGTGCAAAATGTAAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * *
266432 ATATGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGACACTTT
1 GTGTGCAAAATGTAAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
** *
266490 GTGTGCAAACCGTAAAGAGATTCATACTAAGTGTATGAATTTCC
1 GTGTGCAAAATGTAAAGAAATTCATACTAAGTGTATGAATTTCC
266534 ATATGGGAAA
Statistics
Matches: 239, Mismatches: 36, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
57 48 0.20
58 82 0.34
59 107 0.45
60 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (58 bp):
GTGTGCAAAATGTAAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:272027 original size:59 final size:59
Alignment explanation
Indices: 271952--272343 Score: 535
Period size: 59 Copynumber: 6.7 Consensus size: 59
271942 GTATTTTAAA
* * *
271952 TGCAAGAATGTTAAGAAATTCATACTAAGTGTATGGATTTCTGTATTGGGCACTTTGTG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
* * *
272011 TGCAAAAATGTCAAGAAATTCATACTAAGTGTGTGAATTTCCATATTGGGCACTTTGTG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
*
272070 TG-AAAAATTGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCATTTTGTG
1 TGCAAAAA-TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
* * *
272129 TGCAAAAATGTAAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGAACTTCGTG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
* * * * * *
272188 TG-TAAAA-GTCAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGACAATTCGTG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
* *
272245 TGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGTACTTTGTG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
** *
272303 TGC-AAACCGTTAAGAGAA-TCATACTAAGTGTATGAACTTCC
1 TGCAAAAATGTTAAGA-AATTCATACTAAGTGTATGAATTTCC
272344 ATATGGGAAA
Statistics
Matches: 299, Mismatches: 29, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
57 50 0.17
58 89 0.30
59 155 0.52
60 5 0.02
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.35
Consensus pattern (59 bp):
TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
Found at i:279214 original size:112 final size:111
Alignment explanation
Indices: 279017--279236 Score: 341
Period size: 112 Copynumber: 2.0 Consensus size: 111
279007 CGAAGTGCTG
* * * *
279017 AAATGGTATTTCACCTCATTATGAATACCATGGGTGGCACCTTTTATGCCAAAAATGCATCGTTA
1 AAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACCTTTTACGCCAAAAATACACCGTTA
* * *
279082 TGCATTAAGCAAAATCGATCGATAACTTTCATACACGAAGTATGTCA
66 TGCATTAAACAAAATCGATCGAT-ACTATCATACACAAAGTATGTCA
* *
279129 AAATGGTAATTCACCTCATTTTGAATACCATGGGTGGTACCTTTTACGCCAAAAATACACCGTTA
1 AAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACCTTTTACGCCAAAAATACACCGTTA
*
279194 TGTATTAAACAAAATCGATCGATACTATCATACACAAAGTATG
66 TGCATTAAACAAAATCGATCGATACTATCATACACAAAGTATG
279237 GCGAAATGTA
Statistics
Matches: 98, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
111 18 0.18
112 80 0.82
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (111 bp):
AAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACCTTTTACGCCAAAAATACACCGTTA
TGCATTAAACAAAATCGATCGATACTATCATACACAAAGTATGTCA
Found at i:280213 original size:37 final size:37
Alignment explanation
Indices: 280111--280215 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
280101 CCTTTTCGTC
* *
280111 CTACTAGAATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* * *
280148 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* * *
280185 CTACTATGATTTAAACTCCTAAAGATATGAT
1 CTACTAGGATTCAAACTCCTAAAAATATGAT
280216 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
Found at i:280722 original size:18 final size:18
Alignment explanation
Indices: 280694--280761 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
280684 ACACTATATA
280694 TATTA-TTATATATATTT
1 TATTATTTATATATATTT
*
280711 TTTTATTTATAT-TCATTT
1 TATTATTTATATAT-ATTT
*
280729 TATT-TTTA-ATACTATAT
1 TATTATTTATATA-TATTT
*
280746 TATTATTTATACATAT
1 TATTATTTATATATAT
280762 ATATACTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
16 2 0.05
17 16 0.39
18 21 0.51
19 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTATTTATATATATTT
Found at i:280764 original size:20 final size:20
Alignment explanation
Indices: 280728--280765 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
280718 TATATTCATT
*
280728 TTATTTTTAATACTATATTA
1 TTATTTATAATACTATATTA
280748 TTATTTATACATA-TATAT
1 TTATTTATA-ATACTATAT
280766 ACTTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TTATTTATAATACTATATTA
Found at i:280811 original size:2 final size:2
Alignment explanation
Indices: 280804--280861 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
280794 GTATTATTAT
280804 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
280845 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
280862 TTGTAATTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:280979 original size:21 final size:22
Alignment explanation
Indices: 280955--280996 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
280945 TCATTATATG
280955 TATACTTT-TATA-TTTGGTTTA
1 TATA-TTTATATATTTTGGTTTA
*
280976 TATATTTATTTATTTTGGTTT
1 TATATTTATATATTTTGGTTT
280997 TTGGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 3 0.17
21 7 0.39
22 8 0.44
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (22 bp):
TATATTTATATATTTTGGTTTA
Found at i:281125 original size:16 final size:16
Alignment explanation
Indices: 281106--281147 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
281096 ATTTCATTTA
*
281106 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
281122 TTTATTTATTTTTACT
1 TTTATTTATTTTTACT
281138 TATT-TTTATT
1 T-TTATTTATT
281148 CTTCATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Found at i:281502 original size:106 final size:106
Alignment explanation
Indices: 281372--282416 Score: 1373
Period size: 106 Copynumber: 10.0 Consensus size: 106
281362 ATATCGTGCC
* *
281372 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGA-CGACTGGTTGTAAACAAACAACTTCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
281436 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
281478 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTTCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
281543 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * **
281584 ACTCCAGAAAACACAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAATAGTTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
281649 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
281690 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
281755 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
281796 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
281861 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
281902 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAAC-AACAATTTCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
* *
281965 CAATTTCAGAGCCAGTTTCAACTTCGCAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
282007 ACTCTAGACAACACAAGTTCAATTTCACGACGAAGGGACCGCTGGTTGTC-A-ATA-AA-----C
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
282064 AATTTC----CCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
282101 ACTCCAGATAACGCAAGTTCAACTTCATGACGAAGGCACCGCTGGTTTTCAATAAACAACTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
282166 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** * * * * *
282207 AC-CCAAGACGACACAAGCCCAACTTCACGATGAAGGGGCGGCTGTTTGTCAAC-AA-AA-TT-T
1 ACTCC-AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
* *
282267 C-A-TTCA-ATGTCAATTTTAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGA-GCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * ** *
282307 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGATGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** *
282372 GGTTCCAGAGCCAATTTCAACTTCAC-GACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
282413 ACTC
1 ACTC
282417 AGAACAATGC
Statistics
Matches: 828, Mismatches: 84, Indels: 54
0.86 0.09 0.06
Matches are distributed among these distances:
94 72 0.09
95 1 0.00
96 2 0.00
97 2 0.00
98 7 0.01
99 1 0.00
100 75 0.09
101 4 0.00
102 10 0.01
103 6 0.01
104 5 0.01
105 98 0.12
106 543 0.66
107 2 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:282100 original size:94 final size:93
Alignment explanation
Indices: 281980--282371 Score: 336
Period size: 94 Copynumber: 4.0 Consensus size: 93
281970 TCAGAGCCAG
* * *
281980 TTTCAACTTCGCAGCGAAGGATATTGGACTCTAGACAACACAAGTTCAATTTCACGACGAAGGGA
1 TTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGA
282045 CCGCTGGTTGTCAATAAACAATTTCCCAA
66 CCGCTGGTTGTCAA-AAACAATTTCCCAA
* * * * *
282074 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGATAACGCAAGTTCAACTTCATGACGAAGGCA
1 TTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGA
*
282139 CCGCTGGTTTTCAATAAACAACTTCCCAATTTCAGAGCCAA
66 CCGCTGGTTGTC---AAA-AA-----CAATTTC----CCAA
* * * * ** * *
282180 TTTCAACTTCTCAGCGAAGGATCTTGGACCCAAGACGACACAAGCCCAACTTCACGATGAAGGGG
1 TTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGA
* * *
282245 CGGCTGTTTGTCAACAA-AATTTCATTCAATGTCAA
66 CCGCTGGTTGTCAAAAACAATTTC---C-----CAA
* * * *
282280 TTTTAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGA
1 TTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGA
**
282345 TGGCTGGTTGTCAACAAACAATTTCCC
66 CCGCTGGTTGTCAA-AAACAATTTCCC
282372 GGTTCCAGAG
Statistics
Matches: 237, Mismatches: 41, Indels: 40
0.75 0.13 0.13
Matches are distributed among these distances:
94 70 0.30
95 1 0.00
96 7 0.03
97 4 0.02
99 1 0.00
100 70 0.30
101 2 0.01
102 15 0.06
103 2 0.01
106 65 0.27
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (93 bp):
TTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGA
CCGCTGGTTGTCAAAAACAATTTCCCAA
Found at i:283158 original size:37 final size:37
Alignment explanation
Indices: 283100--283204 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
283090 CCTTTTCGTC
*
283100 CTACTAGAATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* * * *
283137 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
* * * *
283174 CTACTATGATTTAAACTCATAAAGATATGAT
1 CTACTAGGATTCAAACTCCTAAAAATATGAT
283205 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
Found at i:283760 original size:19 final size:19
Alignment explanation
Indices: 283674--283761 Score: 54
Period size: 19 Copynumber: 4.4 Consensus size: 19
283664 TTTTTTACAC
283674 TATATA-TTATTATTATATA
1 TATATATTTATTATT-TATA
* *
283693 CATATATTT-TTATTTATT
1 TATATATTTATTATTTATA
* * *
283711 TATAGTCATTTGGTTGTTTTTTAA
1 TATA-T-ATTT-ATT-ATTTAT-A
283735 TACTATATTTATTATTTATA
1 TA-TATATTTATTATTTATA
283755 TATATAT
1 TATATAT
283762 ATATATACTT
Statistics
Matches: 52, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
18 6 0.12
19 16 0.31
20 9 0.17
21 4 0.08
22 4 0.08
23 8 0.15
24 3 0.06
25 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
TATATATTTATTATTTATA
Found at i:284031 original size:2 final size:2
Alignment explanation
Indices: 284024--284052 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
284014 TTTTACTCAT
284024 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
284053 TTCATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:284071 original size:12 final size:13
Alignment explanation
Indices: 284050--284129 Score: 51
Period size: 13 Copynumber: 6.4 Consensus size: 13
284040 TATATATATA
284050 TATTTCATTTATT
1 TATTTCATTTATT
284063 TATTT-ATTTATT
1 TATTTCATTTATT
* *
284075 T-TTCCTTTTATT
1 TATTTCATTTATT
* * *
284087 TTTTTTACTTATT
1 TATTTCATTTATT
* *
284100 TTTATTC-TTCATT
1 TAT-TTCATTTATT
284113 T-TTTCATTTATT
1 TATTTCATTTATT
*
284125 CATTT
1 TATTT
284130 TCCCCCTCTA
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
11 5 0.10
12 21 0.41
13 23 0.45
14 2 0.04
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTCATTTATT
Found at i:284084 original size:16 final size:16
Alignment explanation
Indices: 284065--284105 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
284055 CATTTATTTA
*
284065 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
284081 TTTATTT-TTTTTACT
1 TTTATTTATTTTTACT
284096 TATT-TTTATT
1 T-TTATTTATT
284106 CTTCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Found at i:298952 original size:16 final size:16
Alignment explanation
Indices: 298928--298976 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
298918 TCCTAACAAC
*
298928 TATAGATATAATAATA
1 TATATATATAATAATA
298944 TATATATATGAA-AATA
1 TATATATAT-AATAATA
*
298960 -A-ATATATTATAATA
1 TATATATATAATAATA
298974 TAT
1 TAT
298977 GAAATAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 1 0.04
14 10 0.37
15 2 0.07
16 12 0.44
17 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (16 bp):
TATATATATAATAATA
Found at i:300696 original size:29 final size:29
Alignment explanation
Indices: 300663--300718 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
300653 AGTTTAAGTT
300663 TCTCCTTATAGTAATCCTCCACACTTCCA
1 TCTCCTTATAGTAATCCTCCACACTTCCA
300692 TCTCCTTATAGTAATCCTCCACACTTC
1 TCTCCTTATAGTAATCCTCCACACTTC
300719 GTTGGCCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.38, G:0.04, T:0.36
Consensus pattern (29 bp):
TCTCCTTATAGTAATCCTCCACACTTCCA
Found at i:322303 original size:24 final size:21
Alignment explanation
Indices: 322268--322310 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
322258 GGAACATTCT
*
322268 TTTGAACTTCAAGAGGTACATCA
1 TTTGAAATTCAA-AGG-ACATCA
322291 TTTGAAATGTCAAAGGACAT
1 TTTGAAAT-TCAAAGGACAT
322311 GTATTGTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (21 bp):
TTTGAAATTCAAAGGACATCA
Found at i:323003 original size:13 final size:13
Alignment explanation
Indices: 322957--323001 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
322947 GCTATTAATC
322957 TATGACATGCATT
1 TATGACATGCATT
**
322970 TATGACACACATT
1 TATGACATGCATT
*
322983 TATGACGTGCATT
1 TATGACATGCATT
322996 TATGAC
1 TATGAC
323002 GTTCATTGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (13 bp):
TATGACATGCATT
Found at i:323008 original size:13 final size:13
Alignment explanation
Indices: 322957--323008 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
322947 GCTATTAATC
*
322957 TATGACATGCATT
1 TATGACGTGCATT
***
322970 TATGACACACATT
1 TATGACGTGCATT
322983 TATGACGTGCATT
1 TATGACGTGCATT
*
322996 TATGACGTTCATT
1 TATGACGTGCATT
323009 GAGCGTCATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (13 bp):
TATGACGTGCATT
Found at i:334604 original size:17 final size:17
Alignment explanation
Indices: 334547--334606 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
334537 TCATTTAAAT
*
334547 TAGTTCATTTGTGCATC
1 TAGTTCATTTATGCATC
* ** *
334564 TAATTCATTTATTAATA
1 TAGTTCATTTATGCATC
* *
334581 TACTTCATTCATGCATC
1 TAGTTCATTTATGCATC
334598 TAGTTCATT
1 TAGTTCATT
334607 GAATAAAGTT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:334641 original size:17 final size:17
Alignment explanation
Indices: 334616--334651 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
334606 TGAATAAAGT
*
334616 TAGTTCATTAATCAAAC
1 TAGTACATTAATCAAAC
334633 TAGTACATTAATCAAAC
1 TAGTACATTAATCAAAC
334650 TA
1 TA
334652 ACTCTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (17 bp):
TAGTACATTAATCAAAC
Found at i:344640 original size:20 final size:19
Alignment explanation
Indices: 344607--344647 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
344597 CTTAAATTAT
344607 ATGAAAGGTATGTTACAAA
1 ATGAAAGGTATGTTACAAA
*
344626 ATGAATAGGTCTGTTACAAA
1 ATGAA-AGGTATGTTACAAA
344646 AT
1 AT
344648 CAATTTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (19 bp):
ATGAAAGGTATGTTACAAA
Found at i:355739 original size:24 final size:24
Alignment explanation
Indices: 355707--355755 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
355697 AAACATCAAT
355707 AGACATGTCTTGT-GACTCACAAAG
1 AGACATGTCTTGTGGA-TCACAAAG
355731 AGACATGTCTTGTGGATCACAAAG
1 AGACATGTCTTGTGGATCACAAAG
355755 A
1 A
355756 ATCACACGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (24 bp):
AGACATGTCTTGTGGATCACAAAG
Found at i:362101 original size:5 final size:4
Alignment explanation
Indices: 362080--362132 Score: 52
Period size: 4 Copynumber: 11.8 Consensus size: 4
362070 AATTATATCC
362080 CTTT CATTT CTTAT CATTT CATTT CTTT CTTT CATTT CTTT CTTT CATTT
1 CTTT C-TTT CTT-T C-TTT C-TTT CTTT CTTT C-TTT CTTT CTTT C-TTT
362130 CTT
1 CTT
362133 ATTTCCATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
4 21 0.48
5 21 0.48
6 2 0.05
ACGTcount: A:0.11, C:0.23, G:0.00, T:0.66
Consensus pattern (4 bp):
CTTT
Done.