Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002746.1 Hibiscus syriacus cultivar Beakdansim tig00005657_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: 188673
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:10383 original size:30 final size:30
Alignment explanation
Indices: 10307--10415 Score: 121
Period size: 30 Copynumber: 3.6 Consensus size: 30
10297 ACTTTAATTG
* *
10307 AATTTAAGAGTCAAATTGATATTTTAT-TTA
1 AATTTAAGA-TCAAATTAATATTTTATCTAA
* *
10337 AATATTAAGAATTAAATTAATATTTCATCTAA
1 AAT-TTAAG-ATCAAATTAATATTTTATCTAA
*
10369 AATTTAAGATTAAATTAATATTTTATCTAA
1 AATTTAAGATCAAATTAATATTTTATCTAA
* *
10399 AACTTATGATCAAATTA
1 AATTTAAGATCAAATTA
10416 GTGTTCTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
30 38 0.56
31 24 0.35
32 6 0.09
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (30 bp):
AATTTAAGATCAAATTAATATTTTATCTAA
Found at i:31696 original size:20 final size:20
Alignment explanation
Indices: 31671--31710 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
31661 TTAAAACCTC
*
31671 CCTCTAAGCTTAATTAGGGG
1 CCTCTAAGCTTAAATAGGGG
31691 CCTCTAAGCTTAAATAGGGG
1 CCTCTAAGCTTAAATAGGGG
31711 AAAAGAGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (20 bp):
CCTCTAAGCTTAAATAGGGG
Found at i:38690 original size:3 final size:3
Alignment explanation
Indices: 38682--38708 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38672 ACTTAGGGTA
38682 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
38709 TTTCTTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:39151 original size:29 final size:30
Alignment explanation
Indices: 39076--39156 Score: 112
Period size: 29 Copynumber: 2.7 Consensus size: 30
39066 ATAATTAAAG
**
39076 TATTTTTTA-TCAAAATAAGTATTTAAAAT
1 TATTTTTTAGTCAAAATAAGTATCCAAAAT
*
39105 TATCTTTTTAGTCAAAATAGGTATCCAAAAT
1 TAT-TTTTTAGTCAAAATAAGTATCCAAAAT
39136 T-TTTTTTAGTCAAAATAAGTA
1 TATTTTTTAGTCAAAATAAGTA
39157 CCTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
29 21 0.46
30 7 0.15
31 18 0.39
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (30 bp):
TATTTTTTAGTCAAAATAAGTATCCAAAAT
Found at i:39172 original size:29 final size:29
Alignment explanation
Indices: 39071--39172 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 29
39061 TTTAAATAAT
**
39071 TAAAGTATTTTTTA-TCAAAATAAGTATT
1 TAAAGTATTTTTTAGTCAAAATAAGTACC
* *
39099 TAAAATTATCTTTTTAGTCAAAATAGGTATCC
1 T-AAAGTAT-TTTTTAGTCAAAATAAGTA-CC
* *
39131 -AAAATTTTTTTTAGTCAAAATAAGTACC
1 TAAAGTATTTTTTAGTCAAAATAAGTACC
*
39159 TAAAGTATTCTTTA
1 TAAAGTATTTTTTA
39173 ATTAATATCA
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
28 3 0.05
29 34 0.58
30 11 0.19
31 11 0.19
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (29 bp):
TAAAGTATTTTTTAGTCAAAATAAGTACC
Found at i:59532 original size:43 final size:43
Alignment explanation
Indices: 59480--59654 Score: 246
Period size: 43 Copynumber: 4.1 Consensus size: 43
59470 TGGTAAAAAA
*** *
59480 AAACGCCGCAATAGGTAACGATATATAGCGGCG-TTTGTCCAAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGTCC-AC
* *
59523 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTTCCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGTCCAC
*
59566 AAACGCCACAATAGGTGTTGATATTTAGCGGCGTTTTGTCCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGTCCAC
*
59609 AAACGCCGCAATAGGTCTTGATATTTAGCGGCGTTTT-TCCCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGT-CCAC
59652 AAA
1 AAA
59655 TTACCGCAAA
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 112 0.94
44 6 0.05
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGTCCAC
Found at i:59681 original size:86 final size:87
Alignment explanation
Indices: 59499--59688 Score: 251
Period size: 86 Copynumber: 2.2 Consensus size: 87
59489 AATAGGTAAC
* *
59499 GATATATAGCGGCG-TTTGTCCAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTTC
1 GATATATAGCGGCGTTTTGTCCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCC
* * * *
59563 CACAAACGCCACAATAGGTGTT
66 CACAAACACCACAAAAGATGAT
* *
59585 GATATTTAGCGGCGTTTTGTCC-ACAAACGCCGCAATAGGTCTTGATATTTAGCGGCGTTTTTCC
1 GATATATAGCGGCGTTTTGTCCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCC
* *
59649 CACAAATTACCGCAAAAGAT-AT
66 CACAAA-CACCACAAAAGATGAT
*
59671 GGTATATAGCGGCGTTTT
1 GATATATAGCGGCGTTTT
59689 AAGATACAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
86 75 0.83
87 15 0.17
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (87 bp):
GATATATAGCGGCGTTTTGTCCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCC
CACAAACACCACAAAAGATGAT
Found at i:59842 original size:21 final size:21
Alignment explanation
Indices: 59816--59874 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
59806 ATTTTCCAAT
*
59816 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
59837 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
**
59858 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
59875 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:63653 original size:83 final size:83
Alignment explanation
Indices: 63484--64027 Score: 628
Period size: 83 Copynumber: 6.6 Consensus size: 83
63474 CTAAAATCTC
** **
63484 AAGTACGTGTCTATAGCGGCGTTTGTGTA--AAAACGCCATTAAAGTACGAATCTATAGCGGCGT
1 AAGTACGTGTCTATAGCGGCGTTTG-GTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGT
63547 TTGGTATTAAAACGCCACAA
65 TTGGTA-TAAAACGCCACAA
* *
63567 AAGTACGTGTCTATAGTGACGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTT
1 AAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTT
* *
63632 TGTGTA-AAAATGCCACTA
66 TG-GTATAAAACGCCACAA
* *
63650 AAGTACGAGTCTATAGCGTCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTT
1 AAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTT
**
63715 TGTGTA-AAAACGCCATTA
66 TG-GTATAAAACGCCACAA
** *
63733 AAGTACGAATCTATAGCGGCGTTTGGTATTAAAACGCCGCAAAAGTACGTGTCTATAGCGGCGTT
1 AAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTT
63798 TGGTATTAAAACGCCACAA
66 TGGTA-TAAAACGCCACAA
* * * *
63817 AAGTACGTGTCTATAGCGGCGTTTGTGTA--AAAATGCCACTAAAGTACGAGTCTATAGCGTCGT
1 AAGTACGTGTCTATAGCGGCGTTTG-GTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGT
63880 TTGGTATTAAAACGCCACAA
65 TTGGTA-TAAAACGCCACAA
* * * *
63900 AAGTACATGTCTATAGCAGCGTTT-GTATAAAAACGCCACTAAAA-TAC-TAGTTTATAGCGGCG
1 AAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGCCAC-AAAAGTACGT-GTCTATAGCGGCG
*
63962 TTT-GTATAAAAACGCCACTA
64 TTTGGTAT-AAAACGCCACAA
* * * * *
63982 CATTACGAT-TCTTTAGCGGCGTTT-TTA-TACAAACGCCACTAAAGTA
1 AAGTACG-TGTCTATAGCGGCGTTTGGTATTA-AAACGCCACAAAAGTA
64028 TAGTATTTTG
Statistics
Matches: 406, Mismatches: 41, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
81 8 0.02
82 50 0.12
83 273 0.67
84 69 0.17
85 6 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (83 bp):
AAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTT
TGGTATAAAACGCCACAA
Found at i:63706 original size:125 final size:124
Alignment explanation
Indices: 63484--64027 Score: 699
Period size: 125 Copynumber: 4.4 Consensus size: 124
63474 CTAAAATCTC
* *
63484 AAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCATTAAAGTACGAATCTATAGCGGCGTTT
1 AAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTT
* * *
63549 GGTATTAAAACGCCACAAAAGTACGTGTCTATAGTGACGTTTG-GTATTAAAACGCCACAA
66 GGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGTGTA--AAAACGCCACTA
* *
63609 AAGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATAGCGTCGTTT
1 AAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTT
*
63674 GGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCATTA
66 GGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTA
** * * *
63733 AAGTACGAATCTATAGCGGCGTTTG-GTATTAAAACGCCGCAAAAGTACGTGTCTATAGCGGCGT
1 AAGTACGTGTCTATAGCGGCGTTTGTGTA--AAAACGCCACTAAAGTACGAGTCTATAGCGGCGT
*
63797 TTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTA
64 TTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTA
* * * *
63858 AAGTACGAGTCTATAGCGTCGTTTG-GTATTAAAACGCCACAAAAGTAC-ATGTCTATAGCAGCG
1 AAGTACGTGTCTATAGCGGCGTTTGTGTA--AAAACGCCACTAAAGTACGA-GTCTATAGCGGCG
* * *
63921 TTT-GTATAAAAACGCCACTAAAA-TAC-TAGTTTATAGCGGCGTTTGTATAAAAACGCCACTA
63 TTTGGTATTAAAACGCCAC-AAAAGTACGT-GTCTATAGCGGCGTTTGTGTAAAAACGCCACTA
* * * * * *
63982 CATTACGAT-TCTTTAGCGGCGTTTTTATACAAACGCCACTAAAGTA
1 AAGTACG-TGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTA
64028 TAGTATTTTG
Statistics
Matches: 376, Mismatches: 35, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
123 19 0.05
124 98 0.26
125 256 0.68
126 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (124 bp):
AAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTT
GGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCACTA
Found at i:63842 original size:208 final size:208
Alignment explanation
Indices: 63484--63979 Score: 877
Period size: 208 Copynumber: 2.4 Consensus size: 208
63474 CTAAAATCTC
63484 AAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCATTAAAGTACGAATCTATAGCGGCGTTT
1 AAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCATTAAAGTACGAATCTATAGCGGCGTTT
*
63549 GGTATTAAAACGCCACAAAAGTACGTGTCTATAGTGACGTTTGGTATTAAAACGCCACAAAAGTA
66 GGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGACGTTTGGTATTAAAACGCCACAAAAGTA
63614 CGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATAGCGTCGTTTGGTAT
131 CGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATAGCGTCGTTTGGTAT
63679 TAAAACGCCACAA
196 TAAAACGCCACAA
63692 AAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCATTAAAGTACGAATCTATAGCGGCGTTT
1 AAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCATTAAAGTACGAATCTATAGCGGCGTTT
* *
63757 GGTATTAAAACGCCGCAAAAGTACGTGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTA
66 GGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGACGTTTGGTATTAAAACGCCACAAAAGTA
63822 CGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATAGCGTCGTTTGGTAT
131 CGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATAGCGTCGTTTGGTAT
63887 TAAAACGCCACAA
196 TAAAACGCCACAA
* * * * * * * *
63900 AAGTACATGTCTATAGCAGCGTTTGTATAAAAACGCCACTAAAATACTAGTTTATAGCGGCGTTT
1 AAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCATTAAAGTACGAATCTATAGCGGCGTTT
*
63965 -GTATAAAAACGCCAC
66 GGTATTAAAACGCCAC
63980 TACATTACGA
Statistics
Matches: 275, Mismatches: 13, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
207 13 0.05
208 262 0.95
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (208 bp):
AAGTACGTGTCTATAGCGGCGTTTGTGTAAAAACGCCATTAAAGTACGAATCTATAGCGGCGTTT
GGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGACGTTTGGTATTAAAACGCCACAAAAGTA
CGTGTCTATAGCGGCGTTTGTGTAAAAATGCCACTAAAGTACGAGTCTATAGCGTCGTTTGGTAT
TAAAACGCCACAA
Found at i:74642 original size:22 final size:22
Alignment explanation
Indices: 74617--74661 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
74607 ATTTAATCAG
74617 GATC-TGACATGTGTTAACACAT
1 GATCATGACATGTG-TAACACAT
* *
74639 GATCATGATATGTGTGACACAT
1 GATCATGACATGTGTAACACAT
74661 G
1 G
74662 TCACCTCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (22 bp):
GATCATGACATGTGTAACACAT
Found at i:75305 original size:21 final size:21
Alignment explanation
Indices: 75281--75323 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
75271 TATTACCTTA
75281 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
75302 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
75323 A
1 A
75324 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:75341 original size:35 final size:35
Alignment explanation
Indices: 75292--75377 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
75282 ATTGAAGTAT
** * *
75292 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
75327 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
75362 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
75378 TGATTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:75560 original size:29 final size:29
Alignment explanation
Indices: 75508--75565 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
75498 GCAAACGGAA
* *
75508 TAAATGTTGGGGGACTGTATTGCAAGTTT
1 TAAATGTTGGGGGACTGAAATGCAAGTTT
75537 TAAATGTTGGGGGACCT-AAATGCAAGTTT
1 TAAATGTTGGGGGA-CTGAAATGCAAGTTT
75566 CAGAAATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (29 bp):
TAAATGTTGGGGGACTGAAATGCAAGTTT
Found at i:79068 original size:18 final size:19
Alignment explanation
Indices: 79033--79069 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
79023 CACGGAATGT
79033 AAGATTACCAGTGGAATAA
1 AAGATTACCAGTGGAATAA
79052 AAGATTACCAG-GGAATAA
1 AAGATTACCAGTGGAATAA
79070 GATTACTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGTGGAATAA
Found at i:80111 original size:558 final size:558
Alignment explanation
Indices: 79017--80121 Score: 1724
Period size: 558 Copynumber: 2.0 Consensus size: 558
79007 TAGGGTGTGT
79017 TTGGTTCACGGAATGTAAGATTACCAGTGGAATAAAAGATTACCAGGGAATAAGATTACTGAGAA
1 TTGGTTCACGGAATGTAAGATTACCAGTGGAATAAAAGATTACCAGGGAATAAGATTACTGAGAA
** * *
79082 TGTTGTATTTTGTGTTTGATTGGTTTAACAAGAATGTAAGATTACTGTGTTTGGTTAAAGGAATA
66 TGTTGTATTTTGTGTTTGATTGACTTAACAAGAATGTAAGATTACCGCGTTTGGTTAAAGGAATA
79147 AAAGATTATTAGAATGTATATTTAACCAAATTGTCCTTATTATATATTTGTATAATATTACAAGT
131 AAAGATTATTAGAATGTATATTTAACCAAATTGTCCTTATTATATATTTGTATAATATTACAAGT
* *
79212 TGGAAAATATTTATATATTTGCTTTAAAAAATTTAAATTCATAAAATTTATATATATTTTTTACA
196 TGAAAAATATTTATATATTTGCTTTAAAAAAATTAAATTCATAAAATTTATATATATTTTTTACA
*
79277 AAATTAAAAATATAAAAAAGGTTTAATGAAAGAGTAAAATTTTATTTTAACCCCTGAACTTCATA
261 AAATTAAAAATATAAAAAAAGTTTAATGAAAGAGTAAAATTTTATTTTAACCCCTGAACTTCATA
* *
79342 TAAAATTTTAATTATAGACTTTTTTTGTAAATCTAAAATAGTTTAAGGATAATTTTATAATTTAA
326 TAAAATTTTAATTATAGACTTTTTTTGTAAATCTAAAATAATTTAAGGATAAATTTATAATTTAA
* *
79407 CTTTCGTAGAATTTTTTATTATTCAATGACAGAAGAATGATATTTTTGAGAAAAAAAAACTTAAG
391 CATTCGTAGAATTTTTTATTATTCAATGACAGAAGAATGATATTTTTGAAAAAAAAAAACTTAAG
*** * * * *** *
79472 GGTATTTTAGTCCAAAATGTCGATAATGTTACAATACTTAAAAGAAAGGAGGTAATGACATTCCC
456 AACATATTAGTCCAAAACGTAGATAATCCAACAATACCTAAAAGAAAGGAGGTAATGACATTCCC
79537 GGTAATATACCCC-AAAAAATCTACTAATAGAGTGCGA
521 GGTAATATACCCCAAAAAAATCTACTAATAGAGTGCGA
** * *
79574 TTGGTTCACGGAATGTAAGATTACCAGTGAGAATGTAAGATTACCAGGGAATAAGGTTACTGGGA
1 TTGGTTCACGGAATGTAAGATTACCAGTG-GAATAAAAGATTACCAGGGAATAAGATTACTGAGA
* * *
79639 ATGTTGTATTTTGTGTTTGTTTGACTTAGCAGGAATGTAAGATTACCGCGTTTGGTTAAAGGAAT
65 ATGTTGTATTTTGTGTTTGATTGACTTAACAAGAATGTAAGATTACCGCGTTTGGTTAAAGGAAT
* * *
79704 AAAAGATTATTGGAATGTATATTTGACCAAATTGTCTTTATTATATATTTGTATAATATTACAAG
130 AAAAGATTATTAGAATGTATATTTAACCAAATTGTCCTTATTATATATTTGTATAATATTACAAG
* *
79769 TTGAAAAATATTTATATATTT-TTTTAAAAAAAATTAAATTCATAATATTTATATA-ATTTTTTA
195 TTGAAAAATATTTATATATTTGCTTT-AAAAAAATTAAATTCATAAAATTTATATATATTTTTTA
* * *
79832 CAAAATTTAAAATATAAAAAAAGTTTAATGAAAGGGTAAAATTTTATTTTAACCCCTTAACTTCA
259 CAAAATTAAAAATATAAAAAAAGTTTAATGAAAGAGTAAAATTTTATTTTAACCCCTGAACTTCA
79897 TATAAAATTTTAATTATAGA-TTTGTTTTGTAAATCTAAAATAATTTAAGGATAAATTTATAATT
324 TATAAAATTTTAATTATAGACTTT-TTTTGTAAATCTAAAATAATTTAAGGATAAATTTATAATT
79961 TAACATTCGTAGAA-TTTTTATTATTCAATGACAGAAGAA-GAATATTTTTGAAAAAAAATAAAA
388 TAACATTCGTAGAATTTTTTATTATTCAATGACAGAAGAATG-ATATTTTTG--AAAAAA-AAAA
* *
80024 ATTTAAGAACATATTAGTCCAAAACGCTAG-TAATCCAACAATACCT-AAGGAAAAGGAGGTAAT
449 ACTTAAGAACATATTAGTCCAAAACG-TAGATAATCCAACAATACCTAAAAG-AAAGGAGGTAAT
80087 GACATTCCCGGTAATATA-CCCAAAAAAATCTACTA
512 GACATTCCCGGTAATATACCCCAAAAAAATCTACTA
80122 TTGGTAATCT
Statistics
Matches: 500, Mismatches: 38, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
555 1 0.00
556 37 0.07
557 172 0.34
558 209 0.42
559 79 0.16
560 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (558 bp):
TTGGTTCACGGAATGTAAGATTACCAGTGGAATAAAAGATTACCAGGGAATAAGATTACTGAGAA
TGTTGTATTTTGTGTTTGATTGACTTAACAAGAATGTAAGATTACCGCGTTTGGTTAAAGGAATA
AAAGATTATTAGAATGTATATTTAACCAAATTGTCCTTATTATATATTTGTATAATATTACAAGT
TGAAAAATATTTATATATTTGCTTTAAAAAAATTAAATTCATAAAATTTATATATATTTTTTACA
AAATTAAAAATATAAAAAAAGTTTAATGAAAGAGTAAAATTTTATTTTAACCCCTGAACTTCATA
TAAAATTTTAATTATAGACTTTTTTTGTAAATCTAAAATAATTTAAGGATAAATTTATAATTTAA
CATTCGTAGAATTTTTTATTATTCAATGACAGAAGAATGATATTTTTGAAAAAAAAAAACTTAAG
AACATATTAGTCCAAAACGTAGATAATCCAACAATACCTAAAAGAAAGGAGGTAATGACATTCCC
GGTAATATACCCCAAAAAAATCTACTAATAGAGTGCGA
Found at i:80332 original size:104 final size:104
Alignment explanation
Indices: 80134--80324 Score: 258
Period size: 105 Copynumber: 1.8 Consensus size: 104
80124 GGTAATCTTT
** * * * * * *
80134 CATTACCGGAAATGGGATTCCCGGCCTAACCACACGGGGAATGTGGATTCCATTCCCTTGGGAAT
1 CATTACCGGAAATGACATTCCCGACCAAACCAAACGGGGAAAGTAGATTCCATTCCCTGGGGAAT
80199 CCCACATTCCCCCATCCAAACACCCCCTTAGTAATAAAA
66 CCCACATTCCCCCATCCAAACACCCCCTTAGTAATAAAA
* *
80238 CATTACCGGGAATGACATTCCCGACCAAACCAAATGAGGGAAAGTAGATTCCATTCCC-GGGGAA
1 CATTACCGGAAATGACATTCCCGACCAAACCAAACG-GGGAAAGTAGATTCCATTCCCTGGGG-A
*
80302 ATCTCACATTCCCCCATCCAAAC
64 ATCCCACATTCCCCCATCCAAAC
80325 GGCCCTTAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
104 32 0.43
105 42 0.57
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (104 bp):
CATTACCGGAAATGACATTCCCGACCAAACCAAACGGGGAAAGTAGATTCCATTCCCTGGGGAAT
CCCACATTCCCCCATCCAAACACCCCCTTAGTAATAAAA
Found at i:86589 original size:14 final size:14
Alignment explanation
Indices: 86570--86596 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
86560 TTTGGGGAGC
86570 TTTTTTTACAATTT
1 TTTTTTTACAATTT
86584 TTTTTTTACAATT
1 TTTTTTTACAATT
86597 CTCAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTTTACAATTT
Found at i:89844 original size:20 final size:20
Alignment explanation
Indices: 89807--89845 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
89797 AATCCTATTA
**
89807 ACTGGTAATATTTTATTCCC
1 ACTGGTAATATTACATTCCC
*
89827 ACTGGTAATCTTACATTCC
1 ACTGGTAATATTACATTCC
89846 GTGAACAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (20 bp):
ACTGGTAATATTACATTCCC
Found at i:94593 original size:139 final size:138
Alignment explanation
Indices: 94343--94619 Score: 536
Period size: 139 Copynumber: 2.0 Consensus size: 138
94333 AACAATATCG
94343 TCTTGTAGCACCGGAAGAATTCATGGAGGAGGATCAATCAAGAAAAAGCTTTCCACAATTTCAGC
1 TCTTGTAGCACCGGAAGAATTCATGGAGGAGGATCAATCAAGAAAAAGCTTTCCACAATTTCAGC
94408 ACGAGCACTCTTAGCCAGCAAATCAGCCACATAATTATTTCCTATAGCTCATGCAAGATTGTTTG
66 ACGAGCACTCTTAGCCAGCAAATCAGCCACATAATTATTTCCTATAGCTCATGCAAGATTG-TTG
94473 AGGTATTAC
130 AGGTATTAC
*
94482 TCTTGTAGCACCGGAAGAATTCATGGATGAGGATCAATCAAGAAAAAGCTTTCCACAATTTCAGC
1 TCTTGTAGCACCGGAAGAATTCATGGAGGAGGATCAATCAAGAAAAAGCTTTCCACAATTTCAGC
94547 ACGAGCACTCTTAGCCAGCAAATCAGCCACATAATTATTTCCTATAGCTCATGCAAGATTGTTGA
66 ACGAGCACTCTTAGCCAGCAAATCAGCCACATAATTATTTCCTATAGCTCATGCAAGATTGTTGA
94612 GGTATTAC
131 GGTATTAC
94620 AATTGCAAGG
Statistics
Matches: 137, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
138 12 0.09
139 125 0.91
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (138 bp):
TCTTGTAGCACCGGAAGAATTCATGGAGGAGGATCAATCAAGAAAAAGCTTTCCACAATTTCAGC
ACGAGCACTCTTAGCCAGCAAATCAGCCACATAATTATTTCCTATAGCTCATGCAAGATTGTTGA
GGTATTAC
Found at i:96495 original size:18 final size:18
Alignment explanation
Indices: 96457--96532 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 18
96447 AAAACATAAC
96457 AAAGTATTTCTAATCATCAA
1 AAAGTATTTCTAATC--CAA
96477 AAAGTATTTCTAATCCAA
1 AAAGTATTTCTAATCCAA
*
96495 AAAGTATTTATAATCCAA
1 AAAGTATTTCTAATCCAA
* *
96513 AGA-TATTTTTAATCCAA
1 AAAGTATTTCTAATCCAA
96530 AAA
1 AAA
96533 ACACATTATA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
17 15 0.29
18 22 0.42
20 15 0.29
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (18 bp):
AAAGTATTTCTAATCCAA
Found at i:96527 original size:35 final size:37
Alignment explanation
Indices: 96457--96532 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 37
96447 AAAACATAAC
*
96457 AAAGTATTTCTAATCATCAAAAAGTATTTCTAATCCAA
1 AAAGTATTTATAATCA-CAAAAAGTATTTCTAATCCAA
* *
96495 AAAGTATTTATAATC-CAAAGA-TATTTTTAATCCAA
1 AAAGTATTTATAATCACAAAAAGTATTTCTAATCCAA
96530 AAA
1 AAA
96533 ACACATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 16 0.46
36 5 0.14
38 14 0.40
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (37 bp):
AAAGTATTTATAATCACAAAAAGTATTTCTAATCCAA
Found at i:98529 original size:18 final size:18
Alignment explanation
Indices: 98472--98532 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
98462 CTCTATGGTT
*
98472 GATGAATCGACCGAAGGAG
1 GATGAAT-GACAGAAGGAG
* * *
98491 G-TGAACGACAGAAGAAT
1 GATGAATGACAGAAGGAG
98508 GATGAATGACAGAAGGAG
1 GATGAATGACAGAAGGAG
98526 GATGAAT
1 GATGAAT
98533 CGATTGCAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 9 0.26
18 24 0.71
19 1 0.03
ACGTcount: A:0.43, C:0.10, G:0.34, T:0.13
Consensus pattern (18 bp):
GATGAATGACAGAAGGAG
Found at i:113362 original size:21 final size:21
Alignment explanation
Indices: 113338--113387 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
113328 CGAAAATATT
* *
113338 CATTTTAGGTAGTGAAATTAA
1 CATTTTAGGTAGTAAAAATAA
**
113359 CATTTTTCGTAGTAAAAATAA
1 CATTTTAGGTAGTAAAAATAA
113380 CATTTTAG
1 CATTTTAG
113388 TTAACGTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (21 bp):
CATTTTAGGTAGTAAAAATAA
Found at i:116824 original size:18 final size:18
Alignment explanation
Indices: 116801--117031 Score: 203
Period size: 18 Copynumber: 13.3 Consensus size: 18
116791 GCAGCTGTTT
116801 CTCCTCTTCCTTCTT---
1 CTCCTCTTCCTTCTTAGG
* * *
116816 TTCCTCCTCTTTCTT-GG
1 CTCCTCTTCCTTCTTAGG
* * *
116833 CTTCTCCTTCTTTCTTCGG
1 CTCCT-CTTCCTTCTTAGG
116852 CTCCTCTTCCTTCTTAGG
1 CTCCTCTTCCTTCTTAGG
116870 CTCCTCTTCCTTCTTAGG
1 CTCCTCTTCCTTCTTAGG
*
116888 CTCCTCTTCCTTCTTCGG
1 CTCCTCTTCCTTCTTAGG
*
116906 CTCCTCTTCCTTCTTCGG
1 CTCCTCTTCCTTCTTAGG
* *
116924 CTCTTCTTCCTTCTTCGG
1 CTCCTCTTCCTTCTTAGG
* * *
116942 CTCTTCTTCCTTTTTCGG
1 CTCCTCTTCCTTCTTAGG
*
116960 -T--TCTTCCTTCTTTGG
1 CTCCTCTTCCTTCTTAGG
* *
116975 CTCCTCTTCCTTTTTGGG
1 CTCCTCTTCCTTCTTAGG
* * *
116993 TTCCTCTTCTTTCTTTGG
1 CTCCTCTTCCTTCTTAGG
*
117011 ---CTCTTCCTTCTTTGG
1 CTCCTCTTCCTTCTTAGG
117026 CTCCTC
1 CTCCTC
117032 CTTCTTTGGC
Statistics
Matches: 185, Mismatches: 21, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
15 38 0.21
16 1 0.01
17 4 0.02
18 136 0.74
19 6 0.03
ACGTcount: A:0.01, C:0.38, G:0.11, T:0.51
Consensus pattern (18 bp):
CTCCTCTTCCTTCTTAGG
Found at i:116877 original size:51 final size:51
Alignment explanation
Indices: 116801--117052 Score: 184
Period size: 51 Copynumber: 4.9 Consensus size: 51
116791 GCAGCTGTTT
**
116801 CTCCTCTTCCTTCTTTTCCTCCTCTTTCTTGGCTTCTCCTTCTTTCTTCGG
1 CTCCTCTTCCTTCTTTGGCTCCTCTTTCTTGGCTTCTCCTTCTTTCTTCGG
* * *
116852 CTCCTCTTCCTTCTTAGGCTCCTCTTCCTTCTTAGGCTCCT-CTTCCTTCTTCGG
1 CTCCTCTTCCTTCTTTGGCTCCTC-T--TTCTT-GGCTTCTCCTTCTTTCTTCGG
* * *
116906 CTCCTCTTCCTTCTTCGGCTCTTCTTCCTTCTTCGGC-TCTTCTTCCTTT-TTCGG
1 CTCCTCTTCCTTCTTTGGCTC--C-TCTTTCTT-GGCTTCTCCTT-CTTTCTTCGG
* * *
116960 -T--TCTTCCTTCTTTGGCTCCTCTTCCTTTTTGGGTTC-CTCTTCTTTCTTTGG
1 CTCCTCTTCCTTCTTTGGCTCCTC-T--TTCTTGGCTTCTC-CTTCTTTCTTCGG
*
117011 ---CTCTTCCTTCTTTGGCTCCTCCTTCTTTGGC-TCTTCCTTCTT
1 CTCCTCTTCCTTCTTTGGCTCCTCTTTC-TTGGCTTC-TCCTTCTT
117053 CTCCGGCACC
Statistics
Matches: 163, Mismatches: 19, Indels: 40
0.73 0.09 0.18
Matches are distributed among these distances:
48 6 0.04
49 11 0.07
50 7 0.04
51 70 0.43
52 1 0.01
53 3 0.02
54 53 0.33
55 9 0.06
56 1 0.01
57 2 0.01
ACGTcount: A:0.01, C:0.37, G:0.11, T:0.51
Consensus pattern (51 bp):
CTCCTCTTCCTTCTTTGGCTCCTCTTTCTTGGCTTCTCCTTCTTTCTTCGG
Found at i:116927 original size:15 final size:16
Alignment explanation
Indices: 116839--117053 Score: 141
Period size: 18 Copynumber: 12.7 Consensus size: 16
116829 TTGGCTTCTC
*
116839 CTTCTTTCTTCGGCTCCT
1 CTTCCTTCTTCGG--CCT
*
116857 CTTCCTTCTTAGGCTCCT
1 CTTCCTTCTTCGG--CCT
*
116875 CTTCCTTCTTAGGCTCCT
1 CTTCCTTCTTCGG--CCT
116893 CTTCCTTCTTCGGCTCCT
1 CTTCCTTCTTCGG--CCT
116911 CTTCCTTCTTCGGCTCTT
1 CTTCCTTCTTCGGC-C-T
116929 CTTCCTTCTTCGGCTCTT
1 CTTCCTTCTTCGGC-C-T
* *
116947 CTTCCTTTTTCGG-TT
1 CTTCCTTCTTCGGCCT
*
116962 CTTCCTTCTTTGGCTCCT
1 CTTCCTTCTTCGG--CCT
* *
116980 CTTCCTTTTTGGGTTCCT
1 CTTCCTTCTTCGG--CCT
* *
116998 CTTCTTTCTTTGG-CT
1 CTTCCTTCTTCGGCCT
*
117013 CTTCCTTCTTTGG-CT
1 CTTCCTTCTTCGGCCT
* *
117028 CCTCCTTCTTTGG-CT
1 CTTCCTTCTTCGGCCT
117043 CTTCCTTCTTC
1 CTTCCTTCTTC
117054 TCCGGCACCT
Statistics
Matches: 174, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
15 51 0.29
16 1 0.01
17 1 0.01
18 121 0.70
ACGTcount: A:0.01, C:0.37, G:0.12, T:0.51
Consensus pattern (16 bp):
CTTCCTTCTTCGGCCT
Found at i:117065 original size:30 final size:30
Alignment explanation
Indices: 117003--117065 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
116993 TTCCTCTTCT
* * *
117003 TTCTTTGGCTCTTCCTTCTTTGGCTCCTCC
1 TTCTTTGGCTCTTCCTTCTTTGCCGCCACC
*
117033 TTCTTTGGCTCTTCCTTCTTCT-CCGGCACC
1 TTCTTTGGCTCTTCCTTCTT-TGCCGCCACC
117063 TTC
1 TTC
117066 GCTGGCCCGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.02, C:0.38, G:0.13, T:0.48
Consensus pattern (30 bp):
TTCTTTGGCTCTTCCTTCTTTGCCGCCACC
Found at i:118692 original size:16 final size:15
Alignment explanation
Indices: 118671--118710 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
118661 CGAGACGAGC
118671 AATGAGCATCGAGCTT
1 AATGAGCA-CGAGCTT
*
118687 AATGAGTGACGAGCTT
1 AATGAG-CACGAGCTT
118703 AATGAGCA
1 AATGAGCA
118711 ACAAGTCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.23
Consensus pattern (15 bp):
AATGAGCACGAGCTT
Found at i:128501 original size:41 final size:41
Alignment explanation
Indices: 128450--128582 Score: 185
Period size: 41 Copynumber: 3.2 Consensus size: 41
128440 CGCAAATTCG
* * *
128450 CGTTGCGATAGCCTACATTTGTCGTTGTGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGTGATTTTACAAATT
* *
128491 CGTTGCGATAGTCTACAGTTGTTGTTGCGATAGTTTACAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGTGAT--TTTACAAATT
* *
128534 CGTTGCGGTAGTCTACAGTTGTCGTTGTGATTTTTCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGTGATTTTACAAATT
128575 CGTTGCGA
1 CGTTGCGA
128583 AAATTCGTTG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 43 0.54
43 37 0.46
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.41
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGTGATTTTACAAATT
Found at i:128517 original size:22 final size:22
Alignment explanation
Indices: 128490--128560 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
128480 TTTTCCAAAT
128490 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
* * **
128512 TTGTTGCGATAGTTTACAAAT-
1 TCGTTGCGATAGTCTACAGTTG
*
128533 TCGTTGCGGTAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
128555 TCGTTG
1 TCGTTG
128561 TGATTTTTCA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 16 0.41
22 23 0.59
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.39
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:133711 original size:30 final size:31
Alignment explanation
Indices: 133675--133733 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
133665 TTGTCACTAT
*
133675 ACTTTTGAA-AGTTTTTAATTTAATCATTTA
1 ACTTTTGAATAGTTTCTAATTTAATCATTTA
* *
133705 ACTTTTGAATTGTTTCTATTTTAATCATT
1 ACTTTTGAATAGTTTCTAATTTAATCATT
133734 ATGATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (31 bp):
ACTTTTGAATAGTTTCTAATTTAATCATTTA
Found at i:146320 original size:24 final size:24
Alignment explanation
Indices: 146288--146351 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
146278 TTTCTATTTT
*
146288 GTTGAGTTAGTTACAGCTGATGTG
1 GTTGGGTTAGTTACAGCTGATGTG
146312 GTTGGGTTAGTTACAGCTGATGTG
1 GTTGGGTTAGTTACAGCTGATGTG
146336 GTTGGGTTAGTTACAG
1 GTTGGGTTAGTTACAG
146352 ATAGCCTCAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.19, C:0.08, G:0.36, T:0.38
Consensus pattern (24 bp):
GTTGGGTTAGTTACAGCTGATGTG
Found at i:146766 original size:2 final size:2
Alignment explanation
Indices: 146759--146807 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
146749 TCATAAAATT
146759 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
146801 TA TA TA T
1 TA TA TA T
146808 TTACAAAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:147428 original size:2 final size:2
Alignment explanation
Indices: 147421--147454 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
147411 AGTACGAAGG
147421 AT AT 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
147455 TTGTAACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:147833 original size:18 final size:18
Alignment explanation
Indices: 147812--147848 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
147802 TTATCACTAA
147812 AGTTTTAAATACAACTTT
1 AGTTTTAAATACAACTTT
147830 AGTTTTAAATACAACTTT
1 AGTTTTAAATACAACTTT
147848 A
1 A
147849 ATAATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (18 bp):
AGTTTTAAATACAACTTT
Found at i:147858 original size:19 final size:18
Alignment explanation
Indices: 147816--147858 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
147806 CACTAAAGTT
* *
147816 TTAAATACAACTTTAGTT
1 TTAAATACAACTTTAATA
147834 TTAAATACAACTTTAATAA
1 TTAAATACAACTTTAAT-A
147853 TTAAAT
1 TTAAAT
147859 TAAGGGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (18 bp):
TTAAATACAACTTTAATA
Found at i:148039 original size:21 final size:21
Alignment explanation
Indices: 148010--148082 Score: 119
Period size: 21 Copynumber: 3.5 Consensus size: 21
148000 TTCAAGAATC
*
148010 GCAACGCGAACTTAGACTATT
1 GCAATGCGAACTTAGACTATT
148031 GCAATGCGAACTTAGACTATT
1 GCAATGCGAACTTAGACTATT
* *
148052 GCAATGCGAACTTGGACTATC
1 GCAATGCGAACTTAGACTATT
148073 GCAATGCGAA
1 GCAATGCGAA
148083 TATGTAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (21 bp):
GCAATGCGAACTTAGACTATT
Found at i:148121 original size:21 final size:21
Alignment explanation
Indices: 148091--148207 Score: 94
Period size: 21 Copynumber: 5.6 Consensus size: 21
148081 AATATGTAAA
* *
148091 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
148112 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* * *
148133 TTGCATTGCGATAGGCTAAGT
1 TCGCATTGCGATAGTCCAAGT
* * * *
148154 TCGCGTTACGATTTATTCCAAAT
1 TCGCATTGCGA--TAGTCCAAGT
*
148177 TCG--TTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
**
148196 TCGTGTTGCGAT
1 TCGCATTGCGAT
148208 TTATTCCAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
19 10 0.13
21 57 0.75
23 9 0.12
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:148224 original size:21 final size:21
Alignment explanation
Indices: 148157--148224 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
148147 GCTAAGTTCG
*
148157 CGTTACGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* * *
148178 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
148197 CGTGTTGCGATTTATTCCAAATT
1 C--GTTGCGATTTATTCCAAATT
148220 CGTTG
1 CGTTG
148225 TGATAGTCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.25
21 18 0.50
23 9 0.25
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:148231 original size:42 final size:42
Alignment explanation
Indices: 148097--148232 Score: 150
Period size: 42 Copynumber: 3.2 Consensus size: 42
148087 TAAATCGCAA
* * * * *
148097 TGCGATAGTCGAAGTTCGCATTGCGA--TAGTCCAAGTTTGCAT
1 TGCGATAGTCGAAGTTCGCGTTACGATTTATTCCAA-ATT-CGT
* *
148139 TGCGATAGGCTAAGTTCGCGTTACGATTTATTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTACGATTTATTCCAAATTCGT
* *
148181 TGCGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATTCGT
1 TGCGATAGTCGAAGTTCGCGTTACGATTTATTCCAAATTCGT
*
148223 TGTGATAGTC
1 TGCGATAGTC
148233 CAAAATCGCA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
42 71 0.89
43 2 0.03
44 7 0.09
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
TGCGATAGTCGAAGTTCGCGTTACGATTTATTCCAAATTCGT
Found at i:148236 original size:19 final size:19
Alignment explanation
Indices: 148170--148236 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
148160 TACGATTTAT
148170 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
* * *
148189 TCGAAGTTCGTGTTGCGATTTAT
1 TCCAAATTC--GTTGCGA--TAG
*
148212 TCCAAATTCGTTGTGATAG
1 TCCAAATTCGTTGCGATAG
148231 TCCAAA
1 TCCAAA
148237 ATCGCAACGA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
19 15 0.41
21 13 0.35
23 9 0.24
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (19 bp):
TCCAAATTCGTTGCGATAG
Found at i:148990 original size:61 final size:61
Alignment explanation
Indices: 148895--149021 Score: 227
Period size: 61 Copynumber: 2.1 Consensus size: 61
148885 CGTTGCGATT
* * *
148895 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGATTATCGCAATGAAC
1 TTGGACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
148956 TTGGACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
149017 TTGGA
1 TTGGA
149022 ATAAATCGCA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (61 bp):
TTGGACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
Found at i:148999 original size:42 final size:42
Alignment explanation
Indices: 148952--149097 Score: 247
Period size: 42 Copynumber: 3.5 Consensus size: 42
148942 TTATCGCAAT
* *
148952 GAACTTGGACTATCGCAACGAATTTGAAATAAATCGCAACGC
1 GAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGC
*
148994 GAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGC
1 GAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGC
* *
149036 GAACTTGGACTATCACAACGAATTTGGAATAAATCGCAACGC
1 GAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGC
149078 GAACTTCGACTATCGCAACG
1 GAACTTCGACTATCGCAACG
149098 CGAACTTGGA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 96 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
GAACTTCGACTATCGCAACGAATTTGGAATAAATCGCAACGC
Found at i:149092 original size:21 final size:21
Alignment explanation
Indices: 148895--149122 Score: 179
Period size: 21 Copynumber: 11.0 Consensus size: 21
148885 CGTTGCGATT
*
148895 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
148914 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* * *
148937 TTCGATTATCGCAA--TGAAC
1 TTGGACTATCGCAACGCGAAC
*
148956 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
148975 TTGAAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
148998 TTCGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
149017 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
149040 TTGGACTATCACAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
149059 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
149082 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
149103 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
149123 TATGTAAATC
Statistics
Matches: 166, Mismatches: 27, Indels: 30
0.74 0.12 0.13
Matches are distributed among these distances:
19 50 0.30
21 79 0.48
23 37 0.22
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:149114 original size:42 final size:41
Alignment explanation
Indices: 148952--149122 Score: 218
Period size: 42 Copynumber: 4.1 Consensus size: 41
148942 TTATCGCAAT
* * *
148952 GAACTTGGACTATCGCAACGAATTTGAAATAAATCGCAACGC
1 GAACTTCGACTATCGCAACGAACTTGGAAT-AATCGCAACGC
148994 GAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGC
1 GAACTTCGACTATCGCAACGAACTTGGAAT-AATCGCAACGC
* * *
149036 GAACTTGGACTATCACAACGAATTTGGAATAAATCGCAACGC
1 GAACTTCGACTATCGCAACGAACTTGGAAT-AATCGCAACGC
* *
149078 GAACTTCGACTATCGCAACGCGAACTTGGACT-ATCGCAATGC
1 GAACTTCGACTATCGCAA--CGAACTTGGAATAATCGCAACGC
149120 GAA
1 GAA
149123 TATGTAAATC
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 106 0.91
44 10 0.09
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (41 bp):
GAACTTCGACTATCGCAACGAACTTGGAATAATCGCAACGC
Found at i:149114 original size:84 final size:83
Alignment explanation
Indices: 148923--149122 Score: 289
Period size: 84 Copynumber: 2.4 Consensus size: 83
148913 TTTGGAATAA
* * * *
148923 ATCGCAACGCGAACTTCGATTATCGCAA-TGAACTTGGACTATCGCAACGAATTTGAAATAAATC
1 ATCGCAACGCGAACTTGGAATATCGCAAGCGAACTTGGACTATCACAACGAATTTGAAATAAATC
148987 GCAACGCGAACTTCGACT
66 GCAACGCGAACTTCGACT
*
149005 ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCACAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGAAT--ATCGCAA-GCGAACTTGGACTATCACAACGAATTTGAAATAA
149068 ATCGCAACGCGAACTTCGACT
63 ATCGCAACGCGAACTTCGACT
*
149089 ATCGCAACGCGAACTTGGACTATCGCAATGCGAA
1 ATCGCAACGCGAACTTGGAATATCGCAA-GCGAA
149123 TATGTAAATC
Statistics
Matches: 105, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
80 10 0.10
82 14 0.13
84 70 0.67
86 11 0.10
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (83 bp):
ATCGCAACGCGAACTTGGAATATCGCAAGCGAACTTGGACTATCACAACGAATTTGAAATAAATC
GCAACGCGAACTTCGACT
Found at i:155576 original size:2 final size:2
Alignment explanation
Indices: 155569--155601 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
155559 ACTATTGGTT
155569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
155602 TGTCTTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:160999 original size:14 final size:15
Alignment explanation
Indices: 160967--161008 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
160957 ATATGATTTA
160967 AAAATAA-TAATAAT
1 AAAATAATTAATAAT
*
160981 TAAATAATTAA-AAT
1 AAAATAATTAATAAT
160995 AAAATCAATTAATA
1 AAAAT-AATTAATA
161009 GATGATTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 13 0.57
15 9 0.39
16 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATAATTAATAAT
Found at i:181415 original size:33 final size:33
Alignment explanation
Indices: 181359--181427 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
181349 CAGGTAAGAT
*
181359 ATTTTTTAAAATATTGGAGTCGGGTAGGATCGG
1 ATTTTTTAAAATATTGGAGTCGGGTAGGATCAG
*
181392 ATTTTTTAAAATA-T-GATGTTCGGGTCGGATCAG
1 ATTTTTTAAAATATTGGA-G-TCGGGTAGGATCAG
181425 ATT
1 ATT
181428 CAGGTTTAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 2 0.06
32 2 0.06
33 28 0.88
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (33 bp):
ATTTTTTAAAATATTGGAGTCGGGTAGGATCAG
Found at i:182568 original size:27 final size:27
Alignment explanation
Indices: 182538--182590 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
182528 TCAAATATAT
182538 TTTATTATTAACTTAATTTAAAAATAG
1 TTTATTATTAACTTAATTTAAAAATAG
* **
182565 TTTATTTTTATTTTAATTTAAAAATA
1 TTTATTATTAACTTAATTTAAAAATA
182591 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
TTTATTATTAACTTAATTTAAAAATAG
Found at i:182651 original size:30 final size:28
Alignment explanation
Indices: 182604--182831 Score: 145
Period size: 30 Copynumber: 7.9 Consensus size: 28
182594 ATTTTATGTG
182604 AAAATAT-TTT-AAAGTTAAGATAAGAAT
1 AAAATATATTTAAAAGTTAAGATAA-AAT
182631 AAAATATATTTAACAAGTTAA-AGTAAAGAT
1 AAAATATATTTAA-AAGTTAAGA-TAAA-AT
*
182661 ATAATATATTTAGTAAA-TTAAGATAAAAT
1 AAAATATATTTA--AAAGTTAAGATAAAAT
*
182690 ATATAAT-T-TTTGAAAAGTTAAAATAATAAT
1 A-A-AATATATTT-AAAAGTTAAGATAA-AAT
* *
182720 AAAATATATTTTCAAAAGTTATATACAAATAT
1 AAAATATA-TTT-AAAAGTTA-AGATAAA-AT
* *
182752 AAAAATATATTTTAAA-TTAAAGTTAAAAT
1 -AAAATATATTTAAAAGTT-AAGATAAAAT
* *
182781 AAAATA-ATTT-AAA-TCAAGTTAATAAT
1 AAAATATATTTAAAAGTTAAGATAA-AAT
182807 AAAATATATTTAATAAGTTAA-ATAA
1 AAAATATATTTAA-AAGTTAAGATAA
182832 CAAATATTTC
Statistics
Matches: 163, Mismatches: 13, Indels: 48
0.73 0.06 0.21
Matches are distributed among these distances:
25 7 0.04
26 13 0.08
27 15 0.09
28 16 0.10
29 26 0.16
30 46 0.28
31 22 0.13
32 10 0.06
33 8 0.05
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (28 bp):
AAAATATATTTAAAAGTTAAGATAAAAT
Found at i:182802 original size:25 final size:25
Alignment explanation
Indices: 182753--182840 Score: 94
Period size: 26 Copynumber: 3.4 Consensus size: 25
182743 TACAAATATA
182753 AAAATATATTTTAAATTAAAGTTAAAAT
1 AAAATATA-TTTAAA-T-AAGTTAAAAT
182781 AAAATA-ATTTAAATCAAGTTAATAAT
1 AAAATATATTTAAAT-AAGTTAA-AAT
182807 AAAATATATTT-AATAAGTT-AAAT
1 AAAATATATTTAAATAAGTTAAAAT
182830 AACAA-ATATTT
1 AA-AATATATTT
182841 CTTAAATTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 11
0.82 0.01 0.16
Matches are distributed among these distances:
23 11 0.20
24 3 0.05
25 13 0.23
26 18 0.32
27 5 0.09
28 6 0.11
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (25 bp):
AAAATATATTTAAATAAGTTAAAAT
Found at i:182831 original size:26 final size:27
Alignment explanation
Indices: 182753--182827 Score: 95
Period size: 26 Copynumber: 2.9 Consensus size: 27
182743 TACAAATATA
182753 AAAATATATTTTAAATTAAAGTTAA-AAT
1 AAAATATA-TTTAAA-TAAAGTTAATAAT
*
182781 AAAATA-ATTTAAATCAAGTTAATAAT
1 AAAATATATTTAAATAAAGTTAATAAT
182807 AAAATATATTT-AAT-AAGTTAA
1 AAAATATATTTAAATAAAGTTAA
182828 ATAACAAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
25 15 0.34
26 18 0.41
27 5 0.11
28 6 0.14
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (27 bp):
AAAATATATTTAAATAAAGTTAATAAT
Found at i:186994 original size:133 final size:134
Alignment explanation
Indices: 186755--187013 Score: 380
Period size: 133 Copynumber: 1.9 Consensus size: 134
186745 TAGTTCCAGG
* * *
186755 AATTTAGTCCCTCAGCTTCTCTGATTTATAAATTAAAGACCAATTGATAACATTATTGATTGAAT
1 AATTTAGTCCCTCAACTTCTCTGATATAAAAATTAAAGACCAATTGATAACATTATTGATTGAAT
* * * *
186820 TTCATTAAGTTGGACTATGTTTTATCAATTAGACTCTAAATTTTGAATCAGATC-TTTGAATTTC
66 TTCATTAAGTTAGAATATATTTTATCAATTAGACACTAAATTTTGAATCAGA-CATTTGAATTTC
186884 ATTAA
130 ATTAA
* *
186889 AATTTAGTCCCTCAACTTCTCT-ATATAAAAATTAAAGTCCAATTGATAACGTTATTGATTGAAT
1 AATTTAGTCCCTCAACTTCTCTGATATAAAAATTAAAGACCAATTGATAACATTATTGATTGAAT
* *
186953 TTCATT-AGATTATAATATATTTTATCAGTTAGACACTAAATTTTGAATCAGACATTTGAAT
66 TTCATTAAG-TTAGAATATATTTTATCAATTAGACACTAAATTTTGAATCAGACATTTGAAT
187014 ATTAGGATTC
Statistics
Matches: 112, Mismatches: 11, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
132 3 0.03
133 88 0.79
134 21 0.19
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (134 bp):
AATTTAGTCCCTCAACTTCTCTGATATAAAAATTAAAGACCAATTGATAACATTATTGATTGAAT
TTCATTAAGTTAGAATATATTTTATCAATTAGACACTAAATTTTGAATCAGACATTTGAATTTCA
TTAA
Found at i:187208 original size:20 final size:21
Alignment explanation
Indices: 187166--187208 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
187156 AGCATGTGAC
* *
187166 AAATGACATTGGGGATTTAGA
1 AAATGACATTAGGGATTGAGA
*
187187 AAATGA-ATTAGGGATTGCGA
1 AAATGACATTAGGGATTGAGA
187207 AA
1 AA
187209 GAGAAGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.26
Consensus pattern (21 bp):
AAATGACATTAGGGATTGAGA
Found at i:187371 original size:16 final size:16
Alignment explanation
Indices: 187350--187382 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
187340 TAATAAATAA
*
187350 ACGAATATAAACGAAC
1 ACGAATATAAACAAAC
187366 ACGAATATAAACAAAC
1 ACGAATATAAACAAAC
187382 A
1 A
187383 ATTTTTTTTT
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:0.61, C:0.18, G:0.09, T:0.12
Consensus pattern (16 bp):
ACGAATATAAACAAAC
Found at i:187751 original size:14 final size:14
Alignment explanation
Indices: 187731--187815 Score: 134
Period size: 14 Copynumber: 6.1 Consensus size: 14
187721 GCCCTCTGTT
187731 CGAACATAAATGAA
1 CGAACATAAATGAA
*
187745 TGAACATAAATGAA
1 CGAACATAAATGAA
*
187759 TGAACATAAATGAA
1 CGAACATAAATGAA
*
187773 CGAACATAAATGGA
1 CGAACATAAATGAA
187787 CGAACATAAATGAA
1 CGAACATAAATGAA
*
187801 CGAACATAAACGAA
1 CGAACATAAATGAA
187815 C
1 C
187816 ATATAATCGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 66 1.00
ACGTcount: A:0.55, C:0.14, G:0.15, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Done.