Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 3 of 24
Found at i:344369 original size:61 final size:59
Alignment explanation
Indices: 344178--344415 Score: 203
Period size: 61 Copynumber: 3.8 Consensus size: 59
344168 GGTACCACGA
* * * *
344178 AGTTGTGGACTTAAAAGGAAAA-TGTGGCACAGAGTTATGGACTTTAAAAGAAACAGGTGCCACA
1 AGTTGTGGACTTAAAAGAAAAAGGGTGCCACAGAGTTATAGAC-TTAAAAG-----GGTGCCA-A
344242 G
59 G
* * * * * *
344243 AGATGTGGACTTAAAAGGAAAAA-GGTGCCATAGAGTTGTGGATTTAAAAAGGTG-CAACG
1 AGTTGTGGACTTAAAA-GAAAAAGGGTGCCACAGAGTTATAGACTTAAAAGGGTGCCAA-G
* * *
344302 AAGTTGTGGACTTAAAAGCAAAAAGGGTGACACAGAGTTTTTGACTTAAAAGGGTGCCATAG
1 -AGTTGTGGACTTAAAAG-AAAAAGGGTGCCACAGAGTTATAGACTTAAAAGGGTGCCA-AG
*
344364 AGTTGTGGACTTTAAAAGGAAAAGGGTGCCACAGAGTTATAGACTTTAAAAG
1 AGTTGTGGAC-TTAAAAGAAAAAGGGTGCCACAGAGTTATAGAC-TTAAAAG
344416 AAAGAGGTAC
Statistics
Matches: 145, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
58 1 0.01
59 4 0.03
60 24 0.17
61 57 0.39
62 17 0.12
63 1 0.01
65 21 0.14
66 20 0.14
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (59 bp):
AGTTGTGGACTTAAAAGAAAAAGGGTGCCACAGAGTTATAGACTTAAAAGGGTGCCAAG
Found at i:344492 original size:29 final size:30
Alignment explanation
Indices: 344323--344484 Score: 109
Period size: 34 Copynumber: 5.3 Consensus size: 30
344313 TTAAAAGCAA
* * *
344323 AAAGGGTGACACAGAGTTTTTGAC-TT-A-
1 AAAGGGTGCCACAGAGTTGTAGACTTTAAT
* * *
344350 AAAGGGTGCCATAGAGTTGTGGACTTTAAAAGGA
1 AAAGGGTGCCACAGAGTTGTAGACTTT--AA--T
* *
344384 AAAGGGTGCCACAGAGTTATAGACTTTAAAAG
1 AAAGGGTGCCACAGAGTTGTAGACTTT--AAT
* * *
344416 AAAGAGGTACGAC-GAAGTTGTGGACTTTAAT
1 AAAG-GGTGCCACAG-AGTTGTAGACTTTAAT
*
344447 AAGGGGTGCCACAGAGTTGTAGACTTTAA-
1 AAAGGGTGCCACAGAGTTGTAGACTTTAAT
344476 AAAGGGTGC
1 AAAGGGTGC
344485 TACTGAGTAA
Statistics
Matches: 107, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
27 20 0.19
28 2 0.02
29 8 0.07
30 20 0.19
31 7 0.07
32 5 0.05
33 17 0.16
34 28 0.26
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.24
Consensus pattern (30 bp):
AAAGGGTGCCACAGAGTTGTAGACTTTAAT
Found at i:344500 original size:29 final size:29
Alignment explanation
Indices: 344436--344570 Score: 101
Period size: 29 Copynumber: 4.4 Consensus size: 29
344426 GACGAAGTTG
* * **
344436 TGGACTTTAATAAGGGGTGCCACAGAGTTG
1 TGGACTTTAA-AAAGGGTGCCACTGAGTAA
* *
344466 TAGACTTTAAAAAGGGTGCTACTGAGTAA
1 TGGACTTTAAAAAGGGTGCCACTGAGTAA
* * *
344495 TGGACTTTGAAAAGAGATGCCACTGAGTCA
1 TGGACTTTAAAAAG-GGTGCCACTGAGTAA
* *
344525 TGGA-TTTAAAAAAAAGGGATGCCACTAAGTCA
1 TGGACTTT---AAAAAGGG-TGCCACTGAGTAA
344557 TGGACTTTGAAAAA
1 TGGACTTT-AAAAA
344571 AAATGCCACT
Statistics
Matches: 84, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
29 29 0.35
30 25 0.30
31 6 0.07
32 21 0.25
33 3 0.04
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (29 bp):
TGGACTTTAAAAAGGGTGCCACTGAGTAA
Found at i:344566 original size:62 final size:62
Alignment explanation
Indices: 344474--344626 Score: 170
Period size: 62 Copynumber: 2.5 Consensus size: 62
344464 TGTAGACTTT
* * * * * * *
344474 AAAAAGGG-TGCTACTGAGTAATGGACTTTGAAAAGAGATGCCACTGAGTCATGGATTTA-AA
1 AAAAAGGGATGCCACTAAGTCATGGACTTTGAAAAAAAATGCCACTAAGTCATGGA-CTAGAA
* *
344535 AAAAAGGGATGCCACTAAGTCATGGACTTTGAAAAAAAATGCCACTAAGTCGTGGACTAGGA
1 AAAAAGGGATGCCACTAAGTCATGGACTTTGAAAAAAAATGCCACTAAGTCATGGACTAGAA
* *
344597 GAAAA--GATGCCACTAAGTCGTGGACTTTGA
1 AAAAAGGGATGCCACTAAGTCATGGACTTTGA
344627 GAAGGTTACA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
60 24 0.30
61 10 0.13
62 45 0.57
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (62 bp):
AAAAAGGGATGCCACTAAGTCATGGACTTTGAAAAAAAATGCCACTAAGTCATGGACTAGAA
Found at i:344629 original size:30 final size:30
Alignment explanation
Indices: 344468--344626 Score: 151
Period size: 30 Copynumber: 5.3 Consensus size: 30
344458 CAGAGTTGTA
* * * * *
344468 GACTTT-AAAAAGGGTGCTACTGAGTAATG
1 GACTTTGAAAAAAGATGCCACTAAGTCATG
* *
344497 GACTTTGAAAAGAGATGCCACTGAGTCATG
1 GACTTTGAAAAAAGATGCCACTAAGTCATG
*
344527 GA-TTTAAAAAAAAGGGATGCCACTAAGTCATG
1 GACTTT-GAAAAAA--GATGCCACTAAGTCATG
* *
344559 GACTTTGAAAAAAAATGCCACTAAGTCGTG
1 GACTTTGAAAAAAGATGCCACTAAGTCATG
** * *
344589 GACTAGGAGAAAAGATGCCACTAAGTCGTG
1 GACTTTGAAAAAAGATGCCACTAAGTCATG
344619 GACTTTGA
1 GACTTTGA
344627 GAAGGTTACA
Statistics
Matches: 108, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
29 9 0.08
30 72 0.67
32 24 0.22
33 3 0.03
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.23
Consensus pattern (30 bp):
GACTTTGAAAAAAGATGCCACTAAGTCATG
Found at i:346068 original size:22 final size:22
Alignment explanation
Indices: 346024--346069 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
346014 GCCTTTGCAC
*
346024 TTTTTTATTTGTTTTTCTTCTT
1 TTTTTTATTTGTTTTTCTGCTT
*
346046 TTTTTTCATTT-TTTTTGTGCTT
1 TTTTTT-ATTTGTTTTTCTGCTT
346068 TT
1 TT
346070 GCTTTTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.04, C:0.09, G:0.07, T:0.80
Consensus pattern (22 bp):
TTTTTTATTTGTTTTTCTGCTT
Found at i:357942 original size:20 final size:21
Alignment explanation
Indices: 357917--357967 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
357907 GACATGGTCC
*
357917 TGTATCGATACATTCACTTA-
1 TGTATCGATACATTCACTAAT
357937 TGTATCGATACATTCACTAAT
1 TGTATCGATACATTCACTAAT
357958 TGTATCGATA
1 TGTATCGATA
357968 AAAATTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTCACTAAT
Found at i:358435 original size:29 final size:29
Alignment explanation
Indices: 358402--358568 Score: 185
Period size: 29 Copynumber: 5.8 Consensus size: 29
358392 GTATCCTTTT
* *
358402 TCAAAGTCTACAACTCAGTGGCACCTTTC
1 TCAAAGTCCACAACTCAGTGGCACCCTTC
* *
358431 TCAAAGTCCACAACTCAATGACACCCTTC
1 TCAAAGTCCACAACTCAGTGGCACCCTTC
* **
358460 TCAAAGTCCACGACTCAGTGATACCCTTC
1 TCAAAGTCCACAACTCAGTGGCACCCTTC
* *
358489 TCAAAGTCCACAACTTAATGGCACCCTTC
1 TCAAAGTCCACAACTCAGTGGCACCCTTC
* * * *
358518 TCAAATTTCACAATTCAGTGGCATCCTTC
1 TCAAAGTCCACAACTCAGTGGCACCCTTC
* *
358547 TTAAAGT-C-CAACTTAGTGGCAC
1 TCAAAGTCCACAACTCAGTGGCAC
358569 TTTTCTAAAA
Statistics
Matches: 115, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
27 11 0.10
28 1 0.01
29 103 0.90
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
TCAAAGTCCACAACTCAGTGGCACCCTTC
Found at i:358838 original size:52 final size:52
Alignment explanation
Indices: 358772--359238 Score: 526
Period size: 52 Copynumber: 9.0 Consensus size: 52
358762 TCCCAAGCCT
* * * * *
358772 AATGTCACTAGCCTTGGATCAACACAGTGGCACTCTTATCATCTTTAAGTCC
1 AATGTCGCTAGCCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTCC
* * *
358824 AATGTCGCTGGCCTTGAATCAGCACATTGGCACACTTATCATCTTTAAGTCC
1 AATGTCGCTAGCCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTCC
* * * *
358876 AATGTTGCTAGCCTTGAATTAGCATATTAGCACTCTTATCATCTTTAAGTCT
1 AATGTCGCTAGCCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTCC
* * * * ** *
358928 AATGTCGCTGGCCTTGAATTAGCACATTAGCACTCTCGTCATCTTTAAGTCG
1 AATGTCGCTAGCCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTCC
* * * * *
358980 GATGTCG-TCGACATTGAATCAGCACATTGGCACTTTTATCATCTTTAAGTCC
1 AATGTCGCTAG-CCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTCC
** *
359032 AATGTTACTAGCCTTGAATCAGCATATTGGCAC-CTCCATCATCTTTAAGTCC
1 AATGTCGCTAGCCTTGAATCAGCATATTGGCACTCT-TATCATCTTTAAGTCC
* * * * * **
359084 AATGTCGCTAACCTTGAATCAGCATATTGGCACTTTTGTTATCTTTAACTTT
1 AATGTCGCTAGCCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTCC
* * * * *
359136 AATATCGTTGGCCTTGAATCAGCATATTGGCAC-CTTTATCATTTTTAAGTCT
1 AATGTCGCTAGCCTTGAATCAGCATATTGGCACTC-TTATCATCTTTAAGTCC
*
359188 AATGTCGCTAGCCTTGAATCAGCATATTGGCACTCTTATCATCGTTAAGTC
1 AATGTCGCTAGCCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTC
359239 TAGTGTCATA
Statistics
Matches: 348, Mismatches: 61, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
51 3 0.01
52 341 0.98
53 4 0.01
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (52 bp):
AATGTCGCTAGCCTTGAATCAGCATATTGGCACTCTTATCATCTTTAAGTCC
Found at i:359056 original size:156 final size:156
Alignment explanation
Indices: 358770--359280 Score: 589
Period size: 156 Copynumber: 3.3 Consensus size: 156
358760 CCTCCCAAGC
* * * * * * *
358770 CTAATGTCACTAGCCTTGGATCAACACAGTGGCACTCTTATCATCTTTAAGTCCAATGTCG-CTG
1 CTAATGTCGCTGGCCTTGAATTAGCACATTGGCACTCTTGTCATCTTTAAGTCCAATGTCGTC-G
* *
358834 GCCTTGAATCAGCACATTGGCACACTTATCATCTTTAAGTCCAATGTTGCTAGCCTTGAATTAGC
65 GCCTTGAATCAGCACATTGGCACATTTATCATCTTTAAGTCCAATGTTGCTAGCCTTGAATCAGC
*
358899 ATATTAGCACTCTTATCATCTTTAAGT
130 ATATTGGCACTCTTATCATCTTTAAGT
* * ** *
358926 CTAATGTCGCTGGCCTTGAATTAGCACATTAGCACTCTCGTCATCTTTAAGTCGGATGTCGTCGA
1 CTAATGTCGCTGGCCTTGAATTAGCACATTGGCACTCTTGTCATCTTTAAGTCCAATGTCGTCGG
* * *
358991 CATTGAATCAGCACATTGGCACTTTTATCATCTTTAAGTCCAATGTTACTAGCCTTGAATCAGCA
66 CCTTGAATCAGCACATTGGCACATTTATCATCTTTAAGTCCAATGTTGCTAGCCTTGAATCAGCA
*
359056 TATTGGCAC-CTCCATCATCTTTAAGT
131 TATTGGCACTCT-TATCATCTTTAAGT
* ** * * * * * ** * *
359082 CCAATGTCGCTAACCTTGAATCAGCATATTGGCACTTTTGTTATCTTTAACTTTAATATCGTTGG
1 CTAATGTCGCTGGCCTTGAATTAGCACATTGGCACTCTTGTCATCTTTAAGTCCAATGTCGTCGG
* * * * *
359147 CCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCTAATGTCGCTAGCCTTGAATCAGCA
66 CCTTGAATCAGCACATTGGCACATTTATCATCTTTAAGTCCAATGTTGCTAGCCTTGAATCAGCA
*
359212 TATTGGCACTCTTATCATCGTTAAGT
131 TATTGGCACTCTTATCATCTTTAAGT
* * * *
359238 CTAGTGTC-ATAGGCCCTGAATTTGCACATTGGCACAT-TTGTCA
1 CTAATGTCGCT-GGCCTTGAATTAGCACATTGGCAC-TCTTGTCA
359281 AAAATTCTTT
Statistics
Matches: 296, Mismatches: 54, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
155 3 0.01
156 289 0.98
157 4 0.01
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (156 bp):
CTAATGTCGCTGGCCTTGAATTAGCACATTGGCACTCTTGTCATCTTTAAGTCCAATGTCGTCGG
CCTTGAATCAGCACATTGGCACATTTATCATCTTTAAGTCCAATGTTGCTAGCCTTGAATCAGCA
TATTGGCACTCTTATCATCTTTAAGT
Found at i:359998 original size:20 final size:21
Alignment explanation
Indices: 359959--360009 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
359949 GAAGAAAAAT
359959 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
***
359979 TGTATCGATACATGCTTGAAA
1 TGTATCGATACATAAGTGAAA
360000 TGTATCGATA
1 TGTATCGATA
360010 TCTTATTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:361207 original size:65 final size:65
Alignment explanation
Indices: 361132--361260 Score: 240
Period size: 65 Copynumber: 2.0 Consensus size: 65
361122 TGACCATATT
* *
361132 GTCATTTAGATAGCCAGCATCTCCATGAATATTACTCATGATTTTCTTGCATGTTCATCATGTTG
1 GTCATTTAGATAGCCAACATCTCCATGAATAGTACTCATGATTTTCTTGCATGTTCATCATGTTG
361197 GTCATTTAGATAGCCAACATCTCCATGAATAGTACTCATGATTTTCTTGCATGTTCATCATGTT
1 GTCATTTAGATAGCCAACATCTCCATGAATAGTACTCATGATTTTCTTGCATGTTCATCATGTT
361261 TTCCTTCTCA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (65 bp):
GTCATTTAGATAGCCAACATCTCCATGAATAGTACTCATGATTTTCTTGCATGTTCATCATGTTG
Found at i:367562 original size:44 final size:46
Alignment explanation
Indices: 367473--367562 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
367463 CATGTATGGA
* * *
367473 TAATATATTATATTTTCAAATATAATATAAAAGATTTTCTTAATTT
1 TAATATATTATATTTCCAAAAATAATATAAAAGAATTTCTTAATTT
*
367519 TAATATATTGTATTTCCAAAAATAATA-AAAA-AATTTCTTAATTT
1 TAATATATTATATTTCCAAAAATAATATAAAAGAATTTCTTAATTT
367563 CATTCATGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 12 0.30
45 4 0.10
46 24 0.60
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.47
Consensus pattern (46 bp):
TAATATATTATATTTCCAAAAATAATATAAAAGAATTTCTTAATTT
Found at i:370826 original size:3 final size:3
Alignment explanation
Indices: 370818--370842 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
370808 TGTTTTTGTC
370818 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
370843 GTTAAGATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:371176 original size:20 final size:21
Alignment explanation
Indices: 371153--371204 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
371143 AGATTGCACA
**
371153 GTATCGATACATGACCA-AAT
1 GTATCGATACATGAAAAGAAT
*
371173 GTATCGATACTTGAAAAGAAT
1 GTATCGATACATGAAAAGAAT
371194 GTATCGATACA
1 GTATCGATACA
371205 GGTCATTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.27
Consensus pattern (21 bp):
GTATCGATACATGAAAAGAAT
Found at i:371283 original size:13 final size:13
Alignment explanation
Indices: 371265--371290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
371255 ACACACAATA
371265 TGTATCGATACAT
1 TGTATCGATACAT
371278 TGTATCGATACAT
1 TGTATCGATACAT
371291 CCCAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:371306 original size:33 final size:32
Alignment explanation
Indices: 371245--371312 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
371235 CCTTAACTGT
*
371245 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
371277 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
371310 TTG
1 TTG
371313 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:372596 original size:15 final size:16
Alignment explanation
Indices: 372578--372607 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
372568 AAAAGTTTGG
372578 AGAAAAAAA-AAAGAC
1 AGAAAAAAACAAAGAC
372593 AGAAAAAAACAAAGA
1 AGAAAAAAACAAAGA
372608 AAGAGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (16 bp):
AGAAAAAAACAAAGAC
Found at i:376170 original size:18 final size:17
Alignment explanation
Indices: 376124--376171 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
376114 ATATAAAATC
* *
376124 ATTTTCTAGAAGTTAGT
1 ATTTTGTAGAAATTAGT
376141 ATTTTGTAGAAATTAGT
1 ATTTTGTAGAAATTAGT
376158 ATTTTGTTAGAAAT
1 ATTTTG-TAGAAAT
376172 CTTATTTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 21 0.75
18 7 0.25
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (17 bp):
ATTTTGTAGAAATTAGT
Found at i:376756 original size:13 final size:13
Alignment explanation
Indices: 376735--376764 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
376725 CGATACATGG
*
376735 TACATTGTATCGA
1 TACAATGTATCGA
376748 TACAATGTATCGA
1 TACAATGTATCGA
376761 TACA
1 TACA
376765 TGAGGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:376762 original size:33 final size:33
Alignment explanation
Indices: 376720--376784 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
376710 TACCACTATT
*
376720 TGTATCGATACATG-GTACATTGTATCGATACAA
1 TGTATCGATACATGAGGA-ATTGTATCGATACAA
376753 TGTATCGATACATGAGGAATTGTATCGATACA
1 TGTATCGATACATGAGGAATTGTATCGATACA
376785 TTACTTCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGAGGAATTGTATCGATACAA
Found at i:376834 original size:19 final size:20
Alignment explanation
Indices: 376810--376847 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
376800 ATAATTTCAA
376810 ATGAA-TGTATCGATACATT
1 ATGAATTGTATCGATACATT
376829 ATGAATTGTATCGATACAT
1 ATGAATTGTATCGATACAT
376848 AGCTATGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGAATTGTATCGATACATT
Found at i:380795 original size:16 final size:16
Alignment explanation
Indices: 380772--380865 Score: 80
Period size: 16 Copynumber: 5.9 Consensus size: 16
380762 TAATTGTTTG
380772 AGTCATTTCGGGTTCA
1 AGTCATTTCGGGTTCA
* * **
380788 AATCATTTTGGGTTTG
1 AGTCATTTCGGGTTCA
*
380804 AGTCATTTTGGGTTCA
1 AGTCATTTCGGGTTCA
* *
380820 GGTCATTTCGAGTTCA
1 AGTCATTTCGGGTTCA
* * * *
380836 AGTTATTTTGGATTCG
1 AGTCATTTCGGGTTCA
*
380852 AGTTATTTCGGGTT
1 AGTCATTTCGGGTT
380866 TGGGTTATTT
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 60 1.00
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.45
Consensus pattern (16 bp):
AGTCATTTCGGGTTCA
Found at i:380844 original size:48 final size:48
Alignment explanation
Indices: 380773--380865 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
380763 AATTGTTTGA
* * * *
380773 GTCATTTCGGGTTCAAATCATTTTGGGTTTGAGTCATTTTGGGTTCAG
1 GTCATTTCGAGTTCAAATCATTTTGGATTCGAGTCATTTCGGGTTCAG
* * *
380821 GTCATTTCGAGTTCAAGTTATTTTGGATTCGAGTTATTTCGGGTT
1 GTCATTTCGAGTTCAAATCATTTTGGATTCGAGTCATTTCGGGTT
380866 TGGGTTATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.17, C:0.12, G:0.26, T:0.45
Consensus pattern (48 bp):
GTCATTTCGAGTTCAAATCATTTTGGATTCGAGTCATTTCGGGTTCAG
Found at i:380872 original size:16 final size:17
Alignment explanation
Indices: 380853--380885 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
380843 TTGGATTCGA
*
380853 GTTA-TTTCGGGTTTGG
1 GTTATTTTCGAGTTTGG
380869 GTTATTTTCGAGTTTGG
1 GTTATTTTCGAGTTTGG
380886 ATCGGTCGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.06, G:0.33, T:0.52
Consensus pattern (17 bp):
GTTATTTTCGAGTTTGG
Found at i:382854 original size:17 final size:17
Alignment explanation
Indices: 382826--382866 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
382816 AGTCAAACCT
*
382826 AAAAAGTTAACAATTGA
1 AAAAAGTCAACAATTGA
*
382843 AACAAGTCAACAATTGA
1 AAAAAGTCAACAATTGA
382860 AAAAAGT
1 AAAAAGT
382867 TGACCTGGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.20
Consensus pattern (17 bp):
AAAAAGTCAACAATTGA
Found at i:383012 original size:39 final size:40
Alignment explanation
Indices: 382957--383046 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
382947 CTAACTAGGT
* * **
382957 CAGATGAGAAGGGTTGACTAGGAC-AAACCTATTAGTCAA
1 CAGATGAAAAGAGTTGACTAGGACAAAACCTACAAGTCAA
* *
382996 TAGATGAAAAGAGTTGATTAGGACAAAACCTACAAGTCAA
1 CAGATGAAAAGAGTTGACTAGGACAAAACCTACAAGTCAA
383036 CAGATGAAAAG
1 CAGATGAAAAG
383047 GGTTCACCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 20 0.47
40 23 0.53
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.19
Consensus pattern (40 bp):
CAGATGAAAAGAGTTGACTAGGACAAAACCTACAAGTCAA
Found at i:383966 original size:76 final size:75
Alignment explanation
Indices: 383835--384011 Score: 205
Period size: 76 Copynumber: 2.3 Consensus size: 75
383825 TATGTGGTTT
* * * * *
383835 CATCAATAGCCAAAACAAACTAATAATAAGCTAAAAAAGAGGAAAATGATGGGGAAAATTTTG-T
1 CATCAATAGCCAAAA-AAACTAATAACAAGCTAAAAAAGAAGAAAATGATAGGGAAAATGTAGCT
*
383899 TTCTATAATTTC
65 TT-TAAAATTTC
** * *
383911 CATCAATAATCAAAATAAACTAATAACAAGCTAAAGAAA-AAGAACATGATAGGGAATATGTAGC
1 CATCAATAGCCAAAA-AAACTAATAACAAGCTAAA-AAAGAAGAAAATGATAGGGAAAATGTAGC
383975 TTTTAAAATTTC
64 TTTTAAAATTTC
*
383987 CATCAATAGCCAAAAATACTAATAA
1 CATCAATAGCCAAAAAAACTAATAA
384012 TAGAATGTTG
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
75 9 0.11
76 70 0.82
77 6 0.07
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.25
Consensus pattern (75 bp):
CATCAATAGCCAAAAAAACTAATAACAAGCTAAAAAAGAAGAAAATGATAGGGAAAATGTAGCTT
TTAAAATTTC
Found at i:387177 original size:27 final size:25
Alignment explanation
Indices: 387146--387195 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
387136 TATTAATCGA
*
387146 GAATATTCAAACCCCATTCTTTTAAGG
1 GAATACTCAAACCCCA--CTTTTAAGG
*
387173 GAATACTCCAACCCCACTTTTAA
1 GAATACTCAAACCCCACTTTTAA
387196 ACTTGTCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
27 14 0.67
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (25 bp):
GAATACTCAAACCCCACTTTTAAGG
Found at i:394943 original size:21 final size:21
Alignment explanation
Indices: 394913--394953 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
394903 ATGTGTATAA
* *
394913 GTATGGGTATATGTATGCATG
1 GTATGAGTATATGAATGCATG
394934 GTATGAGTATATGAATGCAT
1 GTATGAGTATATGAATGCAT
394954 TTGCAGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.37
Consensus pattern (21 bp):
GTATGAGTATATGAATGCATG
Found at i:399234 original size:33 final size:32
Alignment explanation
Indices: 399174--399240 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
399164 ATGAAACTAG
399174 TTAAAAATAAAATAAATAAAATAAAATATAAAT
1 TTAAAAATAAAATAAATAAAATAAAATA-AAAT
* * *
399207 TTAAAATTAAAATTAATAATCAT-AAATAAAAT
1 TTAAAAATAAAATAAATAA-AATAAAATAAAAT
399239 TT
1 TT
399241 TGGAAATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 6 0.20
33 22 0.73
34 2 0.07
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (32 bp):
TTAAAAATAAAATAAATAAAATAAAATAAAAT
Found at i:402820 original size:29 final size:29
Alignment explanation
Indices: 402763--402821 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
402753 TCAGCTGAGG
* *
402763 AAAAGTAGAAAAGAAAAAAGATAGTAAAA
1 AAAAGAAGAAAAGAAAAAAGATAGAAAAA
402792 AAAAGAAGAAAAAGAGAAAAA-A-AGAAAAA
1 AAAAGAAG-AAAAGA-AAAAAGATAGAAAAA
402821 A
1 A
402822 TAGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 14 0.54
30 7 0.27
31 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (29 bp):
AAAAGAAGAAAAGAAAAAAGATAGAAAAA
Found at i:403843 original size:58 final size:58
Alignment explanation
Indices: 403758--403888 Score: 140
Period size: 58 Copynumber: 2.3 Consensus size: 58
403748 ATTTTAAGAT
** * **
403758 CATTTTAGTCATTTTTTATGATTTAGGGATAATTATG-CAAATTCATGCATTTTCAA-GC
1 CATTTTAGTCATTTTCCATAACGTAGGGATAATTATGTC-AATTCATGCATTTT-AATGC
** * *
403816 CATTTTAGTCATTTTCCATAACGTAGGGATTTTTATGTCATTTCATGCATTTTAATGG
1 CATTTTAGTCATTTTCCATAACGTAGGGATAATTATGTCAATTCATGCATTTTAATGC
*
403874 CATTTTAGTAATTTT
1 CATTTTAGTCATTTT
403889 TCATGAGTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
57 2 0.03
58 58 0.95
59 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (58 bp):
CATTTTAGTCATTTTCCATAACGTAGGGATAATTATGTCAATTCATGCATTTTAATGC
Found at i:403908 original size:58 final size:58
Alignment explanation
Indices: 403799--403921 Score: 160
Period size: 58 Copynumber: 2.1 Consensus size: 58
403789 ATTATGCAAA
* * *
403799 TTCATGCATTTTCAAGCCATTTTAGTCATTTTCCATAACGTAGGGATTTTTATGTCAT
1 TTCATGCATTTTCAAGCCATTTTAGTAATTTTCCATAACGTAAGGACTTTTATGTCAT
* * *
403857 TTCATGCATTTT-AATGGCATTTTAGTAATTTTTCATGA-GTTAAGGACTTTTATGTCAT
1 TTCATGCATTTTCAA-GCCATTTTAGTAATTTTCCATAACG-TAAGGACTTTTATGTCAT
403915 TTCATGC
1 TTCATGC
403922 TCTTTATTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
57 3 0.05
58 54 0.95
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (58 bp):
TTCATGCATTTTCAAGCCATTTTAGTAATTTTCCATAACGTAAGGACTTTTATGTCAT
Found at i:403968 original size:58 final size:58
Alignment explanation
Indices: 403799--403948 Score: 148
Period size: 58 Copynumber: 2.6 Consensus size: 58
403789 ATTATGCAAA
* * * * *
403799 TTCATGCATTTTCA-AGCCATTTTAGTCAT-TTTCCATAACG-TAGGGATTTTTATGTCAT
1 TTCATGCATTTTAATAG-CATTTTAGTAATATTT-CATGA-GTTAAGGACTTTTATGTCAT
* *
403857 TTCATGCATTTTAATGGCATTTTAGTAATTTTTCATGAGTTAAGGACTTTTATGTCAT
1 TTCATGCATTTTAATAGCATTTTAGTAATATTTCATGAGTTAAGGACTTTTATGTCAT
* *
403915 TTCATGC-TCTTTATTATCATTTTAGTAA-ATTTCA
1 TTCATGCAT-TTTAATAGCATTTTAGTAATATTTCA
403949 ATGATTTTGG
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
57 7 0.09
58 67 0.86
59 4 0.05
ACGTcount: A:0.25, C:0.14, G:0.13, T:0.48
Consensus pattern (58 bp):
TTCATGCATTTTAATAGCATTTTAGTAATATTTCATGAGTTAAGGACTTTTATGTCAT
Found at i:405587 original size:9 final size:9
Alignment explanation
Indices: 405573--405600 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
405563 AAAAGCAAAG
405573 TGGTGATTC
1 TGGTGATTC
405582 TGGTGATTC
1 TGGTGATTC
405591 TGGTGATTC
1 TGGTGATTC
405600 T
1 T
405601 ATGTTTATTG
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:0.11, C:0.11, G:0.32, T:0.46
Consensus pattern (9 bp):
TGGTGATTC
Found at i:407656 original size:241 final size:241
Alignment explanation
Indices: 407233--407703 Score: 879
Period size: 241 Copynumber: 2.0 Consensus size: 241
407223 TTAAATGCAA
*
407233 AATGATTTTAATGAAAATACATATTTTGCATCTTGAATATGGTTAAGCTTAATTAAATATGCATT
1 AATGATTTTAATGAAAATACATATTTTGCATCTTGAATAAGGTTAAGCTTAATTAAATATGCATT
407298 TGACATTTAATGATTAATGAATTGTGAAATAATTTTATGAAGCATGAACTTAAACATGATATTAT
66 TGACATTTAATGATTAATGAATTGTGAAATAATTTTATGAAGCATGAACTTAAACATGATATTAT
* *
407363 GCTTAAAAGTTTTATTTTAAATGATATTATGTTTTGAGTACCTAGCAAGTTTTATTAGATGACTA
131 GCTTAAAAATTTTATTTTAAATGATATTATGTTTTGAATACCTAGCAAGTTTTATTAGATGACTA
407428 AAATCGTATGCATATCCATAGGGGCAGCAAATAAATGATTAAGCTT
196 AAATCGTATGCATATCCATAGGGGCAGCAAATAAATGATTAAGCTT
407474 AATGATTTTAATGAAAATACATATTTTGCATCTTGAATAAGGTTAAGCTTAATTAAATATGCATT
1 AATGATTTTAATGAAAATACATATTTTGCATCTTGAATAAGGTTAAGCTTAATTAAATATGCATT
* *
407539 TGACATTTAATGATTAATGATTTGTGAAATGATTTTATGAAGCATGAACTTAAACATGATATTAT
66 TGACATTTAATGATTAATGAATTGTGAAATAATTTTATGAAGCATGAACTTAAACATGATATTAT
*
407604 GCTTAAAAATTTTATTTTAAATGATATTATGTTTTGAATACTTAGCAAGTTTTATTAGATGACTA
131 GCTTAAAAATTTTATTTTAAATGATATTATGTTTTGAATACCTAGCAAGTTTTATTAGATGACTA
*
407669 AAATTGTATGCATATCCATAGGGGCAGCAAATAAA
196 AAATCGTATGCATATCCATAGGGGCAGCAAATAAA
407704 GCTTGCATAT
Statistics
Matches: 223, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 223 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (241 bp):
AATGATTTTAATGAAAATACATATTTTGCATCTTGAATAAGGTTAAGCTTAATTAAATATGCATT
TGACATTTAATGATTAATGAATTGTGAAATAATTTTATGAAGCATGAACTTAAACATGATATTAT
GCTTAAAAATTTTATTTTAAATGATATTATGTTTTGAATACCTAGCAAGTTTTATTAGATGACTA
AAATCGTATGCATATCCATAGGGGCAGCAAATAAATGATTAAGCTT
Found at i:412963 original size:22 final size:22
Alignment explanation
Indices: 412938--413000 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
412928 AATTTAATTA
412938 ATTTAATTTAAATTATTATTTT
1 ATTTAATTTAAATTATTATTTT
**
412960 ATTTAATAAAAATTA-T-TTTT
1 ATTTAATTTAAATTATTATTTT
412980 ATTTAAATTT-AATTATATATT
1 ATTT-AATTTAAATTAT-TATT
413001 AATATAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 13 0.39
21 4 0.12
22 14 0.42
23 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTAATTTAAATTATTATTTT
Found at i:412984 original size:37 final size:38
Alignment explanation
Indices: 412889--413011 Score: 99
Period size: 37 Copynumber: 3.2 Consensus size: 38
412879 ATAGGGTTTA
* * * *
412889 ATAAATTTAATTT-ATATTAAATTAAATAAATATTTTAAT
1 ATAAAATTAATTTAAT-TTAAATTTAAT-TATATATTAAT
** * *
412928 AATTTAATTAATTTAATTTAAATTATTATTTTAT-TTAAT
1 -ATAAAATTAATTTAATTTAAATT-TAATTATATATTAAT
* *
412967 A-AAAATTATTTTTATTTAAATTTAATTATATATTAAT
1 ATAAAATTAATTTAATTTAAATTTAATTATATATTAAT
413004 ATAAAATT
1 ATAAAATT
413012 TTTAACATTA
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
36 7 0.11
37 23 0.35
38 7 0.11
39 5 0.08
40 20 0.30
41 4 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (38 bp):
ATAAAATTAATTTAATTTAAATTTAATTATATATTAAT
Found at i:412993 original size:20 final size:20
Alignment explanation
Indices: 412928--412995 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
412918 ATATTTTAAT
* *
412928 AATTTAATTAATTTAATTTA
1 AATTTAATTATTTTTATTTA
412948 AA-TT-ATTA-TTTTATTT-
1 AATTTAATTATTTTTATTTA
**
412964 AATAAAAATTATTTTTATTTA
1 AAT-TTAATTATTTTTATTTA
412985 AATTTAATTAT
1 AATTTAATTAT
412996 ATATTAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
16 2 0.05
17 7 0.18
18 4 0.11
19 6 0.16
20 16 0.42
21 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTTAATTATTTTTATTTA
Found at i:416474 original size:16 final size:16
Alignment explanation
Indices: 416455--416509 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
416445 TTAAATTCAT
416455 ATCATTTC-AGGTTTGA
1 ATCATTTCGA-GTTTGA
* *
416471 ATCATTTCGAATTTGG
1 ATCATTTCGAGTTTGA
*
416487 ATCATTTTGAGTTTGA
1 ATCATTTCGAGTTTGA
416503 ATCATTT
1 ATCATTT
416510 TAAGTTTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 32 0.97
17 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.47
Consensus pattern (16 bp):
ATCATTTCGAGTTTGA
Found at i:416510 original size:16 final size:16
Alignment explanation
Indices: 416465--416526 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 16
416455 ATCATTTCAG
*
416465 GTTTGAATCATTTCGA
1 GTTTGAATCATTTTGA
* *
416481 ATTTGGATCATTTTGA
1 GTTTGAATCATTTTGA
*
416497 GTTTGAATCATTTTAA
1 GTTTGAATCATTTTGA
416513 GTTT-AGATCATTTT
1 GTTTGA-ATCATTTT
416527 TTAATTTAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
15 1 0.03
16 38 0.97
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (16 bp):
GTTTGAATCATTTTGA
Found at i:416522 original size:32 final size:32
Alignment explanation
Indices: 416434--416526 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 32
416424 GAGTTAATTA
* * *
416434 TTTGAATTATTTTAAATTCATATCA-TTTCAGG
1 TTTGAATCATTTT-AATTTAGATCATTTTCAGG
* * *
416466 TTTGAATCATTTCGAATTTGGATCATTTTGA-G
1 TTTGAATCATTT-TAATTTAGATCATTTTCAGG
416498 TTTGAATCATTTTAAGTTTAGATCATTTT
1 TTTGAATCATTTTAA-TTTAGATCATTTT
416527 TTAATTTAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
31 2 0.04
32 44 0.88
33 4 0.08
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.51
Consensus pattern (32 bp):
TTTGAATCATTTTAATTTAGATCATTTTCAGG
Found at i:416582 original size:5 final size:5
Alignment explanation
Indices: 416572--416613 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
416562 TTTTATCGAT
416572 TTAAA TTAAA TTAAA TTAAAA TTTAAA TT-AA TT-AA TTAAA TT
1 TTAAA TTAAA TTAAA TT-AAA -TTAAA TTAAA TTAAA TTAAA TT
416614 TTTTAAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 8 0.24
5 18 0.53
6 6 0.18
7 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
TTAAA
Found at i:416621 original size:22 final size:22
Alignment explanation
Indices: 416570--416611 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
416560 TTTTTTATCG
416570 ATTTAAATTAAATTAAATTAAA
1 ATTTAAATTAAATTAAATTAAA
416592 ATTTAAATT-AATT-AATTAAA
1 ATTTAAATTAAATTAAATTAAA
416612 TTTTTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTAAATTAAATTAAATTAAA
Found at i:416944 original size:2 final size:2
Alignment explanation
Indices: 416937--416983 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
416927 GAACCCGAGG
* *
416937 GA GA GA GA GG GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
416979 GA GA G
1 GA GA G
416984 GGCGGAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:418392 original size:22 final size:23
Alignment explanation
Indices: 418348--418393 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
418338 TCGTATTTGT
*
418348 ATTATTTTTTTAATTTTGTTTTA
1 ATTATTTTTTTAATGTTGTTTTA
418371 ATTA-TTTTTT-ATGTTGTATTTA
1 ATTATTTTTTTAATGTTGT-TTTA
418393 A
1 A
418394 ATCATGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 11 0.52
23 4 0.19
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (23 bp):
ATTATTTTTTTAATGTTGTTTTA
Found at i:420939 original size:20 final size:20
Alignment explanation
Indices: 420914--420952 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
420904 GAGATTTGCA
420914 CCATTAGATTTTCCTTAGCG
1 CCATTAGATTTTCCTTAGCG
420934 CCATTAGATTTTCCTTAGC
1 CCATTAGATTTTCCTTAGC
420953 ACCTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.41
Consensus pattern (20 bp):
CCATTAGATTTTCCTTAGCG
Found at i:421269 original size:20 final size:20
Alignment explanation
Indices: 421232--421270 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
421222 TGTATCCTTT
*
421232 TTTAAAAAAATTGGTTCATC
1 TTTAAAAAAATTAGTTCATC
* *
421252 TTTAAAACAATTATTTCAT
1 TTTAAAAAAATTAGTTCAT
421271 TCTTCAATCT
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:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTAAAAAAATTAGTTCATC
Found at i:428402 original size:29 final size:29
Alignment explanation
Indices: 428360--428417 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
428350 GCACCGCCCG
428360 ACTTAATATCCCTCACAATTGGAGATTTT
1 ACTTAATATCCCTCACAATTGGAGATTTT
428389 ACTTAATATCCCTCACAATTGGAGATTTT
1 ACTTAATATCCCTCACAATTGGAGATTTT
428418 CGTGGTGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (29 bp):
ACTTAATATCCCTCACAATTGGAGATTTT
Found at i:429232 original size:26 final size:25
Alignment explanation
Indices: 429194--429243 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
429184 GGATTTTGAA
429194 GAAAAGCGAGGTTGGAGTATCCCTC
1 GAAAAGCGAGGTTGGAGTATCCCTC
* *
429219 GAAAGAGCGGGGTTGGAGTTTCCCT
1 GAAA-AGCGAGGTTGGAGTATCCCT
429244 GACAATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (25 bp):
GAAAAGCGAGGTTGGAGTATCCCTC
Found at i:434354 original size:20 final size:21
Alignment explanation
Indices: 434329--434381 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
434319 ATTTGAGACA
*
434329 TGTATCGATACATTCACT-TT
1 TGTATCGATACATTCACTAAT
*
434349 TGTATCGATACATTTACTAAT
1 TGTATCGATACATTCACTAAT
*
434370 TATATCGATACA
1 TGTATCGATACA
434382 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCACTAAT
Found at i:435106 original size:37 final size:38
Alignment explanation
Indices: 435052--435124 Score: 121
Period size: 37 Copynumber: 1.9 Consensus size: 38
435042 CTTAAAGATG
*
435052 ATGCCAATAACTGGTGTGGGCTTTAAAAG-GAAAAAAA
1 ATGCCAATAACTGGTGTGGGCTTAAAAAGAGAAAAAAA
*
435089 ATGCCAATAACTTGTGTGGGCTTAAAAAGAGAAAAA
1 ATGCCAATAACTGGTGTGGGCTTAAAAAGAGAAAAA
435125 TGTGTCGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
37 27 0.82
38 6 0.18
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (38 bp):
ATGCCAATAACTGGTGTGGGCTTAAAAAGAGAAAAAAA
Found at i:435309 original size:63 final size:62
Alignment explanation
Indices: 435206--435444 Score: 291
Period size: 63 Copynumber: 3.8 Consensus size: 62
435196 AAAAGGAAAG
* *
435206 GTGTCTTGCTCTTTGAGGACTAAAATGTGCCACCAGCTTATGTGGGCTTTAAAAAGAAAAAA
1 GTGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAAA
* * *
435268 TGTGTCCTGCTCTTTGAAGACTAAAAGGTGCCACCAACTTATGTGAGCTTTAAAAAG-AAAAA
1 -GTGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAAA
** * ** * *
435330 GACATCTTGCTATTTGAGGACTAAAAGGTTTCACCAACTTGTGTGGGCTTTAAAAGAAAAAAAAA
1 G-TGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTT-AAA-AAGAAAAAA
* * * *
435395 GTGTCATGCTCTTTGAGGATTAAAAGGTGCCACCAACTTGTGTAGGCTTT
1 GTGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTT
435445 TGAAATGGTT
Statistics
Matches: 149, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
61 1 0.01
62 45 0.30
63 54 0.36
64 43 0.29
65 6 0.04
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (62 bp):
GTGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAAA
Found at i:435501 original size:65 final size:63
Alignment explanation
Indices: 435416--435643 Score: 176
Period size: 65 Copynumber: 3.5 Consensus size: 63
435406 TTTGAGGATT
* * *
435416 AAAAGGTGCCACCAACTTGTGTAGGCTTTTGAAATGGTTACGACCAACTTATGTAGG-CTTTAA
1 AAAAGTTGCCACCAACTTGTGTAGGCTTTTGAAAGGGTTACCACCAACTTATGT-GGACTTTAA
* * * * *
435479 AAAATGGTTGCCACCGACTTGTGT-GTGCTTTACGAAAAGGGTTGCCACCGACTTGTGTGGACTT
1 AAAA--GTTGCCACCAACTTGTGTAG-GCTTT-TG-AAAGGGTTACCACCAACTTATGTGGACTT
435543 TAA
61 TAA
* * * * * * *
435546 AAGAGTTGCCACTAACTTGTGTAGGCTTTT-AAAGGGTTGCCATCGACTTGTAT-GAGCTTTAGA
1 AAAAGTTGCCACCAACTTGTGTAGGCTTTTGAAAGGGTTACCACCAACTTATGTGGA-CTTTA-A
* * * *
435609 AAAGGGTTGCCACCAACTTGTATGGGCTTTAGAAA
1 AAA-AGTTGCCACCAACTTGTGTAGGCTTTTGAAA
435644 AAAGTTGCCA
Statistics
Matches: 134, Mismatches: 20, Indels: 20
0.77 0.11 0.11
Matches are distributed among these distances:
61 2 0.01
62 26 0.19
63 7 0.05
64 23 0.17
65 45 0.34
66 4 0.03
67 27 0.20
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (63 bp):
AAAAGTTGCCACCAACTTGTGTAGGCTTTTGAAAGGGTTACCACCAACTTATGTGGACTTTAA
Found at i:435509 original size:33 final size:33
Alignment explanation
Indices: 435422--436279 Score: 733
Period size: 33 Copynumber: 26.6 Consensus size: 33
435412 GATTAAAAGG
* * ** *
435422 TGCCACCAACTTGTGTAGGCTTT-TGAAATGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* * * * * *
435454 TACGACCAACTTATGTAGGCTTTAAAAAATGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* *
435487 TGCCACCGACTTGTGTGTGCTTTACGAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTA-AAAAAGGGT
* *
435521 TGCCACCGACTTGTGTGGACTTT--AAAAGAGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
** * *
435552 TGCCACTAACTTGTGTAGGCTTT--TAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* * * *
435583 TGCCATCGACTTGTATGAGCTTTAGAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* * *
435616 TGCCACCAACTTGTATGGGCTTTAGAAAAA-AGT
1 TGCCACCGACTTGTGTGGGCTTTA-AAAAAGGGT
* * * *** *
435649 TGCCACTGACTTGTGAGAG-TTTTTGAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* * *
435681 TGCCATCGACTTGTGTGGGCTTT---AGAGAGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* *
435711 TGCCACCGACTTGTGTAGGC-TT-AGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
*
435742 TGCCACGGACTTGTGTGGGC--TAAAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* * *
435773 TGCCACTGACTTGTGTGGGCTTTAGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
*
435806 TGCCACCAACTTGTGTGGGCTTTAAAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
435839 TGCCACCGACTTGTGTGGGCTTTACAAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTA-AAAAAGGGT
*
435873 TACCACCGACTTGTGTGGGCTTTACAAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTA-AAAAAGGGT
* * *
435907 TGTCACCGAGTTGTGTGGGCTTT--AAAAGAGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* * * * *
435938 TACCATCAACTTGTGTAGGCTTT--TAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* * *
435969 TGCCATCGACTTGTATGAGCTTTAAAAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTT-AAAAAAGGGT
* *
436003 TGCCACCGACTTGTATGGGTTTTAGAAAAA-GGT
1 TGCCACCGACTTGTGTGGGCTTTA-AAAAAGGGT
* ** *
436036 TGCCACCGACTTGTAAT-GG-TTTTTAAGAGGGT
1 TGCCACCGACTTGT-GTGGGCTTTAAAAAAGGGT
* * *
436068 TGCCACCGACTTGTGTGGGATTTAGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* *
436101 TGCCACCGACTTGTGTAGGC-TT-AGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* **
436132 TTCCATGGACTTGTGTGGGC-TT-AAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* * * *
436163 TACCATCGACTTGTGTGGGCTTTAGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* * * ***
436196 TGCCATCGA-TTGTTTTGGCTTTATTGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
*
436228 TGCCACCGACTTGTGTGGGCTTTAGAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
* *
436261 TGCCATCAACTTGTGTGGG
1 TGCCACCGACTTGTGTGGG
436280 TATCGCAATG
Statistics
Matches: 681, Mismatches: 121, Indels: 47
0.80 0.14 0.06
Matches are distributed among these distances:
29 2 0.00
30 25 0.04
31 203 0.30
32 93 0.14
33 230 0.34
34 128 0.19
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (33 bp):
TGCCACCGACTTGTGTGGGCTTTAAAAAAGGGT
Found at i:435692 original size:32 final size:29
Alignment explanation
Indices: 435646--435862 Score: 105
Period size: 31 Copynumber: 6.9 Consensus size: 29
435636 TTTAGAAAAA
**
435646 AGTTGCCACTGACTTGTGAGAGTTTTTGAGAG
1 AGTTGCCAC-GACTTGTGAG-GGCTTT-AGAG
* *
435678 GGTTGCCATCGACTTGTGTGGGCTTTAGAG
1 AGTTGCCA-CGACTTGTGAGGGCTTTAGAG
435708 AGTTGCCACCGACTTGTGTA-GGC-TTAGAAAG
1 AGTTGCCA-CGACTTGTG-AGGGCTTTAG--AG
* * ** *
435739 GGTTGCCACGGACTTGTGTGGGCTAAAAAAG
1 AGTTGCCAC-GACTTGTGAGGGCT-TTAGAG
* *
435770 GGTTGCCACTGACTTGTGTGGGCTTTAGAG
1 AGTTGCCAC-GACTTGTGAGGGCTTTAGAG
* * *
435800 AAGGGTTGCCACCAACTTGTGTGGGCTTTAAAAAAG
1 -A--GTTGCCA-CGACTTGTGAGGGCTTT---AGAG
* *
435836 GGTTGCCACCGACTTGTGTGGGCTTTA
1 AGTTGCCA-CGACTTGTGAGGGCTTTA
435863 CAAAAAGGGT
Statistics
Matches: 149, Mismatches: 21, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
29 4 0.03
30 28 0.19
31 49 0.33
32 16 0.11
33 48 0.32
34 1 0.01
36 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
AGTTGCCACGACTTGTGAGGGCTTTAGAG
Found at i:435693 original size:65 final size:63
Alignment explanation
Indices: 435484--436279 Score: 558
Period size: 65 Copynumber: 12.3 Consensus size: 63
435474 TTTAAAAAAT
* * * *
435484 GGTTGCCACCGACTTGTGTGTGCTTTACGAAAAGGGTTGCCACCGACTTGTGTGGACTTTA-AAA
1 GGTTGCCACCGACTTGTGTGGGCTTTA--AAAAAGGTTGCCACCGACTTGTGAGG-TTTTAGAAA
435548 G
63 G
* ** * * * * *
435549 AGTTGCCACTAACTTGTGTAGGCTTT-TAAAGGGTTGCCATCGACTTGT-ATGAGCTTTAGAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTGTGA-G-GTTTTAG-AAA
435612 G
63 G
* * * * * *
435613 GGTTGCCACCAACTTGTATGGGCTTTAGAAAAAAGTTGCCACTGACTTGTGAGAGTTTTTGAGAG
1 GGTTGCCACCGACTTGTGTGGGCTTTA-AAAAAGGTTGCCACCGACTTGTGAG-GTTTTAGAAAG
* * * *
435678 GGTTGCCATCGACTTGTGTGGGCTTT-AGAGA-GTTGCCACCGACTTGTGTAGG-CTTAGAAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTGTG-AGGTTTTAGAAAG
* * * *
435739 GGTTGCCACGGACTTGTGTGGGC--TAAAAAAGGGTTGCCACTGACTTGTGTGGGCTTTAGAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAAA-GGTTGCCACCGACTTGTG-AGGTTTTAGA-AA
435802 G
63 G
* * * *
435803 GGTTGCCACCAACTTGTGTGGGCTTTAAAAAAGGGTTGCCACCGACTTGTGTGGGCTTTACAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAAA-GGTTGCCACCGACTTGTG-AGG-TTT-TAGAA
435868 AG
62 AG
* * * * *
435870 GGTTACCACCGACTTGTGTGGGCTTTACAAAAAGGGTTGTCACCGAGTTGTGTGGGCTTTA-AAA
1 GGTTGCCACCGACTTGTGTGGGCTTTA-AAAAA-GGTTGCCACCGACTTGTG-AGGTTTTAGAAA
435934 G
63 G
* * * * * * * * * * *
435935 AGTTACCATCAACTTGTGTAGGCTTT-TAAAGGGTTGCCATCGACTTGTATGAGCTTTAAAAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTG--TGAGGTTT-TAGAAA
435999 G
63 G
* * * *
436000 GGTTGCCACCGACTTGTATGGGTTTTAGAAAAAGGTTGCCACCGACTTGTAATGGTTTTTA-AGA
1 GGTTGCCACCGACTTGTGTGGGCTTTA-AAAAAGGTTGCCACCGACTTGTGA-GG-TTTTAGAAA
436064 G
63 G
* * * *
436065 GGTTGCCACCGACTTGTGTGGGATTTAGAGAAGGGTTGCCACCGACTTGTGTAGG-CTTAGAAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTA-AAAAAGGTTGCCACCGACTTGTG-AGGTTTTAGAAAG
* ** * * * * *
436129 GGTTTCCATGGACTTGTGTGGGC-TTAAAAAGGGTTACCATCGACTTGTGTGGGCTTTAGAGAAG
1 GGTTGCCACCGACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTGTG-AGGTTTTAGA-AAG
* * * ** * * *
436193 GGTTGCCATCGA-TTGTTTTGGCTTTATTGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTA-AAAAAGGTTGCCACCGACTTGTG-AGGTTTTAG-AAA
436257 G
63 G
* *
436258 GGTTGCCATCAACTTGTGTGGG
1 GGTTGCCACCGACTTGTGTGGG
436280 TATCGCAATG
Statistics
Matches: 595, Mismatches: 102, Indels: 67
0.78 0.13 0.09
Matches are distributed among these distances:
59 1 0.00
60 3 0.01
61 27 0.05
62 98 0.16
63 36 0.06
64 91 0.15
65 192 0.32
66 65 0.11
67 54 0.09
68 28 0.05
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (63 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAAAAAAGGTTGCCACCGACTTGTGAGGTTTTAGAAAG
Found at i:440299 original size:32 final size:32
Alignment explanation
Indices: 440260--440380 Score: 120
Period size: 32 Copynumber: 3.8 Consensus size: 32
440250 GCTTTAGAGA
*
440260 AGGGTTACCATCGACTTATGTGGGGTTTTGAG
1 AGGGTTACCATCGACTTGTGTGGGGTTTTGAG
* *
440292 AGGGTTACCA-CTGACTTGTGT-GGGCTTTGAAA
1 AGGGTTACCATC-GACTTGTGTGGGGTTTTG-AG
* * * *
440324 AAGGTTACCACCGACTTGTGTGGGCTTTAGAG
1 AGGGTTACCATCGACTTGTGTGGGGTTTTGAG
* *
440356 AAGAGTTGCCATCGACTTGTGTGGG
1 -AGGGTTACCATCGACTTGTGTGGG
440381 CTTTGAAAAG
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
31 8 0.11
32 38 0.53
33 26 0.36
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.31
Consensus pattern (32 bp):
AGGGTTACCATCGACTTGTGTGGGGTTTTGAG
Found at i:440375 original size:65 final size:65
Alignment explanation
Indices: 440262--440513 Score: 305
Period size: 65 Copynumber: 3.9 Consensus size: 65
440252 TTTAGAGAAG
* * * *
440262 GGTTACCATCGACTTATGTGGGGTTTTGAG-AGGGTTACCA-CTGACTTGTGTGGGCTTTGAAAA
1 GGTTACCACCGACTTATGTGGGCTTTAGAGAAGGGTTGCCATC-GACTTGTGTGGGCTTTGAAAA
440325 A
65 A
* *
440326 GGTTACCACCGACTTGTGTGGGCTTTAGAGAAGAGTTGCCATCGACTTGTGTGGGCTTTG-AAAA
1 GGTTACCACCGACTTATGTGGGCTTTAGAGAAGGGTTGCCATCGACTTGTGTGGGCTTTGAAAAA
* * ** * * *
440390 GTATTGCCATTGACTTGTGTGGGC-TTAGAAAAAGGGTTGCCATCGACTTGTGTGGGCTTAGAAA
1 G-GTTACCACCGACTTATGTGGGCTTTAG-AGAAGGGTTGCCATCGACTTGTGTGGGCTTTGAAA
440454 AA
64 AA
* * *
440456 GGTTCCCACCGACTTATGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGCGTGGGCTT
1 GGTTACCACCGACTTATGTGGGCTTTAGAGAAGGGTTGCCATCGACTTGTGTGGGCTT
440514 AAAATGGGTT
Statistics
Matches: 161, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
64 35 0.22
65 116 0.72
66 10 0.06
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.30
Consensus pattern (65 bp):
GGTTACCACCGACTTATGTGGGCTTTAGAGAAGGGTTGCCATCGACTTGTGTGGGCTTTGAAAAA
Found at i:440377 original size:33 final size:33
Alignment explanation
Indices: 440182--440550 Score: 314
Period size: 33 Copynumber: 11.4 Consensus size: 33
440172 GGTGTCTATA
*
440182 GTGGGCTTTAGAGAAGGGTTGCTATCGACTTGT
1 GTGGGCTTTAGAGAAGGGTTGCCATCGACTTGT
* * * *
440215 GTGGGC-TTA-AAAAAGGTTACCA-CTAACTTGT
1 GTGGGCTTTAGAGAAGGGTTGCCATC-GACTTGT
** * *
440246 GTTAGCTTTAGAGAAGGGTTACCATCGACTTAT
1 GTGGGCTTTAGAGAAGGGTTGCCATCGACTTGT
* * *
440279 GTGGGGTTTTGAG-AGGGTTACCA-CTGACTTGT
1 GTGGGCTTTAGAGAAGGGTTGCCATC-GACTTGT
* * * *
440311 GTGGGCTTT-GAAAAAGGTTACCACCGACTTGT
1 GTGGGCTTTAGAGAAGGGTTGCCATCGACTTGT
*
440343 GTGGGCTTTAGAGAAGAGTTGCCATCGACTTGT
1 GTGGGCTTTAGAGAAGGGTTGCCATCGACTTGT
* ** *
440376 GTGGGCTTT-GAAAAGTATTGCCATTGACTTGT
1 GTGGGCTTTAGAGAAGGGTTGCCATCGACTTGT
*
440408 GTGGGC-TTAGAAAAAGGGTTGCCATCGACTTGT
1 GTGGGCTTTAG-AGAAGGGTTGCCATCGACTTGT
* * * * *
440441 GTGGGC-TTAGAAAAAGGTTCCCACCGACTTAT
1 GTGGGCTTTAGAGAAGGGTTGCCATCGACTTGT
* *
440473 GTGGGCTTTAGAGAAGGGTTGCCACCGACTTGC
1 GTGGGCTTTAGAGAAGGGTTGCCATCGACTTGT
*
440506 GTGGGC-TTA-A-AATGGGTTGCCA-CTAACTTGT
1 GTGGGCTTTAGAGAA-GGGTTGCCATC-GACTTGT
* *
440537 ATGGACTTTAGAGA
1 GTGGGCTTTAGAGA
440551 TGCCACAGAG
Statistics
Matches: 276, Mismatches: 44, Indels: 31
0.79 0.13 0.09
Matches are distributed among these distances:
30 4 0.01
31 43 0.16
32 111 0.40
33 116 0.42
34 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (33 bp):
GTGGGCTTTAGAGAAGGGTTGCCATCGACTTGT
Found at i:440548 original size:97 final size:98
Alignment explanation
Indices: 440182--440548 Score: 347
Period size: 97 Copynumber: 3.8 Consensus size: 98
440172 GGTGTCTATA
* *
440182 GTGGGCTTTAGAGAAGGGTTGCTATCGACTTGTGTGGGCTT-AAAAAAGGTTACCACTAACTTGT
1 GTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTGAAAAAAGGTTACCACTAACTTGT
* * *
440246 GT-TAGCTTTAGAGAAGGGTTACCATCGACTTAT
66 GTGGA-CTTTAGAAAAAGGTTACCATCGACTTAT
* * * * **
440279 GTGGGGTTTTGAG-AGGGTTACCACTGACTTGTGTGGGCTTTG-AAAAAGGTTACCACCGACTTG
1 GTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGC-TTGAAAAAAGGTTACCACTAACTTG
* * * *
440342 TGTGGGCTTTAG-AGAAGAGTTGCCATCGACTTGT
65 TGTGGACTTTAGAAAAAG-GTTACCATCGACTTAT
* ** ** * * *
440376 GTGGGCTTT-GAAAAGTATTGCCATTGACTTGTGTGGGCTTAGAAAAAGGGTTGCCA-TCGACTT
1 GTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTT-GAAAAAAGGTTACCACT-AACTT
* * *
440439 GTGTGGGC-TTAGAAAAAGGTTCCCACCGACTTAT
64 GTGTGGACTTTAGAAAAAGGTTACCATCGACTTAT
* ** *
440473 GTGGGCTTTAGAGAAGGGTTGCCACCGACTTGCGTGGGCTT-AAAATGGGTTGCCACTAACTTGT
1 GTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTGAAAAAAGGTTACCACTAACTTGT
*
440537 ATGGACTTTAGA
66 GTGGACTTTAGA
440549 GATGCCACAG
Statistics
Matches: 220, Mismatches: 38, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
96 50 0.23
97 117 0.53
98 53 0.24
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (98 bp):
GTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTGAAAAAAGGTTACCACTAACTTGT
GTGGACTTTAGAAAAAGGTTACCATCGACTTAT
Found at i:440548 original size:130 final size:130
Alignment explanation
Indices: 440304--440544 Score: 351
Period size: 130 Copynumber: 1.9 Consensus size: 130
440294 GGTTACCACT
* * *
440304 GACTTGTGTGGGCTTTGAAAAAGGTTACCACCGACTTGTGTGGGCTTTAGAGAAGAGTTGCCATC
1 GACTTGTGTGGGCTTAGAAAAAGGTTACCACCGACTTATGTGGGCTTTAGAGAAGAGTTGCCACC
* * * * * *
440369 GACTTGTGTGGGCTTTGAAAAGTATTGCCATTGACTTGTGTGGGCTTAGAAAAAGGGTTGCCATC
66 GACTTGCGTGGGCTTTGAAAAGGATTGCCACTAACTTGTATGGACTTAGAAAAAGGGTTGCCATC
* *
440434 GACTTGTGTGGGCTTAGAAAAAGGTTCCCACCGACTTATGTGGGCTTTAGAGAAGGGTTGCCACC
1 GACTTGTGTGGGCTTAGAAAAAGGTTACCACCGACTTATGTGGGCTTTAGAGAAGAGTTGCCACC
*
440499 GACTTGCGTGGGC-TT-AAAATGGGTTGCCACTAACTTGTATGGACTT
66 GACTTGCGTGGGCTTTGAAAA-GGATTGCCACTAACTTGTATGGACTT
440545 TAGAGATGCC
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
128 4 0.04
129 22 0.22
130 72 0.73
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (130 bp):
GACTTGTGTGGGCTTAGAAAAAGGTTACCACCGACTTATGTGGGCTTTAGAGAAGAGTTGCCACC
GACTTGCGTGGGCTTTGAAAAGGATTGCCACTAACTTGTATGGACTTAGAAAAAGGGTTGCCATC
Found at i:440587 original size:32 final size:32
Alignment explanation
Indices: 440551--440825 Score: 180
Period size: 32 Copynumber: 8.8 Consensus size: 32
440541 ACTTTAGAGA
* *
440551 TGCCACAGAGTTATGAACTTTGAAAAAAAAGG
1 TGCCACAGAGTTGTGGACTTTGAAAAAAAAGG
* **
440583 TGCCAC-GAAGTTGTGGGCTTT--AAAAAGGGG
1 TGCCACAG-AGTTGTGGACTTTGAAAAAAAAGG
* * * *
440613 TGCCACAAAGTTGTGAAATTT-----AAAGGG
1 TGCCACAGAGTTGTGGACTTTGAAAAAAAAGG
* * *
440640 TGCCACAGAATTGTGGACTTTGAAGAAAAGGG
1 TGCCACAGAGTTGTGGACTTTGAAAAAAAAGG
* **
440672 TGCCATAGAGTTGTGGACTTT-AAAAATGA-G
1 TGCCACAGAGTTGTGGACTTTGAAAAAAAAGG
* **
440702 TGCCACAGAG-T-TGGATTTTGACGAAAAAGG
1 TGCCACAGAGTTGTGGACTTTGAAAAAAAAGG
* *
440732 TGCCACGGAGTTATGGACTTTGAAGAAAAAAGG
1 TGCCACAGAGTTGTGGACTTTGAA-AAAAAAGG
* **
440765 TGCCACAGAGTTATGGACTTTTTTTAAAAAAAGG
1 TGCCACAGAGTTGTGGAC--TTTGAAAAAAAAGG
**
440799 ATGCCACTA-AGCCGTGGACTTTGAAAA
1 -TGCCAC-AGAGTTGTGGACTTTGAAAA
440826 GAGATGCCAC
Statistics
Matches: 189, Mismatches: 38, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
27 22 0.12
28 7 0.04
29 5 0.03
30 43 0.23
31 6 0.03
32 50 0.26
33 30 0.16
34 8 0.04
35 17 0.09
36 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (32 bp):
TGCCACAGAGTTGTGGACTTTGAAAAAAAAGG
Found at i:440615 original size:30 final size:29
Alignment explanation
Indices: 440575--440707 Score: 112
Period size: 30 Copynumber: 4.5 Consensus size: 29
440565 GAACTTTGAA
* *
440575 AAAAAAGGTGCCACGAAGTTGTGGGCTTT
1 AAAAAGGGTGCCACGAAGTTGTGGACTTT
* * *
440604 AAAAAGGGGTGCCACAAAGTTGTGAAATTT
1 AAAAA-GGGTGCCACGAAGTTGTGGACTTT
440634 --AAAGGGTGCCACAGAA-TTGTGGACTTT
1 AAAAAGGGTGCCAC-GAAGTTGTGGACTTT
*
440661 GAAGAAAAGGGTGCCA-TAGAGTTGTGGACTTT
1 --A-AAAAGGGTGCCACGA-AGTTGTGGACTTT
*
440693 AAAAATGAGTGCCAC
1 AAAAA-GGGTGCCAC
440708 AGAGTTGGAT
Statistics
Matches: 83, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
27 18 0.22
28 5 0.06
29 9 0.11
30 28 0.34
31 1 0.01
32 22 0.27
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (29 bp):
AAAAAGGGTGCCACGAAGTTGTGGACTTT
Found at i:440644 original size:89 final size:89
Alignment explanation
Indices: 440551--440785 Score: 253
Period size: 89 Copynumber: 2.6 Consensus size: 89
440541 ACTTTAGAGA
* * *
440551 TGCCACAGAGTTATGAACTTTGAAAAAAAAGGTGCCACGA-AGTTGTGGGCTTTAAAAAGGGGTG
1 TGCCACAGAGTTATGGACTTTGAAAAAAAAGGTGCCACGAGAGTTGTGGACTTTAAAAAGGAGTG
*
440615 CCACAAAGTTGTGAAATTT-AAAGGG
66 CCACAAAGTTG-G-AATTTAAAAAGG
* * * * * *
440640 TGCCACAGAATTGTGGACTTTGAAGAAAAGGGTGCCA-TAGAGTTGTGGACTTTAAAAATGAGTG
1 TGCCACAGAGTTATGGACTTTGAAAAAAAAGGTGCCACGAGAGTTGTGGACTTTAAAAAGGAGTG
* *
440704 CCACAGAGTTGGATTTTGACGAAAAAGG
66 CCACAAAGTTGGAATTT----AAAAAGG
* *
440732 TGCCACGGAGTTATGGACTTTGAAGAAAAAAGGTGCCAC-AGAGTTATGGACTTT
1 TGCCACAGAGTTATGGACTTTGAA-AAAAAAGGTGCCACGAGAGTTGTGGACTTT
440786 TTTTAAAAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
87 4 0.03
88 2 0.02
89 63 0.52
92 26 0.22
93 25 0.21
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.25
Consensus pattern (89 bp):
TGCCACAGAGTTATGGACTTTGAAAAAAAAGGTGCCACGAGAGTTGTGGACTTTAAAAAGGAGTG
CCACAAAGTTGGAATTTAAAAAGG
Found at i:440685 original size:59 final size:57
Alignment explanation
Indices: 440581--440695 Score: 142
Period size: 59 Copynumber: 2.0 Consensus size: 57
440571 TGAAAAAAAA
* *
440581 GGTGCCACGAAGTTGTGGGCTTTAAAAAGGGGTGCCACAAAGTTGTGAAATTTAAAG
1 GGTGCCACGAAGTTGTGGACTTTAAAAAAGGGTGCCACAAAGTTGTGAAATTTAAAG
* * * *
440638 GGTGCCACAGAA-TTGTGGACTTTGAAGAAAAGGGTGCCATAGAGTTGTGGACTTTAAA
1 GGTGCCAC-GAAGTTGTGGACTTT-AA-AAAAGGGTGCCACAAAGTTGTGAAATTTAAA
440696 AATGAGTGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
57 18 0.37
58 5 0.10
59 26 0.53
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.25
Consensus pattern (57 bp):
GGTGCCACGAAGTTGTGGACTTTAAAAAAGGGTGCCACAAAGTTGTGAAATTTAAAG
Found at i:440884 original size:60 final size:59
Alignment explanation
Indices: 440795--440955 Score: 216
Period size: 60 Copynumber: 2.7 Consensus size: 59
440785 TTTTTAAAAA
* * * * *
440795 AAGGATGCCACTAAGCCGTGGACTTTGAAAAGAGATGCCACTGAGTCATGGACTTTAAG
1 AAGGATGCCACTGAGTCATGGACTTTGAAAAGAGATGCCACTCAGTCATGAACTTTAAG
* *
440854 AAGGAATGCCACTGAGTCATGGACTTTGAAAAGAGATGCCACTCAGTCGTGAACTTTGAG
1 AAGG-ATGCCACTGAGTCATGGACTTTGAAAAGAGATGCCACTCAGTCATGAACTTTAAG
*
440914 AAGGGATGCCACTGAGT-ATGGACTTTGAAAAAGGGATGCCAC
1 AA-GGATGCCACTGAGTCATGGACTTTG-AAAAGAGATGCCAC
440956 AAGGGGTGTC
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
59 14 0.15
60 75 0.82
61 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (59 bp):
AAGGATGCCACTGAGTCATGGACTTTGAAAAGAGATGCCACTCAGTCATGAACTTTAAG
Found at i:440911 original size:90 final size:89
Alignment explanation
Indices: 440793--440955 Score: 238
Period size: 90 Copynumber: 1.8 Consensus size: 89
440783 TTTTTTTAAA
* *
440793 AAAAGGATGCCACTAAGCCGTGGACTTTGAAAAGAGATGCCACTGAGTCATGGACTTT-AAGAAG
1 AAAAGGATGCCACTAAGCCGTGAACTTTGAAAAGAGATGCCACTGAGT-ATGGACTTTGAAAAAG
440857 GAATGCCACTGAGTCATGGACTTTG
65 GAATGCCACTGAGTCATGGACTTTG
* * * *
440882 AAAAGAGATGCCACTCAGTCGTGAACTTTGAGAAGGGATGCCACTGAGTATGGACTTTGAAAAAG
1 AAAAG-GATGCCACTAAGCCGTGAACTTTGAAAAGAGATGCCACTGAGTATGGACTTTGAAAAAG
*
440947 GGATGCCAC
65 GAATGCCAC
440956 AAGGGGTGTC
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
89 14 0.22
90 51 0.78
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (89 bp):
AAAAGGATGCCACTAAGCCGTGAACTTTGAAAAGAGATGCCACTGAGTATGGACTTTGAAAAAGG
AATGCCACTGAGTCATGGACTTTG
Found at i:440948 original size:30 final size:30
Alignment explanation
Indices: 440653--440955 Score: 160
Period size: 30 Copynumber: 9.8 Consensus size: 30
440643 CACAGAATTG
*
440653 TGGACTTTGAAGAAAAGGG-TGCCA-TAGAGTTG
1 TGGACTTTG-A-AAAAGGGATGCCACT-GAG-TA
* *
440685 TGGACTTT-AAAAA-TGAGTGCCACAGAGT-
1 TGGACTTTGAAAAAGGGA-TGCCACTGAGTA
* * *
440713 TGGATTTTGACGAAAAAGG-TGCCACGGAGTTA
1 TGGACTTTGA--AAAAGGGATGCCACTGAG-TA
* *
440745 TGGACTTTGAAGAAAAAAGG-TGCCACAGAGTTA
1 TGGACTTT---GAAAAAGGGATGCCACTGAG-TA
* * * **
440778 TGGACTTTTTTTAAAAAAAGGATGCCACTAAGCCG
1 TGGAC----TTTGAAAAAGGGATGCCACTGAG-TA
*
440813 TGGACTTTG-AAAAGAGATGCCACTGAGTCA
1 TGGACTTTGAAAAAGGGATGCCACTGAGT-A
* *
440843 TGGACTTT-AAGAAGGAATGCCACTGAGTCA
1 TGGACTTTGAAAAAGGGATGCCACTGAGT-A
* * *
440873 TGGACTTTG-AAAAGAGATGCCACTCAGTCG
1 TGGACTTTGAAAAAGGGATGCCACTGAGT-A
* *
440903 TGAACTTTG-AGAAGGGATGCCACTGAGTA
1 TGGACTTTGAAAAAGGGATGCCACTGAGTA
440932 TGGACTTTGAAAAAGGGATGCCAC
1 TGGACTTTGAAAAAGGGATGCCAC
440956 AAGGGGTGTC
Statistics
Matches: 216, Mismatches: 34, Indels: 44
0.73 0.12 0.15
Matches are distributed among these distances:
28 8 0.04
29 14 0.06
30 120 0.56
31 8 0.04
32 16 0.07
33 24 0.11
34 8 0.04
35 15 0.07
37 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (30 bp):
TGGACTTTGAAAAAGGGATGCCACTGAGTA
Found at i:445459 original size:19 final size:20
Alignment explanation
Indices: 445409--445460 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
445399 TATTTGAGAC
* *
445409 ATGTATCGATATATTCACTT
1 ATGTATCGATACATTCACTA
*
445429 ATGTATCAATACATTCACTA
1 ATGTATCGATACATTCACTA
445449 AT-TATCGATACA
1 ATGTATCGATACA
445461 AATTATAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:446103 original size:37 final size:37
Alignment explanation
Indices: 446050--446326 Score: 203
Period size: 37 Copynumber: 7.9 Consensus size: 37
446040 TAACTCGGAG
*
446050 TTAGGTGCCACTAGCTTGTGTGGGCTTTGACTCAGAC
1 TTAGGTGCCACCAGCTTGTGTGGGCTTTGACTCAGAC
446087 TTAGGTGCCACCAGCTTGTGTGGGCTTTGACTCAGAC
1 TTAGGTGCCACCAGCTTGTGTGGGCTTTGACTCAGAC
* * * *
446124 TTCGGTGCCACTAGTTTGTGTGGGTTTTGACTC-G--
1 TTAGGTGCCACCAGCTTGTGTGGGCTTTGACTCAGAC
* * * *
446158 ---GGTGCCGCCAGTTTGTGCGGGCTTAGACTC-G--
1 TTAGGTGCCACCAGCTTGTGTGGGCTTTGACTCAGAC
** * *
446189 ---GGTGCTGCCAGCTTATGCGGGCTTTGACT-AG--
1 TTAGGTGCCACCAGCTTGTGTGGGCTTTGACTCAGAC
* * * *
446220 ---GGTGCCACCAACTCGTGTGGGCTTAGACTTAGAC
1 TTAGGTGCCACCAGCTTGTGTGGGCTTTGACTCAGAC
** * *
446254 TTAGGTGCCATGAGCTTATGTGAGCTTTGACTCAGGTAC
1 TTAGGTGCCACCAGCTTGTGTGGGCTTTGACTCA-G-AC
* *
446293 TTAGCTTCCACCAGCTTGTGTGGGCTTTGACTCA
1 TTAGGTGCCACCAGCTTGTGTGGGCTTTGACTCA
446327 AGTGTCACCA
Statistics
Matches: 196, Mismatches: 35, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
31 74 0.38
32 2 0.01
36 1 0.01
37 88 0.45
38 1 0.01
39 30 0.15
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (37 bp):
TTAGGTGCCACCAGCTTGTGTGGGCTTTGACTCAGAC
Found at i:446171 original size:31 final size:31
Alignment explanation
Indices: 446127--446225 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 31
446117 CTCAGACTTC
* * * *
446127 GGTGCCACTAGTTTGTGTGGGTTTTGACTCG
1 GGTGCCGCCAGTTTGTGCGGGCTTTGACTCG
*
446158 GGTGCCGCCAGTTTGTGCGGGCTTAGACTCG
1 GGTGCCGCCAGTTTGTGCGGGCTTTGACTCG
* * * *
446189 GGTGCTGCCAGCTTATGCGGGCTTTGACTAG
1 GGTGCCGCCAGTTTGTGCGGGCTTTGACTCG
446220 GGTGCC
1 GGTGCC
446226 ACCAACTCGT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.10, C:0.22, G:0.37, T:0.30
Consensus pattern (31 bp):
GGTGCCGCCAGTTTGTGCGGGCTTTGACTCG
Found at i:446336 original size:31 final size:31
Alignment explanation
Indices: 446301--446481 Score: 129
Period size: 31 Copynumber: 5.8 Consensus size: 31
446291 ACTTAGCTTC
* * *
446301 CACCAGCTTGTGTGGGCTTTGACTCAAGTGT
1 CACCAACTTGTGCGGGCTTTGACTCAGGTGT
* * *
446332 CACCAACTCGTGCGGGCTTAGACTCGGGTGT
1 CACCAACTTGTGCGGGCTTTGACTCAGGTGT
* * * *
446363 CGCCAATTTGTGCGAGCTTTGACT-AGGGTGC
1 CACCAACTTGTGCGGGCTTTGACTCA-GGTGT
* * * *
446394 CACTAACTTGTGTGGGCTTTGAGT-AGGGTGC
1 CACCAACTTGTGCGGGCTTTGACTCA-GGTGT
446425 CACCAATTCTTGT--GGGCTTTGACTCAGGTGAT
1 CACCAA--CTTGTGCGGGCTTTGACTCAGGTG-T
* * *
446457 -GCCAGCTTGTGCGAGCTTTGACTCA
1 CACCAACTTGTGCGGGCTTTGACTCA
446482 AACTTAGGTG
Statistics
Matches: 118, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
29 5 0.04
31 107 0.91
32 1 0.01
33 5 0.04
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (31 bp):
CACCAACTTGTGCGGGCTTTGACTCAGGTGT
Found at i:446384 original size:169 final size:167
Alignment explanation
Indices: 446053--446412 Score: 452
Period size: 169 Copynumber: 2.1 Consensus size: 167
446043 CTCGGAGTTA
* * * *
446053 GGTGCCACTAGCTTGTGTGGGCTTTGACTCAGACTTAGGTGCCACCAGCTTGTGTGGGCTTTGAC
1 GGTGCCACTAACTTGTGTGGGCTTAGACTCAGACTTAGGTGCCACCAGCTTATGTGAGCTTTGAC
* * * * * ** * ** *
446118 TCAGACTTCGGTGCCACTAGTTTGTGTGGGTTTTGACTCGGGTGCCGCCAGTTTGTGCGGGCTTA
66 TCAGACTTAGCTGCCACCAGCTTGTGTGGGCTTTGACTCAAGTGCCACCAACTCGTGCGGGCTTA
* *
446183 GACTCGGGTGCTGCCAGCTTATGCGGGCTTTGACTAG
131 GACTCGGGTGCTGCCAACTTATGCGAGCTTTGACTAG
* * * **
446220 GGTGCCACCAACTCGTGTGGGCTTAGACTTAGACTTAGGTGCCATGAGCTTATGTGAGCTTTGAC
1 GGTGCCACTAACTTGTGTGGGCTTAGACTCAGACTTAGGTGCCACCAGCTTATGTGAGCTTTGAC
* *
446285 TCAGGTACTTAGCTTCCACCAGCTTGTGTGGGCTTTGACTCAAGTGTCACCAACTCGTGCGGGCT
66 TCA-G-ACTTAGCTGCCACCAGCTTGTGTGGGCTTTGACTCAAGTGCCACCAACTCGTGCGGGCT
* *
446350 TAGACTCGGGTG-TCGCCAATTTGTGCGAGCTTTGACTAG
129 TAGACTCGGGTGCT-GCCAACTTATGCGAGCTTTGACTAG
446389 GGTGCCACTAACTTGTGTGGGCTT
1 GGTGCCACTAACTTGTGTGGGCTT
446413 TGAGTAGGGT
Statistics
Matches: 162, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
167 59 0.36
168 2 0.01
169 101 0.62
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (167 bp):
GGTGCCACTAACTTGTGTGGGCTTAGACTCAGACTTAGGTGCCACCAGCTTATGTGAGCTTTGAC
TCAGACTTAGCTGCCACCAGCTTGTGTGGGCTTTGACTCAAGTGCCACCAACTCGTGCGGGCTTA
GACTCGGGTGCTGCCAACTTATGCGAGCTTTGACTAG
Found at i:446467 original size:93 final size:93
Alignment explanation
Indices: 446307--446479 Score: 224
Period size: 93 Copynumber: 1.9 Consensus size: 93
446297 CTTCCACCAG
* * *
446307 CTTGTGTGGGCTTTGACTCAAGTGTCACCAACTCGTGCGGGCTTAGACTCGGGTGTCGCCAATTT
1 CTTGTGTGGGCTTTGACTCAAGTGCCACCAACTCGTGCGGGCTTAGACTCAGGTGTCGCCAACTT
446372 GTGCGAGCTTTGACTAGGGTGCCACTAA
66 GTGCGAGCTTTGACTAGGGTGCCACTAA
* * * * * * *
446400 CTTGTGTGGGCTTTGAGT-AGGGTGCCACCAATTCTTGTGGGCTTTGACTCAGGTGAT-GCCAGC
1 CTTGTGTGGGCTTTGACTCA-AGTGCCACCAACTCGTGCGGGCTTAGACTCAGGTG-TCGCCAAC
446463 TTGTGCGAGCTTTGACT
64 TTGTGCGAGCTTTGACT
446480 CAAACTTAGG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
92 1 0.01
93 66 0.97
94 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.31, T:0.31
Consensus pattern (93 bp):
CTTGTGTGGGCTTTGACTCAAGTGCCACCAACTCGTGCGGGCTTAGACTCAGGTGTCGCCAACTT
GTGCGAGCTTTGACTAGGGTGCCACTAA
Found at i:446664 original size:31 final size:31
Alignment explanation
Indices: 446626--446686 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
446616 CTAACAAATT
**
446626 GTGCAGGCTTTAACTCTGGTGCCACCAACTC
1 GTGCAGGCTTTAACTAGGGTGCCACCAACTC
* *
446657 GTGCAGGCTTTGACTAGGGTGCCATCAACT
1 GTGCAGGCTTTAACTAGGGTGCCACCAACT
446687 TATGTGGGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (31 bp):
GTGCAGGCTTTAACTAGGGTGCCACCAACTC
Found at i:446741 original size:31 final size:31
Alignment explanation
Indices: 446706--447132 Score: 180
Period size: 31 Copynumber: 13.1 Consensus size: 31
446696 TTTGACATTG
*
446706 GACTTAGGTGCCACCAGCTTGTGTGGGCTTTGACTT
1 GACTTAGGTGCCACCAACTTGTGTGGGC--T---TT
**
446742 AGACTTAGGTGCCACCAGTTTGTGTGGGCTTT
1 -GACTTAGGTGCCACCAACTTGTGTGGGCTTT
* * * * ** *
446774 GCCTCAAGTGCCGCCAACTCATGTGGGCTTA
1 GACTTAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
446805 GAC-TCGGACGCCGCCAACTTGTGCGAGCTTT
1 GACTTAGG-TGCCACCAACTTGTGTGGGCTTT
*
446836 GAC-TAGGGTGCCACCAACTTGTGTGGGCTTA
1 GACTTA-GGTGCCACCAACTTGTGTGGGCTTT
* *
446867 GACTTAGACTTGGTGCCATCAGCTTGTGTGGGCTTT
1 GACTT--A---GGTGCCACCAACTTGTGTGGGCTTT
* ** * ** *
446903 GACTCAGGTGCTGCCAACTCGTGCAGGCTTA
1 GACTTAGGTGCCACCAACTTGTGTGGGCTTT
** * * * *
446934 GACTCGGGTGTCGCCATCTTGTGTAGGCTTT
1 GACTTAGGTGCCACCAACTTGTGTGGGCTTT
* * *
446965 GAC-TAGGTGCCACCAA-GTATATGGGCTTAGACAT
1 GACTTAGGTGCCACCAACTTGTGTGGGCTT-----T
* *
446999 AGACTTGGGTGCCACCAGCTTGTGTGGGCTTT
1 -GACTTAGGTGCCACCAACTTGTGTGGGCTTT
* *
447031 GACTCATACTTAGGTGCCATCAACTTGTGTGAGCTTT
1 G------ACTTAGGTGCCACCAACTTGTGTGGGCTTT
* ** ** *
447068 GACTCAGGTGCTGCCAGTTTGTGCGGGCTTT
1 GACTTAGGTGCCACCAACTTGTGTGGGCTTT
*
447099 GAC-TAGGGTGCCACCAACTCGTGTGGGCTTT
1 GACTTA-GGTGCCACCAACTTGTGTGGGCTTT
447130 GAC
1 GAC
447133 ATTCTAAGGC
Statistics
Matches: 289, Mismatches: 79, Indels: 50
0.69 0.19 0.12
Matches are distributed among these distances:
29 8 0.03
30 10 0.03
31 158 0.55
32 6 0.02
34 3 0.01
35 4 0.01
36 37 0.13
37 63 0.22
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (31 bp):
GACTTAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:446756 original size:37 final size:38
Alignment explanation
Indices: 446674--446774 Score: 150
Period size: 37 Copynumber: 2.7 Consensus size: 38
446664 CTTTGACTAG
* * * *
446674 GGTGCCATCAACTTATGTGGGCTTTGACATTGGACTTA
1 GGTGCCACCAGCTTGTGTGGGCTTTGACATTAGACTTA
446712 GGTGCCACCAGCTTGTGTGGGCTTTGAC-TTAGACTTA
1 GGTGCCACCAGCTTGTGTGGGCTTTGACATTAGACTTA
*
446749 GGTGCCACCAGTTTGTGTGGGCTTTG
1 GGTGCCACCAGCTTGTGTGGGCTTTG
446775 CCTCAAGTGC
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
37 33 0.57
38 25 0.43
ACGTcount: A:0.16, C:0.20, G:0.31, T:0.34
Consensus pattern (38 bp):
GGTGCCACCAGCTTGTGTGGGCTTTGACATTAGACTTA
Found at i:446932 original size:129 final size:129
Alignment explanation
Indices: 446710--447036 Score: 435
Period size: 129 Copynumber: 2.5 Consensus size: 129
446700 ACATTGGACT
* * *
446710 TAGGTGCCACCAGCTTGTGTGGGCTTTGACTTAGACTTAGGTGCCACCAGTTTGTGTGGGCTTTG
1 TAGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTGTGTGGGCTTTG
* **
446775 CCTCAAGTGCCGCCAACTCATGTGGGCTTAGACTCGGACGCCGCCAACTTGTGCGA-GCTTTGAC
66 ACTCAAGTGCCGCCAACTCATGCAGGCTTAGACTCGGACGCCGCCAACTTGTG-GAGGCTTTGAC
*
446839 TAGGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTT-GGTGCCATCAGCTTGTGTGGGCTTT
1 TA-GGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTGTGTGGGCTTT
* * * ** * * *
446903 GACTCAGGTGCTGCCAACTCGTGCAGGCTTAGACTCGGGTGTCGCCATCTTGTGTAGGCTTTGAC
65 GACTCAAGTGCCGCCAACTCATGCAGGCTTAGACTCGGACGCCGCCAACTTGTGGAGGCTTTGAC
* * * * *
446968 TAGGTGCCACCAA-GTATATGGGCTTAGACATAGACTTGGGTGCCACCAGCTTGTGTGGGCTTTG
1 TAGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTGTGTGGGCTTTG
447032 ACTCA
66 ACTCA
447037 TACTTAGGTG
Statistics
Matches: 175, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
127 20 0.11
128 42 0.24
129 79 0.45
130 34 0.19
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (129 bp):
TAGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTGTGTGGGCTTTG
ACTCAAGTGCCGCCAACTCATGCAGGCTTAGACTCGGACGCCGCCAACTTGTGGAGGCTTTGAC
Found at i:447047 original size:37 final size:37
Alignment explanation
Indices: 447001--447073 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
446991 TTAGACATAG
* * *
447001 ACTTGGGTGCCACCAGCTTGTGTGGGCTTTGACTCAT
1 ACTTAGGTGCCACCAACTTGTGTGAGCTTTGACTCAT
*
447038 ACTTAGGTGCCATCAACTTGTGTGAGCTTTGACTCA
1 ACTTAGGTGCCACCAACTTGTGTGAGCTTTGACTCA
447074 GGTGCTGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (37 bp):
ACTTAGGTGCCACCAACTTGTGTGAGCTTTGACTCAT
Found at i:447130 original size:165 final size:164
Alignment explanation
Indices: 446836--447132 Score: 423
Period size: 165 Copynumber: 1.8 Consensus size: 164
446826 TGCGAGCTTT
* * *
446836 GACTAGGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTTGGTGCCATCAGCTTGTGTGGGCT
1 GACTAGGGTGCCACCAACTTGTGTGGGCTTAGACTCAGACTTGGTGCCATCAACTTGTGTGAGCT
* * * * *
446901 TTGACTCAGGTGCTGCCAACTCGTGCAGGCTTAGACTCGGGTGTCGCCATCTTGTGTAGGCTTTG
66 TTGACTCAGGTGCTGCCAACTCGTGCAGGCTTAGACTAGGGTGCCACCAACTCGTGTAGGCTTTG
446966 ACTAGGTGCCACCAAGTATATGGGCTTAGACATA
131 ACTAGGTGCCACCAAGTATATGGGCTTAGACATA
* * * *
447000 GACTTGGGTGCCACCAGCTTGTGTGGGCTTTGACTCATACTTAGGTGCCATCAACTTGTGTGAGC
1 GACTAGGGTGCCACCAACTTGTGTGGGCTTAGACTCAGACTT-GGTGCCATCAACTTGTGTGAGC
** * * * *
447065 TTTGACTCAGGTGCTGCCAGTTTGTGCGGGCTTTGACTAGGGTGCCACCAACTCGTGTGGGCTTT
65 TTTGACTCAGGTGCTGCCAACTCGTGCAGGCTTAGACTAGGGTGCCACCAACTCGTGTAGGCTTT
447130 GAC
130 GAC
447133 ATTCTAAGGC
Statistics
Matches: 114, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
164 37 0.32
165 77 0.68
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (164 bp):
GACTAGGGTGCCACCAACTTGTGTGGGCTTAGACTCAGACTTGGTGCCATCAACTTGTGTGAGCT
TTGACTCAGGTGCTGCCAACTCGTGCAGGCTTAGACTAGGGTGCCACCAACTCGTGTAGGCTTTG
ACTAGGTGCCACCAAGTATATGGGCTTAGACATA
Found at i:447444 original size:34 final size:34
Alignment explanation
Indices: 447394--447493 Score: 137
Period size: 34 Copynumber: 2.9 Consensus size: 34
447384 AAAATGGGGC
* *
447394 ATCCTGTTCTTTGAGGACAAAGAAAAAAGAGTAT
1 ATCCTGCTCTTCGAGGACAAAGAAAAAAGAGTAT
* * * *
447428 ATCTTGCTCTTCGAGGACAAAGGAGAAGGAGTAT
1 ATCCTGCTCTTCGAGGACAAAGAAAAAAGAGTAT
447462 ATCCTGCTCTTCGAGGACAAAGGAAAAAAGAG
1 ATCCTGCTCTTCGAGGACAAA-GAAAAAAGAG
447494 AATGAATTGG
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 48 0.87
35 7 0.13
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (34 bp):
ATCCTGCTCTTCGAGGACAAAGAAAAAAGAGTAT
Found at i:455944 original size:2 final size:2
Alignment explanation
Indices: 455937--455975 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
455927 TTAAAGGCAT
455937 TA TA TA 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 TA TA TA T
455976 TCTAAAAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:459994 original size:52 final size:52
Alignment explanation
Indices: 459909--460033 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
459899 ATATGAAAAG
* * *
459909 TTGCTTGCATGTATCGATACATTTAATAGTGTATCTATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
459961 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
460013 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
460034 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:460046 original size:52 final size:51
Alignment explanation
Indices: 459909--460053 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
459899 ATATGAAAAG
* *
459909 TTGCTTGCATGTATCGATACATTTAATAGTGTATCTATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
459961 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
460013 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
460054 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:460060 original size:13 final size:13
Alignment explanation
Indices: 460042--460066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
460032 CAAAGATCAG
460042 TGTATCGATACAA
1 TGTATCGATACAA
460055 TGTATCGATACA
1 TGTATCGATACA
460067 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:460150 original size:13 final size:13
Alignment explanation
Indices: 460132--460156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
460122 CAAAAAAATA
460132 TGTATCGATACAT
1 TGTATCGATACAT
460145 TGTATCGATACA
1 TGTATCGATACA
460157 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:460152 original size:33 final size:33
Alignment explanation
Indices: 460110--460176 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
460100 AGTAGCTTAA
460110 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
460143 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
460176 A
1 A
460177 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:461097 original size:67 final size:68
Alignment explanation
Indices: 460971--461097 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
460961 ATTGGGTTTT
* * *
460971 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
461036 AGA
66 AGA
* * * * *
461039 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAATGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
461098 GAAAAAGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:461385 original size:98 final size:98
Alignment explanation
Indices: 461044--461438 Score: 471
Period size: 98 Copynumber: 4.0 Consensus size: 98
461034 TGAGAAAAGT
* * * * * *
461044 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAATGATGAGAAAAAGGATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGAT--G---AAGG-TG
* * * *
461109 TCAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAA
60 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
*
461148 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T--T-A--AAGGTGCCA
1 GAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGATGAAGGTGCCA
* *
461207 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTATA
63 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * * * *
461243 GGT-GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGATGAAGGTGCCAATG
*
461307 TGCTGAGTCAAGGCCAGCTACATTGGACGTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
*
461340 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGATGAAGGTGCCAATG
*
461405 TGCTGAGTCAAGGCCAACTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
461438 G
1 G
461439 GTGATGAGGA
Statistics
Matches: 253, Mismatches: 28, Indels: 26
0.82 0.09 0.08
Matches are distributed among these distances:
91 36 0.14
92 1 0.00
95 40 0.16
96 4 0.02
97 44 0.17
98 88 0.35
103 1 0.00
104 4 0.02
106 1 0.00
107 34 0.13
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (98 bp):
GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGATGAAGGTGCCAATG
TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
Found at i:461442 original size:49 final size:49
Alignment explanation
Indices: 461110--461438 Score: 438
Period size: 49 Copynumber: 6.8 Consensus size: 49
461100 AAAAGGATGT
* * *
461110 CAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
461162 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
461205 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTATAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
461253 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
461302 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACGTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
461351 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
461400 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
461439 GTGATGAGGA
Statistics
Matches: 245, Mismatches: 25, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
43 39 0.16
48 47 0.19
49 128 0.52
52 31 0.13
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:461734 original size:67 final size:68
Alignment explanation
Indices: 461608--461734 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
461598 ATTGGGTTTT
* * *
461608 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
461673 AGA
66 AGA
* * * * *
461676 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAATGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
461735 GAAAAATGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:461794 original size:225 final size:219
Alignment explanation
Indices: 461302--461877 Score: 512
Period size: 225 Copynumber: 2.6 Consensus size: 219
461292 ATGAAGGTGC
* * * * **
461302 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACGTAAAGAT-AAAGGTGCCAATATGCTGATTCA
1 CAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAATGCCAATATGCTGATTCA
* * * * *
461366 AGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAACTACATTGG
66 AGACCAGCTATATGGGACTTAATGATGAAGGTGCCAATATGCTGAGTCAAGGCCAACAACATTGG
* * * *
461431 ACTTAAAGGTGATGAGGATGGAGAGTGATAAAAGGACCAATACGTTGATTCACGGCCAACGATAT
131 ACTTAAAGATGAAGAGGATGAAAAGTGATAAAAGGACCAATACGTTGATTCACGGCCAACGATAT
461496 TGGGTTAAAGATGAGAAAAAGGAT
196 TGGGTTAAAGATGAGAAAAAGGAT
* * * * * * * * ** * * *
461520 AAAGGAGCCAATATGC--GGCTAGCGATATT-AGGCTCGAGGATGCGAAAAATGACAATGTGCTG
1 CAATGTGCTAAT-T-CAAGGCCAGCTACATTGA-ACTTAAAGAT--GAAAAATGCCAATATGCTG
* ** *
461582 ATTCATGACCAGCGTCAT-TGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCA
61 ATTCAAGACCAGC-T-ATATGGGACTT--A-ATGATGAAGGTGCCAATATGCTGAGTCAAGGCCA
* * * * *
461646 GCAATATTGGACTTAAAGATGAAGATGA-GAAAAGTGATAAAGATG-CCAATATGTTGATTCACG
121 ACAACATTGGACTTAAAGATGAAGAGGATGAAAAGTGATAAA-AGGACCAATACGTTGATTCACG
* *
461709 GCCAACGATATTGGGCTTAATGATGAGAAAAATGATGT
185 GCCAACGATATTGGG-TTAAAGATGAGAAAAAGGA--T
461747 CAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAATGTGCCAATATGCTGATT
1 CAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAA--TGCCAATATGCTGATT
* * * * * *
461812 CAAGGCCAGCTATATTGGAC-T--T-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
64 CAAGACCAGCTATATGGGACTTAATGATGAAGGTGCCAATATGCTGAGTCAAGGCCAACAACATT
461871 GGACTTA
129 GGACTTA
461878 TAGGTGAGGT
Statistics
Matches: 277, Mismatches: 60, Indels: 43
0.73 0.16 0.11
Matches are distributed among these distances:
217 40 0.14
218 21 0.08
219 2 0.01
220 2 0.01
221 25 0.09
222 6 0.02
223 2 0.01
224 44 0.16
225 82 0.30
226 5 0.02
227 47 0.17
228 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (219 bp):
CAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAATGCCAATATGCTGATTCA
AGACCAGCTATATGGGACTTAATGATGAAGGTGCCAATATGCTGAGTCAAGGCCAACAACATTGG
ACTTAAAGATGAAGAGGATGAAAAGTGATAAAAGGACCAATACGTTGATTCACGGCCAACGATAT
TGGGTTAAAGATGAGAAAAAGGAT
Found at i:461956 original size:49 final size:49
Alignment explanation
Indices: 461747--462256 Score: 637
Period size: 49 Copynumber: 10.7 Consensus size: 49
461737 AAAATGATGT
* * *
461747 CAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAAAAATGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGC
* *
461799 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
461842 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTATAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
461890 CAATATGCTGATTCAAGGCCAGCTACATCGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
461939 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACGTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
461988 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
462037 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
462080 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
462129 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTT----A-G-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
462172 CAATGTGCTGATAT-AAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGAT-TCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
462221 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
462257 GAAGGGTTGC
Statistics
Matches: 399, Mismatches: 38, Indels: 45
0.83 0.08 0.09
Matches are distributed among these distances:
43 116 0.29
44 2 0.01
45 1 0.00
47 2 0.01
48 47 0.12
49 200 0.50
52 31 0.08
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:461990 original size:637 final size:637
Alignment explanation
Indices: 460759--462078 Score: 2514
Period size: 637 Copynumber: 2.1 Consensus size: 637
460749 GTTTTGCAAT
* * * * * * *
460759 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGATGATGAGGATGGAGAGTGATA
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGATGAGGATGGAGAGTGATA
*
460824 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTAAAGATGAGAAAAGGGATAAAGGA
66 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTAAAGATGAGAAAAAGGATAAAGGA
460889 GCCAATATGCGGCTAGCGATATTAGGCTCGAGGATGCGAAAAATGACAATGTACTGATTCATGAC
131 GCCAATATGCGGCTAGCGATATTAGGCTCGAGGATGCGAAAAATGACAATGTACTGATTCATGAC
460954 CAGCGTCATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGG
196 CAGCGTCATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGG
461019 ACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATT
261 ACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATT
461084 GGGCTTAATGATGAGAAAAAGGATGTCAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAG
326 GGGCTTAATGATGAGAAAAAGGATGTCAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAG
*
461149 ATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
391 ATGAAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
*
461214 GATTCAAGGCCAGCTACATTGGACTTATAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
456 GATTCAAGGCCAGCTACATTGGACTTATAGGTGAGGTGCCAATATGCTGATTCAAGGCCAGCTAC
*
461279 ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACGTAAAGATA
521 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACGTAAAGATA
461344 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
586 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
*
461396 GTGCCAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGGTGATGAGGATGGAGAGTGATA
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGATGAGGATGGAGAGTGATA
461461 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTAAAGATGAGAAAAAGGATAAAGGA
66 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTAAAGATGAGAAAAAGGATAAAGGA
*
461526 GCCAATATGCGGCTAGCGATATTAGGCTCGAGGATGCGAAAAATGACAATGTGCTGATTCATGAC
131 GCCAATATGCGGCTAGCGATATTAGGCTCGAGGATGCGAAAAATGACAATGTACTGATTCATGAC
461591 CAGCGTCATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGG
196 CAGCGTCATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGG
461656 ACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATT
261 ACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATT
*
461721 GGGCTTAATGATGAGAAAAATGATGTCAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAG
326 GGGCTTAATGATGAGAAAAAGGATGTCAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAG
461786 ATGAAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
391 ATGAAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
461851 GATTCAAGGCCAGCTACATTGGACTTATAGGTGAGGTGCCAATATGCTGATTCAAGGCCAGCTAC
456 GATTCAAGGCCAGCTACATTGGACTTATAGGTGAGGTGCCAATATGCTGATTCAAGGCCAGCTAC
461916 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACGTAAAGATA
521 ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACGTAAAGATA
461981 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
586 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
462033 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTG
462079 CCAATGTGCT
Statistics
Matches: 668, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
637 668 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (637 bp):
GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGATGAGGATGGAGAGTGATA
AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTAAAGATGAGAAAAAGGATAAAGGA
GCCAATATGCGGCTAGCGATATTAGGCTCGAGGATGCGAAAAATGACAATGTACTGATTCATGAC
CAGCGTCATTGGGTTTTAAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGG
ACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATT
GGGCTTAATGATGAGAAAAAGGATGTCAATGTGCTAATTCAAGGCCAGCTACATTGAACTTAAAG
ATGAAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCT
GATTCAAGGCCAGCTACATTGGACTTATAGGTGAGGTGCCAATATGCTGATTCAAGGCCAGCTAC
ATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACGTAAAGATA
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAG
Found at i:462076 original size:22 final size:22
Alignment explanation
Indices: 462051--462118 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
462041 GTGCTGAGTC
462051 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
* * *
462073 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTACAT-TG--GACTTA
462094 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTACATTGGACTTA
462116 AAG
1 AAG
462119 ATGAAGGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (22 bp):
AAGGCCAGCTACATTGGACTTA
Found at i:462124 original size:92 final size:92
Alignment explanation
Indices: 461795--462261 Score: 624
Period size: 92 Copynumber: 5.0 Consensus size: 92
461785 GATGAAAAAT
*
461795 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
461854 TCAAGGCCAGCTACATTGGACTTATAGGTGAG
66 TCAAGGCCAGCTACATTGGACTTA-A----AG
* *
461886 GTGCCAATATGCTGATTCAAGGCCAGCTACATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
461951 TCAAGGCCAGCTACATTGGACGTAAAGATAAAG
66 TCAAGGCCAGCTACATTGGAC-T-----TAAAG
* * * *
461984 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
462049 TCAAGGCCAGCTACATTGGACTTAAAG
66 TCAAGGCCAGCTACATTGGACTTAAAG
* *
462076 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
* * *
462141 TCAAGGCCAGCTATATTGGGCTTAGAG
66 TCAAGGCCAGCTACATTGGACTTAAAG
* *
462168 GTGCCAATGTGCTGATAT-AAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGA
1 GTGCCAATATGCTGAT-TCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGA
* *
462232 TTCAAGGCCAGCTATATTGGGCTTAGAAG
65 TTCAAGGCCAGCTACATTGGACTTA-AAG
462261 G
1 G
462262 GTTGCCACCG
Statistics
Matches: 345, Mismatches: 17, Indels: 26
0.89 0.04 0.07
Matches are distributed among these distances:
91 37 0.11
92 175 0.51
93 4 0.01
95 1 0.00
97 40 0.12
98 85 0.25
102 1 0.00
103 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (92 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
TCAAGGCCAGCTACATTGGACTTAAAG
Found at i:462300 original size:33 final size:33
Alignment explanation
Indices: 462256--462376 Score: 210
Period size: 33 Copynumber: 3.7 Consensus size: 33
462246 TATTGGGCTT
462256 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
462289 AGAATGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
462321 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
462354 AAGAA-GGTTGCCACCGACTTGTG
1 -AGAAGGGTTGCCACCGACTTGTG
462377 GACTTAAAAG
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
32 31 0.37
33 49 0.58
34 4 0.05
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:462337 original size:65 final size:63
Alignment explanation
Indices: 462249--462376 Score: 222
Period size: 65 Copynumber: 2.0 Consensus size: 63
462239 CCAGCTATAT
462249 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAATGGTTGCCACCGACTTGTG
1 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCGACTTGTG
462312 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
462377 GACTTAAAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
63 5 0.08
64 2 0.03
65 51 0.82
66 4 0.06
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.28
Consensus pattern (63 bp):
TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:462446 original size:68 final size:67
Alignment explanation
Indices: 462357--462768 Score: 292
Period size: 68 Copynumber: 6.5 Consensus size: 67
462347 GCTTTAGAAG
* * * *
462357 AAGGTTGCCACCGACTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGA
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAGGA
462422 AAA
65 AAA
*
462425 AAGGGTGCCACGGAGTCGTGGACTTAAAA-G----G-GTGCCACGGAGTTGTGGGCTT-------
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGGAA
462477 AA
66 AA
* * * *
462479 ACGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAACGTGTGCCACGAAGTTGTGGGC-T----G-
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA-GAGTGCCACGGAGTTGTGGGCTTAAAGGA
*
462538 TAA
65 AAA
* * * * * *
462541 AAGGGTGCCACGGAGTCGTGGACTTTGAGATGAAAAAAGTGCCACGGAGTTGTGGACTTAAAGAT
1 AAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAG--
462606 GAAAA
63 GAAAA
* * *
462611 AA--GTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGACTTAAAGAT
1 AAGGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAG--
462674 GAAAA
63 GAAAA
* * * * *
462679 AA--GTGCCACGGAGTTGTGGGCTTAAAA-G----G-GTGCCACGGAGTCGTGGACTTTGAGATG
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAGG
462736 AAAA
64 AAAA
*
462740 AA--GTGCCACGGAGTTGTGGGCTTAAAAGG
1 AAGGGTGCCACGGAGTTGTGGACTTAAAAGG
462769 GTGCCACGGA
Statistics
Matches: 294, Mismatches: 28, Indels: 50
0.79 0.08 0.13
Matches are distributed among these distances:
54 28 0.10
55 1 0.00
60 2 0.01
61 70 0.24
62 61 0.21
63 12 0.04
66 1 0.00
67 5 0.02
68 109 0.37
69 1 0.00
70 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (67 bp):
AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGGAA
AA
Found at i:462521 original size:34 final size:32
Alignment explanation
Indices: 462483--462765 Score: 244
Period size: 34 Copynumber: 8.8 Consensus size: 32
462473 GCTTAAACGG
**
462483 GTGCCACGGAGTTGTGGACTTAGAAGGAAAACGT
1 GTGCCACGGAGTTGTGGACTTA-AAGGAAAA-AA
* * * **
462517 GTGCCACGAAGTTGTGGGC-T---GTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAGGAAAAAA
* * *
462545 GTGCCACGGAGTCGTGGACTTTGAGATGAAAAAA
1 GTGCCACGGAGTTGTGGAC-TT-AAAGGAAAAAA
462579 GTGCCACGGAGTTGTGGACTTAAAGATGAAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAG--GAAAAAA
462613 GTGCCACGGAGTTGTGGACTTAAAGATGAAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAG--GAAAAAA
462647 GTGCCACGGAGTTGTGGACTTAAAGATGAAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAG--GAAAAAA
*
462681 GTGCCACGGAGTTGTGGGCTTAAAAGG------
1 GTGCCACGGAGTTGTGGACTT-AAAGGAAAAAA
* * *
462708 GTGCCACGGAGTCGTGGACTTTGAGATGAAAAAA
1 GTGCCACGGAGTTGTGGAC-TT-AAAGGAAAAAA
*
462742 GTGCCACGGAGTTGTGGGCTTAAA
1 GTGCCACGGAGTTGTGGACTTAAA
462766 AGGGTGCCAC
Statistics
Matches: 210, Mismatches: 23, Indels: 34
0.79 0.09 0.13
Matches are distributed among these distances:
27 17 0.08
28 22 0.10
29 5 0.02
30 1 0.00
32 4 0.02
33 6 0.03
34 151 0.72
35 4 0.02
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (32 bp):
GTGCCACGGAGTTGTGGACTTAAAGGAAAAAA
Found at i:462542 original size:89 final size:89
Alignment explanation
Indices: 462394--462561 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 89
462384 AAGGAAAAGA
* * *
462394 GTGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGGTG
1 GTGCCACGGAGTTGTGGACTTTAAAGGAAAAAAGGGTGCCACGAAGTCGTGGACTTAAAAGGGTG
*
462459 CCACGGAGTTGTGGGCTTAAACGG
66 CCACGGAGTCGTGGGCTTAAACGG
* * * *
462483 GTGCCACGGAGTTGTGGAC-TTAGAAGG-AAAACGTGTGCCACGAAGTTGTGGGCTGTAAAAGGG
1 GTGCCACGGAGTTGTGGACTTTA-AAGGAAAAAAGGGTGCCACGAAGTCGTGGACT-TAAAAGGG
462546 TGCCACGGAGTCGTGG
64 TGCCACGGAGTCGTGG
462562 ACTTTGAGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
88 25 0.36
89 44 0.64
ACGTcount: A:0.25, C:0.16, G:0.38, T:0.21
Consensus pattern (89 bp):
GTGCCACGGAGTTGTGGACTTTAAAGGAAAAAAGGGTGCCACGAAGTCGTGGACTTAAAAGGGTG
CCACGGAGTCGTGGGCTTAAACGG
Found at i:462742 original size:61 final size:61
Alignment explanation
Indices: 462647--462792 Score: 265
Period size: 61 Copynumber: 2.4 Consensus size: 61
462637 GATGAAAAAA
* **
462647 GTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGG
1 GTGCCACGGAGTCGTGGACTTTGAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGG
462708 GTGCCACGGAGTCGTGGACTTTGAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGG
1 GTGCCACGGAGTCGTGGACTTTGAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGG
462769 GTGCCACGGAGTCGTGGACTTTGA
1 GTGCCACGGAGTCGTGGACTTTGA
462793 AGAAAAGGAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 82 1.00
ACGTcount: A:0.27, C:0.15, G:0.36, T:0.22
Consensus pattern (61 bp):
GTGCCACGGAGTCGTGGACTTTGAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGG
Found at i:471147 original size:52 final size:52
Alignment explanation
Indices: 471062--471186 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
471052 ATATGAAAAG
* *
471062 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGCGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGCGCAAAT
* * *
471114 TTGCCTTCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGCGCAAAT
471166 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
471187 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGCGCAAAT
Found at i:471199 original size:52 final size:51
Alignment explanation
Indices: 471062--471206 Score: 193
Period size: 52 Copynumber: 2.8 Consensus size: 51
471052 ATATGAAAAG
*
471062 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGCGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGCGCAAAT
* * * *
471114 TTGCCTTCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGCGCAAAT
*
471166 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
471207 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGCGCAAAT
Found at i:471213 original size:13 final size:13
Alignment explanation
Indices: 471195--471219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
471185 CAAAGATCAG
471195 TGTATCGATACAA
1 TGTATCGATACAA
471208 TGTATCGATACA
1 TGTATCGATACA
471220 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:471303 original size:13 final size:13
Alignment explanation
Indices: 471285--471309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
471275 CAAAAAAATA
471285 TGTATCGATACAT
1 TGTATCGATACAT
471298 TGTATCGATACA
1 TGTATCGATACA
471310 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:471305 original size:33 final size:33
Alignment explanation
Indices: 471263--471329 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
471253 AGTAGCTTAA
471263 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
471296 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
471329 A
1 A
471330 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:472861 original size:53 final size:53
Alignment explanation
Indices: 472781--472895 Score: 221
Period size: 53 Copynumber: 2.2 Consensus size: 53
472771 TGAGACTTGA
*
472781 TTGGATTCTGTGAGGTTTTCGAAAAATGGTCTAGGGGTGCTCTAGAGAAAAGT
1 TTGGAATCTGTGAGGTTTTCGAAAAATGGTCTAGGGGTGCTCTAGAGAAAAGT
472834 TTGGAATCTGTGAGGTTTTCGAAAAATGGTCTAGGGGTGCTCTAGAGAAAAGT
1 TTGGAATCTGTGAGGTTTTCGAAAAATGGTCTAGGGGTGCTCTAGAGAAAAGT
472887 TTGGAATCT
1 TTGGAATCT
472896 AAGAAAGAGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.32
Consensus pattern (53 bp):
TTGGAATCTGTGAGGTTTTCGAAAAATGGTCTAGGGGTGCTCTAGAGAAAAGT
Found at i:473090 original size:79 final size:79
Alignment explanation
Indices: 472979--473185 Score: 236
Period size: 79 Copynumber: 2.6 Consensus size: 79
472969 GAGATAATAA
* * * * * * * *
472979 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAAACAAT-A
*
473044 -TTAGAAAAAAAAAT
65 TTTAGAAAAAAAAAC
* * *
473058 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATACCCAATTATGAGAAAACAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAAACAATAT
* ** * *
473123 TTTGGGAATAAAGC
66 TTAGAAAAAAAAAC
*
473137 CGGGGTTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
473186 GAAATAACGA
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 105 0.99
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAAACAATAT
TTAGAAAAAAAAAC
Found at i:473170 original size:28 final size:27
Alignment explanation
Indices: 473137--473208 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 27
473127 GGAATAAAGC
473137 CGGGGTTGGAGTATCCCC-TCGAAAGTAA
1 CGGGGTTGGAGTATCCCCAT-GAAA-TAA
473165 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCC-ATGAAATAA
*
473193 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
473209 TCAACTGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCATGAAATAA
Found at i:473295 original size:53 final size:54
Alignment explanation
Indices: 473217--473319 Score: 172
Period size: 53 Copynumber: 1.9 Consensus size: 54
473207 CCTCAACTGT
* * *
473217 GAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
1 GAAAAATTGGTAGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTAAAG
473271 GAAAAATTGGT-GTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
1 GAAAAATTGGTAGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
473320 GTGGAGAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 35 0.76
54 11 0.24
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (54 bp):
GAAAAATTGGTAGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTAAAG
Found at i:475695 original size:13 final size:13
Alignment explanation
Indices: 475677--475702 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
475667 ACAAAGATCC
475677 ATGTATCGATACA
1 ATGTATCGATACA
475690 ATGTATCGATACA
1 ATGTATCGATACA
475703 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:475698 original size:33 final size:33
Alignment explanation
Indices: 475656--475722 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
475646 AAAATTTCCA
***
475656 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
475689 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
475722 A
1 A
475723 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:475766 original size:19 final size:18
Alignment explanation
Indices: 475742--475809 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
475732 CAGTAGCTAA
475742 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
475761 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
475776 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
475793 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
475810 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:475782 original size:13 final size:13
Alignment explanation
Indices: 475764--475788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
475754 ACAATACTTA
475764 TGTATCGATACAT
1 TGTATCGATACAT
475777 TGTATCGATACA
1 TGTATCGATACA
475789 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:475786 original size:32 final size:32
Alignment explanation
Indices: 475745--475807 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
475735 TAGCTAATTA
*
475745 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
475777 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
475808 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:475889 original size:21 final size:21
Alignment explanation
Indices: 475865--475963 Score: 189
Period size: 21 Copynumber: 4.7 Consensus size: 21
475855 CATTTGTAGG
475865 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
475886 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
475907 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
475928 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
475949 ATGTATCGATACATT
1 ATGTATCGATACATT
475964 TGGATAATTT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:477307 original size:21 final size:20
Alignment explanation
Indices: 477260--477313 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
477250 CATTTGAGAC
*
477260 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTA
*
477280 ATGTATCAATACATTCACTA
1 ATGTATCGATACATTCACTA
477300 ATTGTATCGATACA
1 A-TGTATCGATACA
477314 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Done.