Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4568288
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 24
Found at i:4372362 original size:33 final size:33
Alignment explanation
Indices: 4372325--4372390 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
4372315 CATCTTAATA
*
4372325 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
4372358 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
4372391 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:4372447 original size:21 final size:21
Alignment explanation
Indices: 4372422--4372465 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
4372412 CCCCTTATGC
4372422 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
4372443 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
4372464 CT
1 CT
4372466 GATTGTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:4374524 original size:24 final size:24
Alignment explanation
Indices: 4374497--4374545 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
4374487 TATTTTCAGA
*
4374497 GGATAT-TTAGCTTATATTTTGATC
1 GGATATGTTA-CTTATATTTTAATC
*
4374521 GGATATGTTATTTATATTTTAATC
1 GGATATGTTACTTATATTTTAATC
4374545 G
1 G
4374546 ATACAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.51
Consensus pattern (24 bp):
GGATATGTTACTTATATTTTAATC
Found at i:4375063 original size:182 final size:181
Alignment explanation
Indices: 4374674--4375075 Score: 590
Period size: 182 Copynumber: 2.2 Consensus size: 181
4374664 CTTTCAATAT
* * * ** *
4374674 TTTTACCTGTTATATCGTTGTGGATTGATATATTTTTTTTAAGTATCGACACATTATAGGCGCTA
1 TTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAGGAGCTA
* *
4374739 AAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAGTATCGACACTTTCAATAT
66 AAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAGTACCGACACTTTAAATAT
* * *
4374804 ATCCGGTAACGTTTTACCGGTTTTATCATTTTGTAACCAGTTTTATCATAT
131 ATCCGGTAACGCTTTACCGGTTTTATCATTTTATAACCAGTTTTATCATAG
* * **
4374855 TTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTATAGGATTTA
1 TTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAGGAGCTA
* *
4374920 AAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATTAAAGTACCGACACTTTAAATG
66 AAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TAAAGTACCGACACTTTAAATA
* * *
4374985 TATCCGGTAGCGCTTTACCGGTTTTATCATTTCTAT-ACCGGTTTTGTCATAG
130 TATCCGGTAACGCTTTACCGGTTTTATCATTT-TATAACCAGTTTTATCATAG
*
4375037 TTTTACCTGTTATATCGTTTTGGATCGACACATTTTTTA
1 TTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTA
4375076 TTTGGATCGA
Statistics
Matches: 197, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 96 0.49
182 99 0.50
183 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (181 bp):
TTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAGGAGCTA
AAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATAAAGTACCGACACTTTAAATAT
ATCCGGTAACGCTTTACCGGTTTTATCATTTTATAACCAGTTTTATCATAG
Found at i:4375592 original size:227 final size:228
Alignment explanation
Indices: 4375144--4375624 Score: 885
Period size: 227 Copynumber: 2.1 Consensus size: 228
4375134 ACTTTTATAC
*
4375144 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
4375209 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
4375274 TATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAT
131 TATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
*
4375339 ATAATAATAAATATGTTTTCCACAGTGAAATAA
196 ATAATAATAAATATATTTTCCACAGTGAAATAA
4375372 GTATGAACACTTTTATAAAAATGATATATAC-TTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
* *
4375436 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACACACAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
4375501 TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
4375566 GATAATAATAAATATATTTT-CACAGTGAAATAA
195 GATAATAATAAATATATTTTCCACAGTGAAATAA
*
4375599 GTATGAACATTTTTATAAAAATGATA
1 GTATGAACACTTTTATAAAAATGATA
4375625 AATGCTTTAC
Statistics
Matches: 246, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
227 143 0.58
228 103 0.42
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (228 bp):
GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
TATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
ATAATAATAAATATATTTTCCACAGTGAAATAA
Found at i:4377467 original size:17 final size:18
Alignment explanation
Indices: 4377445--4377488 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
4377435 ACAAAATACA
4377445 ACATTCCCA-GTAATCTT
1 ACATTCCCACGTAATCTT
4377462 ACATTCCCACTGGTAATCTT
1 ACATTCCCAC--GTAATCTT
4377482 ACATTCC
1 ACATTCC
4377489 GTGAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.38
20 15 0.62
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (18 bp):
ACATTCCCACGTAATCTT
Found at i:4379298 original size:29 final size:31
Alignment explanation
Indices: 4379265--4379344 Score: 78
Period size: 31 Copynumber: 2.6 Consensus size: 31
4379255 GTTGTATCGT
4379265 TTATACCATTGAACTTTTAATTTT-G-TCAA
1 TTATACCATTGAACTTTTAATTTTCGTTCAA
* *
4379294 TTATAGCATT-AGA-TTTTGATTTTCGTTTCAA
1 TTATACCATTGA-ACTTTTAATTTTCG-TTCAA
* *
4379325 TTATACCAATGAACTGTTAA
1 TTATACCATTGAACTTTTAA
4379345 ATTGCTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
28 10 0.26
29 11 0.28
31 13 0.33
32 5 0.13
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.46
Consensus pattern (31 bp):
TTATACCATTGAACTTTTAATTTTCGTTCAA
Found at i:4381555 original size:18 final size:18
Alignment explanation
Indices: 4381515--4381562 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
4381505 TTTTATATAT
* * *
4381515 CTTAACTTAAATTCACAT
1 CTTAAATTAAATTAACAC
*
4381533 ATTAAATTAAATTAACAC
1 CTTAAATTAAATTAACAC
4381551 CTTAACATTAAA
1 CTTAA-ATTAAA
4381563 AATATATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (18 bp):
CTTAAATTAAATTAACAC
Found at i:4381697 original size:22 final size:23
Alignment explanation
Indices: 4381672--4381714 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4381662 CTTACCTTAA
4381672 CTTA-AATA-TTTATAATTTTATT
1 CTTATAATATTTTA-AATTTTATT
4381694 CTTATAATATTTTAAATTTTA
1 CTTATAATATTTTAAATTTTA
4381715 AAAAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
CTTATAATATTTTAAATTTTATT
Found at i:4381726 original size:27 final size:26
Alignment explanation
Indices: 4381696--4381810 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 26
4381686 ATTTTATTCT
*
4381696 TATAATATTTTAAATTTTAAAAAATAA
1 TATAATATTTTAAA-TTAAAAAAATAA
4381723 TAT-ATA-TTTAAATTAAAAAAATAA
1 TATAATATTTTAAATTAAAAAAATAA
* * *
4381747 AATATTCATTTTTAAATTAAAAAATAAAA
1 TATAAT-A-TTTTAAATTAAAAAA-ATAA
*
4381776 TATACAT-TTTTAAGTTAAAAATAATAA
1 TATA-ATATTTTAAATTAAAAA-AATAA
*
4381803 TAAAATAT
1 TATAATAT
4381811 ATATTTTATG
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
24 13 0.18
25 7 0.10
26 6 0.08
27 23 0.32
28 15 0.21
29 6 0.08
30 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (26 bp):
TATAATATTTTAAATTAAAAAAATAA
Found at i:4381727 original size:24 final size:23
Alignment explanation
Indices: 4381699--4381778 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 23
4381689 TTATTCTTAT
*
4381699 AATATTTTAAATTTTAAAAAATAA
1 AATATTTTAAA-TTAAAAAAATAA
*
4381723 TATATATTTAAATTAAAAAAATAAA
1 AATAT-TTTAAATTAAAAAAAT-AA
4381748 ATATTCATTTTTAAATT-AAAAAATAA
1 A-A-T-A-TTTTAAATTAAAAAAATAA
4381774 AATAT
1 AATAT
4381779 ACATTTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 14 0.30
25 9 0.19
26 4 0.09
27 8 0.17
28 9 0.19
29 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (23 bp):
AATATTTTAAATTAAAAAAATAA
Found at i:4381769 original size:28 final size:28
Alignment explanation
Indices: 4381729--4381802 Score: 114
Period size: 27 Copynumber: 2.6 Consensus size: 28
4381719 ATAATATATA
*
4381729 TTTAAATTAAAAAAATAAAATATTCATT
1 TTTAAATTAAAAAAATAAAATATACATT
4381757 TTTAAATT-AAAAAATAAAATATACATT
1 TTTAAATTAAAAAAATAAAATATACATT
*
4381784 TTTAAGTTAAAAATAATAA
1 TTTAAATTAAAAA-AATAA
4381803 TAAAATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
27 25 0.60
28 12 0.29
29 5 0.12
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (28 bp):
TTTAAATTAAAAAAATAAAATATACATT
Found at i:4381794 original size:32 final size:30
Alignment explanation
Indices: 4381730--4381825 Score: 85
Period size: 32 Copynumber: 3.2 Consensus size: 30
4381720 TAATATATAT
*
4381730 TTAAATTAAAAAAATAAAATATTCA-TTT--
1 TTAAATT-AAAAAATAAAATATACATTTTAG
4381758 TTAAATTAAAAAATAAAATATACATTTTTAAG
1 TTAAATTAAAAAATAAAATATACA-TTTT-AG
*
4381790 TTAAA--AATAATAATAAAATATATATTTTATG
1 TTAAATTAA-AA-AATAAAATATACATTTTA-G
4381821 TTAAA
1 TTAAA
4381826 ATAAGGATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
27 16 0.28
28 7 0.12
29 3 0.05
30 3 0.05
31 12 0.21
32 17 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (30 bp):
TTAAATTAAAAAATAAAATATACATTTTAG
Found at i:4381828 original size:27 final size:28
Alignment explanation
Indices: 4381716--4381829 Score: 106
Period size: 27 Copynumber: 4.0 Consensus size: 28
4381706 TAAATTTTAA
* *
4381716 AAAATAATATATATTTAAATTAAAAAAAT
1 AAAAT-ATATATTTTTAAATTAAAATAAT
4381745 AAAATAT-TCATTTTTAAATTAAAA-AAT
1 AAAATATAT-ATTTTTAAATTAAAATAAT
* *
4381772 AAAATATACATTTTTAAGTTAAAAATAAT
1 AAAATATATATTTTTAAATT-AAAATAAT
* **
4381801 AATAAAATATATATTTTATGTTAAAATAA
1 AA-AATATATAT-TTTTAAATTAAAATAA
4381830 GGATATATTA
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
27 21 0.29
28 20 0.27
29 10 0.14
30 14 0.19
31 8 0.11
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
AAAATATATATTTTTAAATTAAAATAAT
Found at i:4381901 original size:30 final size:30
Alignment explanation
Indices: 4381827--4381909 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
4381817 TATGTTAAAA
* * *
4381827 TAAGGATATATTATATTTAATAATTTAAGG
1 TAAGAATATAATATATTTAATAATATAAGG
** *
4381857 TAAGACA-AGGATATATTTAATAATATAAGT
1 TAAGA-ATATAATATATTTAATAATATAAGG
*
4381887 TAAGAATATAATATATGTAATAA
1 TAAGAATATAATATATTTAATAA
4381910 GTTAAAATAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
29 1 0.02
30 40 0.95
31 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.12, T:0.37
Consensus pattern (30 bp):
TAAGAATATAATATATTTAATAATATAAGG
Found at i:4381933 original size:31 final size:29
Alignment explanation
Indices: 4381896--4381963 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
4381886 TTAAGAATAT
4381896 AATATATGTAATAAGTTAAAATAAAAAAAA
1 AATATATGTAA-AAGTTAAAATAAAAAAAA
* * *
4381926 AGATATATTTTAAAAGTTAAGATAAAAATAA
1 A-ATATA-TGTAAAAGTTAAAATAAAAAAAA
4381957 AATATAT
1 AATATAT
4381964 TTTTAAGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 1 0.03
30 6 0.18
31 22 0.67
32 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (29 bp):
AATATATGTAAAAGTTAAAATAAAAAAAA
Found at i:4381953 original size:29 final size:29
Alignment explanation
Indices: 4381908--4382248 Score: 196
Period size: 29 Copynumber: 11.9 Consensus size: 29
4381898 TATATGTAAT
* *
4381908 AAGTTAAAATAAAAAAAAAGATATATTTTAA
1 AAGTTAAGATAAAAATAAA-ATATATTTT-A
*
4381939 AAGTTAAGATAAAAATAAAATATATTTTT
1 AAGTTAAGATAAAAATAAAATATATTTTA
* * *
4381968 AAGTTATGAT-AAGATCAAAATATATTTTT
1 AAGTTAAGATAAAAAT-AAAATATATTTTA
* * * *
4381997 AAGTTAAAATAGAAATAAAATAAATTTTT
1 AAGTTAAGATAAAAATAAAATATATTTTA
* * * * * *
4382026 AGGATAAAACAATAATAAAATATATTTAA
1 AAGTTAAGATAAAAATAAAATATATTTTA
* *
4382055 TAATTTAA-A-ATAAA-AAAATAT-TTTTA
1 -AAGTTAAGATAAAAATAAAATATATTTTA
* * ****
4382081 ATGTTAATATGTGGAT---ATAT-TTTTAA
1 AAGTTAAGATAAAAATAAAATATATTTT-A
*
4382107 AAGTTAAGATAAAAATAAAATATATTTTT
1 AAGTTAAGATAAAAATAAAATATATTTTA
* * * *
4382136 AAGTTATGATAAGATTAAAATATATTTTT
1 AAGTTAAGATAAAAATAAAATATATTTTA
* * *
4382165 AAGTTAAAATAGAAATAAAATATATTTTT
1 AAGTTAAGATAAAAATAAAATATATTTTA
* * * * *
4382194 AGGATAAAATAGAAATAAAATATATTTTT
1 AAGTTAAGATAAAAATAAAATATATTTTA
* * * * *
4382223 ATGATAAAACAATAATAAAATATATT
1 AAGTTAAGATAAAAATAAAATATATT
4382249 AATAATTTAA
Statistics
Matches: 249, Mismatches: 50, Indels: 24
0.77 0.15 0.07
Matches are distributed among these distances:
25 13 0.05
26 16 0.06
27 9 0.04
28 7 0.03
29 167 0.67
30 20 0.08
31 17 0.07
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (29 bp):
AAGTTAAGATAAAAATAAAATATATTTTA
Found at i:4382024 original size:58 final size:57
Alignment explanation
Indices: 4381928--4382248 Score: 264
Period size: 58 Copynumber: 5.6 Consensus size: 57
4381918 AAAAAAAAAG
* *
4381928 ATATATTTTAAAAGTTAAGATAAAAATAAAATATATTTTTAAGTTATGATAAGATCAAA
1 ATATATTTT-TAAGTTAAAATAAAAATAAAATATATTTTTAAGTTATGATAAGAT-AAA
* * * * ** * *
4381987 ATATATTTTTAAGTTAAAATAGAAATAAAATAAATTTTTAGGATAAAACAATAATAAA
1 ATATATTTTTAAGTTAAAATAAAAATAAAATATATTTTTAAGTTATGATAA-GATAAA
* * * **
4382045 ATATATTTAATAATTTAAAAT---AA-AAAA-ATATTTTTAATGTTA--ATATG-T-GG
1 ATATATTT-TTAAGTTAAAATAAAAATAAAATATATTTTTAA-GTTATGATAAGATAAA
*
4382095 ATATATTTTTAAAAGTTAAGATAAAAATAAAATATATTTTTAAGTTATGATAAGATTAAA
1 ATATATTTTT--AAGTTAAAATAAAAATAAAATATATTTTTAAGTTATGATAAGA-TAAA
* * * ** *
4382155 ATATATTTTTAAGTTAAAATAGAAATAAAATATATTTTTAGGATAAAATAGAAATAAA
1 ATATATTTTTAAGTTAAAATAAAAATAAAATATATTTTTAAGTTATGATA-AGATAAA
* * * *
4382213 ATATATTTTTATGATAAAACAATAATAAAATATATT
1 ATATATTTTTAAGTTAAAATAAAAATAAAATATATT
4382249 AATAATTTAA
Statistics
Matches: 208, Mismatches: 38, Indels: 33
0.75 0.14 0.12
Matches are distributed among these distances:
49 1 0.00
50 8 0.04
51 9 0.04
53 2 0.01
54 10 0.05
55 15 0.07
56 12 0.06
57 4 0.02
58 113 0.54
59 24 0.12
60 10 0.05
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (57 bp):
ATATATTTTTAAGTTAAAATAAAAATAAAATATATTTTTAAGTTATGATAAGATAAA
Found at i:4382167 original size:197 final size:199
Alignment explanation
Indices: 4381908--4382293 Score: 609
Period size: 197 Copynumber: 1.9 Consensus size: 199
4381898 TATATGTAAT
4381908 AAGTTAAAATAAAAAAAAAGATATATTTTAAAAGTTAAGATAAAAATAAAATATATTTTTAAGTT
1 AAGTTAAAATAAAAAAAAAGATATATTTTAAAAGTTAAGATAAAAATAAAATATATTTTTAAGTT
** * *
4381973 ATGATA-AGATCAAAATATATTTTTAAGTTAAAATAGAAATAAAATAAATTTTTAGGATAAAACA
66 AAAATAGAAAT-AAAATATATTTTTAAGATAAAATAGAAATAAAATAAATTTTTAGGATAAAACA
4382037 ATAATAAAATATATTTAATAATTTAAAAT-AAAAAAATATTTTTAATGTTAATATGTGGATATAT
130 ATAATAAAATATA-TTAATAATTTAAAATAAAAAAAATATTTTTAATGTTAATATGTGGATATAT
4382101 TTTTAA
194 TTTTAA
* * * * * *
4382107 AAGTTAAGATAAAAATAAA-ATATATTTT-TAAGTTATGATAAGATTAAAATATATTTTTAAGTT
1 AAGTTAAAATAAAAAAAAAGATATATTTTAAAAGTTAAGATAAAAATAAAATATATTTTTAAGTT
* * *
4382170 AAAATAGAAATAAAATATATTTTTAGGATAAAATAGAAATAAAATATATTTTTATGATAAAACAA
66 AAAATAGAAATAAAATATATTTTTAAGATAAAATAGAAATAAAATAAATTTTTAGGATAAAACAA
4382235 TAATAAAATATATTAATAATTTAAAATAAAAAAAATATTTTTAATGTTAATATGTGGAT
131 TAATAAAATATATTAATAATTTAAAATAAAAAAAATATTTTTAATGTTAATATGTGGAT
4382294 TTAAGTTAAA
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
196 15 0.09
197 128 0.74
198 12 0.07
199 17 0.10
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.38
Consensus pattern (199 bp):
AAGTTAAAATAAAAAAAAAGATATATTTTAAAAGTTAAGATAAAAATAAAATATATTTTTAAGTT
AAAATAGAAATAAAATATATTTTTAAGATAAAATAGAAATAAAATAAATTTTTAGGATAAAACAA
TAATAAAATATATTAATAATTTAAAATAAAAAAAATATTTTTAATGTTAATATGTGGATATATTT
TTAA
Found at i:4382260 original size:58 final size:57
Alignment explanation
Indices: 4382119--4382276 Score: 142
Period size: 58 Copynumber: 2.8 Consensus size: 57
4382109 GTTAAGATAA
** * ** * * *
4382119 AAATAAAATATATTTTTAAGTTATGATAAGATTAAAATATATTTTTAAGTTAAAATAG
1 AAATAAAATATATTAATAAGATAAAATAA-AATAAAATATATTTTTAAGATAAAACAG
** * *
4382177 AAATAAAATATATTTTTAGGATAAAATAGAAATAAAATATATTTTTATGATAAAACA-
1 AAATAAAATATATTAATAAGATAAAATA-AAATAAAATATATTTTTAAGATAAAACAG
**
4382234 ATAATAAAATATATTAATAATTTAAAATAAAA-AAAATAT-TTTT
1 A-AATAAAATATATTAATAAGATAAAATAAAATAAAATATATTTT
4382277 AATGTTAATA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
55 4 0.05
56 7 0.08
57 4 0.05
58 69 0.81
59 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.39
Consensus pattern (57 bp):
AAATAAAATATATTAATAAGATAAAATAAAATAAAATATATTTTTAAGATAAAACAG
Found at i:4383431 original size:24 final size:23
Alignment explanation
Indices: 4383394--4383463 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
4383384 CACCACAACT
* *
4383394 CGTATAAATACACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
4383417 CGTAGAATTTGCACCGAAGTGCCG
1 CGTAGAA-ATGCACCGAAGTGCCA
4383441 CGTAGAAATGCACC-ATAGTGCCA
1 CGTAGAAATGCACCGA-AGTGCCA
4383464 TATAAGATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 1 0.03
23 18 0.46
24 20 0.51
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:4384590 original size:21 final size:21
Alignment explanation
Indices: 4384561--4384608 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
4384551 AGGGTATCGG
* *
4384561 TACACTGTATCGATACCCTGC
1 TACAGTGTACCGATACCCTGC
4384582 TACAGTGTACCGATACCCTGC
1 TACAGTGTACCGATACCCTGC
4384603 TACAGT
1 TACAGT
4384609 AATTTCGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (21 bp):
TACAGTGTACCGATACCCTGC
Found at i:4385333 original size:21 final size:22
Alignment explanation
Indices: 4385302--4385350 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
4385292 AAAACAAGCT
4385302 TTTTCACCCCGAAAATTCATCA
1 TTTTCACCCCGAAAATTCATCA
*
4385324 TTTTCA-CCCGAAAATTCATCC
1 TTTTCACCCCGAAAATTCATCA
4385345 TTTTCA
1 TTTTCA
4385351 GCTTAAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.29, C:0.31, G:0.04, T:0.37
Consensus pattern (22 bp):
TTTTCACCCCGAAAATTCATCA
Found at i:4385783 original size:17 final size:17
Alignment explanation
Indices: 4385761--4385815 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
4385751 GCTTTCACGA
* *
4385761 GGAGGAGAAAGAAGAGG
1 GGAGGAGGAAGAAGAAG
4385778 GGAGGAGGAAGAAGAAG
1 GGAGGAGGAAGAAGAAG
*
4385795 GGAGGAGGAAGAAGAAT
1 GGAGGAGGAAGAAGAAG
4385812 GGAG
1 GGAG
4385816 AAGAAGAGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.02
Consensus pattern (17 bp):
GGAGGAGGAAGAAGAAG
Found at i:4386075 original size:20 final size:20
Alignment explanation
Indices: 4386052--4386113 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
4386042 TGTTACAAAT
4386052 ATATTATTTAATTATTAAAA
1 ATATTATTTAATTATTAAAA
*
4386072 ATATAAATTT-ATTA-TAAAA
1 ATAT-TATTTAATTATTAAAA
*
4386091 TATGTTATTTTAATTATTAAAA
1 -ATATTA-TTTAATTATTAAAA
4386113 A
1 A
4386114 AAAATAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
19 6 0.18
20 14 0.41
21 9 0.26
22 5 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATATTATTTAATTATTAAAA
Found at i:4387043 original size:2 final size:2
Alignment explanation
Indices: 4387036--4387063 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4387026 AGATTCCTGA
4387036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4387064 CTTTATTACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4394748 original size:17 final size:17
Alignment explanation
Indices: 4394726--4394760 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4394716 TTTAATATCT
*
4394726 ATATGGTCATACGTGGA
1 ATATGGTCATACATGGA
4394743 ATATGGTCATACATGGA
1 ATATGGTCATACATGGA
4394760 A
1 A
4394761 AGAAAACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (17 bp):
ATATGGTCATACATGGA
Found at i:4395808 original size:30 final size:30
Alignment explanation
Indices: 4395772--4395841 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
4395762 TGGAGATTTG
4395772 CAAATTAGTCAAAACGGATTCTTTCTTTTA
1 CAAATTAGTCAAAACGGATTCTTTCTTTTA
4395802 CAAATTAGTCAAAACGGATTCTTTCTTTTA
1 CAAATTAGTCAAAACGGATTCTTTCTTTTA
4395832 CAAATTAGTC
1 CAAATTAGTC
4395842 CCTTGTTGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (30 bp):
CAAATTAGTCAAAACGGATTCTTTCTTTTA
Found at i:4397122 original size:34 final size:33
Alignment explanation
Indices: 4397083--4397151 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
4397073 TTTTGTAAAG
* * *
4397083 GGAAAATGTTCTAGTTAAGCCCGTGTAAAAGCTA
1 GGAAAAGGCTCTAGTTAAGCCCGTG-AAAAACTA
* *
4397117 GGAAAAGGCTCTAGTTTATCCCGTGAAAAACTA
1 GGAAAAGGCTCTAGTTAAGCCCGTGAAAAACTA
4397150 GG
1 GG
4397152 GAGTTTGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 9 0.30
34 21 0.70
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (33 bp):
GGAAAAGGCTCTAGTTAAGCCCGTGAAAAACTA
Found at i:4399824 original size:18 final size:17
Alignment explanation
Indices: 4399788--4399844 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 17
4399778 CAACAACTGG
4399788 TAACAATTGGTATAT-TTT
1 TAACAATT-G-ATATCTTT
4399806 TAACAATTGATATCCTTTTGT
1 TAACAATTGATAT-C--TT-T
4399827 TAACAATTGATATCTTT
1 TAACAATTGATATCTTT
4399844 T
1 T
4399845 TCATTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 10 0.29
20 3 0.09
21 14 0.41
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (17 bp):
TAACAATTGATATCTTT
Found at i:4399831 original size:21 final size:21
Alignment explanation
Indices: 4399805--4399845 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4399795 TGGTATATTT
4399805 TTAACAATTGATATCCTTTTG
1 TTAACAATTGATATCCTTTTG
*
4399826 TTAACAATTGATATCTTTTT
1 TTAACAATTGATATCCTTTT
4399846 CATTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (21 bp):
TTAACAATTGATATCCTTTTG
Found at i:4401441 original size:22 final size:22
Alignment explanation
Indices: 4401368--4401428 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
4401358 CATGTTTTTT
*
4401368 TTATAAAAAT-TATATGA-AATAA
1 TTATAAAAATATAT-TTATAAT-A
4401390 TTATAAAAATATATTTATAATA
1 TTATAAAAATATATTTATAATA
4401412 TTATAAAAA-ATATTTAT
1 TTATAAAAATATATTTAT
4401429 TTATTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 8 0.22
22 22 0.61
23 6 0.17
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TTATAAAAATATATTTATAATA
Found at i:4401625 original size:35 final size:34
Alignment explanation
Indices: 4401560--4401632 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 34
4401550 TGTTATGTGC
* *
4401560 AATATTATTTGAAATTAAATAGATAATTTAAAAA
1 AATATTATTTCAAATTAAATAAATAATTTAAAAA
*
4401594 TAATATTATTTCAAA-TAAGTAAATAATTTTAAAAA
1 -AATATTATTTCAAATTAAATAAATAA-TTTAAAAA
4401629 AATA
1 AATA
4401633 AATATTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 13 0.38
35 21 0.62
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.38
Consensus pattern (34 bp):
AATATTATTTCAAATTAAATAAATAATTTAAAAA
Found at i:4401634 original size:18 final size:17
Alignment explanation
Indices: 4401576--4401644 Score: 59
Period size: 17 Copynumber: 4.0 Consensus size: 17
4401566 ATTTGAAATT
* *
4401576 AAATAGATAATTTAAAA
1 AAATAAATATTTTAAAA
* * *
4401593 ATAAT-ATTATTTCAAAT
1 A-AATAAATATTTTAAAA
*
4401610 AAGTAAATAATTTTAAAA
1 AAATAAAT-ATTTTAAAA
4401628 AAATAAATATTTTAAAA
1 AAATAAATATTTTAAAA
4401645 TATTTTCATA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
16 2 0.05
17 20 0.51
18 17 0.44
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATAAATATTTTAAAA
Found at i:4401677 original size:9 final size:10
Alignment explanation
Indices: 4401661--4401694 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
4401651 CATAATATTA
4401661 TAAAAAAATT
1 TAAAAAAATT
4401671 TAAAAAAATT
1 TAAAAAAATT
4401681 TAATATAAAATT
1 TAA-A-AAAATT
4401693 TA
1 TA
4401695 TAAATACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.59
11 1 0.05
12 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:4412796 original size:59 final size:60
Alignment explanation
Indices: 4412726--4412838 Score: 140
Period size: 59 Copynumber: 1.9 Consensus size: 60
4412716 TAATCCATCG
*
4412726 ATTATAAAATATTATTTTATTAAGTC-ATTCAATTATTAAAAATTAC-AGATGATCTTTGA
1 ATTATAAAATATTATTTTATCAAGTCTA-TCAATTATTAAAAATTACAAGATGATCTTTGA
* * * * * *
4412785 ATTATAGAATATTGTTTTGTCAAGTCTATCGATTATTAAGAGTTACAAGATGAT
1 ATTATAAAATATTATTTTATCAAGTCTATCAATTATTAAAAATTACAAGATGAT
4412839 TAATCGACTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
59 37 0.82
60 8 0.18
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (60 bp):
ATTATAAAATATTATTTTATCAAGTCTATCAATTATTAAAAATTACAAGATGATCTTTGA
Found at i:4422582 original size:14 final size:15
Alignment explanation
Indices: 4422554--4422596 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
4422544 AACATAGATA
4422554 TAAAATATATAAATC
1 TAAAATATATAAATC
*
4422569 TAAATTATAT-AATC
1 TAAAATATATAAATC
*
4422583 TAAAATATAAAAAT
1 TAAAATATATAAAT
4422597 GAAATGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAATATATAAATC
Found at i:4422697 original size:34 final size:32
Alignment explanation
Indices: 4422628--4422697 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
4422618 AACTAAATTT
* *
4422628 AAAATAATTTAAGATTAAAATAAATAATTTTA
1 AAAATAATTTAAGATTAAAAGAAATAATTTGA
* *
4422660 AAAATAATTTAAATATTAAGGAGAAATAATTTGA
1 AAAATAATTT-AAGATTAA-AAGAAATAATTTGA
4422694 AAAA
1 AAAA
4422698 AATATAGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 10 0.31
33 7 0.22
34 15 0.47
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (32 bp):
AAAATAATTTAAGATTAAAAGAAATAATTTGA
Found at i:4423435 original size:2 final size:2
Alignment explanation
Indices: 4423428--4423472 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4423418 TTTTTCTTTC
4423428 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4423470 TA T
1 TA T
4423473 GAAATTCCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4424993 original size:18 final size:18
Alignment explanation
Indices: 4424972--4425026 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
4424962 TTGAACCTGT
4424972 CTAACTTATTGACTTTGA
1 CTAACTTATTGACTTTGA
* *
4424990 CTAAATTGTTGACTTTGA
1 CTAACTTATTGACTTTGA
* *
4425008 CCAAACTGA-TGACTTTGA
1 -CTAACTTATTGACTTTGA
4425026 C
1 C
4425027 CAAAAAGTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.03
18 25 0.83
19 4 0.13
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (18 bp):
CTAACTTATTGACTTTGA
Found at i:4425027 original size:18 final size:18
Alignment explanation
Indices: 4424981--4425030 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
4424971 TCTAACTTAT
* * *
4424981 TGACTTTGACTAAATTGT
1 TGACTTTGACCAAACTGA
4424999 TGACTTTGACCAAACTGA
1 TGACTTTGACCAAACTGA
4425017 TGACTTTGACCAAA
1 TGACTTTGACCAAA
4425031 AAGTCAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (18 bp):
TGACTTTGACCAAACTGA
Found at i:4434587 original size:23 final size:21
Alignment explanation
Indices: 4434548--4434603 Score: 51
Period size: 22 Copynumber: 2.5 Consensus size: 21
4434538 ATAATATCCG
4434548 AATAAAAATGA-GAAATAAATAT
1 AATAAAAAT-ATGAAAT-AATAT
* *
4434570 CAATAAAAATATGCAATATTAT
1 -AATAAAAATATGAAATAATAT
4434592 AATTAAAAATAT
1 AA-TAAAAATAT
4434604 TATTTTATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 2 0.07
22 14 0.48
23 13 0.45
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (21 bp):
AATAAAAATATGAAATAATAT
Found at i:4438601 original size:18 final size:19
Alignment explanation
Indices: 4438567--4438649 Score: 82
Period size: 19 Copynumber: 4.4 Consensus size: 19
4438557 AAATCGCAAC
4438567 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCA-TTTCGCGTT
4438586 GCGATTTTCA-TTCGCGTT
1 GCGATTTTCATTTCGCGTT
** *
4438604 GCGATAGTCATTTCGTGTT
1 GCGATTTTCATTTCGCGTT
* *
4438623 AC-ATTTTCATTTTCGTGTT
1 GCGATTTTCA-TTTCGCGTT
4438642 GCGATTTT
1 GCGATTTT
4438650 AAGTTTCAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
18 21 0.40
19 26 0.49
20 6 0.11
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (19 bp):
GCGATTTTCATTTCGCGTT
Found at i:4439013 original size:174 final size:174
Alignment explanation
Indices: 4438696--4439044 Score: 616
Period size: 175 Copynumber: 2.0 Consensus size: 174
4438686 TGAATGAATT
4438696 GCATTACTTCAACCAAAAAACAAAGACAAATACAAATTCACAGTATTGCAAATTTAAGTTTGAAG
1 GCATTACTTCAACCAAAAAACAAAGACAAATACAAATTCACAGTATTGCAAATTTAAGTTTGAAG
*
4438761 AATAAACTACTACTACTCTTTATGTTTATTATTGTTTTTTGTATATCTTCACAGTGTAGTTTTGG
66 AATAAACTACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAGTGTAGTTTTGG
4438826 TATATCTAACTTGGTATGTTTATTGTTTTTGTAGAACTTTTTTTC
131 TATATCTAACTTGGTATGTTTATTG-TTTTGTAGAACTTTTTTTC
4438871 GCATTAC-TCAACCAAAAAAACAAAGA-AAATACAAAATTCACAGTATTGCAAATTTAAGTTTGA
1 GCATTACTTCAACC-AAAAAACAAAGACAAATAC-AAATTCACAGTATTGCAAATTTAAGTTTGA
*
4438934 AGAATAAACTACTACTACTCTTTATG-TTATTA-TGTTTTTGGTATATCTTCAGAGTGTAGTTTT
64 AGAATAAACTACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAGTGTAG-TTT
4438997 TGGTATATCTAACTTGGTATGTTTATTGTTTTGTAGAACTTTTTTTC
128 TGGTATATCTAACTTGGTATGTTTATTGTTTTGTAGAACTTTTTTTC
4439044 G
1 G
4439045 GCTCAATTGA
Statistics
Matches: 169, Mismatches: 2, Indels: 8
0.94 0.01 0.04
Matches are distributed among these distances:
173 45 0.27
174 49 0.29
175 75 0.44
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (174 bp):
GCATTACTTCAACCAAAAAACAAAGACAAATACAAATTCACAGTATTGCAAATTTAAGTTTGAAG
AATAAACTACTACTACTCTTTATGTTTATTATTGTTTTTGGTATATCTTCACAGTGTAGTTTTGG
TATATCTAACTTGGTATGTTTATTGTTTTGTAGAACTTTTTTTC
Found at i:4440622 original size:20 final size:20
Alignment explanation
Indices: 4440599--4440647 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4440589 AAAACTTAAA
4440599 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
4440619 ATCGCAACGTGAACTTGACT
1 ATCGCAACGCGAAAATGACT
4440639 ATCGCAACG
1 ATCGCAACG
4440648 GGATAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:4440678 original size:33 final size:34
Alignment explanation
Indices: 4440639--4440714 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 34
4440629 GAACTTGACT
*
4440639 ATCGCAACGGGATAATCGCAATGCG-AAATAAAA
1 ATCGCAACGGGAAAATCGCAATGCGAAAATAAAA
* *
4440672 ATCGCAACGTGAAAATCGCAATGCGAAAATGAAA
1 ATCGCAACGGGAAAATCGCAATGCGAAAATAAAA
*
4440706 AGCGCAACG
1 ATCGCAACG
4440715 CGAATTTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 23 0.61
34 15 0.39
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (34 bp):
ATCGCAACGGGAAAATCGCAATGCGAAAATAAAA
Found at i:4440704 original size:20 final size:20
Alignment explanation
Indices: 4440681--4440718 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4440671 AATCGCAACG
* *
4440681 TGAAAATCGCAATGCGAAAA
1 TGAAAAGCGCAACGCGAAAA
4440701 TGAAAAGCGCAACGCGAA
1 TGAAAAGCGCAACGCGAA
4440719 TTTAGTTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.11
Consensus pattern (20 bp):
TGAAAAGCGCAACGCGAAAA
Found at i:4440745 original size:19 final size:19
Alignment explanation
Indices: 4440723--4440759 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4440713 CGCGAATTTA
*
4440723 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCAATTTTG
*
4440742 GTTTCGCTTTGCAATTTT
1 GTTTCGCGTTGCAATTTT
4440760 CTCGTTGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.08, C:0.16, G:0.24, T:0.51
Consensus pattern (19 bp):
GTTTCGCGTTGCAATTTTG
Found at i:4440814 original size:20 final size:20
Alignment explanation
Indices: 4440789--4440836 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
4440779 CGATTATCTT
4440789 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTTCGC
4440809 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCATTTTCGC
4440829 GTTGCGAT
1 GTTGCGAT
4440837 TTTAAGTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.40
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGC
Found at i:4440846 original size:20 final size:20
Alignment explanation
Indices: 4440803--4440865 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
4440793 CGATAGTCAT
** * *
4440803 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATTTTAAG
4440823 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
*
4440843 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
4440863 TTT
1 TTT
4440866 TAGAAACTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.48
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:4441414 original size:42 final size:42
Alignment explanation
Indices: 4441350--4441461 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
4441340 CTGTCATCGT
* * * *
4441350 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
* * **
4441392 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCTTGTCATCGT
1 TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
* *
4441434 TGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCAAGA-GTCCCCTCCCACCGTTCAAGAG
4441462 CCCGATTCAC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 57 0.97
43 2 0.03
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (42 bp):
TCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCCTATCATCCC
Found at i:4441416 original size:21 final size:21
Alignment explanation
Indices: 4441347--4441461 Score: 88
Period size: 21 Copynumber: 5.5 Consensus size: 21
4441337 CACCTGTCAT
* * *
4441347 CGTTCAAGAGGCCTCTCCTAT
1 CGTTCAAGAGGCCCCTCCCAC
**
4441368 CGTTCAAGAGGCCCCTATCATC
1 CGTTCAAGAGGCCCCTCCCA-C
* *
4441390 C-CTCAAGAGTCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
* ** *
4441410 CGTTCAAGAGGCCCTTGTCAT
1 CGTTCAAGAGGCCCCTCCCAC
* *
4441431 CGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
*
4441452 CATTCAAGAG
1 CGTTCAAGAG
4441462 CCCGATTCAC
Statistics
Matches: 69, Mismatches: 23, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 2 0.03
21 66 0.96
22 1 0.01
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:4442992 original size:12 final size:12
Alignment explanation
Indices: 4442974--4443012 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4442964 GTGAAGCCGG
**
4442974 TTGTGATTGAGA
1 TTGTGATTTTGA
*
4442986 TTTTGATTTTGA
1 TTGTGATTTTGA
4442998 TTGTGATTTTGA
1 TTGTGATTTTGA
4443010 TTG
1 TTG
4443013 CCTTTTGCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (12 bp):
TTGTGATTTTGA
Found at i:4443000 original size:18 final size:18
Alignment explanation
Indices: 4442977--4443011 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4442967 AAGCCGGTTG
4442977 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
4442995 TGATTGTGATTTTGATT
1 TGATTGAGATTTTGATT
4443012 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:4445050 original size:14 final size:14
Alignment explanation
Indices: 4445031--4445067 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4445021 TCCCGTGGCA
4445031 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
4445045 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
4445059 TTCTTCTTC
1 TT-TTCTTC
4445068 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:4446169 original size:20 final size:20
Alignment explanation
Indices: 4446108--4446172 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
4446098 GAAATTCAGT
* *
4446108 GTTGCGACAGTCAGAATCGA
1 GTTGCGATAGTCAGAATCGC
**
4446128 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
4446149 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
4446169 GTTG
1 GTTG
4446173 TGATTACATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 19 0.53
21 13 0.36
22 2 0.06
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:4446699 original size:260 final size:262
Alignment explanation
Indices: 4446233--4446755 Score: 955
Period size: 262 Copynumber: 2.0 Consensus size: 262
4446223 AATCGCAATT
* *
4446233 CGATAGTCAAAATCGCGTTGCGAATCTGGAAACTGATTTGCGATACTGGAGATCGCGTTGCGATT
1 CGATAGTCAAAATCGCATTGCGAATATGGAAACTGATTTGCGATACTGGAGATCGCGTTGCGATT
4446298 TTGTTGGTCATTTGGCAAATCGAAAAAAGTTGGTCAAAATCGTATATTATAAGGAATTTTCGGTC
66 TTGTTGGTCATTTGGCAAATCGAAAAAAGTTGGTCAAAATCGTATATTATAAGGAATTTTCGGTC
4446363 ACTGAGATTATTTTCTCTAAACTTAAATATCAAATTAAACTTTAAAACCAATTCAAGGTGTTATG
131 ACTGAGATTATTTTCTCTAAACTTAAATATCAAATTAAACTTTAAAACCAATTCAAGGTGTTATG
* *
4446428 TATATTTACCAATTTG-TTTATGATGGGATCATAAAGT-TGTTCTCATTCATGTAAAACTGAGAT
196 TATATTTACCAATTTGTTTTATGATGGGATCATAAAGTACGTTCTCATTCATGTAAAACTGAAAT
4446491 GG
261 GG
*
4446493 CGATAGTCAAAATCGCATTGCGAATATGGAAACTTATTTGCGATACTGGAGATCGCGTTGCGATT
1 CGATAGTCAAAATCGCATTGCGAATATGGAAACTGATTTGCGATACTGGAGATCGCGTTGCGATT
4446558 TTGTTGGTCATTTTGGCAAATCGAAAAAAAGTTGGTCAAAATCGTATATTATAAGGAATTTTCGG
66 TTGTTGGTCA-TTTGGCAAATCG-AAAAAAGTTGGTCAAAATCGTATATTATAAGGAATTTTCGG
4446623 TCACTGAGATTATTTTCTC-AAACTTAAATATCAAATTAAACTTTAAAACCAATTCAAGGTGTTA
129 TCACTGAGATTATTTTCTCTAAACTTAAATATCAAATTAAACTTTAAAACCAATTCAAGGTGTTA
4446687 TGTATA-TTACCAATTTGTTTTATGATGGGATCATAAAGTACGTTCTCATTCATGTAAAACTGAA
194 TGTATATTTACCAATTTGTTTTATGATGGGATCATAAAGTACGTTCTCATTCATGTAAAACTGAA
4446751 ATGG
259 ATGG
4446755 C
1 C
4446756 CAGACGGAAT
Statistics
Matches: 254, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
260 83 0.33
261 84 0.33
262 87 0.34
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (262 bp):
CGATAGTCAAAATCGCATTGCGAATATGGAAACTGATTTGCGATACTGGAGATCGCGTTGCGATT
TTGTTGGTCATTTGGCAAATCGAAAAAAGTTGGTCAAAATCGTATATTATAAGGAATTTTCGGTC
ACTGAGATTATTTTCTCTAAACTTAAATATCAAATTAAACTTTAAAACCAATTCAAGGTGTTATG
TATATTTACCAATTTGTTTTATGATGGGATCATAAAGTACGTTCTCATTCATGTAAAACTGAAAT
GG
Found at i:4448226 original size:19 final size:19
Alignment explanation
Indices: 4448182--4448219 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4448172 CCTTTAAACC
*
4448182 TGATAACAAACCTTGACTT
1 TGATAACAAACATTGACTT
*
4448201 TGATAACAAATATTGACTT
1 TGATAACAAACATTGACTT
4448220 ATATAACTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (19 bp):
TGATAACAAACATTGACTT
Found at i:4453383 original size:8 final size:8
Alignment explanation
Indices: 4453370--4453410 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
4453360 CTCATTTTCA
4453370 GAGAATTT
1 GAGAATTT
4453378 GAGAATTT
1 GAGAATTT
*
4453386 -AGAGTTT
1 GAGAATTT
*
4453393 GGGAATTT
1 GAGAATTT
4453401 GAGAATTT
1 GAGAATTT
4453409 GA
1 GA
4453411 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:4453715 original size:124 final size:127
Alignment explanation
Indices: 4453481--4454222 Score: 1070
Period size: 124 Copynumber: 5.9 Consensus size: 127
4453471 TAATCGGAGT
*
4453481 ACTATTCACATGAA-GCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
4453545 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACA-T-AGATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAATATATCAGTACCTATTATTTC
*
4453605 ACTATTCACATGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCATCAGAG-ATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
4453668 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACT-ATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAATATATCAGTACCTATTATTTC
* *** * * *
4453729 TC-AGGGACATGAAGGCGCGTTCCCGGGGGCGCGTCTTCCATTATTTTGTCATAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
4453793 CATTGTCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATATTAT
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTA-ATATATCAGTACC-----TATTAT
4453858 TTC
125 TTC
4453861 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAA-ATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
4453925 CATTG-CCTATTATGTCACTCATGTTCCTC-GGGACACTAGATATATCAGTACCTATTA-TTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTA-ATATATCAGTACCTATTATTTC
* *
4453985 ACTATTCACATGAAGGCGCG-TCCGGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
* *
4454049 CATTTCCCTATTATGTCACTCATGTCCCTC--GGACACT-AGATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAATATATCAGTACCTATTATTTC
* *** * * *
4454108 TC-AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAAAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
4454172 TCATTGCCCTATTA--TCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTA-ATATATCAGTA
4454223 TCAGGTAAAT
Statistics
Matches: 561, Mismatches: 36, Indels: 40
0.88 0.06 0.06
Matches are distributed among these distances:
122 33 0.06
123 116 0.21
124 188 0.34
125 85 0.15
126 10 0.02
127 13 0.02
130 23 0.04
131 23 0.04
132 22 0.04
133 48 0.09
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (127 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAATATATCAGTACCTATTATTTC
Found at i:4454025 original size:256 final size:254
Alignment explanation
Indices: 4453480--4454222 Score: 1076
Period size: 256 Copynumber: 3.0 Consensus size: 254
4453470 ATAATCGGAG
4453480 TACTATTCACATGAA-GCGCGTTCCCGGGGGG-GCGCCTTCCATTATTTCGTCAGAGAATATGTT
1 TACTATTCACATGAAGGCGCGTT-CCGGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTT
*
4453543 ATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACA-TAGATATCAGTACC---TATTATTT
65 ATCATTGTCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATCAGTACCTATTATTATTT
* *
4453604 CACTATTCACATGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCATCAGAGATATGTTAT
130 CACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAAATGTTAT
4453668 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACT--ATATATCAGTACCTATTAT
195 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
* *** * * * *
4453726 TTCTCAGGGACATGAAGGCGCGTTCCCGGGGGCGCGTCTTCCATTATTTTGTCATAGAATATGTT
1 TACT-ATTCACATGAAGGCGCGTTCCGGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTT
4453791 ATCATTGTCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATATT
65 ATCATTGTCCTATTATGTCACTCATGTCCCTCGGGGACACTAG--ATATCAGTACCTA-T-TATT
4453856 ATTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAAATG
126 ATTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAAATG
*
4453921 TTATCATTG-CCTATTATGTCACTCATGTTCCTC-GGGACACTAGATATATCAGTACCTATTAT
191 TTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
4453983 TCACTATTCACATGAAGGCGCG-TCCGGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTT
1 T-ACTATTCACATGAAGGCGCGTTCCGGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTT
*
4454047 ATCATT-TCCCTATTATGTCACTCATGTCCCTC--GGACACTAGATATCAGTACCTATTATT-TC
65 ATCATTGT-CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATCAGTACCTATTATTATT
**** * * *
4454108 TCA--GGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAAAATATGTT
129 TCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAA-ATGTT
4454171 ATCATTGCCCTATTA--TCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
193 ATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
4454223 TCAGGTAAAT
Statistics
Matches: 448, Mismatches: 30, Indels: 36
0.87 0.06 0.07
Matches are distributed among these distances:
246 3 0.01
247 76 0.17
248 107 0.24
249 14 0.03
250 4 0.01
251 12 0.03
252 13 0.03
254 9 0.02
255 9 0.02
256 124 0.28
257 75 0.17
258 2 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (254 bp):
TACTATTCACATGAAGGCGCGTTCCGGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
TCATTGTCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATCAGTACCTATTATTATTTC
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAAATGTTATC
ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:4454185 original size:380 final size:377
Alignment explanation
Indices: 4453481--4454222 Score: 1280
Period size: 380 Copynumber: 2.0 Consensus size: 377
4453471 TAATCGGAGT
*
4453481 ACTATTCACATGAAGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
1 ACTATTCACATGAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
4453546 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACATAGATATCAGTACCTATTATTTCACTATT
66 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACATAGATATCAGTACCTATTATTTCACTATT
4453611 CACATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCATCAGAGATATGTTATCATTGCCC
131 CACATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCATCAGAGATATGTTATCATTGCCC
*
4453676 TATTATGTCACTCATGTCCCTCGGGGACACTATATATCAGTACCTATTATTTCTCAGGGACATGA
196 TATTATGTCACTCATGTCCCTC-GGGACACTAGATATCAGTACCTATTATTTCTCAGGGACATGA
* * *
4453741 AGGCGCGTTCCCGGGGGCGCGTCTTCCATTATTTTGTCATAGAATATGTTATCATTGTCCTATTA
260 AGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAAAATATGTTATCATTGCCCTATTA
4453806 TGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATATTATTTC
325 --TCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATATTATTTC
4453861 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAA-ATGTTAT
1 ACTATTCACATGAA-GCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
4453925 CATTG-CCTATTATGTCACTCATGTTCCTC-GGGACACTAGATATATCAGTACCTATTA-TTCAC
65 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACA-TAG--ATATCAGTACCTATTATTTCAC
*
4453987 TATTCACATGAAGGCGCG-TCCGGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTATCA
127 TATTCACATGAAGGCGCGTTCC-CGGGGCGCGCCTTCCATTATTTCATCAGAG-ATATGTTATCA
*
4454051 TTTCCCTATTATGTCACTCATGTCCCTC-GGACACTAGATATCAGTACCTATTATTTCTCAGGGG
190 TTGCCCTATTATGTCACTCATGTCCCTCGGGACACTAGATATCAGTACCTATTATTTCTCA-GGG
4454115 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAAAATATGTTATCATTGCC
254 ACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAAAATATGTTATCATTGCC
4454180 CTATTATCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
319 CTATTATCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
4454223 TCAGGTAAAT
Statistics
Matches: 347, Mismatches: 8, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
378 43 0.12
379 60 0.17
380 149 0.43
381 95 0.27
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (377 bp):
ACTATTCACATGAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATC
ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACATAGATATCAGTACCTATTATTTCACTATT
CACATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCATCAGAGATATGTTATCATTGCCC
TATTATGTCACTCATGTCCCTCGGGACACTAGATATCAGTACCTATTATTTCTCAGGGACATGAA
GGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAAAATATGTTATCATTGCCCTATTAT
CACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATATTATTTC
Found at i:4454674 original size:31 final size:31
Alignment explanation
Indices: 4454614--4454710 Score: 97
Period size: 32 Copynumber: 3.0 Consensus size: 31
4454604 AAATTTAATG
4454614 TTTAAATTTCGAATACTATAATTTATTTTAAA
1 TTTAAATTT-GAATACTATAATTTATTTTAAA
** **
4454646 TTTAAATTTGAATA-TATTTTTTATTTTTATT
1 TTTAAATTTGAATACTATAATTTA-TTTTAAA
*
4454677 TTTAAATTTTGAATAATATAATTTGTATTTTAAA
1 TTTAAA-TTTGAATACTATAA-TT-TATTTTAAA
4454711 AACATTTATC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
30 7 0.13
31 16 0.31
32 17 0.33
33 3 0.06
34 7 0.13
35 2 0.04
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (31 bp):
TTTAAATTTGAATACTATAATTTATTTTAAA
Found at i:4455285 original size:20 final size:21
Alignment explanation
Indices: 4455218--4455309 Score: 118
Period size: 20 Copynumber: 4.5 Consensus size: 21
4455208 ATATGGTATA
*
4455218 AACCCTGCGGGCTAGGCATG-
1 AACCCTGCGGGCTAGGAATGT
*
4455238 GA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
4455259 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
4455280 -ACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
4455300 AACCCTGCGG
1 AACCCTGCGG
4455310 ATGGCATATA
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
19 3 0.05
20 34 0.53
21 24 0.38
22 3 0.05
ACGTcount: A:0.18, C:0.28, G:0.36, T:0.17
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:4455289 original size:41 final size:41
Alignment explanation
Indices: 4455218--4455309 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
4455208 ATATGGTATA
*
4455218 AACCCTGCGGGCTAGGCATGGACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGGACCTGGCGGGCTAGGAATGT
* * *
4455259 AACCCTGCGGGCTCGGAATGTACCCT-GCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGGA-CCTGGCGGGCTAGGAATGT
4455300 AACCCTGCGG
1 AACCCTGCGG
4455310 ATGGCATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 43 0.93
42 3 0.07
ACGTcount: A:0.18, C:0.28, G:0.36, T:0.17
Consensus pattern (41 bp):
AACCCTGCGGGCTAGGAATGGACCTGGCGGGCTAGGAATGT
Found at i:4455337 original size:21 final size:21
Alignment explanation
Indices: 4455311--4455361 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4455301 ACCCTGCGGA
*
4455311 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
4455332 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
4455353 GGGCATATA
1 TGGCATATA
4455362 CCCCTGCGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.37, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:4459343 original size:22 final size:22
Alignment explanation
Indices: 4459288--4459344 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
4459278 ATTATGACTA
4459288 TCGCAATGCAA-TTTTCCAATT
1 TCGCAATGCAATTTTTCCAATT
**
4459309 TCGCGTTGCAATTTTTCCAA-T
1 TCGCAATGCAATTTTTCCAATT
4459330 TCGCAATGCGAATTT
1 TCGCAATGC-AATTT
4459345 GGAAAATCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.39
Consensus pattern (22 bp):
TCGCAATGCAATTTTTCCAATT
Found at i:4459375 original size:20 final size:20
Alignment explanation
Indices: 4459350--4459504 Score: 159
Period size: 20 Copynumber: 7.7 Consensus size: 20
4459340 AATTTGGAAA
*
4459350 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
4459370 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4459390 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
4459411 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4459431 TTCGCAACGCGATACTAACT
1 ATCGCAACGCGATACTGACT
* *
4459451 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * * *
4459471 TTCGCTACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
4459491 ATCGTAACGAGATA
1 ATCGCAACGCGATA
4459505 ATACAGAATC
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
19 2 0.02
20 98 0.84
21 15 0.13
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:4459412 original size:61 final size:61
Alignment explanation
Indices: 4459347--4459463 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
4459337 GCGAATTTGG
* * *
4459347 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATACTAACTATCGCAACGCGATAATAC
* *
4459408 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATACTAACTTTCGCAACGCGAT
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATACTAACTATCGCAACGCGAT
4459464 TCTGACTTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (61 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATACTAACTATCGCAACGCGATAATAC
Found at i:4460075 original size:20 final size:20
Alignment explanation
Indices: 4460050--4460125 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
4460040 CAACGGGGAA
* *
4460050 ATCGCAACGCGAAAATGACT
1 ATCGCAACACGAAAATGGCT
*
4460070 ATCGCAACGCGAAAATGGCT
1 ATCGCAACACGAAAATGGCT
4460090 ATCGCAACACGAAAATGGCT
1 ATCGCAACACGAAAATGGCT
4460110 ATCGCAACACGAAAAT
1 ATCGCAACACGAAAAT
4460126 CGCAATGCGA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.14
Consensus pattern (20 bp):
ATCGCAACACGAAAATGGCT
Found at i:4460137 original size:34 final size:34
Alignment explanation
Indices: 4460031--4460137 Score: 106
Period size: 40 Copynumber: 3.0 Consensus size: 34
4460021 GACATTCATT
* *
4460031 TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAAAATCGCAACGCGAAAA
*
4460065 TGACTATCGCAACGCGAAAATGGCTATCGCAACACGAAAA
1 TGACTATCGCAACGCG-AAA-----ATCGCAACGCGAAAA
* * *
4460105 TGGCTATCGCAACACGAAAATCGCAATGCGAAA
1 TGACTATCGCAACGCGAAAATCGCAACGCGAAA
4460138 TTGTGATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
34 27 0.45
35 2 0.03
39 3 0.05
40 28 0.47
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.14
Consensus pattern (34 bp):
TGACTATCGCAACGCGAAAATCGCAACGCGAAAA
Found at i:4460174 original size:19 final size:19
Alignment explanation
Indices: 4460152--4460197 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
4460142 GATTTTCTCG
4460152 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4460171 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4460190 TTGCGATT
1 TTGCGATT
4460198 CTCTCGTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4462225 original size:21 final size:21
Alignment explanation
Indices: 4462178--4462226 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
4462168 TGACTATCGT
4462178 AATGCGATTTTCCAATTTCGC
1 AATGCGATTTTCCAATTTCGC
**
4462199 GTTGCGATTTTCCCAA-TTCGC
1 AATGCGATTTT-CCAATTTCGC
4462220 AATGCGA
1 AATGCGA
4462227 ATAAGTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (21 bp):
AATGCGATTTTCCAATTTCGC
Found at i:4462298 original size:41 final size:41
Alignment explanation
Indices: 4462253--4462384 Score: 142
Period size: 41 Copynumber: 3.2 Consensus size: 41
4462243 GCGAATTGGG
* ** *
4462253 AAAATCGCAATGTTATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
4462294 AAAATTGCAACGCGATACTGACTTTTGCAACGCGATACTTAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATA-ATAC
** *
4462336 --TTTCGCAACGCGATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
*
4462375 ATAATCGCAA
1 AAAATCGCAA
4462385 TACAATTTTC
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.04
40 30 0.41
41 37 0.51
42 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:4462323 original size:20 final size:20
Alignment explanation
Indices: 4462300--4462370 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
4462290 ATACAAAATT
*
4462300 GCAACGCGATACTGACTTTT
1 GCAACGCGATACTGACTTTC
*
4462320 GCAACGCGATACTTACTTTC
1 GCAACGCGATACTGACTTTC
4462340 GCAACGCGATACTGACTTTC
1 GCAACGCGATACTGACTTTC
*
4462360 GCAACGAGATA
1 GCAACGCGATA
4462371 ATACATAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (20 bp):
GCAACGCGATACTGACTTTC
Found at i:4462887 original size:20 final size:20
Alignment explanation
Indices: 4462838--4462896 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
4462828 TTTATTCTCT
* **
4462838 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
4462858 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
4462878 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
4462897 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:4464203 original size:17 final size:17
Alignment explanation
Indices: 4464181--4464213 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4464171 TCGGGAGCCA
4464181 TCACCTCACCCAGAGCT
1 TCACCTCACCCAGAGCT
4464198 TCACCTCACCCAGAGC
1 TCACCTCACCCAGAGC
4464214 CCATCACCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.48, G:0.12, T:0.15
Consensus pattern (17 bp):
TCACCTCACCCAGAGCT
Found at i:4464693 original size:160 final size:163
Alignment explanation
Indices: 4464392--4464717 Score: 599
Period size: 161 Copynumber: 2.0 Consensus size: 163
4464382 CGTGATGAGG
4464392 TCAATGCCTTGCATGAGGAGGTCGATACTTTACGCAAAGATGATGGTGCATGGCGTGTTGAAGTA
1 TCAATGCCTTGCATGAGGAGGTCGATACTTTACGCAAAGATGATGGTGCATGGCGTGTTGAAGTA
4464457 TCTACTTTACCGGTGAGGTAGCCGCGCTCTACGTGAGATGGTAGCATCGTTGCAGAATGAGGTTC
66 TCTACTTTACCGGTGAGGTAGCCGCGCTCTACGTGAGATGGTAGCATCGTTGCAGAATGAGGTTC
4464522 ATCTACTACGCAATG-GGTAAGTTTAAGATTTT
131 ATCTACTACGCAATGAGGTAAGTTTAAGATTTT
4464554 TCAATGCCTTGCATGAGGAGGTCGATAC-TTACGCAAAGATGATGGTGCATGGCGTGTTGAAGTA
1 TCAATGCCTTGCATGAGGAGGTCGATACTTTACGCAAAGATGATGGTGCATGGCGTGTTGAAGTA
4464618 TCTACTTTACGCGGTGAGGTAG-C-CGCTCTACGTGAGATGGTAGCATCGTTGCAGAATGAGGTT
66 TCTACTTTAC-CGGTGAGGTAGCCGCGCTCTACGTGAGATGGTAGCATCGTTGCAGAATGAGGTT
4464681 CATACT-CTACGCAATGAGGTAAGTTTAAGATTTT
130 CAT-CTACTACGCAATGAGGTAAGTTTAAGATTTT
4464715 TCA
1 TCA
4464718 TATTTAACTT
Statistics
Matches: 161, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
160 53 0.33
161 69 0.43
162 39 0.24
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (163 bp):
TCAATGCCTTGCATGAGGAGGTCGATACTTTACGCAAAGATGATGGTGCATGGCGTGTTGAAGTA
TCTACTTTACCGGTGAGGTAGCCGCGCTCTACGTGAGATGGTAGCATCGTTGCAGAATGAGGTTC
ATCTACTACGCAATGAGGTAAGTTTAAGATTTT
Found at i:4464972 original size:19 final size:20
Alignment explanation
Indices: 4464929--4464973 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
4464919 CGCAACACGA
*
4464929 AAATGACTATCGCAACGCAG
1 AAATGACTATCACAACGCAG
* *
4464949 AAATGGCTATCACAATGC-G
1 AAATGACTATCACAACGCAG
4464968 AAATGA
1 AAATGA
4464974 AAATGCGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (20 bp):
AAATGACTATCACAACGCAG
Found at i:4465016 original size:20 final size:19
Alignment explanation
Indices: 4464985--4465040 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
4464975 AATGCGATTT
4464985 TCATTTCGCGTTGCGATA-
1 TCATTTCGCGTTGCGATAG
4465003 TCCATTTCCGCGTTGCGATAG
1 T-CATTT-CGCGTTGCGATAG
*
4465024 TCATTTTTGCGTTGCGA
1 TCA-TTTCGCGTTGCGA
4465041 AAGTAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.03
19 5 0.15
20 23 0.70
21 4 0.12
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.39
Consensus pattern (19 bp):
TCATTTCGCGTTGCGATAG
Found at i:4465478 original size:21 final size:21
Alignment explanation
Indices: 4465427--4465479 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
4465417 ATTATGACTA
4465427 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
* **
4465448 TCACGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
4465469 TCGCAATGCGA
1 TCGCAATGCGA
4465480 ATAAGTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:4465511 original size:20 final size:20
Alignment explanation
Indices: 4465488--4465642 Score: 157
Period size: 20 Copynumber: 7.7 Consensus size: 20
4465478 GAATAAGTAA
*
4465488 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
4465508 ATCGCAACTCGATAATTCAAA
1 ATCGCAACGCGAT-ACTGACT
4465529 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
4465549 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
4465569 TTCGCAACGCGATTCTAACT
1 ATCGCAACGCGATACTGACT
* *
4465589 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
4465609 TTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
4465629 ATCGCAACGAGATA
1 ATCGCAACGCGATA
4465643 ATACAGAATC
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
20 101 0.87
21 15 0.13
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:4466383 original size:24 final size:24
Alignment explanation
Indices: 4466356--4466409 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4466346 GTATTCGAAA
*
4466356 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
4466380 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
4466404 TTTGAT
1 TTTGAT
4466410 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:4468913 original size:20 final size:20
Alignment explanation
Indices: 4468885--4468939 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
4468875 CAATCATCTT
* *
4468885 AATGTCTATCGTAACGCGAA
1 AATGACTATCGCAACGCGAA
*
4468905 AATGACTATCGCAATGCG-A
1 AATGACTATCGCAACGCGAA
**
4468924 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
4468940 AGAGAATCGC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:4468949 original size:14 final size:14
Alignment explanation
Indices: 4468930--4469016 Score: 66
Period size: 14 Copynumber: 5.6 Consensus size: 14
4468920 GCGAAATGAA
4468930 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
4468944 AATCGCAATGCGAAATG
1 AATCGCAA--CGAGA-G
4468961 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
*
4468976 AATCGCAATACGAAATGAA
1 AATCGC-A-ACG--A-GAG
*
4468995 AATCGCAACGAGGG
1 AATCGCAACGAGAG
4469009 AATCGCAA
1 AATCGCAA
4469017 AGCGAAATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
14 23 0.39
15 3 0.05
16 11 0.19
17 4 0.07
18 10 0.17
19 8 0.14
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4468970 original size:32 final size:33
Alignment explanation
Indices: 4468912--4469037 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
4468902 GAAAATGACT
4468912 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
4468945 ATCGCAATGCGAAATG-AAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
4468977 ATCGCAATACGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
4469010 ATCGCAAAGCGAAATGAAAATCGTAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
4469038 CGAATTTAGT
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 31 0.36
33 56 0.64
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4469016 original size:65 final size:66
Alignment explanation
Indices: 4468912--4469037 Score: 209
Period size: 65 Copynumber: 1.9 Consensus size: 66
4468902 GAAAATGACT
* *
4468912 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATG-AAATCGCAACGAGAG
1 ATCGCAATACGAAATGAAAATCGCAACGAGAGAATCGCAAAGCGAAATGAAAATCGCAACGAGAG
4468976 A
66 A
* *
4468977 ATCGCAATACGAAATGAAAATCGCAACGAGGGAATCGCAAAGCGAAATGAAAATCGTAACG
1 ATCGCAATACGAAATGAAAATCGCAACGAGAGAATCGCAAAGCGAAATGAAAATCGCAACG
4469038 CGAATTTAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
65 46 0.82
66 10 0.18
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (66 bp):
ATCGCAATACGAAATGAAAATCGCAACGAGAGAATCGCAAAGCGAAATGAAAATCGCAACGAGAG
A
Found at i:4469066 original size:19 final size:19
Alignment explanation
Indices: 4469037--4469101 Score: 103
Period size: 19 Copynumber: 3.4 Consensus size: 19
4469027 AAATCGTAAC
*
4469037 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
* *
4469056 GCAATTTTAGTTTAGCGTT
1 GCGATTTTAGTTTCGCGTT
4469075 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
4469094 GCGATTTT
1 GCGATTTT
4469102 GTCGTTGCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.15, C:0.14, G:0.25, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:4469115 original size:33 final size:33
Alignment explanation
Indices: 4469071--4469164 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
4469061 TTTAGTTTAG
4469071 CGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCGTTGCGATTTTGT
* * * *
4469104 CGTTGCAATTTTCATTTCGTGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTTTGT
*
4469137 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
4469165 AGTCATTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
33 52 0.98
34 1 0.02
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTTTGT
Found at i:4469290 original size:14 final size:14
Alignment explanation
Indices: 4469271--4469307 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4469261 CATCAATTAA
4469271 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4469285 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4469299 ACAAATCAA
1 ACAAATCAA
4469308 TAAACAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4470729 original size:42 final size:42
Alignment explanation
Indices: 4470683--4470762 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
4470673 CGATGACAGT
* *
4470683 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTGAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * * *
4470725 GGCCTCTTTAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTGAACGATAGGAGGGGACTCTCGAGGAATGA
4470763 CAGGCGAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.39, T:0.23
Consensus pattern (42 bp):
GGCCTCTTGAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:4471243 original size:19 final size:19
Alignment explanation
Indices: 4471163--4471252 Score: 82
Period size: 19 Copynumber: 4.9 Consensus size: 19
4471153 TCTGGAACTT
*
4471163 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
** *
4471184 ACTATCGCAACGTGAAATG
1 AAAATCGCAACGCGAAATG
4471203 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
4471217 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
4471236 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
4471253 CCAAAAGACA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 1 0.02
18 1 0.02
19 30 0.53
21 12 0.21
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:4471258 original size:19 final size:19
Alignment explanation
Indices: 4471219--4471258 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4471209 GCAACGAGAG
**
4471219 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
4471238 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
4471257 AA
1 AA
4471259 GACAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.50, C:0.25, G:0.17, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:4471271 original size:12 final size:12
Alignment explanation
Indices: 4471254--4471280 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4471244 AACGCGAAAC
4471254 CAAAAGACAAAA
1 CAAAAGACAAAA
4471266 CAAAAGACAAAA
1 CAAAAGACAAAA
4471278 CAA
1 CAA
4471281 TGTTACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.19, G:0.07, T:0.00
Consensus pattern (12 bp):
CAAAAGACAAAA
Found at i:4471459 original size:94 final size:94
Alignment explanation
Indices: 4471356--4471715 Score: 484
Period size: 94 Copynumber: 4.0 Consensus size: 94
4471346 TTGCATTACA
* * *
4471356 TCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAATTTAGCA
1 TCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCA
4471421 GAATTGGCAGCAAACGAACAAATTTACTT
66 GAATTGGCAGCAAACGAACAAATTTACTT
*
4471450 TCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCA
1 TCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCA
*
4471515 GAATTGGCAGCAACCGAACAAATTTACTT
66 GAATTGGCAGCAAACGAACAAATTTACTT
*
4471544 TCAA-C------C---A-AAAGACAAATATTAACTTCACAGTGTTAAAGAATACACAGTTTAGCA
1 TCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCA
*
4471598 GAATTGGCAGC-AACTGAATAAATTTAC-T
66 GAATTGGCAGCAAAC-GAACAAATTTACTT
*
4471626 TCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGTTTAGC
1 TCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
* * *
4471687 AGTATTGGCAGCAACCGAATAAATTTACT
65 AGAATTGGCAGCAAACGAACAAATTTACT
4471716 AAGCAATCTA
Statistics
Matches: 238, Mismatches: 13, Indels: 33
0.84 0.05 0.12
Matches are distributed among these distances:
82 7 0.03
83 69 0.29
84 1 0.00
89 1 0.00
90 37 0.16
91 2 0.01
92 1 0.00
93 1 0.00
94 119 0.50
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCA
GAATTGGCAGCAAACGAACAAATTTACTT
Found at i:4471607 original size:83 final size:82
Alignment explanation
Indices: 4471468--4471641 Score: 312
Period size: 83 Copynumber: 2.1 Consensus size: 82
4471458 AAGAAAAAAC
4471468 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
4471533 CAAATTTACTTTCAACCA
66 CAAATTTAC-TTCAACCA
* *
4471551 AAAGACAAATATTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACTGAA
1 AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
*
4471616 TAAATTTACTTCAACCA
66 CAAATTTACTTCAACCA
4471633 AAAGACAAA
1 AAAGACAAA
4471642 ACAAAAGACA
Statistics
Matches: 88, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
82 17 0.19
83 71 0.81
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (82 bp):
AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAA
CAAATTTACTTCAACCA
Found at i:4471670 original size:177 final size:173
Alignment explanation
Indices: 4471374--4471715 Score: 535
Period size: 177 Copynumber: 2.0 Consensus size: 173
4471364 AAGACAAAAC
*
4471374 AAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAATTTAGCAGAATTGGCAGCAAACGAA
1 AAAGACAAATACTAACTTCACAGTATTAAAGAATACACAATTTAGCAGAATTGGCAGCAAACGAA
*
4471439 CAAATTTACTTTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATAC
66 CAAATTTACTTTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTT----AATAA
4471504 ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCA
127 ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCA
* * *
4471551 AAAGACAAATATTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGC-AACTGA
1 AAAGACAAATACTAACTTCACAGTATTAAAGAATACACAATTTAGCAGAATTGGCAGCAAAC-GA
* *
4471615 ATAAATTTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAAC
65 ACAAATTTACTTTCAACCAAAAGAAAAAAC-AAAGACAAATACTAACTTCACAGTGTTAATAAAC
* *
4471679 AGTTTAGCAGTATTGGCAGCAACCGAATAAATTTACT
129 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
4471716 AAGCAATCTA
Statistics
Matches: 154, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
173 41 0.27
176 21 0.14
177 92 0.60
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (173 bp):
AAAGACAAATACTAACTTCACAGTATTAAAGAATACACAATTTAGCAGAATTGGCAGCAAACGAA
CAAATTTACTTTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTTAATAAACAG
TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCA
Found at i:4473494 original size:52 final size:53
Alignment explanation
Indices: 4473397--4473529 Score: 178
Period size: 52 Copynumber: 2.5 Consensus size: 53
4473387 TTGAAACGAA
* * * ** *
4473397 AATCGCAATGAGATAATGAAAATCGCAACGTGGAAATGACTATCGCAACGAGAT
1 AATCGCAACGCGA-AATGAAAATCGCAACGTCGAAATGAAAATCGCAACGAGAG
**
4473451 AATCGCAACGCGAAATGACTATCGCAACG-CGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGTCGAAATGAAAATCGCAACGAGAG
4473503 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
4473530 TACGATTTTG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
52 44 0.64
53 14 0.20
54 11 0.16
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (53 bp):
AATCGCAACGCGAAATGAAAATCGCAACGTCGAAATGAAAATCGCAACGAGAG
Found at i:4473527 original size:19 final size:19
Alignment explanation
Indices: 4473389--4473529 Score: 104
Period size: 19 Copynumber: 7.8 Consensus size: 19
4473379 TCTTTTGGTT
* * *
4473389 GAAACGAAAATCGCAATGA
1 GAAATGAAAATCGCAACGC
*
4473408 GATAATGAAAATCGCAACGTG
1 GA-AATGAAAATCGCAACG-C
**
4473429 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
4473446 G--A-GATAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
4473462 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGC
4473481 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
4473498 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
4473514 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
4473530 TACGATTTTG
Statistics
Matches: 96, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
14 19 0.20
15 2 0.02
16 4 0.04
17 3 0.03
18 2 0.02
19 38 0.40
20 26 0.27
21 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:4474163 original size:20 final size:20
Alignment explanation
Indices: 4474140--4474253 Score: 156
Period size: 20 Copynumber: 5.7 Consensus size: 20
4474130 CGATAGTCAG
4474140 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
4474160 ATTCGCATTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
* *
4474180 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
* *
4474200 AATTCACATTGCGATTTACTT
1 -ATTCGCATTGCGATTTACGT
* *
4474221 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4474241 ATTCGCATTGCGA
1 ATTCGCATTGCGA
4474254 ATTATGAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 63 0.79
21 17 0.21
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:4474266 original size:41 final size:40
Alignment explanation
Indices: 4474142--4474268 Score: 157
Period size: 41 Copynumber: 3.1 Consensus size: 40
4474132 ATAGTCAGAT
*
4474142 TCGCATTGCGATTTACGTATTCGCATTGCGATTTATGTAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTATGTAA
* * *
4474182 TCGCATTGCGATTTTCCTAATTCACATTGCGATTTACT-TAA
1 TCGCATTGCGATTTACGT-ATTCGCATTGCGATTTA-TGTAA
* * *
4474223 TCGCGTTGCGATTTACGTATTCGCATTGCGAATTATGAAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTATG-TAA
4474264 TCGCA
1 TCGCA
4474269 ACGCAAATAC
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.01
40 31 0.43
41 39 0.54
42 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (40 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTTATGTAA
Found at i:4474288 original size:41 final size:42
Alignment explanation
Indices: 4474243--4474352 Score: 143
Period size: 41 Copynumber: 2.6 Consensus size: 42
4474233 ATTTACGTAT
* *
4474243 TCGCATTGCGAATTATGAAAATCGCAACGCAAATACG-TAAA
1 TCGCAATGCGAATTATGAAAATCGCAACGCAAATACGAAAAA
* * *
4474284 TCGCAATGCGAATTAGGAAAATCACAATGCAAATACGAAAAA
1 TCGCAATGCGAATTATGAAAATCGCAACGCAAATACGAAAAA
*
4474326 TCGCAACGCGAATT-TGGAAAATCGCAA
1 TCGCAATGCGAATTAT-GAAAATCGCAA
4474353 TGCGATAGTC
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
41 33 0.56
42 26 0.44
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (42 bp):
TCGCAATGCGAATTATGAAAATCGCAACGCAAATACGAAAAA
Found at i:4474311 original size:21 final size:21
Alignment explanation
Indices: 4474243--4474357 Score: 108
Period size: 21 Copynumber: 5.5 Consensus size: 21
4474233 ATTTACGTAT
* *
4474243 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * * *
4474264 TCGCAACGC-AAATACGTAAA
1 TCGCAATGCGAATTAGGAAAA
4474284 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
4474305 TCACAATGC-AAATACGAAAAA
1 TCGCAATGCGAATTA-GGAAAA
* *
4474326 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
4474347 TCGCAATGCGA
1 TCGCAATGCGA
4474358 TAGTCAGAAT
Statistics
Matches: 73, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
20 20 0.27
21 50 0.68
22 3 0.04
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:4474339 original size:42 final size:41
Alignment explanation
Indices: 4474250--4474355 Score: 149
Period size: 42 Copynumber: 2.6 Consensus size: 41
4474240 TATTCGCATT
* * * *
4474250 GCGAATTATGAAAATCGCAACGCAAATACGTAAATCGCAAT
1 GCGAATTAGGAAAATCGCAATGCAAATACGAAAATCGCAAC
*
4474291 GCGAATTAGGAAAATCACAATGCAAATACGAAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAATGCAAATACG-AAAATCGCAAC
*
4474333 GCGAATTTGGAAAATCGCAATGC
1 GCGAATTAGGAAAATCGCAATGC
4474356 GATAGTCAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
41 27 0.47
42 30 0.53
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (41 bp):
GCGAATTAGGAAAATCGCAATGCAAATACGAAAATCGCAAC
Found at i:4475954 original size:20 final size:20
Alignment explanation
Indices: 4475925--4475982 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
4475915 TTTGATTCAC
**
4475925 GGAATGTAAGATTATTAGTG
1 GGAATGTAAGATTACCAGTG
*
4475945 GGAATATAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
4475965 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
4475983 GGAATATGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:4478247 original size:24 final size:24
Alignment explanation
Indices: 4478200--4478248 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
4478190 TCATCTAATT
*
4478200 CCTCGAGAATAACATCAGCATCAC
1 CCTCGAGAATAACATCACCATCAC
*
4478224 CCTCGACGAATAACA-CACCTTCAC
1 CCTCGA-GAATAACATCACCATCAC
4478248 C
1 C
4478249 GGTACAATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.35, C:0.39, G:0.10, T:0.16
Consensus pattern (24 bp):
CCTCGAGAATAACATCACCATCAC
Found at i:4479854 original size:19 final size:20
Alignment explanation
Indices: 4479801--4479855 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
4479791 TAGATTTTCA
4479801 AATTTTATTATCTTAAATTTT
1 AATTTTA-TATCTTAAATTTT
* * *
4479822 AA-ATAATATTTTAAATTTT
1 AATTTTATATCTTAAATTTT
4479841 AATTTTATA-CTTAAA
1 AATTTTATATCTTAAA
4479856 AATTAAATGA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
19 19 0.70
20 6 0.22
21 2 0.07
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTATATCTTAAATTTT
Found at i:4480908 original size:2 final size:2
Alignment explanation
Indices: 4480901--4480928 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4480891 CTATTAAGTA
4480901 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4480929 GTGACATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4482524 original size:3 final size:3
Alignment explanation
Indices: 4482516--4482543 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4482506 TTAATTATAT
4482516 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4482544 TTTAATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4483190 original size:36 final size:36
Alignment explanation
Indices: 4483132--4483256 Score: 102
Period size: 36 Copynumber: 3.7 Consensus size: 36
4483122 TAGGCATAAT
***
4483132 TTGTTTCAAGGGAAATTGTCTCAAGTGAGACAAAAC
1 TTGTTTCAAGGGAAACAATCTCAAGTGAGACAAAAC
***
4483168 TTGTTTCAAGGGAAACAATCTCAA-T------ATTT
1 TTGTTTCAAGGGAAACAATCTCAAGTGAGACAAAAC
* ** *
4483197 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGGGAAACAATCTCAAGTGAGACAAAAC
*
4483233 TTGTTTCAATGGAAACAATCTCAA
1 TTGTTTCAAGGGAAACAATCTCAA
4483257 ATGTTTTATA
Statistics
Matches: 65, Mismatches: 17, Indels: 14
0.68 0.18 0.15
Matches are distributed among these distances:
29 22 0.34
35 1 0.02
36 42 0.65
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (36 bp):
TTGTTTCAAGGGAAACAATCTCAAGTGAGACAAAAC
Found at i:4483307 original size:67 final size:66
Alignment explanation
Indices: 4483133--4483463 Score: 407
Period size: 67 Copynumber: 5.0 Consensus size: 66
4483123 AGGCATAATT
* * * * *
4483133 TGTTTCAAGGGAAATTGTCTCAAGTGAGACAAAACTTGTTTCAAGGGAAACAATCTC-AATATTT
1 TGTTTAAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAA-GGAAACAATCTCAAATGTTT
4483197 T-
65 TA
* * *
4483198 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTCAATGGAAACAATCTCAAATGTTT
1 TGTTTAAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAA-GGAAACAATCTCAAATGTTT
4483263 TA
65 TA
* * * *
4483265 TATTTAAAGATAAATTTTCTCAAGAGAGACAAAATTTATTTCAATGGAAACAATCTCAAATGTTT
1 TGTTTAAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAA-GGAAACAATCTCAAATGTTT
4483330 TA
65 TA
** * *
4483332 TGTTTAAAGATTAATTTTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATAATCTCAAA-GTTT
1 TGTTTAAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAG-GAAACAATCTCAAATG-TT
4483396 TTA
64 TTA
* * * *
4483399 TGTTTCAAGAGAAATTGTCTTAAGAGAGACAAAATTTATTTCAAGAGAAACAATCTCAAAGGTTT
1 TGTTTAAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAG-GAAACAATCTCAAATGTTT
4483464 ATCAATTTTG
Statistics
Matches: 238, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
65 53 0.22
66 9 0.04
67 175 0.74
68 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (66 bp):
TGTTTAAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGAAACAATCTCAAATGTTTT
A
Found at i:4483389 original size:36 final size:36
Alignment explanation
Indices: 4483349--4483457 Score: 95
Period size: 36 Copynumber: 3.2 Consensus size: 36
4483339 AGATTAATTT
4483349 TCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATAA
1 TCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATAA
*** **
4483385 TCTC-A-A-AG---TTTTTATGTTTCAAGAGAAATTG
1 TCTCAAGAGAGACAAAATT-TGTTTCAAGAGAAATAA
* * *
4483416 TCTTAAGAGAGACAAAATTTATTTCAAGAGAAACAA
1 TCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATAA
4483452 TCTCAA
1 TCTCAA
4483458 AGGTTTATCA
Statistics
Matches: 52, Mismatches: 14, Indels: 14
0.65 0.17 0.17
Matches are distributed among these distances:
30 2 0.04
31 18 0.35
32 1 0.02
33 3 0.06
34 3 0.06
35 1 0.02
36 22 0.42
37 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (36 bp):
TCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATAA
Found at i:4483532 original size:104 final size:102
Alignment explanation
Indices: 4483410--4483602 Score: 230
Period size: 104 Copynumber: 1.9 Consensus size: 102
4483400 GTTTCAAGAG
* * **
4483410 AAATTGTCTTAAGAGAGAC-AAAAT-TTATTTCAAGAGAAACAATCTCAAAG-GTTTATCAATTT
1 AAATTGTCTCAAGAGAGACGAAAATGTT-TTTCAA-AGAAACAATATC-AAGTG-AGATCAATTT
* *
4483472 TGTTTCAAGTGAAACAATTTTTAAAATTTGTATTTTTATGAA
62 TGTTTCAAGTAAAACAA-CTTTAAAATTTGTATTTTTATGAA
* * * *
4483514 AAATTGTCTCAAGCGAGACGAAACTGTTTTTGAAAGAAACAATATCAAGTGAGATTAATTTTGTT
1 AAATTGTCTCAAGAGAGACGAAAATGTTTTTCAAAGAAACAATATCAAGTGAGATCAATTTTGTT
4483579 TCAAGTAAAACAACTTTAAAATTT
66 TCAAGTAAAACAACTTTAAAATTT
4483603 ATGTTCCGAG
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
102 10 0.13
103 26 0.34
104 29 0.38
105 9 0.12
106 2 0.03
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (102 bp):
AAATTGTCTCAAGAGAGACGAAAATGTTTTTCAAAGAAACAATATCAAGTGAGATCAATTTTGTT
TCAAGTAAAACAACTTTAAAATTTGTATTTTTATGAA
Found at i:4492823 original size:18 final size:18
Alignment explanation
Indices: 4492788--4492826 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4492778 AGAATAGCAC
**
4492788 GAGGAACAAGCTCCACCA
1 GAGGAACAAGCAACACCA
*
4492806 GAGGAACAAGCAAGACCA
1 GAGGAACAAGCAACACCA
4492824 GAG
1 GAG
4492827 AATCAAATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.28, T:0.03
Consensus pattern (18 bp):
GAGGAACAAGCAACACCA
Found at i:4495074 original size:23 final size:23
Alignment explanation
Indices: 4495047--4495095 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
4495037 GTGAAAACCT
4495047 TGACAAGTTGAGCTCTGATGAAA
1 TGACAAGTTGAGCTCTGATGAAA
4495070 TGACAAGTTGAGCTCTGATGAAA
1 TGACAAGTTGAGCTCTGATGAAA
4495093 TGA
1 TGA
4495096 AGGAAGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.27
Consensus pattern (23 bp):
TGACAAGTTGAGCTCTGATGAAA
Found at i:4496652 original size:23 final size:22
Alignment explanation
Indices: 4496616--4496666 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
4496606 GATAATTTAA
*
4496616 AAATAATATTATTTCAAATAAAT
1 AAATAATATGATTTCAAA-AAAT
* *
4496639 AAATATTATGATTTTAAAAAAT
1 AAATAATATGATTTCAAAAAAT
4496661 AAATAA
1 AAATAA
4496667 ATATTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AAATAATATGATTTCAAAAAAT
Found at i:4496674 original size:20 final size:20
Alignment explanation
Indices: 4496585--4496677 Score: 66
Period size: 20 Copynumber: 4.6 Consensus size: 20
4496575 GGTTCCATAT
* *
4496585 AATATTTTTTAAAATTAAATA
1 AATA-TTTTAAAAAATAAATA
* *
4496606 GATAATTT-AAAAAT-AAT-
1 AATATTTTAAAAAATAAATA
* *
4496623 ATTATTTCAAATAAATAAATA
1 AATATTTTAAA-AAATAAATA
*
4496644 TTATGATTTTAAAAAATAAATA
1 -AAT-ATTTTAAAAAATAAATA
4496666 AATATTTTAAAA
1 AATATTTTAAAA
4496678 TACTTTCATA
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
17 4 0.07
18 5 0.09
19 9 0.16
20 15 0.27
21 5 0.09
22 10 0.18
23 7 0.13
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (20 bp):
AATATTTTAAAAAATAAATA
Found at i:4508447 original size:2 final size:2
Alignment explanation
Indices: 4508440--4508475 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4508430 TCCACTTTAC
4508440 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4508476 CAAACAAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4511028 original size:22 final size:24
Alignment explanation
Indices: 4510985--4511028 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4510975 TGATTAGGTA
4510985 TATATGTTACTATTATATTCAAAT
1 TATATGTTACTATTATATTCAAAT
*
4511009 TATATTTTA-TATT-TATTCAA
1 TATATGTTACTATTATATTCAA
4511029 TATATCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 4 0.21
24 8 0.42
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (24 bp):
TATATGTTACTATTATATTCAAAT
Found at i:4513261 original size:14 final size:15
Alignment explanation
Indices: 4513237--4513265 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4513227 TATAGAGGTT
4513237 CCATGGTGACCGTTG
1 CCATGGTGACCGTTG
4513252 CCAT-GTGACCGTTG
1 CCATGGTGACCGTTG
4513266 TTGTCCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.28, G:0.31, T:0.28
Consensus pattern (15 bp):
CCATGGTGACCGTTG
Done.