Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 41
Found at i:4638640 original size:21 final size:21
Alignment explanation
Indices: 4638616--4638657 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4638606 GGCAATTGCT
*
4638616 GAACGAAATAATGCTATAGCG
1 GAACGAAATAATGCCATAGCG
**
4638637 GAACGTGATAATGCCATAGCG
1 GAACGAAATAATGCCATAGCG
4638658 AATCTGCAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (21 bp):
GAACGAAATAATGCCATAGCG
Found at i:4643262 original size:17 final size:17
Alignment explanation
Indices: 4643240--4643280 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
4643230 GTCAGACTGG
*
4643240 ATCATGTGGTCCTTCGA
1 ATCATGCGGTCCTTCGA
*
4643257 ATCATGCGGTCCTTCGC
1 ATCATGCGGTCCTTCGA
4643274 ATCATGC
1 ATCATGC
4643281 AACATGCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.32
Consensus pattern (17 bp):
ATCATGCGGTCCTTCGA
Found at i:4652582 original size:22 final size:23
Alignment explanation
Indices: 4652538--4652583 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
4652528 TCAATTTTTT
*
4652538 TATAAAAAATAAAACTATCTTAAA
1 TATAAAAAATAAAAC-ATATTAAA
*
4652562 TATAAAATATAAAA-ATATTAAA
1 TATAAAAAATAAAACATATTAAA
4652584 AAATAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
TATAAAAAATAAAACATATTAAA
Found at i:4653378 original size:2 final size:2
Alignment explanation
Indices: 4653371--4653422 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
4653361 GACTACTAAC
4653371 AT AT AT 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 AT AT AT
4653413 AT AT AT AT AT
1 AT AT AT AT AT
4653423 GTAATACACC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4661312 original size:16 final size:16
Alignment explanation
Indices: 4661291--4661324 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4661281 TGTGAAAGTG
* *
4661291 TTTTTATTTAATTTTA
1 TTTTTATTGAATATTA
4661307 TTTTTATTGAATATTA
1 TTTTTATTGAATATTA
4661323 TT
1 TT
4661325 AACTTATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTATTGAATATTA
Found at i:4666084 original size:60 final size:60
Alignment explanation
Indices: 4666019--4666149 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 60
4666009 GTTTTAAAAA
* * * ** *
4666019 TTTTAAACATTTTAATTTCATC-CGTAAACTATGA-CATTCATTTTAAATTGGTCCCTAAAC
1 TTTTAAACATTTTAAATTCATCATG-AAACTATGATCATT-ATTCTAAATTAATCCCCAAAC
*
4666079 TTTTAAACATTTTAAATTCATCATGAAACTATGATCCTTATTCTAAATTAATCCCCAAAC
1 TTTTAAACATTTTAAATTCATCATGAAACTATGATCATTATTCTAAATTAATCCCCAAAC
*
4666139 TTTTGAACATT
1 TTTTAAACATT
4666150 CCGATAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 57 0.93
61 4 0.07
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.41
Consensus pattern (60 bp):
TTTTAAACATTTTAAATTCATCATGAAACTATGATCATTATTCTAAATTAATCCCCAAAC
Found at i:4666599 original size:24 final size:25
Alignment explanation
Indices: 4666547--4666599 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
4666537 TTATGTATTC
*
4666547 ATTTTTTTGAAACACAAGTTTATGT
1 ATTTTTTTAAAACACAAGTTTATGT
*
4666572 ATTTTTTTAAAACATAAGTTTATG-
1 ATTTTTTTAAAACACAAGTTTATGT
4666596 ATTT
1 ATTT
4666600 CATTTTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (25 bp):
ATTTTTTTAAAACACAAGTTTATGT
Found at i:4666693 original size:2 final size:2
Alignment explanation
Indices: 4666686--4666721 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4666676 ATTGAAGAGA
*
4666686 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4666722 TGTTGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4668414 original size:19 final size:19
Alignment explanation
Indices: 4668373--4668416 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4668363 CAAGTTTAAT
*
4668373 AAATTATATACTATATATT
1 AAATTATATACTATATATA
*
4668392 AAATTATATAGTA-ATTATA
1 AAATTATATACTATA-TATA
4668411 AAATTA
1 AAATTA
4668417 ATAATGGCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AAATTATATACTATATATA
Found at i:4671022 original size:8 final size:9
Alignment explanation
Indices: 4671003--4671032 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4670993 AAGAACTAAG
4671003 TTTAATTTT
1 TTTAATTTT
4671012 TTTAATTTT
1 TTTAATTTT
*
4671021 TTTAGTTTT
1 TTTAATTTT
4671030 TTT
1 TTT
4671033 TTAGAATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTAATTTT
Found at i:4680871 original size:27 final size:27
Alignment explanation
Indices: 4680832--4680884 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
4680822 ATTCGAATAA
4680832 TATGTTTACATTAAGTACATTAGAAAG
1 TATGTTTACATTAAGTACATTAGAAAG
** * *
4680859 TATGTTTGTATTAATTACATTGGAAA
1 TATGTTTACATTAAGTACATTAGAAA
4680885 ACATGTATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (27 bp):
TATGTTTACATTAAGTACATTAGAAAG
Found at i:4681550 original size:28 final size:29
Alignment explanation
Indices: 4681517--4681592 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 29
4681507 TTTCATAAAA
*
4681517 AATAATATATATTTGTATA-TACTT-ATAT
1 AATAATATATATTTATA-AGTACTTAATAT
* *
4681545 ACTAATATATCTTTATAAGTACTTAATAT
1 AATAATATATATTTATAAGTACTTAATAT
4681574 AATAATAATATATATTATA
1 AATAAT-ATATAT-TTATA
4681593 TTTTGAATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 19 0.49
29 9 0.23
30 5 0.13
31 5 0.13
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (29 bp):
AATAATATATATTTATAAGTACTTAATAT
Found at i:4688836 original size:41 final size:40
Alignment explanation
Indices: 4688756--4688837 Score: 92
Period size: 41 Copynumber: 2.0 Consensus size: 40
4688746 CAGGTTCCAA
** *
4688756 ATTCGCAACACGAAAGTCAAATTCGCAACGTGATTTTAAG
1 ATTCGCAACACGAAAGTCAAATTCGCAACGCAATCTTAAG
* ** *
4688796 ATTCGCAACGCGGTAGTCGAAATTCGCAATGCAATCTTAAG
1 ATTCGCAACACGAAAGTC-AAATTCGCAACGCAATCTTAAG
4688837 A
1 A
4688838 ATTTTCTCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 15 0.44
41 19 0.56
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (40 bp):
ATTCGCAACACGAAAGTCAAATTCGCAACGCAATCTTAAG
Found at i:4689207 original size:21 final size:20
Alignment explanation
Indices: 4689110--4689239 Score: 147
Period size: 20 Copynumber: 6.5 Consensus size: 20
4689100 ACACATTTAA
*
4689110 GTTGCGAATTTGACT-TC-T
1 GTTGCGAATTTGACTATCGC
* * *
4689128 GTGTGCAAATTTGACTTTTGC
1 GT-TGCGAATTTGACTATCGC
* *
4689149 GTTACGAATTTGACTTTCGC
1 GTTGCGAATTTGACTATCGC
4689169 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
*
4689189 GTTGCGAATTTCCACTATCGC
1 GTTGCGAATTT-GACTATCGC
*
4689210 GTTGCGATTTTGGACTATCGC
1 GTTGCGAATTT-GACTATCGC
4689231 GTTGCGAAT
1 GTTGCGAAT
4689240 CTGGAAACTG
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
18 2 0.02
19 12 0.13
20 45 0.47
21 36 0.38
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGC
Found at i:4689244 original size:21 final size:20
Alignment explanation
Indices: 4689147--4689244 Score: 106
Period size: 21 Copynumber: 4.8 Consensus size: 20
4689137 TTTGACTTTT
* * *
4689147 GCGTTACGAATTTGACTTTC
1 GCGTTGCGAATTGGACTATC
*
4689167 GCGTTGCGAATTTGACTATC
1 GCGTTGCGAATTGGACTATC
**
4689187 GCGTTGCGAATTTCCACTATC
1 GCGTTGCGAA-TTGGACTATC
*
4689208 GCGTTGCGATTTTGGACTATC
1 GCGTTGCGA-ATTGGACTATC
4689229 GCGTTGCGAATCTGGA
1 GCGTTGCGAAT-TGGA
4689245 AACTGAGTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
20 29 0.43
21 38 0.57
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (20 bp):
GCGTTGCGAATTGGACTATC
Found at i:4694241 original size:106 final size:106
Alignment explanation
Indices: 4694046--4694258 Score: 309
Period size: 106 Copynumber: 2.0 Consensus size: 106
4694036 ATATATAAAT
* *
4694046 TTTGTTGAGAAAGAATAAATATACTTGATATGTATCAGAGCCACATAATTATACGAGTATTAATT
1 TTTGTTGAGAAAGAATAAATATACCTAATATGTATCAGAGCCACATAATTATACGAGTATTAATT
* * * *
4694111 AGTTAATATTGACGACATACATACATTAACTTTATGTTTAA
66 AGTTAATATTGACAACACACATACATTAAATTTATATTTAA
* * * *
4694152 TTTGTTTAGAAAGAATAAATATACCTAATGTGTATTAGAGCCACATGATTATACGAGTATTAATT
1 TTTGTTGAGAAAGAATAAATATACCTAATATGTATCAGAGCCACATAATTATACGAGTATTAATT
* * *
4694217 AGTTTATATTGACAACGCATATACATTAAATTTATATTTAA
66 AGTTAATATTGACAACACACATACATTAAATTTATATTTAA
4694258 T
1 T
4694259 CATTTTATAA
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
106 94 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (106 bp):
TTTGTTGAGAAAGAATAAATATACCTAATATGTATCAGAGCCACATAATTATACGAGTATTAATT
AGTTAATATTGACAACACACATACATTAAATTTATATTTAA
Found at i:4694339 original size:32 final size:32
Alignment explanation
Indices: 4694300--4694371 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
4694290 TTATATAATT
4694300 AAAAACTCACATATATAAGCAATGTAAGATTA
1 AAAAACTCACATATATAAGCAATGTAAGATTA
*
4694332 AAAAACTCACATATATAAGCAATGTAAGATTT
1 AAAAACTCACATATATAAGCAATGTAAGATTA
4694364 AAAAACTC
1 AAAAACTC
4694372 TCATGATCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (32 bp):
AAAAACTCACATATATAAGCAATGTAAGATTA
Found at i:4697429 original size:47 final size:46
Alignment explanation
Indices: 4697370--4697483 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 46
4697360 CGACTATTGG
* *
4697370 ACCCTTAGTGCATCGGTGCA-CTAAGAGTGCATTAGAT-ATTTCA-AAA
1 ACCCTGAGTGCATCGATGCATC-AA-A-TGCATTAGATGATTTCATAAA
* * *
4697416 TAGCCTGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA
1 -ACCCTGAGTGCATCGATGCATCAAATGCATTAGATGATTTCATAAA
4697463 ACCCTGAGTGCATCGATGCAT
1 ACCCTGAGTGCATCGATGCAT
4697484 GGTATGTGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
45 9 0.16
46 26 0.45
47 22 0.38
48 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (46 bp):
ACCCTGAGTGCATCGATGCATCAAATGCATTAGATGATTTCATAAA
Found at i:4700201 original size:21 final size:22
Alignment explanation
Indices: 4700139--4700201 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
4700129 GCATGGCCTT
4700139 GTGCATCGATGCACATTCAAGGA
1 GTGCATCGATGCACATTC-AGGA
* *
4700162 GTGCATC-AGTGCACCTTCATG-
1 GTGCATCGA-TGCACATTCAGGA
*
4700183 GTGTATCGATGCACATTCA
1 GTGCATCGATGCACATTCA
4700202 AAGGGATACA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAGGA
Found at i:4704086 original size:21 final size:20
Alignment explanation
Indices: 4704052--4704091 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
4704042 GAGATTGTTT
4704052 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTT-AAATA
4704073 TCATTTTT-ATATTTTAAAT
1 TCATTTTTCA-ATTTTAAAT
4704092 TTTTTTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (20 bp):
TCATTTTTCAATTTTAAATA
Found at i:4706070 original size:64 final size:62
Alignment explanation
Indices: 4706002--4706181 Score: 177
Period size: 65 Copynumber: 2.8 Consensus size: 62
4705992 TTGGACCCTT
* * * *
4706002 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTCA-AAATAGC-GT
1 AGTGCATCGATGCA-T-AGAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAA-A-CTCT
4706065 G
62 G
* *
4706066 AGTGCATCGATGCAT-GTCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTCT
1 AGTGCATCGATGCATAG---AGTGCATCGATGCATAAAATGCATTCGATG-TTTCATAAAACTCT
4706130 G
62 G
* *
4706131 AGTGCATTGATGCATGGTATGTGCATCGATGCATAAAATGCATTCGATGTT
1 AGTGCATCGATGCATAG-A-GTGCATCGATGCATAAAATGCATTCGATGTT
4706182 CAATTTATTC
Statistics
Matches: 100, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
61 1 0.01
63 1 0.01
64 44 0.44
65 50 0.50
66 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (62 bp):
AGTGCATCGATGCATAGAGTGCATCGATGCATAAAATGCATTCGATGTTTCATAAAACTCTG
Found at i:4706155 original size:65 final size:65
Alignment explanation
Indices: 4706022--4706181 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
4706012 TGCACTAAGA
* * * *
4706022 GTGCATCGATGCATGAAGTGCATTCGATG-TTTCAAAATAGCGTGAGTGCATCGATGCATGTCTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATGTCAT
* *
4706086 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATTGATGCATGGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGC-CTGAGTGCATCGATGCAT-GT
4706149 -AT
63 CAT
4706151 GTGCATCGATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
4706182 CAATTTATTC
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
64 28 0.33
65 53 0.62
66 5 0.06
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATGTCAT
Found at i:4715929 original size:2 final size:2
Alignment explanation
Indices: 4715864--4715917 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
4715854 GGGTTTAGGA
4715864 AT AT AT 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 AT AT AT
4715906 AT AT AT AT AT AT
1 AT AT AT AT AT AT
4715918 TGTATTTATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4717059 original size:32 final size:31
Alignment explanation
Indices: 4716915--4717066 Score: 142
Period size: 31 Copynumber: 4.8 Consensus size: 31
4716905 ATTATTAATA
* * * *
4716915 ATTATTAACTAATTATTAAATTTATCAAATG
1 ATTATAAAATAATCATTAAATTTATCAAATT
* * * *
4716946 AATATAAAATTATCGTTAAATATATCAAATT
1 ATTATAAAATAATCATTAAATTTATCAAATT
* * * *
4716977 ATTATAAAATAATTATCAATTTTTATCAACTT
1 ATTATAAAATAATCATTAA-ATTTATCAAATT
* *
4717009 ATTATAAAATGATAATTAAATTTATCAAATT
1 ATTATAAAATAATCATTAAATTTATCAAATT
* *
4717040 ATTTAAAAAATAATCATTAAAATTATC
1 A-TTATAAAATAATCATTAAATTTATC
4717067 GAACTTTATG
Statistics
Matches: 94, Mismatches: 25, Indels: 3
0.77 0.20 0.02
Matches are distributed among these distances:
31 48 0.51
32 46 0.49
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (31 bp):
ATTATAAAATAATCATTAAATTTATCAAATT
Found at i:4717066 original size:63 final size:62
Alignment explanation
Indices: 4716924--4717072 Score: 163
Period size: 63 Copynumber: 2.4 Consensus size: 62
4716914 AATTATTAAC
* * * ** *
4716924 TAATTATTAAATTTATCAAATGAATATAAAATTATCGTTAAATATATCAAATTATTATAAAA
1 TAATTATTAAATTTATCAACTTAATATAAAATGATAATTAAATATATCAAATTATTAAAAAA
* * * *
4716986 TAATTATCAATTTTTATCAACTTATTATAAAATGATAATTAAATTTATCAAATTATTTAAAAAA
1 TAATTATTAA-ATTTATCAACTTAATATAAAATGATAATTAAATATATCAAATTA-TTAAAAAA
* *
4717050 TAATCATTAAAATTATCGAACTT
1 TAATTATTAAATTTATC-AACTT
4717073 TATGATCATA
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
62 9 0.13
63 41 0.59
64 20 0.29
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.42
Consensus pattern (62 bp):
TAATTATTAAATTTATCAACTTAATATAAAATGATAATTAAATATATCAAATTATTAAAAAA
Found at i:4718613 original size:22 final size:22
Alignment explanation
Indices: 4718587--4718629 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4718577 GTATGAACGG
*
4718587 TGAACAATACCGTGAACAGTAA
1 TGAACAATACCATGAACAGTAA
*
4718609 TGAACATTACCATGAACAGTA
1 TGAACAATACCATGAACAGTA
4718630 CCCGAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (22 bp):
TGAACAATACCATGAACAGTAA
Found at i:4719324 original size:13 final size:14
Alignment explanation
Indices: 4719300--4719329 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4719290 TAATTTATTC
4719300 CATATAACATATCA
1 CATATAACATATCA
4719314 CATAT-ACATATCA
1 CATATAACATATCA
4719327 CAT
1 CAT
4719330 TCAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CATATAACATATCA
Found at i:4720331 original size:2 final size:2
Alignment explanation
Indices: 4720324--4720375 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
4720314 TTATGTAAAC
4720324 AT AT AT 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 AT AT AT
4720366 AT AT AT AT AT
1 AT AT AT AT AT
4720376 CACACAACAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4720741 original size:20 final size:20
Alignment explanation
Indices: 4720716--4720753 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4720706 TTTTCTTTAG
4720716 GGGGGAATC-GATACCCCCCA
1 GGGGGAATCTG-TACCCCCCA
4720736 GGGGGAATCTGTACCCCC
1 GGGGGAATCTGTACCCCC
4720754 TGCACAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.21, C:0.34, G:0.32, T:0.13
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCCA
Found at i:4720804 original size:21 final size:21
Alignment explanation
Indices: 4720774--4720815 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4720764 GGAATTTTTC
4720774 GTTCAAGCCCAGAAAA-TCACT
1 GTTCAAGCCCA-AAAATTCACT
*
4720795 GTTCATGCCCAAAAATTCACT
1 GTTCAAGCCCAAAAATTCACT
4720816 ATATCACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.24
Consensus pattern (21 bp):
GTTCAAGCCCAAAAATTCACT
Found at i:4723230 original size:16 final size:18
Alignment explanation
Indices: 4723195--4723231 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
4723185 TTTACATTCC
4723195 TTTCATATCATTTATACT
1 TTTCATATCATTTATACT
*
4723213 TTTCAT-TC-TTTATCCT
1 TTTCATATCATTTATACT
4723229 TTT
1 TTT
4723232 AACTTTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTCATATCATTTATACT
Found at i:4727182 original size:20 final size:20
Alignment explanation
Indices: 4727157--4727195 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
4727147 TTTTTTCTTT
4727157 AGGGGGAATC-GATACCCCCC
1 AGGGGGAATCTG-TACCCCCC
4727177 AGGGGGAATCTGTACCCCC
1 AGGGGGAATCTGTACCCCC
4727196 TGCACAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.23, C:0.33, G:0.31, T:0.13
Consensus pattern (20 bp):
AGGGGGAATCTGTACCCCCC
Found at i:4727252 original size:20 final size:22
Alignment explanation
Indices: 4727216--4727257 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4727206 GGAATTTTTC
4727216 GTTCAAGCCCAGAAAA-TCACT
1 GTTCAAGCCCAGAAAATTCACT
*
4727237 GTTCATGCCC-GAAAATTCACT
1 GTTCAAGCCCAGAAAATTCACT
4727258 ATATCAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (22 bp):
GTTCAAGCCCAGAAAATTCACT
Found at i:4728204 original size:2 final size:2
Alignment explanation
Indices: 4728197--4728241 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4728187 AAGTATATGC
4728197 AT AT AT 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 AT AT AT
4728239 AT A
1 AT A
4728242 ATAATTTAAG
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4730901 original size:2 final size:2
Alignment explanation
Indices: 4730894--4730962 Score: 86
Period size: 2 Copynumber: 33.5 Consensus size: 2
4730884 AAATTTGATG
4730894 AT AT AT 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 AT AT AT
* *
4730936 CAA AT GAT AT AT ACT AT A- AA AT AT AT A
1 -AT AT -AT AT AT A-T AT AT AT AT AT AT A
4730963 GTGTTGATGT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
1 1 0.02
2 54 0.90
3 5 0.08
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (2 bp):
AT
Found at i:4745232 original size:22 final size:22
Alignment explanation
Indices: 4745204--4745254 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
4745194 CTACGGCGAC
4745204 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* * *
4745226 ATTCGTCCCCATCTCTGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
4745248 ATCCGTC
1 ATCCGTC
4745255 TATCTCCATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.20, C:0.41, G:0.16, T:0.24
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:4745653 original size:20 final size:19
Alignment explanation
Indices: 4745618--4745671 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
4745608 AAATCGCAAC
4745618 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
4745637 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
* *
4745657 GTGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
4745672 AGAAACTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:4750672 original size:3 final size:3
Alignment explanation
Indices: 4750664--4750688 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4750654 TCTTTGGGTA
4750664 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
4750689 AGGGTTATAT
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:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:4750897 original size:24 final size:24
Alignment explanation
Indices: 4750863--4750916 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4750853 TTGAAACATC
4750863 ATCAAAATCCGAGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* * **
4750887 ATCAAAGTCCGGGTATTGGCCAAG
1 ATCAAAATCCGAGTATTAACCAAG
4750911 ATCAAA
1 ATCAAA
4750917 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:4751894 original size:20 final size:20
Alignment explanation
Indices: 4751871--4751961 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
4751861 TAAAATTTGT
4751871 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATCGA
*
4751891 GTTGCGAATTC-AGAAATTGA
1 GTTGCGAATTCGA-AAATCGA
* *
4751911 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTCGAAAATCGA
* * *
4751930 GTATTGCGAATTTGGAAATCGC
1 G--TTGCGAATTCGAAAATCGA
*
4751952 GTTCCGAATT
1 GTTGCGAATT
4751962 TGTTGGTCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.05
20 38 0.66
21 16 0.28
22 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTCGAAAATCGA
Found at i:4751948 original size:41 final size:40
Alignment explanation
Indices: 4751871--4751963 Score: 98
Period size: 41 Copynumber: 2.3 Consensus size: 40
4751861 TAAAATTTGT
* *
4751871 GTTGCGAATTCGAAAATCGAGTTGCGAATTCAGAAATTGA
1 GTTGCGAATTTGAAAATCGAGTTGCGAATTCAGAAATCGA
* ** *
4751911 GTTGCGAATTTGAAATTC-AGTATTGCGAATTTGGAAATCGC
1 GTTGCGAATTTGAAAATCGAG--TTGCGAATTCAGAAATCGA
*
4751952 GTTCCGAATTTG
1 GTTGCGAATTTG
4751964 TTGGTCATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 2 0.05
40 16 0.36
41 26 0.59
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (40 bp):
GTTGCGAATTTGAAAATCGAGTTGCGAATTCAGAAATCGA
Found at i:4756089 original size:25 final size:25
Alignment explanation
Indices: 4756055--4756109 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
4756045 GTAGATTCTT
4756055 ACAACCCCCAACAGTCAAAACAATA
1 ACAACCCCCAACAGTCAAAACAATA
4756080 ACAACCCCCAACAGTCAAAACAATA
1 ACAACCCCCAACAGTCAAAACAATA
4756105 ACAAC
1 ACAAC
4756110 GACAACAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.53, C:0.36, G:0.04, T:0.07
Consensus pattern (25 bp):
ACAACCCCCAACAGTCAAAACAATA
Found at i:4757184 original size:19 final size:19
Alignment explanation
Indices: 4757160--4757229 Score: 131
Period size: 19 Copynumber: 3.7 Consensus size: 19
4757150 ACCAACTAAA
*
4757160 TCGCAATGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
4757179 TCGCAACGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
4757198 TCGCAACGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
4757217 TCGCAACGCGATC
1 TCGCAACGCGATC
4757230 TCCGGTATCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (19 bp):
TCGCAACGCGATCGATAAT
Found at i:4757327 original size:21 final size:21
Alignment explanation
Indices: 4757303--4757479 Score: 161
Period size: 21 Copynumber: 8.3 Consensus size: 21
4757293 CATATTCGCA
*
4757303 TTGCGA-TAGTCCAAGTTCGCG
1 TTGCGATTATTCCAAGTT-GCG
4757324 TTGCGATTTATTCCAAGTT-CG
1 TTGCGA-TTATTCCAAGTTGCG
* *
4757345 TTGCGA-TAGTCGAAGTTTGCG
1 TTGCGATTATTCCAAG-TTGCG
*
4757366 TTGCGATTTATTCCAAATT-CG
1 TTGCGA-TTATTCCAAGTTGCG
4757387 TTGCGATTTATTCCAAGTTCGCG
1 TTGCGA-TTATTCCAAGTT-GCG
*
4757410 TTGCGATTTATTCCAAATT-CG
1 TTGCGA-TTATTCCAAGTTGCG
* *
4757431 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTATTCCAAGTT-GCG
4757452 TTGCGATTTATTCCAAGTT-CG
1 TTGCGA-TTATTCCAAGTTGCG
4757473 TTGCGAT
1 TTGCGAT
4757480 AGTCCGAAAT
Statistics
Matches: 131, Mismatches: 13, Indels: 25
0.78 0.08 0.15
Matches are distributed among these distances:
19 15 0.11
20 3 0.02
21 66 0.50
22 2 0.02
23 45 0.34
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (21 bp):
TTGCGATTATTCCAAGTTGCG
Found at i:4757354 original size:42 final size:42
Alignment explanation
Indices: 4757303--4757484 Score: 292
Period size: 42 Copynumber: 4.3 Consensus size: 42
4757293 CATATTCGCA
*
4757303 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
4757345 TTGCGATAGTCGAAGTTTGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
4757387 TTGCGATTTATTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
4757431 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
4757473 TTGCGATAGTCC
1 TTGCGATAGTCC
4757485 GAAATCGCAA
Statistics
Matches: 128, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
42 89 0.70
44 39 0.30
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:4757402 original size:86 final size:86
Alignment explanation
Indices: 4757312--4757479 Score: 309
Period size: 86 Copynumber: 2.0 Consensus size: 86
4757302 ATTGCGATAG
* *
4757312 TCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTTGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
4757377 TCCAAATTCGTTGCGATTTAT
66 TCCAAATTCGTTGCGATTTAT
4757398 TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
*
4757463 TCCAAGTTCGTTGCGAT
66 TCCAAATTCGTTGCGAT
4757480 AGTCCGAAAT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (86 bp):
TCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
TCCAAATTCGTTGCGATTTAT
Found at i:4758121 original size:12 final size:11
Alignment explanation
Indices: 4758091--4758124 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
4758081 CCGTCTCGTC
4758091 TCGGGTCG-GG
1 TCGGGTCGTGG
4758101 TCGGGTCGTGG
1 TCGGGTCGTGG
4758112 TCGTGGTCGTGG
1 TCG-GGTCGTGG
4758124 T
1 T
4758125 AATACATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.00, C:0.18, G:0.53, T:0.29
Consensus pattern (11 bp):
TCGGGTCGTGG
Found at i:4758266 original size:21 final size:21
Alignment explanation
Indices: 4758240--4758428 Score: 139
Period size: 21 Copynumber: 9.1 Consensus size: 21
4758230 CGATAGTCGA
*
4758240 CGATAGTCGAAGTTCGCTTTG
1 CGATAGTCGAAGTTCGCATTG
*
4758261 CGATAGTCCAAGTTCGCATTG
1 CGATAGTCGAAGTTCGCATTG
*
4758282 CGATAGTCG-ACTATCGCATTG
1 CGATAGTCGAAGT-TCGCATTG
*
4758303 CGAT-TTAC-ATA-TTCGCATTG
1 CGATAGT-CGA-AGTTCGCATTG
* *
4758323 CGATAGCCG-ACTATCGCATTG
1 CGATAGTCGAAGT-TCGCATTG
*
4758344 CGAT-TTAC-ATA-TTCGCATTG
1 CGATAGT-CGA-AGTTCGCATTG
*
4758364 CGAT-TTAC-ATA-TTCGCATTG
1 CGATAGT-CGA-AGTTCGCATTG
*
4758384 CGATAGTCCAAGTTCGCATTG
1 CGATAGTCGAAGTTCGCATTG
*
4758405 CGATAGTCGAAGTTCGCGTTG
1 CGATAGTCGAAGTTCGCATTG
4758426 CGA
1 CGA
4758429 ATCTGGAAAC
Statistics
Matches: 142, Mismatches: 12, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.01
20 51 0.36
21 88 0.62
22 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (21 bp):
CGATAGTCGAAGTTCGCATTG
Found at i:4758320 original size:20 final size:20
Alignment explanation
Indices: 4758295--4758387 Score: 134
Period size: 20 Copynumber: 4.6 Consensus size: 20
4758285 TAGTCGACTA
4758295 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
***
4758315 TCGCATTGCGATAGCCGACTA-
1 TCGCATTGCGATTTAC-A-TAT
4758336 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
4758356 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
4758376 TCGCATTGCGAT
1 TCGCATTGCGAT
4758388 AGTCCAAGTT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.03
20 46 0.72
21 14 0.22
22 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:4758334 original size:41 final size:41
Alignment explanation
Indices: 4758273--4758367 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
4758263 ATAGTCCAAG
*
4758273 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGCCGACTATCGCATTGCGATTTACATA
4758314 TTCGCATTGCGATAGCCGACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATAGCCGACTATCGCATTGCGATTTACATA
4758355 TTCGCATTGCGAT
1 TTCGCATTGCGAT
4758368 TTACATATTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (41 bp):
TTCGCATTGCGATAGCCGACTATCGCATTGCGATTTACATA
Found at i:4758400 original size:41 final size:40
Alignment explanation
Indices: 4758273--4758414 Score: 155
Period size: 41 Copynumber: 3.5 Consensus size: 40
4758263 ATAGTCCAAG
*
4758273 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATA-TCGACTATCGCATTGCGATGTACATA
* *
4758314 TTCGCATTGCGATAGCCGACTATCGCATTGCGATTTACATA
1 TTCGCATTGCGATA-TCGACTATCGCATTGCGATGTACATA
* *
4758355 TTCGCATTGCGAT-T-TACATATTCGCATTGCGATAGTCCA-A
1 TTCGCATTGCGATATCGAC-TA-TCGCATTGCGAT-GTACATA
4758395 GTTCGCATTGCGATAGTCGA
1 -TTCGCATTGCGATA-TCGA
4758415 AGTTCGCGTT
Statistics
Matches: 88, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 13 0.15
41 69 0.78
43 1 0.01
44 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (40 bp):
TTCGCATTGCGATATCGACTATCGCATTGCGATGTACATA
Found at i:4758662 original size:10 final size:10
Alignment explanation
Indices: 4758625--4758675 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 10
4758615 TAAAACAATA
*
4758625 AATAAATATG
1 AATAAAAATG
4758635 CAATAAAAATG
1 -AATAAAAATG
4758646 AATTAAAAATG
1 AA-TAAAAATG
* *
4758657 AATAAAATTC
1 AATAAAAATG
4758667 AATAAAAAT
1 AATAAAAAT
4758676 ATAATGTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.46
11 19 0.54
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (10 bp):
AATAAAAATG
Found at i:4759880 original size:6 final size:7
Alignment explanation
Indices: 4759866--4759890 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4759856 AAAATTTATA
4759866 TTTATTT
1 TTTATTT
4759873 TTTATTT
1 TTTATTT
4759880 TTTATTT
1 TTTATTT
4759887 TTTA
1 TTTA
4759891 AAATTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:4759987 original size:11 final size:11
Alignment explanation
Indices: 4759949--4759986 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
4759939 CTTTACATTA
4759949 TATTTTTATTG
1 TATTTTTATTG
*
4759960 -AATTTTATTG
1 TATTTTTATTG
4759970 TATTTTTATT-
1 TATTTTTATTG
4759980 TATTTTT
1 TATTTTT
4759987 TTTAAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (11 bp):
TATTTTTATTG
Found at i:4761597 original size:29 final size:29
Alignment explanation
Indices: 4761555--4761635 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
4761545 TTTTATATGT
4761555 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
4761583 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
4761612 TCATGTAGGTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
4761636 ATATCACATA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 7 0.14
29 38 0.76
30 5 0.10
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:4761651 original size:12 final size:12
Alignment explanation
Indices: 4761634--4761669 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4761624 TGTCATGTTC
4761634 TCATATCACATA
1 TCATATCACATA
* *
4761646 TCATATAATATA
1 TCATATCACATA
4761658 TCATATCACATA
1 TCATATCACATA
4761670 GGTATTTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.36
Consensus pattern (12 bp):
TCATATCACATA
Found at i:4762095 original size:64 final size:63
Alignment explanation
Indices: 4762026--4762178 Score: 168
Period size: 64 Copynumber: 2.4 Consensus size: 63
4762016 TAATGAAGGT
* * *
4762026 ATGCATTGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATAG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAA-AA
4762089 G
63 G
* * * *
4762090 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
*
4762153 AGTGCATCGATGCACTACCTGTGCAT
1 A-TGCATCGATGCACTACTTGTGCAT
4762179 TGATACGCCT
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
63 4 0.05
64 61 0.82
65 9 0.12
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
Found at i:4768508 original size:29 final size:29
Alignment explanation
Indices: 4768466--4768546 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
4768456 TTTTATATGT
4768466 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
4768494 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
4768523 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
4768547 ATATCACATA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 7 0.14
29 39 0.76
30 5 0.10
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:4768562 original size:12 final size:12
Alignment explanation
Indices: 4768545--4768578 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
4768535 TGTCATGTTC
4768545 TCATATCACATA
1 TCATATCACATA
4768557 TCATATCACATA
1 TCATATCACATA
4768569 TCATATCACA
1 TCATATCACA
4768579 CAGGTATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.32
Consensus pattern (12 bp):
TCATATCACATA
Found at i:4769006 original size:64 final size:63
Alignment explanation
Indices: 4768937--4769093 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
4768927 TAATGAAGGT
* **
4768937 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATCGTTTTATT-TTAA-AA
4769000 G
63 G
* ** * *
4769001 ATGCATCGATGCA-TGCCTTACGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
*
4769064 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
4769094 ACGCCTTCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
63 3 0.04
64 64 0.84
65 9 0.12
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATCGTTTTATTTTAAAAG
Found at i:4771058 original size:18 final size:18
Alignment explanation
Indices: 4771037--4771075 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4771027 ACATTTGATA
*
4771037 CTCTGGACGAGGTTGTTC
1 CTCTGGACGAGCTTGTTC
* *
4771055 CTCTGGAGGTGCTTGTTC
1 CTCTGGACGAGCTTGTTC
4771073 CTC
1 CTC
4771076 GTGCTGATCC
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:0.08, C:0.26, G:0.31, T:0.36
Consensus pattern (18 bp):
CTCTGGACGAGCTTGTTC
Found at i:4780414 original size:2 final size:2
Alignment explanation
Indices: 4780409--4780433 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4780399 ATATATATGT
4780409 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
4780434 TACATGCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4780438 original size:4 final size:4
Alignment explanation
Indices: 4780431--4780515 Score: 70
Period size: 4 Copynumber: 22.0 Consensus size: 4
4780421 ACACACACAC
* * * * *
4780431 ACAT ACAT GCAT ACAT GCAT ACATT GCAT ACA- GCAT A-AT GCA- ACAT
1 ACAT ACAT ACAT ACAT ACAT ACA-T ACAT ACAT ACAT ACAT ACAT ACAT
* *
4780477 GCAT ACAT GCAT ACAT -CAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4780516 GTGTAAGAGG
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
3 9 0.15
4 50 0.81
5 3 0.05
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:4780443 original size:8 final size:8
Alignment explanation
Indices: 4780432--4780516 Score: 115
Period size: 8 Copynumber: 11.0 Consensus size: 8
4780422 CACACACACA
4780432 CATACATG
1 CATACATG
4780440 CATACATG
1 CATACATG
4780448 CATACATTG
1 CATACA-TG
4780457 CATACA-G
1 CATACATG
4780464 CATA-ATG
1 CATACATG
4780471 CA-ACATG
1 CATACATG
4780478 CATACATG
1 CATACATG
4780486 CATACAT-
1 CATACATG
*
4780493 CATACATA
1 CATACATG
*
4780501 CATACATA
1 CATACATG
4780509 CATACATG
1 CATACATG
4780517 TGTAAGAGGT
Statistics
Matches: 71, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
6 2 0.03
7 20 0.28
8 41 0.58
9 8 0.11
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (8 bp):
CATACATG
Found at i:4784963 original size:30 final size:29
Alignment explanation
Indices: 4784927--4784989 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
4784917 TTCGGTTCGG
*
4784927 TTAATCGAACCAAAATTTATTTGAAAATTA
1 TTAATCGAA-CAAAATTAATTTGAAAATTA
**
4784957 TTAATCGAACTGAATTAATTTGAAAATTA
1 TTAATCGAACAAAATTAATTTGAAAATTA
4784986 TTAA
1 TTAA
4784990 CCAAACCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (29 bp):
TTAATCGAACAAAATTAATTTGAAAATTA
Found at i:4784979 original size:29 final size:29
Alignment explanation
Indices: 4784940--4785003 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
4784930 ATCGAACCAA
* * * *
4784940 AATTTATTTGAAAATTATTAATCGAACTG
1 AATTAATTTGAAAATTATTAACCAAACCG
4784969 AATTAATTTGAAAATTATTAACCAAACCG
1 AATTAATTTGAAAATTATTAACCAAACCG
4784998 AATTAA
1 AATTAA
4785004 CCGATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (29 bp):
AATTAATTTGAAAATTATTAACCAAACCG
Found at i:4784989 original size:140 final size:138
Alignment explanation
Indices: 4784829--4785248 Score: 557
Period size: 140 Copynumber: 3.0 Consensus size: 138
4784819 ATTGAACCAA
* *
4784829 AATTTATTTGAAAATTATTAACCGAACTGAATTAAAAGATTTTTTTGAAAATTATTAACTGAATT
1 AATTAATTTGAAAATTATTAACCGAACTGAATTAAACGATTTTTTT--AAATTATTAACTGAATT
*
4784894 AATCG-AGAAAAAAATTTGATTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTAT
64 AATCGAAGCAAAAAA-TTGATTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTAT
* *
4784958 TAATCGAACTG
128 TAACCGAACCG
* * *
4784969 AATTAATTTGAAAATTATTAACCAAACCGAATTAACCGATTTTTTTTAAATTATTAACTGAATTA
1 AATTAATTTGAAAATTATTAACCGAACTGAATTAAACGA-TTTTTTTAAATTATTAACTGAATTA
* * * * *
4785034 ATCGAAGCAAACAATTCAGTTAATTCGGTTAGGTTAATCGGACCAAAATTTATTGGAAAATTATT
65 ATCGAAGCAAAAAATTGA-TTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATT
4785099 AACCGAACCG
129 AACCGAACCG
* * *
4785109 AATTAA-TTAAAAATTATTAACCGAA-TCGAATT-AACCA-TTTTTTAAATTATTAA-TCAAATT
1 AATTAATTTGAAAATTATTAACCGAACT-GAATTAAACGATTTTTTTAAATTATTAACT-GAATT
* * *
4785169 AATCGAAGCAAAAAATCGGTTAATTCGGTTCGGTTAATCGAACCAAAATTTTTTTG-AAATTATT
64 AATCGAAGCAAAAAATTGATTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATT
4785233 AACCGAACCG
129 AACCGAACCG
4785243 AATTAA
1 AATTAA
4785249 ACGAATATTT
Statistics
Matches: 248, Mismatches: 27, Indels: 16
0.85 0.09 0.05
Matches are distributed among these distances:
134 24 0.10
135 34 0.14
136 35 0.14
138 3 0.01
139 47 0.19
140 98 0.40
141 7 0.03
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (138 bp):
AATTAATTTGAAAATTATTAACCGAACTGAATTAAACGATTTTTTTAAATTATTAACTGAATTAA
TCGAAGCAAAAAATTGATTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAA
CCGAACCG
Found at i:4786960 original size:6 final size:6
Alignment explanation
Indices: 4786943--4786979 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
4786933 GACACGTATT
* *
4786943 ACCATG ACCACG ATCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
4786980 TTTTTGGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.43, G:0.16, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:4789218 original size:2 final size:2
Alignment explanation
Indices: 4789211--4789237 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4789201 GTTATTATCA
4789211 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4789238 AAACTCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4796448 original size:19 final size:19
Alignment explanation
Indices: 4796426--4796462 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4796416 ATTTAATATT
*
4796426 TTATTTTAAATTAAAATAG
1 TTATTTTAAATAAAAATAG
4796445 TTATTTTAAATAAAAATA
1 TTATTTTAAATAAAAATA
4796463 TGAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TTATTTTAAATAAAAATAG
Found at i:4798352 original size:20 final size:20
Alignment explanation
Indices: 4798324--4798400 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 20
4798314 TTCCCCTTGA
4798324 AGTGCATCGATACATTCTAC
1 AGTGCATCGATACATTCTAC
* *
4798344 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATACATTC--T-AC
* *
4798367 ATGTGCATCGATGCACTACT-C
1 A-GTGCATCGATACA-TTCTAC
4798388 A-TGCATCGATACA
1 AGTGCATCGATACA
4798401 CAAATCACCT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 11 0.23
20 15 0.32
21 2 0.04
22 1 0.02
23 4 0.09
24 12 0.26
25 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:4798381 original size:24 final size:20
Alignment explanation
Indices: 4798324--4798381 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
4798314 TTCCCCTTGA
*
4798324 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
*
4798344 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
4798367 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
4798382 CTACTCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:4798491 original size:63 final size:62
Alignment explanation
Indices: 4798369--4798502 Score: 148
Period size: 63 Copynumber: 2.1 Consensus size: 62
4798359 TCTTTAACAT
* * *
4798369 GTGCATCGATGCACTACTCATGCATCGATACACAAATCACCTTCGATGTTTTCATTTTAAGGG
1 GTGCATCGATGCACTACTCATGCATCGATACACAAAGCA-CTTCGATGTTTTCATTTTAAAGA
* * *
4798432 GTGCATCGATGCACTAACT-GTGCATCGGTACACTCAAAGCA-TTCGATG-TTTCTTCTTTAAAG
1 GTGCATCGATGCACT-ACTCATGCATCGATACA--CAAAGCACTTCGATGTTTTCAT-TTTAAAG
4798494 A
62 A
4798495 GTGCATCG
1 GTGCATCG
4798503 GTACACATTG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
62 5 0.08
63 47 0.77
64 3 0.05
65 6 0.10
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (62 bp):
GTGCATCGATGCACTACTCATGCATCGATACACAAAGCACTTCGATGTTTTCATTTTAAAGA
Found at i:4807455 original size:20 final size:20
Alignment explanation
Indices: 4807430--4807472 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4807420 TCTAAGAGCC
* *
4807430 CATTTAGGATCATTTAGATG
1 CATTTAGGAGCATATAGATG
*
4807450 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
4807470 CAT
1 CAT
4807473 GAGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:4807742 original size:27 final size:27
Alignment explanation
Indices: 4807704--4807758 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
4807694 TATTTTCACG
4807704 GGATCTCTGATCATGACCGAGAAATCC
1 GGATCTCTGATCATGACCGAGAAATCC
4807731 GGATCTCTGATCATGACCGAGAAATCC
1 GGATCTCTGATCATGACCGAGAAATCC
4807758 G
1 G
4807759 CCTGGATCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (27 bp):
GGATCTCTGATCATGACCGAGAAATCC
Found at i:4817500 original size:18 final size:20
Alignment explanation
Indices: 4817448--4817500 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 20
4817438 ACCGCACTAC
*
4817448 CATCATT-TTATTTCCGCAT
1 CATCATTCTTATTTGCGCAT
4817467 CAGTCATTC-TATTTTGC-CA-
1 CA-TCATTCTTA-TTTGCGCAT
4817486 CATCATTCTTATTTG
1 CATCATTCTTATTTG
4817501 TATATACCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
18 10 0.34
19 6 0.21
20 9 0.31
21 4 0.14
ACGTcount: A:0.21, C:0.25, G:0.08, T:0.47
Consensus pattern (20 bp):
CATCATTCTTATTTGCGCAT
Found at i:4817890 original size:111 final size:111
Alignment explanation
Indices: 4817748--4817975 Score: 393
Period size: 111 Copynumber: 2.1 Consensus size: 111
4817738 ATTACAAAAA
* *
4817748 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATACATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
4817813 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTATCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTATAGAGATAT
4817859 TTAATTCTTAATCTAATAATCATACATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATACATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
* * *
4817924 AATTAAAACGTTAAAATGTTACCGTATTAGTAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTATAGAGATAT
*
4817970 ATAATT
1 TTAATT
4817976 TCCATCCGAG
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 110 1.00
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATACATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTATAGAGATAT
Found at i:4818063 original size:18 final size:17
Alignment explanation
Indices: 4818033--4818086 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
4818023 ATTATATTAG
4818033 TAAAATATTAAATAAAA
1 TAAAATATTAAATAAAA
*
4818050 TAAAATACTTAAATAAAT
1 TAAAATA-TTAAATAAAA
*
4818068 TAAATATATAATAATAAAA
1 TAAA-ATATTA-AATAAAA
4818087 ATATTATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 7 0.23
18 15 0.48
19 9 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAATATTAAATAAAA
Found at i:4818328 original size:50 final size:50
Alignment explanation
Indices: 4818274--4818399 Score: 135
Period size: 50 Copynumber: 2.5 Consensus size: 50
4818264 AGATAACCAG
* *
4818274 GTATAGCGCGGATCAGGGGGCACGTTATACCAACGTGGCGCCAGATCACC
1 GTATAGCGCGGATCAGGGGGCACGCTATACCAACGTGGCGCCAAATCACC
* * ** ** * *
4818324 GTATATCTCGGGGCAGGGGGTGCGCTATACCCACGTGGCGCCAAATCAGC
1 GTATAGCGCGGATCAGGGGGCACGCTATACCAACGTGGCGCCAAATCACC
* * *
4818374 GTAAAGCGCGGTTCAGGGGGCGCGCT
1 GTATAGCGCGGATCAGGGGGCACGCT
4818400 TTACTGCTAC
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.21, C:0.27, G:0.36, T:0.17
Consensus pattern (50 bp):
GTATAGCGCGGATCAGGGGGCACGCTATACCAACGTGGCGCCAAATCACC
Found at i:4819579 original size:23 final size:24
Alignment explanation
Indices: 4819542--4819591 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
4819532 TTTCGTATAT
4819542 ATAAACAAATCATATTTTTTAT-TA
1 ATAAACAAATCATA-TTTTTATCTA
*
4819566 ATAAA-AAATTATATTTTTATCTA
1 ATAAACAAATCATATTTTTATCTA
4819589 ATA
1 ATA
4819592 CTTCTCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 7 0.29
23 12 0.50
24 5 0.21
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAACAAATCATATTTTTATCTA
Found at i:4837428 original size:31 final size:32
Alignment explanation
Indices: 4837393--4837461 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 32
4837383 ACCGGTCATA
* *
4837393 ACCCGACA-CGACCCGTTTACCTGACCCGTTG
1 ACCCGACACCGACCCGTTGACCCGACCCGTTG
*
4837424 ACCCGA-ACCGACCTGTTGACCCGACCCGTTG
1 ACCCGACACCGACCCGTTGACCCGACCCGTTG
4837455 ACCCGAC
1 ACCCGAC
4837462 CCATTGACCG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 1 0.03
31 32 0.97
ACGTcount: A:0.20, C:0.43, G:0.20, T:0.16
Consensus pattern (32 bp):
ACCCGACACCGACCCGTTGACCCGACCCGTTG
Found at i:4837449 original size:13 final size:13
Alignment explanation
Indices: 4837401--4837470 Score: 68
Period size: 13 Copynumber: 5.0 Consensus size: 13
4837391 TAACCCGACA
*
4837401 CGACCCGTTTACC
1 CGACCCGTTGACC
*
4837414 TGACCCGTTGACC
1 CGACCCGTTGACC
4837427 CGAACCGACCTGTTGACC
1 CG-A-C--CC-GTTGACC
4837445 CGACCCGTTGACC
1 CGACCCGTTGACC
*
4837458 CGACCCATTGACC
1 CGACCCGTTGACC
4837471 GTTGACCGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
13 31 0.65
14 3 0.06
15 1 0.02
16 1 0.02
17 3 0.06
18 9 0.19
ACGTcount: A:0.19, C:0.43, G:0.20, T:0.19
Consensus pattern (13 bp):
CGACCCGTTGACC
Found at i:4839988 original size:24 final size:24
Alignment explanation
Indices: 4839961--4840051 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
4839951 TCAAATTTGA
* * *
4839961 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTAG
*
4839985 ATTCTGATATGATA-TTGACATAG
1 ATTCTGATATGATACTTGACCTAG
* *
4840008 ATTCTGATCTGATACATGACCTAG
1 ATTCTGATATGATACTTGACCTAG
4840032 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
4840052 TTGAATTATG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
23 19 0.33
24 38 0.67
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTAG
Found at i:4840021 original size:47 final size:48
Alignment explanation
Indices: 4839961--4840051 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
4839951 TCAAATTTGA
* * *
4839961 ATTCTGTTATGATACCTGACCTGGATTCTGATATGATA-TTGACATAG
1 ATTCTGATATGATACATGACCTAGATTCTGATATGATACTTGACATAG
*
4840008 ATTCTGATCTGATACATGACCTAGATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTAGATTCTGATATGATACTTGAC
4840052 TTGAATTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTAGATTCTGATATGATACTTGACATAG
Found at i:4847808 original size:20 final size:20
Alignment explanation
Indices: 4847783--4847820 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4847773 GAGAATGAGG
*
4847783 AACCGATTTCCAGGTCTTCC
1 AACCGATTTACAGGTCTTCC
4847803 AACCGATTTACAGGTCTT
1 AACCGATTTACAGGTCTT
4847821 TCAAACAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (20 bp):
AACCGATTTACAGGTCTTCC
Found at i:4860271 original size:21 final size:21
Alignment explanation
Indices: 4860246--4860298 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4860236 ATTTTGACTA
4860246 TCGCATTGTGATTTCCCAAAT
1 TCGCATTGTGATTTCCCAAAT
* * *
4860267 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGTGATTTCCCAAAT
*
4860288 TCGCAATGTGA
1 TCGCATTGTGA
4860299 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGTGATTTCCCAAAT
Found at i:4860541 original size:22 final size:22
Alignment explanation
Indices: 4860516--4860577 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
4860506 GGCGACATCC
4860516 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
4860538 GTCCCCA----CGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
*
4860556 GTCTCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
4860578 TTCACGGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 16 0.48
22 17 0.52
ACGTcount: A:0.27, C:0.39, G:0.15, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:4860941 original size:33 final size:32
Alignment explanation
Indices: 4860893--4861006 Score: 93
Period size: 40 Copynumber: 3.2 Consensus size: 32
4860883 ACTATCGCAA
4860893 TGCGATTCTGTCGTTGCGATTTTCATTTCGTGT
1 TGCGATTCT-TCGTTGCGATTTTCATTTCGTGT
** * *
4860926 TGCGATTCTTACGTTGCGATAGTCAAATTCGCGT
1 TGCGATTCTT-CGTTGCGATTTTC-ATTTCGTGT
4860960 TGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGT
1 TGCGAT--TC---TTC--GTTGCGATTTTCA-TTTCGTGT
4861000 TGCGATT
1 TGCGATT
4861007 TAAAGTTTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
32 1 0.02
33 20 0.32
34 13 0.21
36 2 0.03
38 2 0.03
39 3 0.05
40 22 0.35
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.45
Consensus pattern (32 bp):
TGCGATTCTTCGTTGCGATTTTCATTTCGTGT
Found at i:4860991 original size:20 final size:19
Alignment explanation
Indices: 4860905--4861007 Score: 81
Period size: 20 Copynumber: 5.5 Consensus size: 19
4860895 CGATTCTGTC
4860905 GTTGCGATTTTCATTTCGT
1 GTTGCGATTTTCATTTCGT
*
4860924 GTTGCGA--TTC-TTAC--
1 GTTGCGATTTTCATTTCGT
** * *
4860938 GTTGCGATAGTCAAATTCGC
1 GTTGCGATTTTC-ATTTCGT
**
4860958 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCA-TTTCGT
4860978 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCA-TTTCGT
4860998 GTTGCGATTT
1 GTTGCGATTT
4861008 AAAGTTTCAG
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
14 7 0.10
16 5 0.07
17 3 0.04
18 2 0.03
19 8 0.12
20 44 0.64
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.46
Consensus pattern (19 bp):
GTTGCGATTTTCATTTCGT
Found at i:4861015 original size:20 final size:20
Alignment explanation
Indices: 4860972--4861015 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4860962 CGATAGTCAT
** *
4860972 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
4860992 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
4861012 TTTC
1 TTTC
4861016 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:4862952 original size:32 final size:33
Alignment explanation
Indices: 4862880--4862962 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
4862870 ATAGTTTACT
*
4862880 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-AAAATGACTATCGCAACGAGAGA
4862914 ATCGCAATGCAAAATGACTATCGCAACGA-AGA
1 ATCGCAATGCAAAATGACTATCGCAACGAGAGA
4862946 ATCGCAATG-AGAAATGA
1 ATCGCAATGCA-AAATGA
4862963 AAATCGCATT
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
31 1 0.02
32 18 0.38
33 19 0.40
34 9 0.19
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCAAAATGACTATCGCAACGAGAGA
Found at i:4862969 original size:32 final size:33
Alignment explanation
Indices: 4862880--4862970 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 33
4862870 ATAGTTTACT
* **
4862880 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-AAAATGAAAATCGCAACGAGAGA
**
4862914 ATCGCAATGCAAAATGACTATCGCAACGA-AGA
1 ATCGCAATGCAAAATGAAAATCGCAACGAGAGA
4862946 ATCGCAATG-AGAAATGAAAATCGCA
1 ATCGCAATGCA-AAATGAAAATCGCA
4862971 TTGCGATTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
31 1 0.02
32 24 0.45
33 19 0.36
34 9 0.17
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCAAAATGAAAATCGCAACGAGAGA
Found at i:4863030 original size:54 final size:54
Alignment explanation
Indices: 4862966--4863086 Score: 188
Period size: 54 Copynumber: 2.2 Consensus size: 54
4862956 GAAATGAAAA
4862966 TCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTT
1 TCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTT
* ** * *
4863020 TCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTTGCGTTGCGATAGTCATTT
1 TCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTT
*
4863074 TCGCGTTGCGATT
1 TCGCATTGCGATT
4863087 TTAAGTTTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (54 bp):
TCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTT
Found at i:4863062 original size:20 final size:20
Alignment explanation
Indices: 4862985--4863085 Score: 106
Period size: 20 Copynumber: 5.3 Consensus size: 20
4862975 GATTCTCTCA
** *
4862985 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCG
*
4863005 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCG
*
4863025 TTGCGAT--TC----TCTCG
1 TTGCGATAGTCATTTTCGCG
*
4863039 TTGCGATAGTCATTTTTGCG
1 TTGCGATAGTCATTTTCGCG
4863059 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCG
4863079 TTGCGAT
1 TTGCGAT
4863086 TTTAAGTTTC
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
18 2 0.03
20 54 0.79
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCG
Found at i:4863660 original size:21 final size:21
Alignment explanation
Indices: 4863569--4863672 Score: 66
Period size: 21 Copynumber: 5.0 Consensus size: 21
4863559 GACTCACATG
* **
4863569 TCATCGTTCAAAAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTA
*
4863591 T-ATTGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
** * *
4863611 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* * * *
4863632 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTA
* *
4863653 TCATCGTTGAAGAGGTCCCT
1 TCATCGTTCAAGAGGCCCCT
4863673 CCCAACATTC
Statistics
Matches: 60, Mismatches: 21, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
20 3 0.05
21 56 0.93
22 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:4863666 original size:42 final size:42
Alignment explanation
Indices: 4863595--4863676 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
4863585 CTCCCCTATT
*
4863595 GTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACC
1 GTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCACC
* ** *
4863637 GTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 GTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
4863677 ACATTCTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.38, G:0.20, T:0.21
Consensus pattern (42 bp):
GTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCACC
Found at i:4865072 original size:14 final size:14
Alignment explanation
Indices: 4865053--4865088 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4865043 ATTGTTTAAT
4865053 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4865067 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4865081 TGATTTGT
1 TGATTTGT
4865089 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4865244 original size:33 final size:34
Alignment explanation
Indices: 4865194--4865257 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
4865184 AAAACAGACT
**
4865194 ATCGCAACGCGGAAATGACTATCGCAACGAGCGA
1 ATCGCAACGCGGAAATGAAAATCGCAACGAGCGA
*
4865228 ATCGCAATGC-GAAATGAAAATCGCAACGAG
1 ATCGCAACGCGGAAATGAAAATCGCAACGAG
4865258 TTTTCATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 18 0.67
34 9 0.33
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.12
Consensus pattern (34 bp):
ATCGCAACGCGGAAATGAAAATCGCAACGAGCGA
Found at i:4865308 original size:20 final size:20
Alignment explanation
Indices: 4865283--4865371 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
4865273 GCGATTCTCT
* *
4865283 CGTTACGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCCG
* *
4865303 CGTTACGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
4865323 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
4865343 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
4865363 CGTTGCGAT
1 CGTTGCGAT
4865372 TTCCGCGTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 60 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:4867838 original size:24 final size:24
Alignment explanation
Indices: 4867804--4867859 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
4867794 CTGAAAAATC
*
4867804 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAATTCCGAGTATTGACCAAG
*
4867828 ATCAAATTCCGGGTATTGACCAAG
1 ATCAAATTCCGAGTATTGACCAAG
4867852 ATCAAATT
1 ATCAAATT
4867860 TCGAATACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (24 bp):
ATCAAATTCCGAGTATTGACCAAG
Found at i:4867871 original size:24 final size:24
Alignment explanation
Indices: 4867804--4867871 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
4867794 CTGAAAAATC
* * *
4867804 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAATTCCGAATACTGACCAAG
** *
4867828 ATCAAATTCCGGGTATTGACCAAG
1 ATCAAATTCCGAATACTGACCAAG
*
4867852 ATCAAATTTCGAATACTGAC
1 ATCAAATTCCGAATACTGAC
4867872 TAGTACTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (24 bp):
ATCAAATTCCGAATACTGACCAAG
Found at i:4868745 original size:20 final size:20
Alignment explanation
Indices: 4868717--4868879 Score: 227
Period size: 20 Copynumber: 8.1 Consensus size: 20
4868707 TAGAATCTCG
4868717 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
4868737 TTACGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
*
4868757 TTGCGATTTACGTATTCACA
1 TTGCGATTTACGTATTCGCA
*
4868777 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
4868797 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
4868817 TTACGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* ** *
4868837 TTGCGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
4868858 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
4868878 TT
1 TT
4868880 ACGAATTAGG
Statistics
Matches: 122, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
20 107 0.88
21 15 0.12
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:4868905 original size:21 final size:21
Alignment explanation
Indices: 4868881--4868925 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4868871 ATTCGCATTA
4868881 CGAATTAGGAAAATCGCAACG
1 CGAATTAGGAAAATCGCAACG
* * *
4868902 CGAATTTGGGAAATCGCAATG
1 CGAATTAGGAAAATCGCAACG
4868923 CGA
1 CGA
4868926 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.18
Consensus pattern (21 bp):
CGAATTAGGAAAATCGCAACG
Found at i:4872403 original size:127 final size:127
Alignment explanation
Indices: 4872055--4872712 Score: 1061
Period size: 127 Copynumber: 5.2 Consensus size: 127
4872045 GTACTATTCA
** * *
4872055 CGTGAAGGCGCGTTCCCGGGGGCGCATCTTCCATTATTTTGTCAGATAATATGTTATTATTACCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
4872120 TATTATGTCACTTATGTCCCCCGAGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGAGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
* * *
4872182 CGTGAAGGCGCGTTCTCGGGGGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATTATT
1 CGTGAAGGCGCGTTC-C---CGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATT
* * *
4872247 GCCCTATTATGTCACTTATAG-CCCCCGGGAACTATTAATGTCAATACCTATTATTCCTTAGGGG
62 ACCCTATTATGTCACTTAT-GTCCCCCGAGAACTATTCATGTCAATACCTATTATTCCTTAGGGG
4872311 AC
126 AC
* *
4872313 CGTGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTTGTTAGAGAATATGTTATCATTACCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
*
4872378 TATTATGTCACTTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGAGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
4872440 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
*
4872505 TATTATGTCACTTATGTCCCCCAAGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
66 TATTATGTCACTTATGTCCCCCGAGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
* *
4872567 CGTGAAGGCGCGTT-CCGGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTATCC
1 CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
* *
4872631 TATTATGTCACATATGTCCCCCGAGAACTATTCATGTCAATACCTATTATTCCTTATGGGA-
66 TATTATGTCACTTATGTCCCCCGAGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
* * *
4872692 CTTTAAGGCGCGTTCCTGGGG
1 CGTGAAGGCGCGTTCCCGGGG
4872713 AACTATAGAT
Statistics
Matches: 499, Mismatches: 25, Indels: 15
0.93 0.05 0.03
Matches are distributed among these distances:
125 12 0.02
126 112 0.22
127 256 0.51
128 1 0.00
130 1 0.00
131 116 0.23
132 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (127 bp):
CGTGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCC
TATTATGTCACTTATGTCCCCCGAGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
Found at i:4872802 original size:2 final size:2
Alignment explanation
Indices: 4872795--4872820 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4872785 AGGATAAAAG
4872795 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
4872821 AATTTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4873172 original size:34 final size:34
Alignment explanation
Indices: 4873134--4873234 Score: 157
Period size: 34 Copynumber: 3.0 Consensus size: 34
4873124 GAATTTAATG
*
4873134 TTAAATTTTGAATACTATAATTTATATTTTAAAT
1 TTAAATTTTGAATACTATAATTTGTATTTTAAAT
* * * *
4873168 TTAAATTTCGAATAATATTATTTGTATTTTAATT
1 TTAAATTTTGAATACTATAATTTGTATTTTAAAT
4873202 TTAAATTTTGAATACTATAATTTGTATTTTAAA
1 TTAAATTTTGAATACTATAATTTGTATTTTAAA
4873235 AATATTTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (34 bp):
TTAAATTTTGAATACTATAATTTGTATTTTAAAT
Found at i:4873787 original size:21 final size:20
Alignment explanation
Indices: 4873758--4873827 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
4873748 GGTATAAAAC
* *
4873758 CCTGTGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
4873778 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
4873799 CCCTGCGGGCTAGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
4873820 CCCTGCGG
1 -CCTGCGG
4873828 AGATGACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.20, C:0.24, G:0.36, T:0.20
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:4875698 original size:32 final size:32
Alignment explanation
Indices: 4875628--4875709 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 32
4875618 AAATTTAAAT
*
4875628 AAATAATAATTATATAAATATTATTTTAATAA
1 AAATAATAATTATATAAATATTATTATAATAA
* *
4875660 AAATAATATTTATATAATTA-TATTA-ATATAA
1 AAATAATAATTATATAAATATTATTATA-ATAA
* *
4875691 AATATAATAACTATTTAAA
1 AA-ATAATAATTATATAAA
4875710 AAAATAAATG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
30 1 0.02
31 10 0.24
32 30 0.73
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
AAATAATAATTATATAAATATTATTATAATAA
Found at i:4876007 original size:60 final size:60
Alignment explanation
Indices: 4875902--4876033 Score: 169
Period size: 60 Copynumber: 2.2 Consensus size: 60
4875892 TTAATGAAAG
* * *
4875902 GCGCGTTCCCGGGGATGCGCCTTTCACACGTGGCAATTAAATCAGC-AAAATAAAGGTAAA
1 GCGCGTCCCCGGGGATACGCCTTTCACACGTGGCAATCAAATCAGCGAAAAT-AAGGTAAA
* *
4875962 GCGCGTCCCCGGGGATACGCCTTTCACACGTGGC-ATCCAACTCAGCGTAAAATCAGGTAAA
1 GCGCGTCCCCGGGGATACGCCTTTCACACGTGGCAAT-CAAATCAGCG-AAAATAAGGTAAA
*
4876023 ACGCGTCCCCG
1 GCGCGTCCCCG
4876034 ACGATGCGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
59 2 0.03
60 39 0.62
61 17 0.27
62 5 0.08
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (60 bp):
GCGCGTCCCCGGGGATACGCCTTTCACACGTGGCAATCAAATCAGCGAAAATAAGGTAAA
Found at i:4877039 original size:23 final size:23
Alignment explanation
Indices: 4877013--4877060 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4877003 ATAAAGTACA
*
4877013 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
4877036 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
4877059 AT
1 AT
4877061 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:4877514 original size:23 final size:23
Alignment explanation
Indices: 4877488--4877550 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
4877478 ATATAACCAC
4877488 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
4877511 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
4877534 TACCTATTACATCATAT
1 TACCTATTACATTATAT
4877551 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4877982 original size:431 final size:428
Alignment explanation
Indices: 4877127--4877915 Score: 1112
Period size: 431 Copynumber: 1.8 Consensus size: 428
4877117 TATTACATTA
*
4877127 TATTATATTGAAAGTGTCCATATTTTTTATAAAAATGATCGATACTTCTTTTAAAATTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAATTATGTAAT
* *
4877192 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCTACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
4877257 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
131 ATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
4877322 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
196 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
** **** * * **
4877387 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
261 CTTAAAACTCACTCAAAAGATAACCTTAAAACAATGAGAACCACAGAGAAAAAACTATCCACAC-
* * * * *** * * * *
4877452 TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
325 -TAATAAAAACGAGAGAAACCCAACAATATAACAACTACATATTACAATATATAAAC-ATAACTA
* *
4877517 TTACATTATATAAGCGCTACCTATTACATCATATGTTTACC
388 TTACATTATATAACCGCTACCTATGACATCATATGTTTACC
* *
4877558 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATATTTTTTTTAAAAGTTATGTAA
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAA-TTATGTAA
4877623 TTTATGTTTCAA-TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
65 TTTATGTTTCAATTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
4877687 CATTTACACAAAAAATTA-TTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATT
130 CATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATT
4877751 TAATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
195 TAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATA
* * * *
4877814 TCTTAAAACTCACTCAAAGGATAACCTTAAGAACACTTGAAGAAGCA-AGAG-AACAACTATCCA
260 TCTTAAAACTCACTCAAAAGATAACCTTAA-AACA-ATG-AGAACCACAGAGAAAAAACTATCCA
4877877 -AGC-AATCAAAAACGAGA-AAATCCCAAC-ATGATAACAACT
322 CA-CTAAT-AAAAACGAGAGAAA-CCCAACAAT-ATAACAACT
4877916 GAACATATCA
Statistics
Matches: 322, Mismatches: 28, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
426 6 0.02
427 19 0.06
428 85 0.26
429 12 0.04
430 58 0.18
431 122 0.38
432 20 0.06
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (428 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAATTATGTAAT
TTATGTTTCAATTTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
CTTAAAACTCACTCAAAAGATAACCTTAAAACAATGAGAACCACAGAGAAAAAACTATCCACACT
AATAAAAACGAGAGAAACCCAACAATATAACAACTACATATTACAATATATAAACATAACTATTA
CATTATATAACCGCTACCTATGACATCATATGTTTACC
Found at i:4878005 original size:39 final size:39
Alignment explanation
Indices: 4877951--4878037 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
4877941 TCAAGTTGTA
*
4877951 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
4877990 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
4878029 GATTTTGAT
1 GATTTTGAT
4878038 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:4878316 original size:18 final size:18
Alignment explanation
Indices: 4878293--4878329 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4878283 GCCGAAATAT
4878293 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
4878311 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
4878329 A
1 A
4878330 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:4878752 original size:25 final size:25
Alignment explanation
Indices: 4878718--4878768 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
4878708 TTTTTCCAAA
*
4878718 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
4878743 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
4878768 T
1 T
4878769 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:4879095 original size:22 final size:23
Alignment explanation
Indices: 4879034--4879105 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
4879024 ACACTTTACA
* *
4879034 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
4879057 ATATAAACGATACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
4879080 ATAT-AGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
4879102 ATAT
1 ATAT
4879106 GTTTACCTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 19 0.44
23 24 0.56
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:4879557 original size:23 final size:23
Alignment explanation
Indices: 4879531--4879593 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
4879521 ATATAACCAC
4879531 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
4879554 TACCTATTATATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
4879577 TACCTATTACATCATAT
1 TACCTATTACATTATAT
4879594 GTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4880045 original size:23 final size:23
Alignment explanation
Indices: 4880018--4880080 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
4880008 ATACAACCAC
4880018 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
4880041 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
4880064 TACCTATTACATCATAT
1 TACCTATTACATTATAT
4880081 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4880535 original size:23 final size:23
Alignment explanation
Indices: 4880507--4880566 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
4880497 ATAACCACTA
4880507 CTATTACATTATATAAACGATAC
1 CTATTACATTATATAAACGATAC
* *
4880530 CTATTACATTATATAAGCGCTAC
1 CTATTACATTATATAAACGATAC
*
4880553 CTATTACATCATAT
1 CTATTACATTATAT
4880567 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (23 bp):
CTATTACATTATATAAACGATAC
Found at i:4880604 original size:486 final size:490
Alignment explanation
Indices: 4878871--4881883 Score: 5662
Period size: 486 Copynumber: 6.2 Consensus size: 490
4878861 ATATTTAGAA
*
4878871 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4878936 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
4879001 TATGGACACTTTTAT-AAAA--ATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
4879063 ACGATACCTATTACATTATAT-AGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
4879127 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
*
4879192 TTTTTAACAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTACACAAAAAA
326 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
4879257 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
391 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
*
4879322 AGATAATAATAAATATGTAATATATATCTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
* *
4879357 TTTTTAATTTAATAATAAAATATACCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4879422 AAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
4879485 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
*
4879550 ACGATACCTATTATATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
4879615 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
4879680 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
326 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
4879745 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
391 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
4879810 AGATAATAATAAATATGTAATATATATGTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
*
4879845 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4879910 -AATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
4879973 TATGGACACTTTTAT-AAAAGGATAGACACTTTACAATACAACCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
4880037 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
4880102 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTTCAAT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATG-TTTCAAT
4880167 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
325 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
*
4880232 ATTATTTGAATGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCA
390 ATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCA
4880297 AAGATAATAAT-AATATGT-A-ATATATGTTTATTG
455 AAGATAATAATAAATATGTAATATATATGTTTATTG
4880330 TTTTTAATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4880394 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
4880459 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTA-CTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
4880523 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
*
4880588 TGTCCATACTTTTTATAAAAAGGATCGATATTTTTTTTTAAAAGTTATGTAATTTATGTTTCAAT
261 TGTCCATACTTTTTATAAAAAGGATCGATA-CTTTTTTTAAAAGTTATGTAATTTATGTTTCAAT
4880653 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAA
325 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
4880717 ATTA-TTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCA
390 ATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCA
4880781 AAGATAATAAT-AATATGTAATATATATGTTTATTG
455 AAGATAATAATAAATATGTAATATATATGTTTATTG
4880816 TTTTTAA-TTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4880880 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* *
4880945 TATGGACACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTATCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
*
4881010 ACGATACCTATTACATTATATAAGCGCGACCTATTACATCATATGTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
4881075 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAA-T
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
4881139 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAA
326 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
*
4881203 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAGCATTAACCAA
391 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
4881268 AGATAATAATAAATATGT-A-ATATATGTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
4881301 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4881366 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* *
4881431 TATGAACATTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
*
4881496 ACGATATCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
* *
4881561 TATCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAATTTATGTAATTTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
4881626 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
326 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
4881691 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
391 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
4881756 AGATAATAATAAATATGTAATATATAT-TTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
4881790 TTTTTAATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
4881853 AAATTAATATCTTAAAACTCACTCAAAAGAT
66 AAATTAATATCTTAAAACTCACTCAAAAGAT
4881884 GTATATACCT
Statistics
Matches: 2477, Mismatches: 29, Indels: 41
0.97 0.01 0.02
Matches are distributed among these distances:
484 129 0.05
485 229 0.09
486 894 0.36
487 606 0.24
488 589 0.24
489 24 0.01
490 6 0.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.40
Consensus pattern (490 bp):
TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
AGATAATAATAAATATGTAATATATATGTTTATTG
Done.