Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 39
Found at i:3833084 original size:60 final size:60
Alignment explanation
Indices: 3832965--3833084 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
3832955 CCCGAAGGAC
** *
3832965 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCAAAAAGGTCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCAAAAAGAACCTAGGTAA
* * ***
3833025 CTATCCAGAGGTCATAAAGATCCTCGGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCAAAAAGAACCTAGGTAA
3833085 ACTGTCCATA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (60 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCAAAAAGAACCTAGGTAA
Found at i:3833091 original size:31 final size:31
Alignment explanation
Indices: 3833053--3833117 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
3833043 GATCCTCGGT
*
3833053 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
* * **
3833084 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
3833115 AAC
1 AAC
3833118 CCTCGACTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAGAACATAGGTA
Found at i:3842258 original size:88 final size:88
Alignment explanation
Indices: 3842101--3842420 Score: 462
Period size: 88 Copynumber: 3.6 Consensus size: 88
3842091 AGACCATACA
* * *
3842101 GATCTAAGGATACCCTTGGGTAGACCATAGGCCCCAAGGCATATCCTTAGGTTGGTTACATTTAA
1 GATCTAAGGATACCCTTGGGTAGGCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTACCTTTGA
*
3842166 TGTGTACTTAAGGTAACCCTACG
66 TGTGTGCTTAAGGTAACCCTACG
* *
3842189 GATCTAAGGATATCCTTGGGTAGGCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTACCTTTGT
1 GATCTAAGGATACCCTTGGGTAGGCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTACCTTTGA
*
3842254 TGTGTGCTTAA-GTAACCCTACA
66 TGTGTGCTTAAGGTAACCCTACG
* * * *
3842276 GATCTAAGGATATCCTTGGGTAGGCTCATATGCCCCAAGGTATATCCTTAGGTTGGTTCCCTTTG
1 GATCTAAGGATACCCTTGGGTAGGC-CATAGGCCCCAAGGCATATCCTTAGGTTGGTTACCTTTG
* * *
3842341 CTGTGTGCTTAGGGTAACCCTATG
65 ATGTGTGCTTAAGGTAACCCTACG
* * *
3842365 GACCTAAGGATACCCTTGGGTAGGCCCATAAGCCCCAAGGTATATCCTTAGGTTGG
1 GATCTAAGGATACCCTTGGGTAGG-CCATAGGCCCCAAGGCATATCCTTAGGTTGG
3842421 CTCCCCTTTT
Statistics
Matches: 212, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
87 35 0.17
88 116 0.55
89 60 0.28
90 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (88 bp):
GATCTAAGGATACCCTTGGGTAGGCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTACCTTTGA
TGTGTGCTTAAGGTAACCCTACG
Found at i:3842403 original size:89 final size:89
Alignment explanation
Indices: 3842101--3842460 Score: 456
Period size: 88 Copynumber: 4.0 Consensus size: 89
3842091 AGACCATACA
* * *
3842101 GATCTAAGGATACCCTTGGGTA-GACCATAGGCCCCAAGGCATATCCTTAGGTTGGTTACATTTA
1 GATCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTACCTTTG
* * *
3842165 ATGTGTACTTAAGGTAACCCTACG
66 CTGTGTGCTTAGGGTAACCCTACG
*
3842189 GATCTAAGGATATCCTTGGGTAGG-CCATAGGCCCCAAGGCATATCCTTAGGTTGGTTACCTTTG
1 GATCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTACCTTTG
* * *
3842253 TTGTGTGCTTA-AGTAACCCTACA
66 CTGTGTGCTTAGGGTAACCCTACG
* * * * *
3842276 GATCTAAGGATATCCTTGGGTAGGCTCATATGCCCCAAGGTATATCCTTAGGTTGGTTCCCTTTG
1 GATCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTACCTTTG
*
3842341 CTGTGTGCTTAGGGTAACCCTATG
66 CTGTGTGCTTAGGGTAACCCTACG
* * * **
3842365 GACCTAAGGATACCCTTGGGTAGGCCCATAAGCCCCAAGGTATATCCTTAGGTTGGCTCCCCTTT
1 GATCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGG-TTACC--T
* *
3842430 TTGCTGTGTGCTGAGGGGAAGCCCTACG
63 TTGCTGTGTGCTTAGGGTAA-CCCTACG
3842458 GAT
1 GAT
3842461 GCAGTTCTGA
Statistics
Matches: 241, Mismatches: 24, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
87 34 0.14
88 114 0.47
89 62 0.26
90 4 0.02
92 19 0.08
93 8 0.03
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (89 bp):
GATCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAGGTTGGTTACCTTTG
CTGTGTGCTTAGGGTAACCCTACG
Found at i:3842557 original size:13 final size:14
Alignment explanation
Indices: 3842532--3842560 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3842522 ATTATATCTT
3842532 TTCACTGGTTTTGA
1 TTCACTGGTTTTGA
3842546 TTCACT-GTTTTGA
1 TTCACTGGTTTTGA
3842559 TT
1 TT
3842561 GGAACATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.55
Consensus pattern (14 bp):
TTCACTGGTTTTGA
Found at i:3848027 original size:6 final size:6
Alignment explanation
Indices: 3848016--3848060 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
3848006 CTCATTAGTC
* * *
3848016 CAATGG CAATGG CAATGG GAACGG CAATAG CAAATGG CAATGG CA
1 CAATGG CAATGG CAATGG CAATGG CAATGG C-AATGG CAATGG CA
3848061 CAGTACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.38, C:0.18, G:0.31, T:0.13
Consensus pattern (6 bp):
CAATGG
Found at i:3864150 original size:8 final size:8
Alignment explanation
Indices: 3864126--3864200 Score: 60
Period size: 8 Copynumber: 8.6 Consensus size: 8
3864116 TGTTTGAAGA
3864126 GAAAAAAT
1 GAAAAAAT
**
3864134 GAATGAAT
1 GAAAAAAT
3864142 GAAAAAAT
1 GAAAAAAT
3864150 GAAAAAAAT
1 G-AAAAAAT
3864159 GAAAAAAAAT
1 G--AAAAAAT
*
3864169 GAAAAAAGAA
1 G-AAAAA-AT
3864179 GAAAAAAAT
1 G-AAAAAAT
*
3864188 GAAAAAAA
1 GAAAAAAT
3864196 GAAAA
1 GAAAA
3864201 GAAAATGAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
8 24 0.42
9 16 0.28
10 17 0.30
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (8 bp):
GAAAAAAT
Found at i:3864157 original size:9 final size:9
Alignment explanation
Indices: 3864139--3864200 Score: 83
Period size: 9 Copynumber: 6.9 Consensus size: 9
3864129 AAAATGAATG
3864139 AATG-AAAA
1 AATGAAAAA
3864147 AATGAAAAA
1 AATGAAAAA
3864156 AATGAAAAAA
1 AATG-AAAAA
3864166 AATGAAAAA
1 AATGAAAAA
*
3864175 AGAAGAAAAA
1 A-ATGAAAAA
3864185 AATGAAAAA
1 AATGAAAAA
3864194 AA-GAAAA
1 AATGAAAA
3864201 GAAAATGAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
8 9 0.18
9 23 0.47
10 17 0.35
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (9 bp):
AATGAAAAA
Found at i:3864159 original size:17 final size:17
Alignment explanation
Indices: 3864126--3864200 Score: 73
Period size: 19 Copynumber: 4.3 Consensus size: 17
3864116 TGTTTGAAGA
**
3864126 GAAAAAATG-AATGAAT
1 GAAAAAATGAAAAAAAT
3864142 GAAAAAATGAAAAAAAT
1 GAAAAAATGAAAAAAAT
*
3864159 GAAAAAAAATGAAAAAAGAA
1 G--AAAAAATGAAAAAA-AT
3864179 GAAAAAAATGAAAAAAA-
1 G-AAAAAATGAAAAAAAT
3864196 GAAAA
1 GAAAA
3864201 GAAAATGAGG
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
16 13 0.25
17 7 0.13
18 1 0.02
19 29 0.56
20 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (17 bp):
GAAAAAATGAAAAAAAT
Found at i:3864167 original size:19 final size:18
Alignment explanation
Indices: 3864143--3864208 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 18
3864133 TGAATGAATG
3864143 AAAAAATGAAAAAAATGAA
1 AAAAAATGAAAAAAA-GAA
3864162 AAAAAATG-AAAAAAGAAGA
1 AAAAAATGAAAAAAAG-A-A
3864181 AAAAAATGAAAAAAAGAA
1 AAAAAATGAAAAAAAGAA
3864199 AAGAAAATGA
1 AA-AAAATGA
3864209 GGATTCGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.02
18 10 0.23
19 25 0.58
20 7 0.16
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.08
Consensus pattern (18 bp):
AAAAAATGAAAAAAAGAA
Found at i:3865318 original size:105 final size:105
Alignment explanation
Indices: 3865130--3865399 Score: 461
Period size: 105 Copynumber: 2.6 Consensus size: 105
3865120 CAACAACTAT
*
3865130 AATTCACCCCAGAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCT
1 AATTCACCCCAGAAGGAGGTGAATCAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCGTCCT
* *
3865195 AAAGGAGAAGGTTTGTAATGAGAAGATCTTGTTCCTTTCA
66 AAAGGAGAAGATTCGTAATGAGAAGATCTTGTTCCTTTCA
* *
3865235 AATTCACCCCAGAAGAAGGTGAATTAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCGTCCT
1 AATTCACCCCAGAAGGAGGTGAATCAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCGTCCT
3865300 AAAGGA-ACAGATTCGTAATGAGAAGATCTTGTTCCTTTCA
66 AAAGGAGA-AGATTCGTAATGAGAAGATCTTGTTCCTTTCA
* *
3865340 AATTCATCCCAGAAGGAGGTGAATCAACATTTCTAGAAGAGTTCATAATGAGAATAACTC
1 AATTCACCCCAGAAGGAGGTGAATCAACATTTCTAGAAGAGTTCATAATGAGAAGAACTC
3865400 ATCCGACAAA
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
104 1 0.01
105 154 0.99
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (105 bp):
AATTCACCCCAGAAGGAGGTGAATCAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCGTCCT
AAAGGAGAAGATTCGTAATGAGAAGATCTTGTTCCTTTCA
Found at i:3865445 original size:105 final size:104
Alignment explanation
Indices: 3865130--3865433 Score: 402
Period size: 105 Copynumber: 2.9 Consensus size: 104
3865120 CAACAACTAT
*
3865130 AATTCACCCCAGAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCT
1 AATTCACCCCAGAAGGAGGTGAATCAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCGTCCT
*
3865195 AAAGGAG-A-AGGTTTGTAATGAGAAGATCTTGTTCCTTTCA
66 AAAGGAGAAGAGGTTCGTAATGAGAAGATC-T-TT-CTTTCA
* *
3865235 AATTCACCCCAGAAGAAGGTGAATTAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCGTCCT
1 AATTCACCCCAGAAGGAGGTGAATCAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCGTCCT
3865300 AAAGGA-ACAGA--TTCGTAATGAGAAGATCTTGTTCCTTTCA
66 AAAGGAGA-AGAGGTTCGTAATGAGAAGATC-T-TT-CTTTCA
* * *
3865340 AATTCATCCCAGAAGGAGGTGAATCAACATTTCTAGAAGAGTTCATAATGAGAATAACTCATCCG
1 AATTCACCCCAGAAGGAGGTGAATCAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCGT-C-
* *
3865405 ACAAAAGGAGAAGAGGTTCATAATGAGAA
64 -CTAAAGGAGAAGAGGTTCGTAATGAGAA
3865434 TAACTTATTC
Statistics
Matches: 179, Mismatches: 11, Indels: 13
0.88 0.05 0.06
Matches are distributed among these distances:
105 153 0.85
106 2 0.01
107 1 0.01
108 10 0.06
109 1 0.01
110 12 0.07
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (104 bp):
AATTCACCCCAGAAGGAGGTGAATCAACATTTCTAGAAGAGTTCATAATGAGAAGAACTCGTCCT
AAAGGAGAAGAGGTTCGTAATGAGAAGATCTTTCTTTCA
Found at i:3870550 original size:112 final size:112
Alignment explanation
Indices: 3870353--3870555 Score: 343
Period size: 112 Copynumber: 1.8 Consensus size: 112
3870343 CTTCTTGTAA
* *
3870353 GGTTCCATATTGGATTAATGCTATGAAGGAGGAAATTCAGGCTCTAGAATTAAACAACATGTGGC
1 GGTTCCACATTGGATTAATGCTATGAAGGAGGAAATTCAGGCTCTAGAATTAAACAACACGTGGC
3870418 CTGTTGTTGCTTTGCCACATGGTAAGGGTCCTATTGGTTGAAAATGG
66 CTGTTGTTGCTTTGCCACATGGTAAGGGTCCTATTGGTTGAAAATGG
* * * *
3870465 GGTTCCACGTTGGATTAATGCTATGAAGGAGTAAATTCAGGCTCTAGAATTAAATAACACGTGGT
1 GGTTCCACATTGGATTAATGCTATGAAGGAGGAAATTCAGGCTCTAGAATTAAACAACACGTGGC
*
3870530 CTGTTGTTTCTTTGCCACATGGTAAG
66 CTGTTGTTGCTTTGCCACATGGTAAG
3870556 TGTTAATACA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 84 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (112 bp):
GGTTCCACATTGGATTAATGCTATGAAGGAGGAAATTCAGGCTCTAGAATTAAACAACACGTGGC
CTGTTGTTGCTTTGCCACATGGTAAGGGTCCTATTGGTTGAAAATGG
Found at i:3870639 original size:37 final size:37
Alignment explanation
Indices: 3870589--3870672 Score: 123
Period size: 37 Copynumber: 2.3 Consensus size: 37
3870579 CTAAGATTCG
* *
3870589 AACTCCTAAAAATAGGATAAACTTTTGCTAGGATTTA
1 AACTCCTAAAAATAGGATAAACTTCTACTAGGATTTA
* * *
3870626 AACTCCTAAAAATAGGATAGAGTTCTACTATGATTTA
1 AACTCCTAAAAATAGGATAAACTTCTACTAGGATTTA
3870663 AACTCCTAAA
1 AACTCCTAAA
3870673 GATAAGATCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (37 bp):
AACTCCTAAAAATAGGATAAACTTCTACTAGGATTTA
Found at i:3871369 original size:25 final size:25
Alignment explanation
Indices: 3871298--3871350 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 25
3871288 TTATTCTACT
*
3871298 TATTATATTATATATGTATATTTTTTA
1 TATTTTATTAT-TAT-TATATTTTTTA
3871325 TATTTTATTATTATTATATTTTTTA
1 TATTTTATTATTATTATATTTTTTA
3871350 T
1 T
3871351 TTTCTCTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 12 0.48
26 3 0.12
27 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (25 bp):
TATTTTATTATTATTATATTTTTTA
Found at i:3871387 original size:12 final size:11
Alignment explanation
Indices: 3871357--3871392 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
3871347 TTATTTTCTC
*
3871357 TTCTTTTATTA
1 TTCTTGTATTA
3871368 TTCTTGTATTA
1 TTCTTGTATTA
3871379 TTACTTGTATTA
1 TT-CTTGTATTA
3871391 TT
1 TT
3871393 TTTATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.67
Consensus pattern (11 bp):
TTCTTGTATTA
Found at i:3871759 original size:59 final size:59
Alignment explanation
Indices: 3871681--3871802 Score: 244
Period size: 59 Copynumber: 2.1 Consensus size: 59
3871671 TTGTCCCCAC
3871681 CCCTCATCATTTTTTTCTTCCTCTCAATTATACTTCACCAAACCTTACTTTCTTTTCTT
1 CCCTCATCATTTTTTTCTTCCTCTCAATTATACTTCACCAAACCTTACTTTCTTTTCTT
3871740 CCCTCATCATTTTTTTCTTCCTCTCAATTATACTTCACCAAACCTTACTTTCTTTTCTT
1 CCCTCATCATTTTTTTCTTCCTCTCAATTATACTTCACCAAACCTTACTTTCTTTTCTT
3871799 CCCT
1 CCCT
3871803 TTTTGGTGTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.18, C:0.34, G:0.00, T:0.48
Consensus pattern (59 bp):
CCCTCATCATTTTTTTCTTCCTCTCAATTATACTTCACCAAACCTTACTTTCTTTTCTT
Found at i:3876674 original size:12 final size:12
Alignment explanation
Indices: 3876656--3876708 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
3876646 CAAAAAAGGC
3876656 AAAAAGAA-AAA
1 AAAAAGAACAAA
3876667 AGAAAAGAAGCAAA
1 A-AAAAGAA-CAAA
*
3876681 AAATAAGAAAAAA
1 AAA-AAGAACAAA
3876694 AAGAAAGAACAAA
1 AA-AAAGAACAAA
3876707 AA
1 AA
3876709 TCAAAAAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
11 1 0.03
12 7 0.20
13 17 0.49
14 10 0.29
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.02
Consensus pattern (12 bp):
AAAAAGAACAAA
Found at i:3876720 original size:26 final size:29
Alignment explanation
Indices: 3876642--3876722 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 29
3876632 AGATTCAATC
*
3876642 AGAA-CAAAAAAGGCAAAAAGAAAAAAGAAA
1 AGAAGCAAAAAA-TCAAAAAG-AAAAAGAAA
3876672 AGAAGCAAAAAAT-AAGAAA-AAAAAG-AA
1 AGAAGCAAAAAATCAA-AAAGAAAAAGAAA
3876699 AGAA-C-AAAAATCAAAAAGAAAAAG
1 AGAAGCAAAAAATCAAAAAGAAAAAG
3876723 GGACAAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
25 9 0.20
26 9 0.20
27 6 0.13
28 6 0.13
29 2 0.04
30 7 0.15
31 7 0.15
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (29 bp):
AGAAGCAAAAAATCAAAAAGAAAAAGAAA
Found at i:3877350 original size:22 final size:22
Alignment explanation
Indices: 3877324--3877365 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
3877314 GCTACCCCAT
3877324 CAAACCTTTGAGCATCAAATCC
1 CAAACCTTTGAGCATCAAATCC
3877346 CAAACCTTTGAGCATCAAAT
1 CAAACCTTTGAGCATCAAAT
3877366 ACTACACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATCC
Found at i:3877374 original size:22 final size:22
Alignment explanation
Indices: 3877324--3877378 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
3877314 GCTACCCCAT
*
3877324 CAAACCTTTGAGCATCAAATCC
1 CAAACCTTTGAGCATCAAATAC
3877346 CAAACCTTTGAGCATCAAATAC
1 CAAACCTTTGAGCATCAAATAC
* *
3877368 TACACCTTTGA
1 CAAACCTTTGA
3877379 CCAAACACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATAC
Found at i:3877828 original size:18 final size:18
Alignment explanation
Indices: 3877793--3877828 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3877783 TCAACATCAA
**
3877793 ATATTGGGGCATTTTTTG
1 ATATTGGGGCATCATTTG
3877811 ATATTGGGGCATCATTTG
1 ATATTGGGGCATCATTTG
3877829 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.28, T:0.44
Consensus pattern (18 bp):
ATATTGGGGCATCATTTG
Found at i:3878396 original size:106 final size:106
Alignment explanation
Indices: 3878188--3879244 Score: 1504
Period size: 106 Copynumber: 10.0 Consensus size: 106
3878178 ATATCGTGCC
* * * * * *
3878188 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
3878252 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
3878293 ACTCCAGACAACGCAAGTTTAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
3878358 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
3878399 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGTGACCGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
3878464 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
3878505 ACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
3878570 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
3878611 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
3878676 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
3878717 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
3878782 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
3878823 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
3878888 AATTTTAGAGCCAATTTCAACTTCACAACGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
3878929 ACTCAAGACAACTCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * *
3878994 AATTTCAGAGCCAATTTTAACTTCTCAGCGAAGGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
3879035 AC-CCAAGGCAACACAAGCTCAACTTCACGACGAAGAGG-CGGCTGATTGTCAAC-AA-AA-TT-
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAACAAACAACTTC
* * * *
3879094 TC-A-CTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
3879135 ACTCGAGACAACACAAGTTTAACTTCACAAAGAAGGGA-CGACTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
** * * *
3879199 CGGTTCCAGAGCTAATTTCAACTTCACGACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
3879241 ACTC
1 ACTC
3879245 AGAACAATGC
Statistics
Matches: 858, Mismatches: 82, Indels: 23
0.89 0.09 0.02
Matches are distributed among these distances:
99 3 0.00
100 70 0.08
101 4 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 50 0.06
106 719 0.84
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:3880029 original size:37 final size:37
Alignment explanation
Indices: 3879977--3880080 Score: 163
Period size: 37 Copynumber: 2.8 Consensus size: 37
3879967 ATTTTCGTTC
*
3879977 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTT
* *
3880014 TTCTAGGATTTAAACTCCTAAAAATAGGATAGAGTTT
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTT
* *
3880051 TACTATGATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTTAAACTCCTAAAAATAGGAT
3880081 CCACAAGCAC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (37 bp):
TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTT
Found at i:3880525 original size:2 final size:2
Alignment explanation
Indices: 3880518--3880571 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
3880508 TTAATTAGTT
3880518 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
3880560 TA TA TA TA TA TA
1 TA TA TA TA TA TA
3880572 CTACTTGCTA
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):
TA
Found at i:3880758 original size:28 final size:28
Alignment explanation
Indices: 3880665--3880781 Score: 85
Period size: 30 Copynumber: 3.9 Consensus size: 28
3880655 TTCTTTGCAT
* *
3880665 TTTTATTATTACTATTATATTTATTATTA
1 TTTTATTATTATTATTATATTTTTTA-TA
* * * *
3880694 TTTTTACTATTA-TATTTTCCTTTTATTCTA
1 -TTTTATTATTATTATTAT-ATTTT-TTATA
3880724 CTTATT-TATATTATATATGTATATTTTTTATA
1 -TT-TTAT-TATTAT-TAT-TATATTTTTTATA
3880756 TTTTATTATTATTATTATATTTTTTA
1 TTTTATTATTATTATTATATTTTTTA
3880782 CTTTCTCTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
28 11 0.16
29 8 0.12
30 25 0.36
31 12 0.17
32 4 0.06
33 7 0.10
34 2 0.03
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (28 bp):
TTTTATTATTATTATTATATTTTTTATA
Found at i:3880819 original size:12 final size:11
Alignment explanation
Indices: 3880797--3880837 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
3880787 TCTTTCTTTT
3880797 TATTATTCTTG
1 TATTATTCTTG
3880808 TATTATTACTTG
1 TATTATT-CTTG
* *
3880820 TATTATTTTTA
1 TATTATTCTTG
3880831 TATTATT
1 TATTATT
3880838 TATTTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:3880855 original size:2 final size:2
Alignment explanation
Indices: 3880848--3880888 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3880838 TATTTTGTTT
3880848 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3880889 GCGTATGTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3881272 original size:19 final size:21
Alignment explanation
Indices: 3881236--3881277 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
3881226 ATATTATTGT
*
3881236 TATATATCATTTACTATTATA
1 TATATATCATATACTATTATA
*
3881257 TATATAT-ATATA-TATTCTA
1 TATATATCATATACTATTATA
3881276 TA
1 TA
3881278 CAAGTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 8 0.42
20 4 0.21
21 7 0.37
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (21 bp):
TATATATCATATACTATTATA
Found at i:3881606 original size:2 final size:2
Alignment explanation
Indices: 3881599--3881647 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
3881589 CTTTTTCTTT
3881599 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
3881641 TA TA TA T
1 TA TA TA T
3881648 TTACTTACTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3888380 original size:192 final size:193
Alignment explanation
Indices: 3887752--3888407 Score: 862
Period size: 194 Copynumber: 3.4 Consensus size: 193
3887742 ACGCTTATAT
* * *
3887752 GACATATTCTATCATAAAACCGG--TATTTATACTGGTAACATTGCAAATTTACCTATTACATTA
1 GACATATT-TCTCATAAAACCGGTATATTTATACCGGT-ACATTGTAAATTTACCTATTACATTA
* * * *
3887815 TAATTA-CGGTTTCAATGTTTTTGGATCGATGCAATTTT-A-AATGTATCGACATTTTATGTGTG
64 TAATTATCGGTTTCGATGTTTTGGGATCGAT--ACTTTTAATAATGTATCGACACTTTATGTGTG
*
3887877 CA-CTCGTTGGCATTCATTCTGGAAAAAAGTATCGACACAACTTAAAACGTGTCGATACATTATG
127 CACCTCGTTGGCATTCATTCTGGAAAAAAGTATCGACACAACTTAAAATGTGTCGATACATTATG
3887941 T-
192 TA
* * *
3887942 GACCTATTTCTCATAAAACCGGTATATTTCTACCGGTACATTGTAAATTTACCTATTACATTGTA
1 GACATATTTCTCATAAAACCGGTATATTTATACCGGTACATTGTAAATTTACCTATTACATTATA
*
3888007 ATTATCGGTTT-GAATTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCA
66 ATTATCGGTTTCG-ATGTTTTGGGATCGATACTTTTAAT-AATGTATCGACACTTTATGTGTGCA
3888071 CCTCGTTGGACATTCATTCTGGAAAAAAGTATCGACACAACTTAAAATGTGTCGATACATTATGT
129 CCTCGTTGG-CATTCATTCTGGAAAAAAGTATCGACACAACTTAAAATGTGTCGATACATTATGT
3888136 A
193 A
* * *
3888137 GACAT-TTTCTCATAAAACCGATATATTTCTACCGAGTACATTGTAAATTTACCTATTACATTGT
1 GACATATTTCTCATAAAACCGGTATATTTATACCG-GTACATTGTAAATTTACCTATTACATTAT
*
3888201 AATTATC-GTTTCGATGTTTTGGGATCG-TACTTTTAATAATGTATCGACACTTTATGCGTGCAC
65 AATTATCGGTTTCGATGTTTTGGGATCGATACTTTTAATAATGTATCGACACTTTATGTGTGCAC
* * *** *
3888264 CTCATTTGGCATTCATTCTGGACAAAATGTATCGACACTTTTTAAATTTGTGTCGATACATTATG
130 CTC-GTTGGCATTCATTCTGGA-AAAAAGTATCGACACAACTTAAA-ATGTGTCGATACATTATG
3888329 TA
192 TA
*
3888331 GACATATTCTCTCAT-AAA-CGGTATA-TTATACTGGTTACATTGT-AATTTACCTATT--ATTA
1 GACATATT-TCTCATAAAACCGGTATATTTATACCGG-TACATTGTAAATTTACCTATTACATTA
3888390 T-ATTATCGGTTTCGATGT
64 TAATTATCGGTTTCGATGT
3888408 AACATATGTG
Statistics
Matches: 421, Mismatches: 26, Indels: 38
0.87 0.05 0.08
Matches are distributed among these distances:
189 24 0.06
190 52 0.12
191 31 0.07
192 78 0.19
193 55 0.13
194 129 0.31
195 46 0.11
196 6 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (193 bp):
GACATATTTCTCATAAAACCGGTATATTTATACCGGTACATTGTAAATTTACCTATTACATTATA
ATTATCGGTTTCGATGTTTTGGGATCGATACTTTTAATAATGTATCGACACTTTATGTGTGCACC
TCGTTGGCATTCATTCTGGAAAAAAGTATCGACACAACTTAAAATGTGTCGATACATTATGTA
Found at i:3888520 original size:15 final size:15
Alignment explanation
Indices: 3888500--3888548 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
3888490 TCTTATTATA
3888500 ATAATAAATATAATT
1 ATAATAAATATAATT
* *
3888515 ATAAT-AATTTTATT
1 ATAATAAATATAATT
* *
3888529 TTAATAAATATAATC
1 ATAATAAATATAATT
3888544 ATAAT
1 ATAAT
3888549 TTTTATTATA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:3888527 original size:29 final size:28
Alignment explanation
Indices: 3888495--3888589 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 28
3888485 ATTATTCTTA
3888495 TTATAATAATAAATATAATTATAATAATT
1 TTATAATAATAAATATAATTATAAT-ATT
** *
3888524 TTATTTTAATAAATATAATCATAAT-TT
1 TTATAATAATAAATATAATTATAATATT
* *
3888551 TTATTATAA-AATTATAGA-TATAATATT
1 TTATAATAATAAATATA-ATTATAATATT
3888578 TTAATAATAATA
1 TT-ATAATAATA
3888590 TTGACATAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 11 0.20
27 15 0.27
28 6 0.11
29 23 0.42
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
TTATAATAATAAATATAATTATAATATT
Found at i:3888646 original size:20 final size:20
Alignment explanation
Indices: 3888623--3888663 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3888613 ATTATTCTAA
3888623 TATTTTAAAAATAATATTAT
1 TATTTTAAAAATAATATTAT
***
3888643 TATTTTTTTAATAATATTAT
1 TATTTTAAAAATAATATTAT
3888663 T
1 T
3888664 TATTGTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTTAAAAATAATATTAT
Found at i:3889360 original size:22 final size:22
Alignment explanation
Indices: 3889298--3889360 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
3889288 AATTAGATAT
*
3889298 TATTTTAATAATAATATTTCTAA
1 TATTTTAAAAATAATA-TTCTAA
* *
3889321 -ATAATTAAATAA-ATTATTCTAA
1 TAT-TTTAAA-AATAATATTCTAA
3889343 TATTTTAAAAATAATATT
1 TATTTTAAAAATAATATT
3889361 ATTTTGTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
21 2 0.06
22 18 0.58
23 9 0.29
24 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTTTAAAAATAATATTCTAA
Found at i:3889370 original size:20 final size:20
Alignment explanation
Indices: 3889347--3889385 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3889337 TTCTAATATT
3889347 TTAAAAATAATATTATTTTG
1 TTAAAAATAATATTATTTTG
* *
3889367 TTAATAATAATATTGTTTT
1 TTAAAAATAATATTATTTT
3889386 ATTGTATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTAAAAATAATATTATTTTG
Found at i:3889661 original size:23 final size:23
Alignment explanation
Indices: 3889632--3889681 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
3889622 AACCTATTTA
*
3889632 TTATATAAGAGCTACCTATTACG
1 TTATATAAGAGCTACCTAATACG
* *
3889655 TTATATAAGCGCTACCTAATATG
1 TTATATAAGAGCTACCTAATACG
3889678 TTAT
1 TTAT
3889682 TGTGTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGAGCTACCTAATACG
Found at i:3889765 original size:82 final size:84
Alignment explanation
Indices: 3889612--3889836 Score: 323
Period size: 84 Copynumber: 2.7 Consensus size: 84
3889602 TAATAACAAA
* *
3889612 TTAAA-TAATTAACCTATTTATTATATAAGAGCTACCTATTACGTTATATAAGCGCTACCTAATA
1 TTAAAGTAATTAACCTATTTATTATATAAGCGCTACCTATTACATTATAT-AGCGCTACCTAATA
*
3889676 TGTTATTGTGTTTGATAATG
65 TGTTATTGTGCTTGATAATG
** * * *
3889696 TTCCA-TAATT-ACTTATTTTATTATAT-AGCGCTACATATTACATTATATAGCGGTACCTAATA
1 TTAAAGTAATTAACCTA-TTTATTATATAAGCGCTACCTATTACATTATATAGCGCTACCTAATA
3889758 TGTTATTGTGCTTGATAATG
65 TGTTATTGTGCTTGATAATG
3889778 TTAAAGTAATTAACCTATTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTAC
1 TTAAAGTAATTAACCTATTTATTATATAAGCGCTACCTATTACATTATAT-AGCGCTAC
3889837 TATTACATTA
Statistics
Matches: 123, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
82 35 0.28
83 38 0.31
84 43 0.35
85 7 0.06
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (84 bp):
TTAAAGTAATTAACCTATTTATTATATAAGCGCTACCTATTACATTATATAGCGCTACCTAATAT
GTTATTGTGCTTGATAATG
Found at i:3889827 original size:23 final size:23
Alignment explanation
Indices: 3889790--3889939 Score: 220
Period size: 23 Copynumber: 6.7 Consensus size: 23
3889780 AAAGTAATTA
*
3889790 ACCTATT-TATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
3889812 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
3889835 A-CTATTACATTATAT-AGCGCT
1 ACCTATTACATTATATAAGCGCT
3889856 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* **
3889879 ACTTATTACATTATATAAATGCT
1 ACCTATTACATTATATAAGCGCT
*
3889902 ACATATTACA-T-TATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
3889923 ACCTATTACATTATATA
1 ACCTATTACATTATATA
3889940 CACTACCTAA
Statistics
Matches: 115, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
21 24 0.21
22 37 0.32
23 54 0.47
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:3889855 original size:44 final size:45
Alignment explanation
Indices: 3889798--3889939 Score: 218
Period size: 44 Copynumber: 3.2 Consensus size: 45
3889788 TAACCTATTT
3889798 ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACTATTAC
1 ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACTATTAC
3889843 ATTATAT-AGCGCTACCTATTACATTATATAAGCGCTACTTATTAC
1 ATTATATAAGCGCTACCTATTACATTATATAAGCGCTAC-TATTAC
** *
3889888 ATTATATAAATGCTACATATTACA-T-TATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTACATTATATAAGCGCTA-CTATTAC
3889932 ATTATATA
1 ATTATATA
3889940 CACTACCTAA
Statistics
Matches: 91, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
44 56 0.62
45 22 0.24
46 13 0.14
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (45 bp):
ATTATATAAGCGCTACCTATTACATTATATAAGCGCTACTATTAC
Found at i:3889875 original size:67 final size:67
Alignment explanation
Indices: 3889790--3889939 Score: 241
Period size: 67 Copynumber: 2.3 Consensus size: 67
3889780 AAAGTAATTA
* *
3889790 ACCTATT-TATTATATAAGCGCTACCTATTACATTATATAAGCGCTAC-TATTACATTATATAGC
1 ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAACGCTACATATTACATTATA-AGC
3889853 GCT
65 GCT
* *
3889856 ACCTATTACATTATATAAGCGCTACTTATTACATTATATAAATGCTACATATTACATTATAAGCG
1 ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAACGCTACATATTACATTATAAGCG
3889921 CT
66 CT
3889923 ACCTATTACATTATATA
1 ACCTATTACATTATATA
3889940 CACTACCTAA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
66 7 0.09
67 59 0.76
68 12 0.15
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (67 bp):
ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAACGCTACATATTACATTATAAGCG
CT
Found at i:3890006 original size:21 final size:20
Alignment explanation
Indices: 3889981--3890031 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 20
3889971 CCAGTAATTA
3889981 ACCTATT-TTATTATAAGCGCT
1 ACCTATTATTA-TATAAGCG-T
3890002 ACCTATTACATTATATAAGCGT
1 ACCTATT--ATTATATAAGCGT
3890024 ACCTATTA
1 ACCTATTA
3890032 CATCATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 1 0.04
21 7 0.26
22 8 0.30
23 8 0.30
24 3 0.11
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (20 bp):
ACCTATTATTATATAAGCGT
Found at i:3890029 original size:22 final size:23
Alignment explanation
Indices: 3889992--3890039 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
3889982 CCTATTTTAT
*
3889992 TATAAGCGCTACCTATTACATTA
1 TATAAGCGCTACCTATTACATCA
3890015 TATAAGCG-TACCTATTACATCA
1 TATAAGCGCTACCTATTACATCA
3890037 TAT
1 TAT
3890040 TTTTACCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.35
Consensus pattern (23 bp):
TATAAGCGCTACCTATTACATCA
Found at i:3890746 original size:2 final size:2
Alignment explanation
Indices: 3890739--3890786 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
3890729 AAGTTAGACG
3890739 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
3890781 AT AT AT
1 AT AT AT
3890787 GTTGGGTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3899673 original size:2 final size:2
Alignment explanation
Indices: 3899666--3899692 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3899656 AAAATCTTCA
3899666 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
3899693 ATTATTTAAA
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:3900420 original size:2 final size:2
Alignment explanation
Indices: 3900413--3900458 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
3900403 TACATTAACA
3900413 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
3900455 AT AT
1 AT AT
3900459 CATGTAACGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3902804 original size:39 final size:39
Alignment explanation
Indices: 3902661--3902805 Score: 175
Period size: 39 Copynumber: 3.7 Consensus size: 39
3902651 TAGGCTCCTG
* * *
3902661 GCTTTGTGCTCAAGGTAAGTCCTTACGGCATGCTTCTCG
1 GCTTTGTGCACAAGGTAAGTCCTTACTGCATGCTTCTCT
* * * *
3902700 GCTTTGTGCTCAGGGTAAGTCCTTACCGTATGCTTCTCT
1 GCTTTGTGCACAAGGTAAGTCCTTACTGCATGCTTCTCT
* * *
3902739 GCTTTGTGCACAAGATAAGACCTTACTGCAGGC-TCGTCT
1 GCTTTGTGCACAAGGTAAGTCCTTACTGCATGCTTC-TCT
*
3902778 GCTTTGTGCACAAGGTAAGCCCTTACTG
1 GCTTTGTGCACAAGGTAAGTCCTTACTG
3902806 GTGTACAGGT
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 2 0.02
39 90 0.98
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (39 bp):
GCTTTGTGCACAAGGTAAGTCCTTACTGCATGCTTCTCT
Found at i:3904497 original size:16 final size:15
Alignment explanation
Indices: 3904466--3904511 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
3904456 ATCATATGAG
* *
3904466 CATTGTGGGTAATGT
1 CATTTTGGGAAATGT
3904481 CATTTTGGGGAAATGT
1 CATTTT-GGGAAATGT
3904497 CATTTTGGGAAATGT
1 CATTTTGGGAAATGT
3904512 AGGAGGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.24, C:0.07, G:0.30, T:0.39
Consensus pattern (15 bp):
CATTTTGGGAAATGT
Found at i:3913212 original size:39 final size:39
Alignment explanation
Indices: 3913155--3913239 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
3913145 CTAAGGTTTT
** * * * *
3913155 AAGATGATTTTTGGATTTGAAAATGAATTTGAGGGTCTA
1 AAGATGATTTGAGCATTTGAAAACGAATTTGAGGATCCA
*
3913194 AAGATGATTTGAGCATTTGGAAACGAATTTGAGGATCCA
1 AAGATGATTTGAGCATTTGAAAACGAATTTGAGGATCCA
3913233 AAGATGA
1 AAGATGA
3913240 CCTGAGGATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (39 bp):
AAGATGATTTGAGCATTTGAAAACGAATTTGAGGATCCA
Found at i:3913251 original size:39 final size:39
Alignment explanation
Indices: 3913167--3913252 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
3913157 GATGATTTTT
* * * **
3913167 GGATTTGAAAATGAATTTGAGGGTCTAAAGATGATTTGA
1 GGATTTGAAAACGAATTTGAGGATCCAAAGATGACCTGA
* *
3913206 GCATTTGGAAACGAATTTGAGGATCCAAAGATGACCTGA
1 GGATTTGAAAACGAATTTGAGGATCCAAAGATGACCTGA
3913245 GGATTTGA
1 GGATTTGA
3913253 TGATAACATT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (39 bp):
GGATTTGAAAACGAATTTGAGGATCCAAAGATGACCTGA
Found at i:3914951 original size:71 final size:71
Alignment explanation
Indices: 3914872--3915014 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
3914862 TAAGATTTTT
3914872 TTATAGTTAAGTTAAGTTTATGAAATTGAGAGTCAGATCAAATCTTTTTAGTGTTAATTAAATAA
1 TTATAGTTAAGTTAAGTTTATGAAATTGAGAGTCAGATCAAATCTTTTTAGTGTTAATTAAATAA
3914937 AAATAA
66 AAATAA
*
3914943 TTATAGTTAAGTTAAGTTTATGAAATTGAGAGTCAGATCAAATCTTTTTAGTGTTGATTAAATAA
1 TTATAGTTAAGTTAAGTTTATGAAATTGAGAGTCAGATCAAATCTTTTTAGTGTTAATTAAATAA
3915008 AAATAA
66 AAATAA
3915014 T
1 T
3915015 CAAATTGAGT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.40
Consensus pattern (71 bp):
TTATAGTTAAGTTAAGTTTATGAAATTGAGAGTCAGATCAAATCTTTTTAGTGTTAATTAAATAA
AAATAA
Found at i:3915672 original size:20 final size:20
Alignment explanation
Indices: 3915633--3915672 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3915623 TTTTTATAAA
*
3915633 TTATAAAATGATCATTAAAT
1 TTATAAAATGATCATAAAAT
* *
3915653 TTATAAAATTATTATAAAAT
1 TTATAAAATGATCATAAAAT
3915673 GATCATCTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
TTATAAAATGATCATAAAAT
Found at i:3915688 original size:21 final size:21
Alignment explanation
Indices: 3915662--3915714 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
3915652 TTTATAAAAT
*
3915662 TATTATAAAATGATCATCTTA
1 TATTATAAAATGATCATCGTA
3915683 TATTATAAAATGATCATCGTA
1 TATTATAAAATGATCATCGTA
*
3915704 CATTATAAAAT
1 TATTATAAAAT
3915715 AGTGTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (21 bp):
TATTATAAAATGATCATCGTA
Found at i:3915776 original size:32 final size:32
Alignment explanation
Indices: 3915740--3915805 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
3915730 AAGTTTACGA
* * *
3915740 ATCATTATATAGTAGTTTGATAAAGTTTAATG
1 ATCATTATATACTAATTTGATAAAGTATAATG
* *
3915772 ATCATTTTGTACTAATTTGATAAAGTATAATG
1 ATCATTATATACTAATTTGATAAAGTATAATG
3915804 AT
1 AT
3915806 TATTTGTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.44
Consensus pattern (32 bp):
ATCATTATATACTAATTTGATAAAGTATAATG
Found at i:3915824 original size:31 final size:32
Alignment explanation
Indices: 3915757--3915841 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 32
3915747 TATAGTAGTT
* *
3915757 TGATAAAGTTTAATGATCATTTTGTACTAATT
1 TGATAAAGTTTAATGATCATTTTGTACGAATA
* *
3915789 TGATAAAGTATAATGATTA-TTTGTAACGAA-A
1 TGATAAAGTTTAATGATCATTTTGT-ACGAATA
*
3915820 TGAT-AAGTTTAATGACCATTTT
1 TGATAAAGTTTAATGATCATTTT
3915842 ATAACTTTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
30 11 0.25
31 12 0.27
32 21 0.48
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (32 bp):
TGATAAAGTTTAATGATCATTTTGTACGAATA
Found at i:3920597 original size:21 final size:21
Alignment explanation
Indices: 3920571--3920610 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3920561 GAAGAGCAGC
3920571 GGCTGTGGCGGTTGTGGTGGT
1 GGCTGTGGCGGTTGTGGTGGT
*
3920592 GGCTGTGGTGGTTGTGGTG
1 GGCTGTGGCGGTTGTGGTG
3920611 CCGGATGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.57, T:0.35
Consensus pattern (21 bp):
GGCTGTGGCGGTTGTGGTGGT
Found at i:3920619 original size:21 final size:21
Alignment explanation
Indices: 3920574--3920620 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3920564 GAGCAGCGGC
** *
3920574 TGTGGCGGTTGTGGTGGTGGC
1 TGTGGCGGTTGTGGTGCCGGA
*
3920595 TGTGGTGGTTGTGGTGCCGGA
1 TGTGGCGGTTGTGGTGCCGGA
3920616 TGTGG
1 TGTGG
3920621 AAACATGGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.09, G:0.55, T:0.34
Consensus pattern (21 bp):
TGTGGCGGTTGTGGTGCCGGA
Found at i:3920688 original size:60 final size:60
Alignment explanation
Indices: 3920578--3920956 Score: 508
Period size: 60 Copynumber: 6.2 Consensus size: 60
3920568 AGCGGCTGTG
* * * ** * * * *
3920578 GCGGTTGTGGTGGTGGCT-GTGGTGGTTGTGGTGCCGGATGTGGAAACATGGTGAAGAGTA
1 GCGGTTGTGGCGGTTG-TGGTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAATAGCA
** *
3920638 GCGGCAGTGGCGGTTGTGGTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAATAGCG
1 GCGGTTGTGGCGGTTGTGGTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAATAGCA
*
3920698 GCGGCTGTGGCGGTTGTGGTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAATAGCA
1 GCGGTTGTGGCGGTTGTGGTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAATAGCA
*
3920758 GCGGTTGTGGCGGTTGTGGTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAATAGCG
1 GCGGTTGTGGCGGTTGTGGTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAATAGCA
3920818 GCGGTTGTGGCGGTTGTGGTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAATAGCA
1 GCGGTTGTGGCGGTTGTGGTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAATAGCA
* *
3920878 GCAGTTGTGGTGGTTGTGCTGGTGGCTGTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAAT
1 GCGGTTGTGG-CG--GT--T-GT-G--GTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAAT
3920943 AGCA
57 AGCA
*
3920947 GCGGCTGTGG
1 GCGGTTGTGG
3920957 TGCTGGCTAT
Statistics
Matches: 288, Mismatches: 21, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
59 1 0.00
60 230 0.80
61 1 0.00
63 2 0.01
65 1 0.00
66 2 0.01
67 1 0.00
69 50 0.17
ACGTcount: A:0.13, C:0.09, G:0.50, T:0.28
Consensus pattern (60 bp):
GCGGTTGTGGCGGTTGTGGTGGTGGCTGTGGTGGAGGTTGTGGAAGCATGGTGAATAGCA
Found at i:3920773 original size:36 final size:35
Alignment explanation
Indices: 3920728--3920836 Score: 87
Period size: 36 Copynumber: 3.4 Consensus size: 35
3920718 GGTGGCTGTG
3920728 GTGGAGGTTGTGGAAGCATGGTGAATAGCAGCGGTT
1 GTGGAGGTTGTGGAAGCATGGTGAATAGC-GCGGTT
* * *
3920764 GTGGCGGTTGT-G--G--T-G-G--T-G-GCTGTG
1 GTGGAGGTTGTGGAAGCATGGTGAATAGCGCGGTT
3920788 GTGGAGGTTGTGGAAGCATGGTGAATAGCGGCGGTT
1 GTGGAGGTTGTGGAAGCATGGTGAATAGC-GCGGTT
*
3920824 GTGGCGGTTGTGG
1 GTGGAGGTTGTGG
3920837 TGGTGGCTGT
Statistics
Matches: 54, Mismatches: 7, Indels: 24
0.64 0.08 0.28
Matches are distributed among these distances:
24 14 0.26
25 1 0.02
26 1 0.02
27 2 0.04
29 2 0.04
30 2 0.04
31 2 0.04
33 2 0.04
34 1 0.02
35 1 0.02
36 26 0.48
ACGTcount: A:0.14, C:0.08, G:0.50, T:0.28
Consensus pattern (35 bp):
GTGGAGGTTGTGGAAGCATGGTGAATAGCGCGGTT
Found at i:3923299 original size:182 final size:182
Alignment explanation
Indices: 3922992--3923665 Score: 1028
Period size: 182 Copynumber: 3.7 Consensus size: 182
3922982 TGTCGGTTTA
* * *
3922992 TGTCGATACTTTATAAAAATGTATTGATCCATATCAATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCG
* * * *
3923057 GCCTCGAAAAGACAAAACCGGTA-AAACGCTATCGGATATATTGAAAGTGTCGATACTTTAATAT
66 GTCTCGAAAGGACAAAACCGGTATAGA-GCGATCGGATATATTGAAAGTGTCGATACTTTAATAT
* *
3923121 AAGTATCGACACTTTGTGAATTTAAAAGAGAAACAGTTTTAGCGTCTATAAAG
130 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* **
3923174 TGTCGATACTTTATAACAATGTATCGATCCACAATGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCG
* * *
3923239 GTCTCTAAAGGACAAAACCGGTATAGAGCGATCAGATATATTGAAAGTGCCGATACTTTAATATA
66 GTCTCGAAAGGACAAAACCGGTATAGAGCGATCGGATATATTGAAAGTGTCGATACTTTAATATA
*
3923304 AGTATCGGCACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * * *
3923356 TGTCAATACTTTATAACAATGTATCGATCCACAACAATATAACAGGTAAAAATATGATAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCG
* * * *
3923421 ATCTCTAAAGGACAAAACCGGTATAGAGCGACCGGATATATTGAAAGTGTCAATACTTTAATATA
66 GTCTCGAAAGGACAAAACCGGTATAGAGCGATCGGATATATTGAAAGTGTCGATACTTTAATATA
* *
3923486 AGTATCAACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAA
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* *
3923538 TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCG
* * * *
3923603 GTCTCGAAATGACAAAACCGGTAAAGAGCTA-CTGGATATATTAAAAGTGTCGATACTTTAATA
66 GTCTCGAAAGGACAAAACCGGTATAGAGCGATC-GGATATATTGAAAGTGTCGATACTTTAATA
3923666 GGTACACGTA
Statistics
Matches: 448, Mismatches: 42, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
181 1 0.00
182 445 0.99
183 2 0.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (182 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCG
GTCTCGAAAGGACAAAACCGGTATAGAGCGATCGGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:3926092 original size:21 final size:21
Alignment explanation
Indices: 3926068--3926132 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
3926058 AAGACAATCA
3926068 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
3926089 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* **
3926110 AGAGTTGAAGAGACGCTTGAG
1 AGAGTCGAAGAGAAACTTGAG
3926131 AG
1 AG
3926133 GAATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.40, C:0.09, G:0.35, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:3926208 original size:33 final size:33
Alignment explanation
Indices: 3926166--3926265 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
3926156 AAATAGATTG
* *
3926166 AGTGATGAAAGAAGTTGAGGTGCTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
*
3926199 AGTGGTGAAAGAAGTTGAAGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
*
3926232 AGTGGTGAAAGAAATTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
3926265 A
1 A
3926266 CTTAAGATGG
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 62 1.00
ACGTcount: A:0.31, C:0.01, G:0.45, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
Found at i:3926217 original size:18 final size:18
Alignment explanation
Indices: 3926196--3926249 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
3926186 TGCTGAGGGG
3926196 TGAAGTGGTGAAAGAAGT
1 TGAAGTGGTGAAAGAAGT
* * *
3926214 TGAAGTGTTG--AG-GGG
1 TGAAGTGGTGAAAGAAGT
*
3926229 TGAAGTGGTGAAAGAAAT
1 TGAAGTGGTGAAAGAAGT
3926247 TGA
1 TGA
3926250 GGTGTTGAGG
Statistics
Matches: 26, Mismatches: 7, Indels: 6
0.67 0.18 0.15
Matches are distributed among these distances:
15 10 0.38
16 2 0.08
17 2 0.08
18 12 0.46
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (18 bp):
TGAAGTGGTGAAAGAAGT
Found at i:3926458 original size:17 final size:18
Alignment explanation
Indices: 3926421--3926459 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3926411 TTATGTAGAG
* *
3926421 AAAAAAATATGATGAACT
1 AAAAAAATATAAAGAACT
3926439 AAAAAAATATAAAGAA-T
1 AAAAAAATATAAAGAACT
3926456 AAAA
1 AAAA
3926460 GATAGAGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.18
Consensus pattern (18 bp):
AAAAAAATATAAAGAACT
Found at i:3928047 original size:19 final size:19
Alignment explanation
Indices: 3928023--3928067 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
3928013 AATGTAGGGT
3928023 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
3928042 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
3928061 TAATTTT
1 TAATTTT
3928068 ATATGTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3928464 original size:19 final size:19
Alignment explanation
Indices: 3928440--3928478 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3928430 TAAAAAGTAT
3928440 CGATCCCAAAAACATCGAA
1 CGATCCCAAAAACATCGAA
3928459 CGATCCCAAAAACATCGAA
1 CGATCCCAAAAACATCGAA
3928478 C
1 C
3928479 CCCATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.33, G:0.10, T:0.10
Consensus pattern (19 bp):
CGATCCCAAAAACATCGAA
Found at i:3928802 original size:200 final size:200
Alignment explanation
Indices: 3928459--3929985 Score: 1872
Period size: 200 Copynumber: 7.7 Consensus size: 200
3928449 AAACATCGAA
* * * * * * *
3928459 CGATCCCAAAAACATCGAACCCCATAATTATAATGTAATGGGTAATTTTGTAATATAATCGGTAT
1 CGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTGCAATGTAACCGGTAT
* * * * *
3928524 AAATATACCGGTTTTATGTGAGAATAGGTTTACATAATGTATCGACACTTTTGAAATTGGTGTTG
66 AAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTGAAATTTGTGTCG
* * * * *
3928589 ATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATAAAGTGTCGATACATTTATAAAA
131 ATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAA
*
3928654 AGTAT
196 AGTGT
** * * * *
3928659 CGATCCCTGAAATATCAAAACCCATAATTATAATGTTATATGTAAATTTACAATGTAACCGGTAT
1 CGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTGCAATGTAACCGGTAT
* * *
3928724 AACTATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATTGACACTTCTGGAATTTGTGTCG
66 AAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTGAAATTTGTGTCG
* *
3928789 ATACTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTTAAA
131 ATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAA
3928854 AGTGT
196 AGTGT
* * * * *
3928859 CGATCCCAGAGACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATGTAACCGGTAT
1 CGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTGCAATGTAACCGGTAT
**** * * * * * *
3928924 AAATATGTATGTTTTATGTGAGAATAGATCTACATAATGCATTGACACTTTTGAAATTGGTGTCG
66 AAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTGAAATTTGTGTCG
* * * * *
3928989 ATAATTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATAAAGTGTCGATACATTTTTAAAA
131 ATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAA
3929054 AGTGT
196 AGTGT
* * * ** * * *
3929059 CGATCCCAAAGACATCGAAACCCATAATTATAATATAATAGACAATTTTGTAATATAACCGGTAT
1 CGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTGCAATGTAACCGGTAT
* * * *
3929124 AAATATA-CGATTTTATGTGAGAATAGGTCTACATAATGTATCGACACTT-TTAAATTTTGTGTT
66 AAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTGAAA-TTTGTGTC
* * * * **
3929187 GATACATTTTGTCCAGAATGAATGCCCAAAAAAATGGTGCACGCATAAAGTGTCGATACATTTGG
130 GATACTTTTTGTCCAGAAGGAATGCCC---AAAAGGGTGCACCCATAAAGTGTCGATACATTTTT
*
3929252 AAAAAGTAT
192 AAAAAGTGT
* * * * * * **
3929261 CGATCCCAGATACATCGAAACACATGATTATAATGTAATAGGTAATTTTTTAATGTAACCGGTAT
1 CGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTGCAATGTAACCGGTAT
* * * * * * * *
3929326 AAATATATCGGTTTTATGCGAGAATATGTCTA-A-AATGTATCGACAC--ATGTATTTTATTTCG
66 AAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTGAAATTTGTGTCG
* *
3929387 ATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGTGCACCCATAAAGTGTCAATACATTTTTAAAA
131 ATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAA
3929452 AGTGT
196 AGTGT
** * *
3929457 CGATCCCAAAAATATCGAAACAGATAATTATAATGTAATACGTAAATTT-CAATGTAATCGGTAT
1 CGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTGCAATGTAACCGGTAT
* * * * * *
3929521 AAATATACCGGTTTTATGAGAAAATATGTCTAAAT-ATGTATCGACACTTGTGGAATTTGTATCG
66 AAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTGAAATTTGTGTCG
* *
3929585 ATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACTCATAAAGTATCGATACATTTTTAAAA
131 ATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAA
3929650 AGTGT
196 AGTGT
** *
3929655 CGATCCCAAAAATATCGAAACAAATAATTATAATATAATAGGTAAATTT-CAATGTAACCGGTAT
1 CGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTGCAATGTAACCGGTAT
* * *
3929719 AAATATACCAGTTTTATGAGAGAATAGGTCTACAAAATGTATCGACACTTCTGGAATTTGTGTCG
66 AAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTGAAATTTGTGTCG
* *
3929784 ATACTTTTTGTCCAGAAAGAATGTCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAA
131 ATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAA
*
3929849 AGTTT
196 AGTGT
* * * *
3929854 CGATCCCAAAAATATCGAAATCGATAATTATAATGTAATA-GTAAATTTTCAATGTAACAGGTAT
1 CGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTGCAATGTAACCGGTAT
* * * * * *
3929918 AAATATAACAGTTTTATGAGA-AATAGGTC-AGCATAAAGTATCGACAATTGTAAAATTTGTGTC
66 AAATATACCGGTTTTATGAGAGAATAGGTCTA-CATAATGTATCGACACTTCTGAAATTTGTGTC
3929981 GATAC
130 GATAC
3929986 CATTTTAAAA
Statistics
Matches: 1162, Mismatches: 152, Indels: 28
0.87 0.11 0.02
Matches are distributed among these distances:
195 42 0.04
196 93 0.08
197 1 0.00
198 217 0.19
199 259 0.22
200 412 0.35
201 13 0.01
202 104 0.09
203 21 0.02
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (200 bp):
CGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTGCAATGTAACCGGTAT
AAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTCTGAAATTTGTGTCG
ATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAA
AGTGT
Found at i:3933189 original size:26 final size:26
Alignment explanation
Indices: 3933160--3933216 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
3933150 GATGAACAGA
*
3933160 GTTTCTTGTCAGGAACAAGATTTATG
1 GTTTCTTGTCAGGAACAAGATTTACG
*
3933186 GTTTCTTGTTAGGAACAAGATTTACG
1 GTTTCTTGTCAGGAACAAGATTTACG
3933212 GTTTC
1 GTTTC
3933217 AACAATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (26 bp):
GTTTCTTGTCAGGAACAAGATTTACG
Found at i:3934567 original size:21 final size:21
Alignment explanation
Indices: 3934541--3934580 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3934531 CAGAACCCCA
*
3934541 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
3934562 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
3934581 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:3934615 original size:20 final size:21
Alignment explanation
Indices: 3934563--3934623 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
3934553 TTCCCCTGTG
3934563 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
3934586 GGGGGAATCGGTTCCCTC-AT
1 GGGGGAATCGGTTCCCTCAAA
* *
3934606 GGGGGTATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
3934624 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:3940142 original size:12 final size:12
Alignment explanation
Indices: 3940125--3940149 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3940115 TTTGATGCTT
3940125 TCTCTTTGATTC
1 TCTCTTTGATTC
3940137 TCTCTTTGATTC
1 TCTCTTTGATTC
3940149 T
1 T
3940150 AGTTGCTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.08, T:0.60
Consensus pattern (12 bp):
TCTCTTTGATTC
Found at i:3942135 original size:18 final size:18
Alignment explanation
Indices: 3942114--3942150 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3942104 GTAATTGGAG
3942114 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
3942132 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
3942150 T
1 T
3942151 ATAAATTTCG
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:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:3942157 original size:24 final size:24
Alignment explanation
Indices: 3942106--3942158 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
3942096 TTTCATATGT
* * *
3942106 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
3942130 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
3942154 AATTT
1 AATTT
3942159 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:3942863 original size:199 final size:197
Alignment explanation
Indices: 3942385--3943135 Score: 959
Period size: 199 Copynumber: 3.8 Consensus size: 197
3942375 TAAAGTTTCC
*
3942385 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAAACATCAAAACCGAAAATTATAA
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCC-AAAAAACATCGAAACCGAAAATTATAA
* * *
3942450 TGTAATAGGTAAATTTACAATGTGACCGGTATAAATATACCGATTTTATGAGCAAATAGG-T-CA
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTTACA
** * * * * * ** *
3942513 GCA--TATCGACACCTTTTAAATTTATGTCGATACTTTTTGT-TTGA-GCCTTTTCTC-AACGAG
130 TAATGTATCGA-AACTTTTAAATTTGTGTCGATACATTTTGTCATAATG--AATGC-CAAACGAG
* *
3942573 CTTCACG
191 GTGCACG
* * *
3942580 CATAAAAGTGTCGATACA--TTTAAAATTGTATCGATCCAAAAAACATTGAAACTGAAAATTATA
1 CAT-AAAGTGTCGATACATTTTTAAAA-AGTATCGATCCAAAAAACATCGAAACCGAAAATTATA
*
3942643 ATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTATA
64 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGT-TA
3942708 CATAATGTATCGAAACTGTTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGCCAAACGAG
128 CATAATGTATCGAAACT-TTTAAATTTGTGTCGATACATTTTGT-CATAATGAATGCCAAACGAG
*
3942773 GTGCACA
191 GTGCACG
*
3942780 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCTC-AAAAACATCGAAACCGATAATTATAA
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATC-CAAAAAACATCGAAACCGAAAATTATAA
* * * * *
3942844 TG-AATAGGTAAACTTACAATGTCACTGGTATAAGTATACCGGTTTTATGAGAAAATAGGTGAAC
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGT-TAC
* * * * *
3942908 ATAATGTATCGACACTTTTTATATTTGTGTCGATACATTTTGTCAAGAATGAATGCAAAACGGGG
129 ATAATGTATCGAAAC-TTTTAAATTTGTGTCGATACATTTTGTC-ATAATGAATGCCAAACGAGG
3942973 TGCACG
192 TGCACG
* *
3942979 CATAAAGTGTCGATACATTTAT-AAAAGTATCGATCCAAAAAATATCGAAACCGAAAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
*
3943043 GTAATAGGTAAATTTACAATGTAACCGTTATAAATATACCGGTTTTATGAGAAAATAGGTTAACA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTT-ACA
*
3943108 TAATGTATCGACACTTTTAAATTTGTGT
130 TAATGTATCGAAACTTTTAAATTTGTGT
3943136 TGATTCGTTT
Statistics
Matches: 488, Mismatches: 48, Indels: 37
0.85 0.08 0.06
Matches are distributed among these distances:
194 87 0.18
195 13 0.03
196 15 0.03
197 4 0.01
198 56 0.11
199 252 0.52
200 50 0.10
201 10 0.02
202 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (197 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTTACAT
AATGTATCGAAACTTTTAAATTTGTGTCGATACATTTTGTCATAATGAATGCCAAACGAGGTGCA
CG
Found at i:3944460 original size:198 final size:198
Alignment explanation
Indices: 3943939--3944473 Score: 637
Period size: 204 Copynumber: 2.7 Consensus size: 198
3943929 TGTCCATAAT
*
3943939 ATAAAATGTCGATACATTTATTAAAAGTATCGATCCCAATAACATCGAAACCGATAATTATAATG
1 ATAAAATGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * *
3944004 TAATAGGTAAATTTACAATGTAACTGGTATAAATAAATATACCGGTTTTAGAAGAAAATAGGTCA
65 TAATAGGTAAATTTACAATGTTACCGGTATAAAT--ATAT--CGG-TTTATAAGAAAATAGGTCA
* * *
3944069 ACATAAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTTGTCCATAATGAATGACAAACGG
125 AAATAAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACGA
3944134 GGTGCACGC
190 GGTGCACGC
* * *
3944143 ATAAAATGTCGATACATTTATTAAAAGTATCGGTCCCACAAACATCGAAACCGATAATTACAATG
1 ATAAAATGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* ** * * *
3944208 TGATCTGTAAATTTACAATG-TACCCGATAGAAATATATCGGTTGTATGAGAAAATAGGT-ATAA
65 TAATAGGTAAATTTACAATGTTA-CCGGTATAAATATATCGGTT-TATAAGAAAATAGGTCA-AA
* ** * * * *
3944271 ATAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTT-TTCAGAATGAATGCCTAACGAGG
127 ATAAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACGAGG
*
3944335 TGCATGC
192 TGCACGC
* * * * *
3944342 ATAAAGTGTTGATACATTTA-AAATTGTATCGATCCAAAAAATATCGAAACCGATAATTATAATG
1 ATAAAATGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * *
3944406 TAATGGGTAAATTTGCAATGTTACCGGTATAAATATATCGGTTTACTTAGAAAATAGGTCAATAT
65 TAATAGGTAAATTTACAATGTTACCGGTATAAATATATCGGTTTA-TAAGAAAATAGGTCAAAAT
3944471 AAA
129 AAA
3944474 CGCTACATAA
Statistics
Matches: 283, Mismatches: 41, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
197 5 0.02
198 85 0.30
199 48 0.17
200 54 0.19
202 4 0.01
203 1 0.00
204 86 0.30
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (198 bp):
ATAAAATGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
AATAGGTAAATTTACAATGTTACCGGTATAAATATATCGGTTTATAAGAAAATAGGTCAAAATAA
AGTATCGACACCATTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACGAGGTGCA
CGC
Found at i:3946214 original size:27 final size:27
Alignment explanation
Indices: 3946176--3946227 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
3946166 CTTGTATCCG
*
3946176 ATTCGACCAATCACATATATTCTTTAC
1 ATTCAACCAATCACATATATTCTTTAC
*
3946203 ATTCAACCAATCACGTATATTCTTT
1 ATTCAACCAATCACATATATTCTTT
3946228 GTAATAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (27 bp):
ATTCAACCAATCACATATATTCTTTAC
Found at i:3947926 original size:2 final size:2
Alignment explanation
Indices: 3947921--3947984 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
3947911 AAATATGAAG
3947921 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
3947963 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
3947985 TAGCACCATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3951204 original size:13 final size:13
Alignment explanation
Indices: 3951186--3951216 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
3951176 ACTTAAAATC
3951186 TTTAATTTAAGGG
1 TTTAATTTAAGGG
3951199 TTTAATTTAAGGG
1 TTTAATTTAAGGG
3951212 TTTAA
1 TTTAA
3951217 GTGAGAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (13 bp):
TTTAATTTAAGGG
Found at i:3952082 original size:17 final size:16
Alignment explanation
Indices: 3952050--3952080 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3952040 TTAATAGAGA
*
3952050 ATAAAAAACTTAAAAT
1 ATAAAAAAATTAAAAT
3952066 ATAAAAAAATTAAAA
1 ATAAAAAAATTAAAA
3952081 ATTTTGAGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAAAAAATTAAAAT
Found at i:3953793 original size:18 final size:18
Alignment explanation
Indices: 3953770--3953804 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3953760 ATTTATTTAT
3953770 TTATTTATT-TTTTTCTTG
1 TTATTT-TTATTTTTCTTG
3953788 TTATTTTTATTTTTCTT
1 TTATTTTTATTTTTCTT
3953805 ATTGTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.80
Consensus pattern (18 bp):
TTATTTTTATTTTTCTTG
Found at i:3953820 original size:29 final size:28
Alignment explanation
Indices: 3953765--3953820 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
3953755 GATTGATTTA
* * *
3953765 TTTATTTATTTATTTTTTTCTTGTTATT
1 TTTATTTATTTATTGTTTTATTCTTATT
*
3953793 TTTATTTTTCTTATTGTTTTATTCTTAT
1 TTTATTTAT-TTATTGTTTTATTCTTAT
3953821 GCTTTTATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (28 bp):
TTTATTTATTTATTGTTTTATTCTTATT
Found at i:3956582 original size:96 final size:96
Alignment explanation
Indices: 3956408--3956672 Score: 374
Period size: 96 Copynumber: 2.7 Consensus size: 96
3956398 AGATTATAAT
* * *
3956408 ATTATATATATACAATAAAGCTTGAGCTGTTCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTA
1 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTA
3956473 TGGATAAGATTCAGCTAGCCTGATAAAAGGTG
66 TGGATAAGATTCAGCTAGCCTGAT-AAAGGTG
* *
3956505 ATTATA-ATGTACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
1 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTA
* *
3956569 TGGATAATATTCAGCTAGCCTGATAAATGTG
66 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* *
3956600 ATTATAATATCTATACAATAATA--TTGAGTTGTCCCTCTAGAGCAATTGGTTAAAATGCCCCAA
1 ATTAT-ATA--TATACAATAA-AGCTTGAGTTGTCCCTCTAGAGCAATTGGTT-AAACGCCCCGA
3956663 CTTTATGGAT
61 CTTTATGGAT
3956673 CCAGCTAGCC
Statistics
Matches: 151, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
95 11 0.07
96 77 0.51
97 7 0.05
98 28 0.19
99 27 0.18
100 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (96 bp):
ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTTA
TGGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:3957959 original size:37 final size:34
Alignment explanation
Indices: 3957913--3958040 Score: 139
Period size: 36 Copynumber: 3.6 Consensus size: 34
3957903 CAAGGGGTTG
* * *
3957913 TCTCGCTTGAGACTAATTTACTCAAAACAAAGTTTTA
1 TCTCTCTTGAGAC-AGTTT-CTCGAAACAAA-TTTTA
*
3957950 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTG
1 TCTCTCTTGAGACAGTTTCTC--GAAACAAATTTTA
* *
3957986 TCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTT
1 TCTCTCTTGAGACAGTTT--CTCGAAACAAATTTTA
3958022 TCTCTCTTGAGACAGTTTC
1 TCTCTCTTGAGACAGTTTC
3958041 CCTTGAAACA
Statistics
Matches: 81, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.01
35 3 0.04
36 56 0.69
37 19 0.23
38 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (34 bp):
TCTCTCTTGAGACAGTTTCTCGAAACAAATTTTA
Found at i:3957992 original size:21 final size:20
Alignment explanation
Indices: 3957967--3958031 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
3957957 TGAGACAGTT
3957967 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTT-TC
* *
3957988 TCTCTTGAGAC--A-GTTTC
1 TCTCTTGAAACAAATTTTTC
3958005 -C-CTTGAAACAAATTTTTTC
1 TCTCTTGAAACAAA-TTTTTC
3958024 TCTCTTGA
1 TCTCTTGA
3958032 GACAGTTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 3 0.09
18 2 0.06
19 5 0.15
20 1 0.03
21 15 0.44
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.43
Consensus pattern (20 bp):
TCTCTTGAAACAAATTTTTC
Found at i:3957997 original size:36 final size:36
Alignment explanation
Indices: 3957937--3958380 Score: 337
Period size: 36 Copynumber: 12.6 Consensus size: 36
3957927 AATTTACTCA
*
3957937 AAACAAAGTTTTATCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAA-TTTTATCTCTCTTGAGACAGTTTCCCTTG
*
3957974 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTATCTCTCTTGAGACAGTTTCCCTTG
*
3958010 AAACAAATTTTTTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTATCTCTCTTGAGACAGTTTCCCTTG
** * *
3958046 AAACAAA----A--TCT-TTGA-ATTTGTTTTCCTTA
1 AAACAAATTTTATCTCTCTTGAGA-CAGTTTCCCTTG
* ** **
3958075 AAACTAATTTCGTCTC-CTTTGAGACAGTTTCTTTTG
1 AAACAAATTTTATCTCTC-TTGAGACAGTTTCCCTTG
* ** * * *
3958111 GAACTAAATTTCGTCTCCCTTGAGACAATTTCCTTTG
1 AAAC-AAATTTTATCTCTCTTGAGACAGTTTCCCTTG
** *
3958148 AAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTATCTCTCTTGAGACAGTTTCCCTTG
* *
3958184 AAACGAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTATCTCTCTTGAGACAGTTTCCCTTG
* * * *
3958220 AAACAAA----A--TAT-TTGA-ATATGTTTTCCTTA
1 AAACAAATTTTATCTCTCTTGAGACA-GTTTCCCTTG
* ** * *
3958249 AAACTAATTTCGTCTCCCTGGAGACAGTTTCCCTTG
1 AAACAAATTTTATCTCTCTTGAGACAGTTTCCCTTG
* * *** *
3958285 AAACTAAGTTTTGTCTCTCTTGAGTTTGTTTCTCTTG
1 AAAC-AAATTTTATCTCTCTTGAGACAGTTTCCCTTG
* *
3958322 AAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTG
1 AAACAAATTTTATCTCTCTTGAGACAGTTTCCCTTG
*
3958358 AAACAAAATTTTGTCTCTCTTGA
1 AAAC-AAATTTTATCTCTCTTGA
3958381 AACACCAATA
Statistics
Matches: 327, Mismatches: 57, Indels: 46
0.76 0.13 0.11
Matches are distributed among these distances:
28 3 0.01
29 36 0.11
30 5 0.02
35 3 0.01
36 194 0.59
37 85 0.26
38 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
AAACAAATTTTATCTCTCTTGAGACAGTTTCCCTTG
Found at i:3958142 original size:20 final size:19
Alignment explanation
Indices: 3958117--3958178 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
3958107 TTTGGAACTA
3958117 AATTTCGTCTCCCTTGAGAC
1 AATTTCGTCT-CCTTGAGAC
*
3958137 AATTTC--CT--TTGAAAC
1 AATTTCGTCTCCTTGAGAC
3958152 AAATTTCGTCTCTCTTGAGAC
1 -AATTTCGTCTC-CTTGAGAC
*
3958173 AGTTTC
1 AATTTC
3958179 TCTTGAAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
15 6 0.18
16 6 0.18
18 4 0.12
20 11 0.33
21 6 0.18
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (19 bp):
AATTTCGTCTCCTTGAGAC
Found at i:3958154 original size:102 final size:102
Alignment explanation
Indices: 3957965--3958226 Score: 253
Period size: 109 Copynumber: 2.5 Consensus size: 102
3957955 CTTGAGACAG
* * ** *
3957965 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTTTCTCTCTT
1 TTTCTCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCCTT
*
3958030 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTGT
66 GAGACAATTTCCCTTGAAACAAAATCTTTGAATTTGT
* ** *
3958067 TTTC-CTTAAAACTAATTTCGTCTC-CTTTGAGACAGTTTCTTTTGGAACTAAATTTCGTCTCCC
1 TTTCTCTTAAAACAAATTTCGTCTCTC-TTGAGACAGTTTCCCTTGAAAC-AAATTTCGTCTCCC
* * **
3958130 TTGAGACAATTTCCTTTGAAACAAATTTCGTCTCTCTTGAGA-CAG-
64 TTGAGACAATTTCCCTTGAAACAAA------ATCT-TTGA-ATTTGT
* * *
3958175 TTTCTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTCTCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
3958227 ATATTTGAAT
Statistics
Matches: 128, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
100 1 0.01
101 36 0.28
102 38 0.30
108 10 0.08
109 41 0.32
110 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (102 bp):
TTTCTCTTAAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCCCTT
GAGACAATTTCCCTTGAAACAAAATCTTTGAATTTGT
Found at i:3958209 original size:174 final size:174
Alignment explanation
Indices: 3957950--3958380 Score: 666
Period size: 174 Copynumber: 2.5 Consensus size: 174
3957940 CAAAGTTTTA
3957950 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
* * *
3958015 AATTTTTTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTGTTTTCCTTAAAACT
66 AATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCCTTAAAACT
* * ** *
3958080 AATTTCGTCTCCTTTGAGACAGTTTCTTTTGGAACTAAATTTCG
131 AATTTCGTCTCCCTGGAGACAGTTTCCCTTGAAACTAAATTTCG
* * * *
3958124 TCTCCCTTGAGACAATTTC-CTTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGACAGTTTCTC-TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
*
3958188 GAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCCTTAAAAC
65 AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCCTTAAAAC
* *
3958253 TAATTTCGTCTCCCTGGAGACAGTTTCCCTTGAAACTAAGTTTTG
130 TAATTTCGTCTCCCTGGAGACAGTTTCCCTTGAAACTAAATTTCG
*** *
3958298 TCTCTCTTGAGTTTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACA
1 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-
3958363 AAATTTTGTCTCTCTTGA
65 AAATTTTGTCTCTCTTGA
3958381 AACACCAATA
Statistics
Matches: 230, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
173 1 0.00
174 211 0.92
175 18 0.08
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (174 bp):
TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
AATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCCTTAAAACT
AATTTCGTCTCCCTGGAGACAGTTTCCCTTGAAACTAAATTTCG
Found at i:3958234 original size:138 final size:137
Alignment explanation
Indices: 3958112--3958370 Score: 394
Period size: 138 Copynumber: 1.9 Consensus size: 137
3958102 TTTCTTTTGG
* *
3958112 AACTAAATTTCGTCTCCCTTGAGACAATTTCCTTTGAAAC-AAATTTCGTCTCTCTTGAGACAGT
1 AACT-AATTTCGTCTCCCTGGAGACAATTTCCCTTGAAACTAAATTTCGTCTCTCTTGAGACAGT
* * *
3958176 TTCTCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
65 TTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAAT-TTTGAACATGT
3958241 TTTCCTTAA
129 TTTCCTTAA
* * * ***
3958250 AACTAATTTCGTCTCCCTGGAGACAGTTTCCCTTGAAACTAAGTTTTGTCTCTCTTGAGTTTGTT
1 AACTAATTTCGTCTCCCTGGAGACAATTTCCCTTGAAACTAAATTTCGTCTCTCTTGAGACAGTT
3958315 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATTTTG
66 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATTTTG
3958371 TCTCTCTTGA
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
137 36 0.33
138 74 0.67
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (137 bp):
AACTAATTTCGTCTCCCTGGAGACAATTTCCCTTGAAACTAAATTTCGTCTCTCTTGAGACAGTT
TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATTTTGAACATGTTT
TCCTTAA
Found at i:3958301 original size:37 final size:37
Alignment explanation
Indices: 3958239--3958380 Score: 162
Period size: 37 Copynumber: 3.9 Consensus size: 37
3958229 ATTTGAATAT
* * * * *
3958239 GTTTTCCTTAAAACT-AATTTCGTCTCCCTGGAGACA
1 GTTTCCCTTGAAACTAAATTTTGTCTCTCTTGAGACA
* ***
3958275 GTTTCCCTTGAAACTAAGTTTTGTCTCTCTTGAGTTT
1 GTTTCCCTTGAAACTAAATTTTGTCTCTCTTGAGACA
*
3958312 GTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACTAAATTTTGTCTCTCTTGAGACA
* *
3958348 ATTTCCCTTGAAACAAAATTTTGTCTCTCTTGA
1 GTTTCCCTTGAAACTAAATTTTGTCTCTCTTGA
3958381 AACACCAATA
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
36 43 0.49
37 45 0.51
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.42
Consensus pattern (37 bp):
GTTTCCCTTGAAACTAAATTTTGTCTCTCTTGAGACA
Found at i:3958322 original size:102 final size:102
Alignment explanation
Indices: 3958139--3958328 Score: 274
Period size: 101 Copynumber: 1.9 Consensus size: 102
3958129 CTTGAGACAA
* * * *
3958139 TTTCCTTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACGAATTTTGTCTCTCTT
1 TTTCCTTTAAAACAAATTTCGTCTCCCTGGAGACAGTTTCCCTTGAAACGAATTTTGTCTCTCTT
3958204 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
66 GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
* *
3958241 TTTCC-TTAAAACTAATTTCGTCTCCCTGGAGACAGTTTCCCTTGAAACTAAGTTTTGTCTCTCT
1 TTTCCTTTAAAACAAATTTCGTCTCCCTGGAGACAGTTTCCCTTGAAACGAA-TTTTGTCTCTCT
*** *
3958305 TGAGTTTGTTTCTCTTGAAACAAA
65 TGAGACAGTTTCCCTTGAAACAAA
3958329 TTTTGTCTCT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 40 0.52
102 37 0.48
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (102 bp):
TTTCCTTTAAAACAAATTTCGTCTCCCTGGAGACAGTTTCCCTTGAAACGAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATATTTGAATATGT
Found at i:3958357 original size:73 final size:72
Alignment explanation
Indices: 3958241--3958380 Score: 199
Period size: 73 Copynumber: 1.9 Consensus size: 72
3958231 TTGAATATGT
* * * *
3958241 TTTCCTTAAAACTAATTTCGTCTCCCTGGAGACAGTTTCCCTTGAAACTAAGTTTTGTCTCTCTT
1 TTTCCTTAAAACAAATTTCGTCTCCCTGGAGACAATTTCCCTTGAAACAAAATTTTGTCTCTCTT
3958306 GAGTTTG
66 GAGTTTG
* * * *
3958313 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATTTTGTCTCTCT
1 TTTC-CTTAAAACAAATTTCGTCTCCCTGGAGACAATTTCCCTTGAAACAAAATTTTGTCTCTCT
3958378 TGA
65 TGA
3958381 AACACCAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
72 4 0.07
73 55 0.93
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (72 bp):
TTTCCTTAAAACAAATTTCGTCTCCCTGGAGACAATTTCCCTTGAAACAAAATTTTGTCTCTCTT
GAGTTTG
Found at i:3958519 original size:31 final size:31
Alignment explanation
Indices: 3958437--3958519 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 31
3958427 CCTGGAGACA
3958437 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
1 GTTTCTCTTG-AACAC-AAAAACCTTTGAAATC
* * *
3958470 ATTTCTCTT-AAGAAAAAAACCTTTGAAAAAT-
1 GTTTCTCTTGAACACAAAAACCTTTG--AAATC
3958501 GTTTCTCTTGAA-ACAAAAA
1 GTTTCTCTTGAACACAAAAA
3958520 GACCTTCGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
30 11 0.26
31 17 0.40
32 6 0.14
33 8 0.19
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.31
Consensus pattern (31 bp):
GTTTCTCTTGAACACAAAAACCTTTGAAATC
Found at i:3958525 original size:33 final size:31
Alignment explanation
Indices: 3958437--3958525 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 31
3958427 CCTGGAGACA
3958437 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
1 GTTTCTCTTG-AA-ACAAAAAACCTTTGAAATC
*
3958470 ATTTCTCTT-AAGA-AAAAAACCTTTGAAAAAT-
1 GTTTCTCTTGAA-ACAAAAAACCTTTG--AAATC
3958501 GTTTCTCTTGAAACAAAAAGACCTT
1 GTTTCTCTTGAAACAAAAA-ACCTT
3958526 CGAGTTCGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
30 12 0.25
31 12 0.25
32 11 0.23
33 13 0.27
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (31 bp):
GTTTCTCTTGAAACAAAAAACCTTTGAAATC
Found at i:3959486 original size:27 final size:24
Alignment explanation
Indices: 3959451--3959502 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 24
3959441 CCAAAAATTT
*
3959451 TTAAAATTTTCTAATTTATATAAAAA
1 TTAAAATTTTATAATTTA-A-AAAAA
3959477 TTAAATATTTTATAATTTAAAAAAA
1 TTAAA-ATTTTATAATTTAAAAAAA
3959502 T
1 T
3959503 AGTTTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 12 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAAAATTTTATAATTTAAAAAAA
Found at i:3959509 original size:40 final size:42
Alignment explanation
Indices: 3959465--3959555 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 42
3959455 AATTTTCTAA
* * *
3959465 TTTATATAAAAATTAAATATTTTATAATT-TAAAA-AAATAG
1 TTTATATAAAAATTAAATAATATATAATTATAAAATAAAAAG
* * *
3959505 TTTATA-ATTAATTTAAATAATATATAATTATAAAATAAAAAT
1 TTTATATA-AAAATTAAATAATATATAATTATAAAATAAAAAG
3959547 TTTATATAA
1 TTTATATAA
3959556 CATTTTTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
39 1 0.03
40 23 0.57
41 5 0.12
42 10 0.25
43 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (42 bp):
TTTATATAAAAATTAAATAATATATAATTATAAAATAAAAAG
Found at i:3959522 original size:20 final size:19
Alignment explanation
Indices: 3959475--3959534 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
3959465 TTTATATAAA
*
3959475 AATTAAATATTTTATAATTT
1 AATTAAATAATTTATAA-TT
** *
3959495 AAAAAAATAGTTTATAATT
1 AATTAAATAATTTATAATT
*
3959514 AATTTAAATAATATATAATT
1 AA-TTAAATAATTTATAATT
3959534 A
1 A
3959535 TAAAATAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AATTAAATAATTTATAATT
Found at i:3959698 original size:20 final size:20
Alignment explanation
Indices: 3959675--3959720 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
3959665 TAATATTTTT
* *
3959675 TAATTCAGAAAAATAATTTA
1 TAATTAAGAAAAATAATATA
**
3959695 TAATTAATTAAAATAATATA
1 TAATTAAGAAAAATAATATA
3959715 TAATTA
1 TAATTA
3959721 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TAATTAAGAAAAATAATATA
Found at i:3959712 original size:23 final size:21
Alignment explanation
Indices: 3959686--3959734 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 21
3959676 AATTCAGAAA
3959686 AATAATTTATAATTAATTAAAAT
1 AATAATTTATAATT-A-TAAAAT
3959709 AAT-A--TATAATTATAAAAT
1 AATAATTTATAATTATAAAAT
*
3959727 AAAAATTT
1 AATAATTT
3959735 TATATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 8
0.71 0.03 0.26
Matches are distributed among these distances:
18 8 0.36
19 2 0.09
20 7 0.32
21 1 0.05
22 1 0.05
23 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATTTATAATTATAAAAT
Found at i:3959724 original size:18 final size:20
Alignment explanation
Indices: 3959684--3959728 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
3959674 TTAATTCAGA
*
3959684 AAAATAATTTATAATTAATT
1 AAAATAATATATAATTAATT
3959704 AAAATAATATATAATT-A-T
1 AAAATAATATATAATTAATT
3959722 AAAATAA
1 AAAATAA
3959729 AAATTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.33
19 1 0.04
20 15 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATAATATATAATTAATT
Found at i:3959794 original size:186 final size:186
Alignment explanation
Indices: 3959480--3959861 Score: 647
Period size: 186 Copynumber: 2.1 Consensus size: 186
3959470 ATAAAAATTA
* * *
3959480 AATATTTTATAATTTAAAAAAATAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTATAATTCAAAAAAATAATTTATAATTAATTAAAATAATATATAATTATAAAATAAAA
* **
3959545 ATTTTATATAACATTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATT
66 ATTTTATATAAAAAATTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATT
3959610 ATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATAT
131 ATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATAT
* *
3959666 AATATTTTTTAATTCAGAAAAATAATTTATAATTAATTAAAATAATATATAATTATAAAATAAAA
1 AATATTTTATAATTCAAAAAAATAATTTATAATTAATTAAAATAATATATAATTATAAAATAAAA
*
3959731 ATTTTATATAAAAAATTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATT
66 ATTTTATATAAAAAATTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATT
* * *
3959796 ATTAATTGAGTTTTAAATGGTTTGGGTTGAGCTCATATGTTATATATAATATATTT
131 ATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATAT
*
3959852 AAAATTTTAT
1 AATATTTTAT
3959862 TTCCGATAAT
Statistics
Matches: 182, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
186 182 1.00
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (186 bp):
AATATTTTATAATTCAAAAAAATAATTTATAATTAATTAAAATAATATATAATTATAAAATAAAA
ATTTTATATAAAAAATTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATT
ATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATAT
Found at i:3961382 original size:20 final size:20
Alignment explanation
Indices: 3961357--3961503 Score: 197
Period size: 20 Copynumber: 7.3 Consensus size: 20
3961347 ATAGCACGTG
*
3961357 ATCGCAGCGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
3961377 ATCGCAAAGCGATTCAGACT
1 ATCGCAACGCGATTCTGACT
3961397 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
3961417 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
3961437 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
3961457 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
3961478 ATCGCAACGTGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
3961498 AACGCA
1 ATCGCA
3961504 TCACTGAATT
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 92 0.83
21 15 0.14
22 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:3961464 original size:61 final size:60
Alignment explanation
Indices: 3961357--3961503 Score: 206
Period size: 61 Copynumber: 2.4 Consensus size: 60
3961347 ATAGCACGTG
* * *
3961357 ATCGCAGCGCGATTCTGACTATCGCAAAGCGATTCAGACTATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACTATCGCAAAGCGATTAAGACTATCGCAACGCGATTCTGACT
* *
3961417 ATCGCAACGAGATTCTGACTATCGCAACGCGA-TAATACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACTATCGCAAAGCGATTAAGAC-T-ATCGCAACGCGATTCTGACT
* *
3961478 ATCGCAACGTGATTCTGACTAACGCA
1 ATCGCAACGAGATTCTGACTATCGCA
3961504 TCACTGAATT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
59 4 0.05
60 30 0.38
61 44 0.56
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (60 bp):
ATCGCAACGAGATTCTGACTATCGCAAAGCGATTAAGACTATCGCAACGCGATTCTGACT
Found at i:3962354 original size:24 final size:24
Alignment explanation
Indices: 3962322--3962375 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3962312 GTATTCGAAA
3962322 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
3962346 TTTGATCTTGGTTAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
3962370 TTTGAT
1 TTTGAT
3962376 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:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:3964558 original size:18 final size:18
Alignment explanation
Indices: 3964535--3964569 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3964525 AGCAAAAGGC
*
3964535 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
3964553 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
3964570 CAACCGGCTT
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:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:3964772 original size:20 final size:20
Alignment explanation
Indices: 3964747--3965001 Score: 142
Period size: 20 Copynumber: 13.7 Consensus size: 20
3964737 CACATTCATT
3964747 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* *
3964767 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
*
3964787 TGAATATCGCAACTG-G---A
1 TGACTATCGCAAC-GCGAATA
* *
3964804 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
3964821 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
3964841 TGACTATCGCAACAG-G-ATAA
1 TGACTATCGCAAC-GCGAAT-A
*
3964861 TCA-TAAT-GCAA----AA-A
1 TGACT-ATCGCAACGCGAATA
*
3964875 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * * *
3964895 TAACTATCGCATCACGAATT
1 TGACTATCGCAACGCGAATA
*
3964915 TGACTATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
3964932 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
* *
3964948 TGACTATCGCAACACGAATT
1 TGACTATCGCAACGCGAATA
* * *
3964968 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
*
3964988 TGACTATCACAACG
1 TGACTATCGCAACG
3965002 AGAAAATCAC
Statistics
Matches: 183, Mismatches: 26, Indels: 52
0.70 0.10 0.20
Matches are distributed among these distances:
13 1 0.01
14 20 0.11
15 5 0.03
16 7 0.04
17 7 0.04
18 3 0.02
19 21 0.11
20 117 0.64
21 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:3964818 original size:54 final size:54
Alignment explanation
Indices: 3964752--3964905 Score: 220
Period size: 54 Copynumber: 2.9 Consensus size: 54
3964742 TCATTTGACT
* * * *
3964752 ATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAATATCGCAACTGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACAGGATA
*
3964806 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACAGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACAGGATA
** *
3964860 ATCATAATGCAAAAATGACTATCGCAACGCGAATTT-AACTATCGCA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAA-TATCGCA
3964906 TCACGAATTT
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 89 0.99
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACAGGATA
Found at i:3964884 original size:74 final size:73
Alignment explanation
Indices: 3964744--3965013 Score: 262
Period size: 74 Copynumber: 3.7 Consensus size: 73
3964734 TTACACATTC
* * * * *
3964744 ATTTGACTATCGCAACGCGAATATGACTATCGCAACGTGA-ATTTGA-ATATCGC-AACTGGA-T
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGATA-ATCACA-A-CGCAAAAT-GACT
*
3964805 AATCGCAATGCGA
62 -ATCGCAACGCGA
** * *
3964818 AAATGACTATCGCAACGCGAATTTGACTATCGCAAC-AGGATAATCATAATGCAAAAATGACTAT
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGA-GATAATCACAACGC-AAAATGACTAT
3964882 CGCAACGCGA
64 CGCAACGCGA
* * * * *
3964892 ATTTAACTATCGCATCACGAATTTGACTATCGCAACGAGATAATCGCAACGCGAAATGACTATCG
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCACAACGCAAAATGACTATCG
*
3964957 CAACACGA
66 CAACGCGA
* * * *
3964965 ATTTGATTATCGCAACGGGAATTTGACTATCACAACGAGAAAATCACAA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCACAA
3965014 AGTGTATTAG
Statistics
Matches: 162, Mismatches: 27, Indels: 15
0.79 0.13 0.07
Matches are distributed among these distances:
73 62 0.38
74 93 0.57
75 7 0.04
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (73 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCACAACGCAAAATGACTATCG
CAACGCGA
Found at i:3964964 original size:53 final size:54
Alignment explanation
Indices: 3964880--3964981 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 54
3964870 AAAAATGACT
* *
3964880 ATCGCAACGCGAATTTAACTATCGCATCACGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAATATAACTATCGCAACACGAATTTGACTATCGCAACGAGATA
* *
3964934 ATCGCAACGCGAA-ATGACTATCGCAACACGAATTTGATTATCGCAACG
1 ATCGCAACGCGAATATAACTATCGCAACACGAATTTGACTATCGCAACG
3964982 GGAATTTGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 31 0.70
54 13 0.30
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (54 bp):
ATCGCAACGCGAATATAACTATCGCAACACGAATTTGACTATCGCAACGAGATA
Found at i:3964987 original size:73 final size:74
Alignment explanation
Indices: 3964823--3965013 Score: 251
Period size: 73 Copynumber: 2.6 Consensus size: 74
3964813 TGCGAAAATG
* *
3964823 ACTATCGCAACGCGAATTTGACTATCGCAAC-AGGATAATCATAATGCAAAAATGACTATCGCAA
1 ACTATCGCAACGCGAATTTGACTATCGCAACGA-GATAATCACAACGCAAAAATGACTATCGCAA
*
3964887 CGCGAATTTA
65 CACGAATTTA
* * * *
3964897 ACTATCGCATCACGAATTTGACTATCGCAACGAGATAATCGCAACGC-GAAATGACTATCGCAAC
1 ACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCACAACGCAAAAATGACTATCGCAAC
*
3964961 ACGAATTTG
66 ACGAATTTA
* * * *
3964970 ATTATCGCAACGGGAATTTGACTATCACAACGAGAAAATCACAA
1 ACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCACAA
3965014 AGTGTATTAG
Statistics
Matches: 101, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
73 60 0.59
74 40 0.40
75 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.22
Consensus pattern (74 bp):
ACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCACAACGCAAAAATGACTATCGCAAC
ACGAATTTA
Found at i:3965176 original size:36 final size:34
Alignment explanation
Indices: 3965136--3965215 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 34
3965126 TCAACTTTTA
*
3965136 ATCAATTAAACAAGCACAAATAATAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
3965172 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
3965202 ATCAATTAAACAAA
1 ATCAATTAAACAAA
3965216 TCAACTCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 27 0.69
32 2 0.05
34 3 0.08
36 7 0.18
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:3965186 original size:30 final size:30
Alignment explanation
Indices: 3965151--3965216 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
3965141 TTAAACAAGC
*
3965151 ACAAATAATAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
3965181 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
3965211 ACAAAT
1 ACAAAT
3965217 CAACTCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:3966627 original size:21 final size:21
Alignment explanation
Indices: 3966603--3966702 Score: 85
Period size: 21 Copynumber: 4.8 Consensus size: 21
3966593 GGGAGGGACA
*
3966603 TCTTCAACGATGACAGAGGCC
1 TCTTGAACGATGACAGAGGCC
* ** * *
3966624 TCTTGAACGGTGGGAGGGGAC
1 TCTTGAACGATGACAGAGGCC
** * *
3966645 TCTTGAGGGATGATAGGGGCC
1 TCTTGAACGATGACAGAGGCC
*
3966666 TCTTGAACGAT-AGGAGAGGCC
1 TCTTGAACGATGA-CAGAGGCC
3966687 TCTTGAACGATGACAG
1 TCTTGAACGATGACAG
3966703 GTGAGTCAGG
Statistics
Matches: 60, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
20 1 0.02
21 58 0.97
22 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (21 bp):
TCTTGAACGATGACAGAGGCC
Found at i:3966657 original size:42 final size:42
Alignment explanation
Indices: 3966594--3966702 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
3966584 TAGAATGTTG
* * *
3966594 GGAG-GGACATCTTCAACGATGACAGAGGCCTCTTGAACGGTG
1 GGAGAGGAC-TCTTGAACGATGACAGAGGCCTCTTGAACGATA
* ** * *
3966636 GGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATA
1 GGAGAGGACTCTTGAACGATGACAGAGGCCTCTTGAACGATA
*
3966678 GGAGAGGCCTCTTGAACGATGACAG
1 GGAGAGGACTCTTGAACGATGACAG
3966703 GTGAGTCAGG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 50 0.93
43 4 0.07
ACGTcount: A:0.26, C:0.18, G:0.37, T:0.19
Consensus pattern (42 bp):
GGAGAGGACTCTTGAACGATGACAGAGGCCTCTTGAACGATA
Found at i:3967206 original size:20 final size:20
Alignment explanation
Indices: 3967181--3967224 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
3967171 AATAGTTTCT
3967181 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
3967201 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
3967221 GAAA
1 GAAA
3967225 ATGATTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.23, G:0.11, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:3967234 original size:20 final size:20
Alignment explanation
Indices: 3967191--3967277 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
3967181 GAAACTTAAA
**
3967191 ATCGCAACACGAAACTT-AAA
1 ATCGCAACACGAAA-TTGACT
* *
3967211 ATCGCAACACGAAAATGATT
1 ATCGCAACACGAAATTGACT
* *
3967231 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAATTGACT
* *
3967251 ATCGCAACGCGAATTTGACT
1 ATCGCAACACGAAATTGACT
3967271 ATCGCAA
1 ATCGCAA
3967278 TAAGATAATC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 1 0.02
20 58 0.98
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (20 bp):
ATCGCAACACGAAATTGACT
Found at i:3967308 original size:33 final size:33
Alignment explanation
Indices: 3967251--3967331 Score: 126
Period size: 33 Copynumber: 2.4 Consensus size: 33
3967241 GAATTTGACT
* *
3967251 ATCGCAACGCGAATTTGACTATCGCAATAAGATA
1 ATCGCAACGCGAA-ATGACTATCGCAATAAGAAA
*
3967285 ATCGCAACGCGAAATGACTATCGCAATGAGAAA
1 ATCGCAACGCGAAATGACTATCGCAATAAGAAA
3967318 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
3967332 CTAAATTCGT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 31 0.70
34 13 0.30
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (33 bp):
ATCGCAACGCGAAATGACTATCGCAATAAGAAA
Found at i:3967359 original size:20 final size:20
Alignment explanation
Indices: 3967334--3967413 Score: 117
Period size: 20 Copynumber: 4.0 Consensus size: 20
3967324 ACGCGAAACT
*
3967334 AAATTCGTGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTC
*
3967354 AAATTCGCGTTCCGATAGTC
1 AAATTCGCGTTGCGATAGTC
3967374 AAATTCGCGTTGCGATAGTC
1 AAATTCGCGTTGCGATAGTC
*
3967394 -ATTTCCGCGTTGCGATAGTC
1 AAATT-CGCGTTGCGATAGTC
3967414 GTTTTCGCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 3 0.05
20 52 0.95
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (20 bp):
AAATTCGCGTTGCGATAGTC
Found at i:3967426 original size:20 final size:20
Alignment explanation
Indices: 3967337--3967429 Score: 105
Period size: 20 Copynumber: 4.7 Consensus size: 20
3967327 CGAAACTAAA
* **
3967337 TTCGTGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
* **
3967357 TTCGCGTTCCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
3967377 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
* *
3967397 TCCGCGTTGCGATAGTCGTT
1 TTCGCGTTGCGATAGTCATT
*
3967417 TTCGCATTGCGAT
1 TTCGCGTTGCGAT
3967430 TATCCCGTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCATT
Found at i:3969493 original size:20 final size:20
Alignment explanation
Indices: 3969470--3969525 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
3969460 TCTGAAACTT
3969470 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
3969490 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
3969510 ATTATCGCAACGCGAA
1 AAAATCGCAACACGAA
3969526 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Done.