Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000471.1 Hibiscus syriacus cultivar Beakdansim tig00000875_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: 155414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3762 original size:3 final size:3
Alignment explanation
Indices: 3756--3803 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
3746 TATTATAACC
* *
3756 ATT ATT ATT ATT ATT ATT ATT AATT -TT AAT ATT ATT ATT ATG ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
3801 ATT
1 ATT
3804 TTTCATGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:3788 original size:24 final size:24
Alignment explanation
Indices: 3761--3820 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
3751 TAACCATTAT
3761 TATTATTATTATTATTAATTTTAA
1 TATTATTATTATTATTAATTTTAA
* * *
3785 TATTATTATTATGATTATTTTTCA
1 TATTATTATTATTATTAATTTTAA
*
3809 TGTTATT-TTATT
1 TATTATTATTATT
3821 TGTTTATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (24 bp):
TATTATTATTATTATTAATTTTAA
Found at i:4090 original size:2 final size:2
Alignment explanation
Indices: 4083--4118 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4073 CCATATCTTA
*
4083 AT AT AT AT AT AT AT AT AT AT TT 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
4119 CGTTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:14667 original size:6 final size:6
Alignment explanation
Indices: 14656--14716 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
14646 TAAGTCGAAG
* ** * *
14656 AAAGAA AAAGAA TAAGAA AAAG-A GCA-AA AAAGAA AAAGGA AACGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
14702 AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAA
14717 CGTTTAGGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:16149 original size:106 final size:106
Alignment explanation
Indices: 15884--16580 Score: 758
Period size: 106 Copynumber: 6.5 Consensus size: 106
15874 GATGAAGGGG
* *
15884 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGAGAAGGATATT--ACTCAAGACAGCACAAGC
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGC
*
15947 TCAACTTCACAGCGAAAGGGCGACTGACTGTCAACAAACAA
66 TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAA
* * * * * *
15988 CTTTTTCAATTTCATTCAGAGTCAATTTCAACTTCACAACGAATGATATTAGACTCGAGACAGCA
1 --TTTCCCA-GT--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAGCA
* * * *
16053 CAAGCTCAACTTCATAGGGAAGGGGCCG-CTGGCTGTCAACAAATAA
61 CAAGCTCAACTTCACAGCGAAGGGG-CGACTGACTGTCAACAAACAA
* * * * *
16099 TTTCCCAGTTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAAC
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGC
* * *
16164 TCAACTTCACAGCGAATGGGCGACTAACTGTCAAAAAACAA
66 TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAA
** * * * *
16205 CTTTTTCAGTTTCATTCAGAGTCAGTTTCAACTTCACAACGAAGGATATTAGACTCGAGACATCA
1 -TTTCCCAG--T--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAGCA
* * * *
16270 CAAGCTCACCTTCACAGCAAAGGGGCGGCTGGCTGTCAACAAACAA
61 CAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAA
* * *
16316 TTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC-ATGACAACACAAG
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGA-GACAGCACAAG
* ** *
16380 CTCAACTTCACAACGAAGGGGCGACTGGTTATCAACAAACAA
65 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAA
* * * * *
16422 CTTCTCAGTTTCATTCAGAGTCAATTTCAATTTCACAGCGAAGGAT-TTAGACTCGAGGCAGCAC
1 TTTCCCAG--T--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAGCAC
* * * *
16486 AAGCTCAACTTCATAGTGAAGGGGCGGCTGACTGTCAACAAATAA
62 AAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAA
* *
16531 TTTCCCAGTTCCAGAGCCAATTTCAACTTCAC-GACGAAGGATATTGGACT
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTAGACT
16581 TGGAACAATA
Statistics
Matches: 487, Mismatches: 84, Indels: 40
0.80 0.14 0.07
Matches are distributed among these distances:
104 1 0.00
105 31 0.06
106 179 0.37
107 8 0.02
108 3 0.01
109 94 0.19
110 37 0.08
111 132 0.27
112 2 0.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGC
TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAA
Found at i:16257 original size:217 final size:217
Alignment explanation
Indices: 15884--16580 Score: 1071
Period size: 217 Copynumber: 3.2 Consensus size: 217
15874 GATGAAGGGG
* *
15884 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGAGAAGGATATT--ACTCAAGACAGCACAAGC
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGC
*
15947 TCAACTTCACAGCGAAAGGGCGACTGACTGTCAACAAACAACTTTTTCAATTTCATTCAGAGTCA
66 TCAACTTCACAGCGAAAGGGCGACTGACTGTCAACAAACAACTTTTTCAGTTTCATTCAGAGTCA
* *
16012 ATTTCAACTTCACAACGAATGATATTAGACTCGAGACAGCACAAGCTCAACTTCATAGGGAAGGG
131 ATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCATAGCGAAGGG
*
16077 GCCGCTGGCTGTCAACAAATAA
196 GCGGCTGGCTGTCAACAAATAA
* *
16099 TTTCCCAGTTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAAC
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGC
* * *
16164 TCAACTTCACAGCGAATGGGCGACTAACTGTCAAAAAACAACTTTTTCAGTTTCATTCAGAGTCA
66 TCAACTTCACAGCGAAAGGGCGACTGACTGTCAACAAACAACTTTTTCAGTTTCATTCAGAGTCA
* * * * *
16229 GTTTCAACTTCACAACGAAGGATATTAGACTCGAGACATCACAAGCTCACCTTCACAGCAAAGGG
131 ATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCATAGCGAAGGG
*
16294 GCGGCTGGCTGTCAACAAACAA
196 GCGGCTGGCTGTCAACAAATAA
* *
16316 TTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCATGACAACACAAGC
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGC
* * ** * *
16381 TCAACTTCACAACGAAGGGGCGACTGGTTATCAACAAACAAC-TTCTCAGTTTCATTCAGAGTCA
66 TCAACTTCACAGCGAAAGGGCGACTGACTGTCAACAAACAACTTTTTCAGTTTCATTCAGAGTCA
* * * *
16445 ATTTCAATTTCACAGCGAAGGAT-TTAGACTCGAGGCAGCACAAGCTCAACTTCATAGTGAAGGG
131 ATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCATAGCGAAGGG
*
16509 GCGGCTGACTGTCAACAAATAA
196 GCGGCTGGCTGTCAACAAATAA
*
16531 TTTCCCAGTTCCAGAGCCAATTTCAACTTCAC-GACGAAGGATATTGGACT
1 TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACT
16581 TGGAACAATA
Statistics
Matches: 437, Mismatches: 42, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
214 1 0.00
215 144 0.33
216 41 0.09
217 251 0.57
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (217 bp):
TTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGC
TCAACTTCACAGCGAAAGGGCGACTGACTGTCAACAAACAACTTTTTCAGTTTCATTCAGAGTCA
ATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCATAGCGAAGGG
GCGGCTGGCTGTCAACAAATAA
Found at i:18571 original size:24 final size:25
Alignment explanation
Indices: 18522--18590 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
18512 GTTTTTGCAT
*
18522 CGAAGTACCGCATAGAAATTTATCC
1 CGAAGGACCGCATAGAAATTTATCC
* *
18547 CGAAGGACCGCGTAG-AATTTGTCC
1 CGAAGGACCGCATAGAAATTTATCC
* * * *
18571 CAAATGACCACATATAAATT
1 CGAAGGACCGCATAGAAATT
18591 CCTTAAGAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 18 0.51
25 17 0.49
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (25 bp):
CGAAGGACCGCATAGAAATTTATCC
Found at i:25366 original size:26 final size:25
Alignment explanation
Indices: 25329--25414 Score: 79
Period size: 26 Copynumber: 3.5 Consensus size: 25
25319 CACTACAGCT
*
25329 CGTATAAA-TTGCACCGAAGTACCG
1 CGTAGAAATTTGCACCGAAGTACCG
** *
25353 CGTAGAGTTTTTGCACCGAAGTGCCG
1 CGTAGA-AATTTGCACCGAAGTACCG
* *
25379 CTTAGAAATTTGTC-CCGAAGGACCG
1 CGTAGAAATTTG-CACCGAAGTACCG
25404 CGTAG-AATTTG
1 CGTAGAAATTTG
25415 TCCCGAATGA
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
24 11 0.22
25 17 0.35
26 21 0.43
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (25 bp):
CGTAGAAATTTGCACCGAAGTACCG
Found at i:25417 original size:24 final size:24
Alignment explanation
Indices: 25342--25426 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 24
25332 ATAAATTGCA
* * *
25342 CCGAAGTACCGCGTAGAGTTTTTGC
1 CCGAAGGACCGCGTAGAATTTGT-C
*
25367 ACCGAAGTG-CCGCTTAGAAATTTGTC
1 -CCGAAG-GACCGCGTAG-AATTTGTC
25393 CCGAAGGACCGCGTAGAATTTGTC
1 CCGAAGGACCGCGTAGAATTTGTC
*
25417 CCGAATGACC
1 CCGAAGGACC
25427 ACATATAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
24 18 0.36
25 13 0.26
26 14 0.28
27 5 0.10
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.24
Consensus pattern (24 bp):
CCGAAGGACCGCGTAGAATTTGTC
Found at i:26126 original size:21 final size:21
Alignment explanation
Indices: 26102--26159 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
26092 TCGTTTAAGG
*
26102 GGGTATCGATTCCCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
26123 GGGTACCGATTCCCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
*
26144 GGCTACCGATTCCCCT
1 GGGTACCGATTCCCCT
26160 AGCCCAGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.22, T:0.29
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:27322 original size:3 final size:3
Alignment explanation
Indices: 27316--27406 Score: 84
Period size: 3 Copynumber: 31.0 Consensus size: 3
27306 TATTATAACC
*
27316 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AATT -TT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
* * *
27361 ATT ATT CA-T ATT ATT -TT ATT -TGT -TT ATT TTT ATT TTT ATT GTT
1 ATT ATT -ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
27404 ATT
1 ATT
27407 TTTTATTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
2 7 0.10
3 62 0.85
4 4 0.05
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:27395 original size:19 final size:19
Alignment explanation
Indices: 27374--27416 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
27364 ATTCATATTA
27374 TTTTATTTGTT-TATTTTTAT
1 TTTTA-TTGTTAT-TTTTTAT
27394 TTTTATTGTTATTTTTTAT
1 TTTTATTGTTATTTTTTAT
27413 TTTT
1 TTTT
27417 GTTTACAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTATTGTTATTTTTTAT
Found at i:27415 original size:6 final size:6
Alignment explanation
Indices: 27320--27416 Score: 52
Period size: 6 Copynumber: 15.3 Consensus size: 6
27310 ATAACCATTA
* * * * * * * *
27320 TTATTA TTATTA TTATTA TTATTA TTAATT TTAATA TTATTA TTATTCAT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATT--T
*
27370 ATTA-TT TTATTTGT TTATTT TTATTT TTATTG TTATTTT TTATTT TT
1 -TTATTT TTA-TT-T TTATTT TTATTT TTATTT TTA-TTT TTATTT TT
27417 GTTTACAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
5 3 0.04
6 58 0.75
7 8 0.10
8 5 0.06
9 3 0.04
ACGTcount: A:0.26, C:0.01, G:0.02, T:0.71
Consensus pattern (6 bp):
TTATTT
Found at i:27681 original size:2 final size:2
Alignment explanation
Indices: 27674--27734 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
27664 CATAACCTAT
27674 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
27716 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
27735 GGTAGTTCAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29321 original size:30 final size:30
Alignment explanation
Indices: 29250--29330 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
29240 ATAAGAGATT
* * *
29250 ATATGACATGAGCTATGTAACCATATGAGA
1 ATATGACATGAGATATGTGATCATATGAGA
*
29280 A-AGTGACATGAGTTATGTGATCATATGAGA
1 ATA-TGACATGAGATATGTGATCATATGAGA
* *
29310 ATATGAAATGAGAAATGTGAT
1 ATATGACATGAGATATGTGAT
29331 ATGTGAATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.28
Consensus pattern (30 bp):
ATATGACATGAGATATGTGATCATATGAGA
Found at i:34214 original size:23 final size:23
Alignment explanation
Indices: 34146--34206 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
34136 CAATCTTACA
*
34146 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
34169 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
34192 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
34207 TTTATACGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:34881 original size:32 final size:32
Alignment explanation
Indices: 34855--34956 Score: 125
Period size: 32 Copynumber: 3.2 Consensus size: 32
34845 GTAGGCATTG
*
34855 AGGCCCTAAGGTATTTCCTTGAGTAGGCTCTA
1 AGGCCCTAAGGTACTTCCTTGAGTAGGCTCTA
* *
34887 AGGCCCCAAGGTACTTCCTT-AGGTAGGCTCTT
1 AGGCCCTAAGGTACTTCCTTGA-GTAGGCTCTA
* * * *
34919 AGGCCTTAAGGTACTCCCTTGGGTAGGCTCTC
1 AGGCCCTAAGGTACTTCCTTGAGTAGGCTCTA
34951 AGGCCC
1 AGGCCC
34957 CAAAATATTC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
31 1 0.02
32 58 0.98
ACGTcount: A:0.19, C:0.27, G:0.26, T:0.27
Consensus pattern (32 bp):
AGGCCCTAAGGTACTTCCTTGAGTAGGCTCTA
Found at i:34973 original size:64 final size:64
Alignment explanation
Indices: 34855--34974 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 64
34845 GTAGGCATTG
* * **
34855 AGGCCCTAAGGTATTTCCTTGAGTAGGCTCTAAGGCCCCAAGGTACTTCCTTAGGTAGGCTCTT
1 AGGCCCTAAGGTACTCCCTTGAGTAGGCTCTAAGGCCCCAAAATACTTCCTTAGGTAGGCTCTT
* * *
34919 AGGCCTTAAGGTACTCCCTTGGGTAGGCTCTCAGGCCCCAAAATA-TTCCTTTAGGT
1 AGGCCCTAAGGTACTCCCTTGAGTAGGCTCTAAGGCCCCAAAATACTTCC-TTAGGT
34975 TTGCACCTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
63 4 0.08
64 44 0.92
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (64 bp):
AGGCCCTAAGGTACTCCCTTGAGTAGGCTCTAAGGCCCCAAAATACTTCCTTAGGTAGGCTCTT
Found at i:44729 original size:18 final size:18
Alignment explanation
Indices: 44706--44751 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
44696 TGTAATTATA
44706 TATATATATTACAATTTT
1 TATATATATTACAATTTT
* *
44724 TATATAT-TTTCACTTTT
1 TATATATATTACAATTTT
44741 TA-ATATGATTA
1 TATATAT-ATTA
44752 GCGAATTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.17
17 10 0.43
18 9 0.39
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (18 bp):
TATATATATTACAATTTT
Found at i:46537 original size:19 final size:19
Alignment explanation
Indices: 46493--46545 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
46483 AAATCGCAAC
46493 GCGATTTTAGTTTCGCATT
1 GCGATTTTAGTTTCGCATT
** *
46512 GAAATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCATT
46531 GCGATTTTAAGTTTC
1 GCGATTTT-AGTTTC
46546 AGAAACTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.47
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCATT
Found at i:48680 original size:21 final size:21
Alignment explanation
Indices: 48634--48727 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 21
48624 CACCTTTCAT
* *
48634 CGTTCAAGAGGCCTC-TCCTAT
1 CGTTCAAGAGGCCCCTTCC-AC
*
48655 TGTTCAAGAGGCCCCTTCCAC
1 CGTTCAAGAGGCCCCTTCCAC
*
48676 CGTTCAAGAGGCCCCTAT-CAT
1 CGTTCAAGAGGCCCCT-TCCAC
* *
48697 CGTTCAAGAGGTCCCTTTCAC
1 CGTTCAAGAGGCCCCTTCCAC
* *
48718 CTTTCGAGAG
1 CGTTCAAGAG
48728 CCCGATTCAC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.02
21 56 0.92
22 4 0.07
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTTCCAC
Found at i:48702 original size:42 final size:42
Alignment explanation
Indices: 48634--48727 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
48624 CACCTTTCAT
* *
48634 CGTTCAAGAGGCCTCTCCTATTGTTCAAGAGGCCCCTTCCAC
1 CGTTCAAGAGGCCCCTCCTATCGTTCAAGAGGCCCCTTCCAC
* * *
48676 CGTTCAAGAGGCCCCT-ATCATCGTTCAAGAGGTCCCTTTCAC
1 CGTTCAAGAGGCCCCTCCT-ATCGTTCAAGAGGCCCCTTCCAC
* *
48718 CTTTCGAGAG
1 CGTTCAAGAG
48728 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 43 0.98
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (42 bp):
CGTTCAAGAGGCCCCTCCTATCGTTCAAGAGGCCCCTTCCAC
Found at i:50278 original size:29 final size:29
Alignment explanation
Indices: 50236--50337 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
50226 ATTTGTAACA
50236 CGAAAGTCAAATTCGCGTTGCGATGGTTG
1 CGAAAGTCAAATTCGCGTTGCGATGGTTG
**
50265 CGAAAGTCAAATTCGC--AAC-A------
1 CGAAAGTCAAATTCGCGTTGCGATGGTTG
*
50285 CGAAAGTCAAATTCGTGTTGCGATGGTTG
1 CGAAAGTCAAATTCGCGTTGCGATGGTTG
*
50314 CGAAAGTCAAACTCGCGTTGCGAT
1 CGAAAGTCAAATTCGCGTTGCGAT
50338 TTCAAGGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
20 15 0.26
22 1 0.02
23 1 0.02
26 1 0.02
27 1 0.02
29 38 0.67
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (29 bp):
CGAAAGTCAAATTCGCGTTGCGATGGTTG
Found at i:50287 original size:49 final size:49
Alignment explanation
Indices: 50215--50329 Score: 185
Period size: 49 Copynumber: 2.3 Consensus size: 49
50205 CTTTCGCAAC
* * *
50215 GCGAAAATCAAATTTGTAACACGAAAGTCAAATTCGCGTTGCGATGGTT
1 GCGAAAGTCAAATTCGCAACACGAAAGTCAAATTCGCGTTGCGATGGTT
*
50264 GCGAAAGTCAAATTCGCAACACGAAAGTCAAATTCGTGTTGCGATGGTT
1 GCGAAAGTCAAATTCGCAACACGAAAGTCAAATTCGCGTTGCGATGGTT
*
50313 GCGAAAGTCAAACTCGC
1 GCGAAAGTCAAATTCGC
50330 GTTGCGATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (49 bp):
GCGAAAGTCAAATTCGCAACACGAAAGTCAAATTCGCGTTGCGATGGTT
Found at i:50563 original size:18 final size:18
Alignment explanation
Indices: 50540--50575 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50530 AAGCCGGTTG
*
50540 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
50558 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
50576 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:53625 original size:14 final size:15
Alignment explanation
Indices: 53590--53626 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
53580 AGAAATCATT
53590 AAAAAATTATATAGA
1 AAAAAATTATATAGA
53605 AATAAAATTATATA-A
1 AA-AAAATTATATAGA
53620 AAAAAAT
1 AAAAAAT
53627 AGAGATGGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 5 0.24
16 11 0.52
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AAAAAATTATATAGA
Found at i:53809 original size:20 final size:20
Alignment explanation
Indices: 53761--53812 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
53751 TACCCAAAAC
53761 ATTTGTGTTGCGAAACTAAA
1 ATTTGTGTTGCGAAACTAAA
** *
53781 A--CCTGTTGCGAAATTAAA
1 ATTTGTGTTGCGAAACTAAA
53799 ATTTGTGTTGCGAA
1 ATTTGTGTTGCGAA
53813 TTCGAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 15 0.60
20 10 0.40
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
ATTTGTGTTGCGAAACTAAA
Found at i:53868 original size:20 final size:21
Alignment explanation
Indices: 53837--53895 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
53827 TGCGAAAACA
*
53837 AAATTC-GCGTTGCGAATTCAG
1 AAATTCAGTGTTGCGAATT-AG
*
53858 AAA-TCAG-GTTGCGAATTTG
1 AAATTCAGTGTTGCGAATTAG
53877 AAATTCAGTGTTGCGAATT
1 AAATTCAGTGTTGCGAATT
53896 TGGAAACTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 4 0.12
20 16 0.47
21 14 0.41
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (21 bp):
AAATTCAGTGTTGCGAATTAG
Found at i:53869 original size:40 final size:40
Alignment explanation
Indices: 53785--53872 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
53775 ACTAAAACCT
** * * *
53785 GTTGCGAAATTAAAATTTGTGTTGCGAATTCGAAAAATGA
1 GTTGCGAAAACAAAATTCGCGTTGCGAATTCGAAAAATCA
*
53825 GTTGCGAAAACAAAATTCGCGTTGCGAATTC-AGAAATCA
1 GTTGCGAAAACAAAATTCGCGTTGCGAATTCGAAAAATCA
53864 GGTTGCGAA
1 -GTTGCGAA
53873 TTTGAAATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.15
40 35 0.85
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (40 bp):
GTTGCGAAAACAAAATTCGCGTTGCGAATTCGAAAAATCA
Found at i:53891 original size:21 final size:20
Alignment explanation
Indices: 53845--53937 Score: 75
Period size: 20 Copynumber: 4.6 Consensus size: 20
53835 CAAAATTCGC
*
53845 GTTGCGAATTCAGAAA-TCAG
1 GTTGCGAATT-TGAAATTCAG
53865 GTTGCGAATTTGAAATTCAG
1 GTTGCGAATTTGAAATTCAG
* *
53885 TGTTGCGAATTTGGAAACTGA-
1 -GTTGCGAATTT-GAAATTCAG
* * *
53906 GTTACGAAATTGGAATTC-G
1 GTTGCGAATTTGAAATTCAG
53925 CGTTGCGAATTTG
1 -GTTGCGAATTTG
53938 TTGGTCATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
19 8 0.14
20 33 0.57
21 11 0.19
22 6 0.10
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCAG
Found at i:53908 original size:81 final size:80
Alignment explanation
Indices: 53785--53935 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 80
53775 ACTAAAACCT
* *
53785 GTTGCGAAATTAAAATTTGTGTTGCGAATTCGAAAAATGAGTTGCGAAAACAAAATTCGCGTTGC
1 GTTGCGAAATTAAAATTAGTGTTGCGAATTCGAAAAATGAGTTACGAAAACAAAATTCGCGTTGC
53850 GAATTCAGAAATCAG
66 GAATTCAGAAATCAG
* * * * * ****
53865 GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGGAAACTGAGTTACGAAATTGGAATTCGCGTTG
1 GTTGCGAAATTAAAATT-AGTGTTGCGAATTCGAAAAATGAGTTACGAAAACAAAATTCGCGTTG
53930 CGAATT
65 CGAATT
53936 TGTTGGTCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
80 15 0.25
81 44 0.75
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (80 bp):
GTTGCGAAATTAAAATTAGTGTTGCGAATTCGAAAAATGAGTTACGAAAACAAAATTCGCGTTGC
GAATTCAGAAATCAG
Found at i:54478 original size:14 final size:13
Alignment explanation
Indices: 54439--54480 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
54429 GTGGTTGAAA
*
54439 TTTTAATAGTTAT
1 TTTTAATATTTAT
54452 TTTTAAT-TATTAT
1 TTTTAATAT-TTAT
54465 TTTTGAATATTTAT
1 TTTT-AATATTTAT
54479 TT
1 TT
54481 ATTTTAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 15 0.60
14 9 0.36
15 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (13 bp):
TTTTAATATTTAT
Found at i:55686 original size:19 final size:20
Alignment explanation
Indices: 55655--55699 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
55645 AACTATACCA
55655 GGTAAAAATATGAT-AAACC
1 GGTAAAAATATGATAAAACC
55674 GGTAACAAA-ATGATAAAACC
1 GGTAA-AAATATGATAAAACC
55694 GGTAAA
1 GGTAAA
55700 TTTAAAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.18
Consensus pattern (20 bp):
GGTAAAAATATGATAAAACC
Found at i:55842 original size:21 final size:20
Alignment explanation
Indices: 55818--55864 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
55808 CGATATAACA
55818 GGTAAAAAATATGATAAAACC
1 GGTAAAAAA-ATGATAAAACC
**
55839 GGTATCAAAATG-TAAAACC
1 GGTAAAAAAATGATAAAACC
55858 GGTAAAA
1 GGTAAAA
55865 TGATACCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 12 0.55
20 3 0.14
21 7 0.32
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (20 bp):
GGTAAAAAAATGATAAAACC
Found at i:57964 original size:21 final size:21
Alignment explanation
Indices: 57917--57981 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
57907 AAGACAATCA
* *
57917 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
57939 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
57959 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
57980 AG
1 AG
57982 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:58076 original size:32 final size:32
Alignment explanation
Indices: 58013--58072 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
58003 AAATAGATGG
*
58013 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
* *
58045 AGTGGTGAATGAAGTTG-GGTGTTAAGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGG
58073 GTGATTAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 10 0.40
32 15 0.60
ACGTcount: A:0.28, C:0.00, G:0.47, T:0.25
Consensus pattern (32 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
Found at i:58266 original size:70 final size:68
Alignment explanation
Indices: 58162--58299 Score: 258
Period size: 70 Copynumber: 2.0 Consensus size: 68
58152 AAGGGGTGGT
58162 TGATAAATACTCGGATGGGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGTAGAA
1 TGATAAATACTCGGATGGGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGTAGAA
58227 AAA
66 AAA
58230 TGATAAATACTCGGATGAAGGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGTAG
1 TGATAAATACTCGGATG--GGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGTAG
58295 AAAAA
64 AAAAA
58300 AAGTACGATG
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
68 17 0.25
70 51 0.75
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.20
Consensus pattern (68 bp):
TGATAAATACTCGGATGGGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAAGAGCTATGTAGAA
AAA
Found at i:58282 original size:35 final size:34
Alignment explanation
Indices: 58180--58288 Score: 98
Period size: 34 Copynumber: 3.1 Consensus size: 34
58170 ACTCGGATGG
58180 GAGCTCAATTGAAGGGTGAAATAAAAGAGATGAA
1 GAGCTCAATTGAAGGGTGAAATAAAAGAGATGAA
*** ***
58214 GAGCT--ATGTAGAAAAATGATAAATACTCG-GATGAA
1 GAGCTCAAT-T-GAAGGGTG--AAATAAAAGAGATGAA
58249 GGAGCTCAATTGAAGGGTGAAATAAAAGAGATGAA
1 -GAGCTCAATTGAAGGGTGAAATAAAAGAGATGAA
58284 GAGCT
1 GAGCT
58289 ATGTAGAAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 16
0.66 0.14 0.19
Matches are distributed among these distances:
32 2 0.04
33 1 0.02
34 21 0.38
35 12 0.22
36 16 0.29
37 1 0.02
38 2 0.04
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.19
Consensus pattern (34 bp):
GAGCTCAATTGAAGGGTGAAATAAAAGAGATGAA
Found at i:59924 original size:19 final size:19
Alignment explanation
Indices: 59900--59943 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
59890 AATGTAGGGT
59900 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
59919 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
59938 T-ATTTT
1 TAATTTT
59944 CGTAGTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:60417 original size:196 final size:197
Alignment explanation
Indices: 60070--60951 Score: 1506
Period size: 195 Copynumber: 4.6 Consensus size: 197
60060 TGGCCAAAGG
*
60070 ATGTAATTTTTCAATCTAACC-GTACAGTTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
60134 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
60199 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCA-CGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
60262 AAT
195 AAT
60265 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
60330 TGTCGACACTAATATAGTTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAG-TTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCA-C
60395 CATAAAGTGTCGATCC-TATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
129 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
60459 TAAT
194 TAAT
60463 ATGTAATTTTTCAATCTAACCGGTACAATTATACC-GTTTTA--TGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
60525 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
*
60590 ATAAAGTGGCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
60655 AAT
195 AAT
*
60658 A-GTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGTGA-AATA-GTCT-AATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
60719 T-TCGACACT-A-ATAG-TTGTGTCGATATTTATTTCCAGAATGAATGG-AAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCA-CC
60779 ATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
60841 -AT
195 AAT
60843 ATGTAATTTTTCAATCTAACCGGTAC-ATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
60907 TGTCGACACT-A-ATAG-TTGTGTCGATATTTTTTTCCAGAATGAATG
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
60952 AATTATAATG
Statistics
Matches: 662, Mismatches: 9, Indels: 38
0.93 0.01 0.05
Matches are distributed among these distances:
185 23 0.03
186 39 0.06
187 39 0.06
188 20 0.03
189 77 0.12
190 11 0.02
191 4 0.01
192 1 0.00
193 8 0.01
194 68 0.10
195 154 0.23
196 116 0.18
197 44 0.07
198 58 0.09
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (197 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
AT
Found at i:61022 original size:124 final size:124
Alignment explanation
Indices: 60833--61077 Score: 433
Period size: 124 Copynumber: 2.0 Consensus size: 124
60823 GAACCCAAAG
*
60833 TATAATGTATATGTAATTTTTCAATCTAACCGGTACATTATACCGGTTTTATGTGAGAATATGTC
1 TATAATGTATATGTAATTTTTCAATCTAACCGGTACATTATACCGGTTTTATGAGAGAATATGTC
60898 TAAATAATGTGTCGACACT-A-ATAG-TTGTGTCGATATTTTTTTCCAGAATGAATGAAT
66 TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAATGAAT
60955 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGT-ATATGTAATTTTTCAATCTAACCGGTAC-ATTATACCGGTTTTATGAGAGAATATG
61020 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATG
64 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATG
61078 GAAAACAGGT
Statistics
Matches: 117, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
122 8 0.07
123 28 0.24
124 47 0.40
125 1 0.01
126 22 0.19
127 11 0.09
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (124 bp):
TATAATGTATATGTAATTTTTCAATCTAACCGGTACATTATACCGGTTTTATGAGAGAATATGTC
TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGAAT
Found at i:61129 original size:316 final size:312
Alignment explanation
Indices: 60647--61271 Score: 1043
Period size: 316 Copynumber: 2.0 Consensus size: 312
60637 AACCCAAAAG
* *
60647 TATAATGTAATAGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGTGAAATAGTCT
1 TATAATGTAATAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAAATAGTCT
60712 AATAATGTTCGACACTAATAGTTGTGTCGATATTTATTTCCAGAATGAATGGAAACAGGGTGCAC
66 AATAATGTTCGACACTAATAGTTGTGTCGATATTTATTTCCAGAATGAATGGAAACAGGGTGCAC
60777 CCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGT
131 CCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGT
*
60841 -ATATGTAATTTTTCAATCTAACCGGTAC-ATTATACCGGTTTTATGTGAGAATATGTCTAAATA
195 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
60904 ATGTGTCGACACT-A-ATAG-TTGTGTCGATATTTTTTTCCAGAATGAATGAAT
260 ATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAATGAAT
60955 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATA-GTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA-AATA-G
61020 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTT-TTTCCAGAATGAATGGAAAAC
63 TCT-AATAATGT-TCGACACT-A-ATAG-TTGTGTCGATATTTATTTCCAGAATGAATGG-AAAC
61084 A-GGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAA
122 AGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAA
61147 AGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATA
185 AGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATA
61212 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATG
250 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATG
61272 GAAAACAGGT
Statistics
Matches: 297, Mismatches: 3, Indels: 22
0.92 0.01 0.07
Matches are distributed among these distances:
308 12 0.04
309 43 0.14
310 4 0.01
311 4 0.01
312 8 0.03
313 8 0.03
314 18 0.06
315 40 0.13
316 51 0.17
317 28 0.09
318 47 0.16
319 1 0.00
320 22 0.07
321 11 0.04
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (312 bp):
TATAATGTAATAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAAATAGTCT
AATAATGTTCGACACTAATAGTTGTGTCGATATTTATTTCCAGAATGAATGGAAACAGGGTGCAC
CCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTA
ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAA
TGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGAAT
Found at i:61437 original size:192 final size:193
Alignment explanation
Indices: 60955--61445 Score: 950
Period size: 194 Copynumber: 2.5 Consensus size: 193
60945 ATGAATGAAT
60955 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
61020 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGGAAAACA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGGAAAACA
61085 GGTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAAAG
131 GGTGCACCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAAAG
61149 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
61214 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGGAAAACA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGGAAAACA
61279 GGTGCACCATAAAGTGTCGATCC-ATATAAAAAGTG-CGATCCCAAAATCATCGAACCCAAAAG
131 GGTGCACCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAG
61341 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
1 TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
61406 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
66 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
61446 CTAATTTAAA
Statistics
Matches: 296, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
191 7 0.02
192 136 0.46
194 153 0.52
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (193 bp):
TATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATG
TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGGAAAACA
GGTGCACCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAAAG
Found at i:62911 original size:6 final size:6
Alignment explanation
Indices: 62887--62983 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
62877 AGCGGTCGCA
* * * * *
62887 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GAAGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * * * * *
62935 GATGAA G-CGAT GAAGAT GATGAT GATGAC GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
62982 GA
1 GA
62984 TGATCCAAAC
Statistics
Matches: 71, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
5 3 0.04
6 68 0.96
ACGTcount: A:0.39, C:0.07, G:0.34, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:62961 original size:9 final size:9
Alignment explanation
Indices: 62902--62987 Score: 66
Period size: 9 Copynumber: 9.7 Consensus size: 9
62892 TGAAGCTGAC
*
62902 GATGAAGAT
1 GATGATGAT
* *
62911 GACGATGAA
1 GATGATGAT
*
62920 GATGACGAT
1 GATGATGAT
* *
62929 GAAGCTGAT
1 GATGATGAT
* *
62938 GAAG-CGAT
1 GATGATGAT
*
62946 GAAGATGAT
1 GATGATGAT
*
62955 GATGATGAC
1 GATGATGAT
62964 GATGATGAT
1 GATGATGAT
*
62973 GATGAAGAT
1 GATGATGAT
62982 GATGAT
1 GATGAT
62988 CCAAACAAGT
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
8 7 0.12
9 53 0.88
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.22
Consensus pattern (9 bp):
GATGATGAT
Found at i:62967 original size:15 final size:15
Alignment explanation
Indices: 62920--62987 Score: 82
Period size: 15 Copynumber: 4.4 Consensus size: 15
62910 TGACGATGAA
* *
62920 GATGACGATGAAGCT
1 GATGATGATGAAGAT
*
62935 GATGAAGCGATGAAGAT
1 GATG-A-TGATGAAGAT
*
62952 GATGATGATGACGAT
1 GATGATGATGAAGAT
62967 GATGATGATGAAGAT
1 GATGATGATGAAGAT
62982 GATGAT
1 GATGAT
62988 CCAAACAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
15 32 0.68
16 2 0.04
17 13 0.28
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.24
Consensus pattern (15 bp):
GATGATGATGAAGAT
Found at i:62984 original size:12 final size:12
Alignment explanation
Indices: 62890--62987 Score: 90
Period size: 12 Copynumber: 8.2 Consensus size: 12
62880 GGTCGCAGAA
* *
62890 GATGAAGCTGAC
1 GATGAAGATGAT
*
62902 GATGAAGATGAC
1 GATGAAGATGAT
*
62914 GATGAAGATGAC
1 GATGAAGATGAT
*
62926 GATGAAGCTGAT
1 GATGAAGATGAT
* * *
62938 GAAG-CGATGAA
1 GATGAAGATGAT
*
62949 GATGATGATGAT
1 GATGAAGATGAT
* *
62961 GACGATGATGAT
1 GATGAAGATGAT
62973 GATGAAGATGAT
1 GATGAAGATGAT
62985 GAT
1 GAT
62988 CCAAACAAGT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
11 7 0.10
12 65 0.90
ACGTcount: A:0.38, C:0.07, G:0.34, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:64751 original size:183 final size:183
Alignment explanation
Indices: 64443--65249 Score: 1431
Period size: 183 Copynumber: 4.4 Consensus size: 183
64433 CTTTCAACAT
** * * * * * *
64443 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
*
64508 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGGAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
64573 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
64626 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
*
64691 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGGAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
64756 AA--TGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
64807 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
64872 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
64937 AATGTGTCGATACGATTTAAGAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
64990 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATA-CGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
* *
65054 GGTCTACAACCTATATCGACACTTTTTAATATCGTGTCGGTACTTTATGTCCTTATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
65119 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* * * *
65172 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
*
65237 TGTCTACAACCTA
66 GGTCTACAACCTA
65250 AAATGTGTCG
Statistics
Matches: 604, Mismatches: 17, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
181 180 0.30
182 178 0.29
183 246 0.41
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:67746 original size:28 final size:23
Alignment explanation
Indices: 67690--67743 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
67680 TAACTACAAG
*
67690 TATATAATGTAATAGGTATCGTT
1 TATATAATGTAATAGGTACCGTT
*
67713 TATATAATGTAATAGGTACCGCT
1 TATATAATGTAATAGGTACCGTT
67736 TATATAAT
1 TATATAAT
67744 ATATTGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (23 bp):
TATATAATGTAATAGGTACCGTT
Found at i:68194 original size:18 final size:18
Alignment explanation
Indices: 68173--68209 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
68163 GTAATTGGAG
68173 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
68191 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
68209 T
1 T
68210 ATATTTCGGC
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:68507 original size:39 final size:39
Alignment explanation
Indices: 68464--68550 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
68454 TCCGATGCTC
*
68464 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
68503 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
68542 ATCAAAATC
1 ATCAAAATC
68551 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:69002 original size:23 final size:21
Alignment explanation
Indices: 68971--69045 Score: 73
Period size: 23 Copynumber: 3.5 Consensus size: 21
68961 ATAGGTAAAA
68971 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCG-TT
* *
68994 ATATAATGTAATATGTATCGTT
1 ATAT-ATGTAATAGGTAGCGTT
*
69016 -TATATGTAATAGGTAGTGGTT
1 ATATATGTAATAGGTAG-CGTT
69037 ATAT-TGTAA
1 ATATATGTAA
69046 AGTGTCTATC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 11 0.25
21 11 0.25
22 5 0.11
23 17 0.39
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.41
Consensus pattern (21 bp):
ATATATGTAATAGGTAGCGTT
Found at i:69425 original size:23 final size:23
Alignment explanation
Indices: 69399--69471 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
69389 AATAGGTAAA
*
69399 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
69422 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
69445 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
69468 ATAT
1 ATAT
69472 GGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:69562 original size:431 final size:430
Alignment explanation
Indices: 68760--69813 Score: 1944
Period size: 431 Copynumber: 2.5 Consensus size: 430
68750 TTATCTTTGG
*
68760 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATC-AAATATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTT
68824 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
*
68889 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGGTATGGACACTTT
131 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
*
68954 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTTAT
196 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
*
69019 ATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
261 ATGTAATAGGTAGTGGTTATATGGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
69084 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATT
69149 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
391 ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
69189 TTTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTT
1 -TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTT
69254 TTTGTGCAAATGAAATTATT-AATTAATA-TGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
65 TTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
69317 TTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
130 TTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
69382 TCAATATAATAGGT-AAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
195 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-
69446 TATAATGTAATAGGTAGTGGTTATATGGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTT
258 TAT-ATGTAATAGGTAGTGGTTATATGGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTT
*
69511 TTTTCACTGTTGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGT
322 TTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGT
69576 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
387 AATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
* *
69620 TT-A--TTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTT
*
69682 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-CAAAAAAT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
69746 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
131 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
69811 CAA
196 CAA
69814 CATATTATAA
Statistics
Matches: 610, Mismatches: 8, Indels: 14
0.97 0.01 0.02
Matches are distributed among these distances:
427 76 0.12
428 128 0.21
429 143 0.23
430 60 0.10
431 203 0.33
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (430 bp):
TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTT
TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
ATGTAATAGGTAGTGGTTATATGGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATT
ATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
Found at i:70316 original size:27 final size:27
Alignment explanation
Indices: 70285--70345 Score: 99
Period size: 26 Copynumber: 2.3 Consensus size: 27
70275 CATTTGATTC
70285 TAAAAAATA-TATTTTATTTTT-ATTTT
1 TAAAAAATAGT-TTTTATTTTTAATTTT
70311 TAAAAAATAGTTTTTATTTTTAATTTT
1 TAAAAAATAGTTTTTATTTTTAATTTT
70338 TAAAAAAT
1 TAAAAAAT
70346 TTGAAAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 19 0.58
27 14 0.42
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
TAAAAAATAGTTTTTATTTTTAATTTT
Found at i:71823 original size:16 final size:16
Alignment explanation
Indices: 71802--71834 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
71792 AATCATTTAA
71802 AACACCAGCCATGTTG
1 AACACCAGCCATGTTG
71818 AACACCAGCCATGTTG
1 AACACCAGCCATGTTG
71834 A
1 A
71835 CTAAAATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (16 bp):
AACACCAGCCATGTTG
Found at i:72862 original size:23 final size:22
Alignment explanation
Indices: 72810--72863 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
72800 TTTTTTCCCC
*
72810 AAAA-TTTTTGAGTTTTTTTAA
1 AAAATTTTTTAAGTTTTTTTAA
72831 AATATATTTTTTAAGTTTTTTTAA
1 AA-A-ATTTTTTAAGTTTTTTTAA
72855 TAAAATTTT
1 -AAAATTTT
72864 CTAAATTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 2 0.07
22 1 0.04
23 6 0.21
24 17 0.61
25 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (22 bp):
AAAATTTTTTAAGTTTTTTTAA
Found at i:78389 original size:46 final size:46
Alignment explanation
Indices: 78339--78426 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
78329 ACATATCTAT
*
78339 ATTATTAAAGGATCCTAGATTTACCTAGTTTAGCCCTCCTATCTGC
1 ATTATTAAAGGATCATAGATTTACCTAGTTTAGCCCTCCTATCTGC
78385 ATTATTAAAGGATCATAGATTTACCTAGTTTAGCCCTCCTAT
1 ATTATTAAAGGATCATAGATTTACCTAGTTTAGCCCTCCTAT
78427 GAGTGCTCTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (46 bp):
ATTATTAAAGGATCATAGATTTACCTAGTTTAGCCCTCCTATCTGC
Found at i:97373 original size:20 final size:20
Alignment explanation
Indices: 97279--97647 Score: 467
Period size: 20 Copynumber: 18.4 Consensus size: 20
97269 GATTTTCCAT
* ** *
97279 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
97299 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
97319 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
97339 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
97359 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
97379 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
97399 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
97419 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
97439 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
97459 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
97479 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
97499 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
97519 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
97539 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
97559 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
97579 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
97599 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
97619 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
97639 AATCACAAC
1 AATCGCAAC
97648 ACTGAAATTT
Statistics
Matches: 307, Mismatches: 34, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 301 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:98360 original size:24 final size:24
Alignment explanation
Indices: 98321--98367 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
98311 AAATTTGGTC
98321 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
98345 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
98368 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:98559 original size:12 final size:12
Alignment explanation
Indices: 98542--98566 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
98532 ATATAATCCT
98542 GAAGAAGAAAAA
1 GAAGAAGAAAAA
98554 GAAGAAGAAAAA
1 GAAGAAGAAAAA
98566 G
1 G
98567 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:100892 original size:19 final size:19
Alignment explanation
Indices: 100870--101177 Score: 351
Period size: 19 Copynumber: 17.4 Consensus size: 19
100860 CGGAAAATAC
*
100870 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
100889 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
100903 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
100923 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
100937 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
100956 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
100975 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
100989 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
101008 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
101027 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
101041 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
101060 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
101079 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
101098 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
101117 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
101131 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
101151 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
101170 AATCGCAA
1 AATCGCAA
101178 CGAGATAATC
Statistics
Matches: 249, Mismatches: 13, Indels: 54
0.79 0.04 0.17
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 12 0.05
17 18 0.07
18 6 0.02
19 140 0.56
20 24 0.10
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:100957 original size:33 final size:34
Alignment explanation
Indices: 100870--101199 Score: 267
Period size: 33 Copynumber: 9.5 Consensus size: 34
100860 CGGAAAATAC
* *
100870 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
100903 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
100937 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
100975 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
101008 AATCGCAATGCGAAATGAAAATCG-AACCGA-CAT
1 AATCGCAATGCGAAATGAAAATCGCAA-CGATGAA
*
101041 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGC-A-ACG--ATGAA
101079 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
101117 AATCGCAA--CGAAA-G--AATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C-G--ATGAA
*
101151 AATCGCAATGCGAAATGAAAATCGCAACGA-GAT
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
101184 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
101200 TATAAACGCA
Statistics
Matches: 256, Mismatches: 15, Indels: 52
0.79 0.05 0.16
Matches are distributed among these distances:
33 107 0.42
34 48 0.19
35 9 0.04
36 17 0.07
37 8 0.03
38 59 0.23
39 8 0.03
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:100985 original size:52 final size:53
Alignment explanation
Indices: 100898--101177 Score: 351
Period size: 52 Copynumber: 5.2 Consensus size: 53
100888 AAATCCCAAC
*
100898 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
*
100951 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* * *
101003 ATGAAAATCGCAATGCGAAATGAAAATCG-AACCGACATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
* *
101055 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAAAATCGCAATGCGAA
101112 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-G--A-GAAAATCGCAATGCGAA
101165 ATGAAAATCGCAA
1 ATGAAAATCGCAA
101178 CGAGATAATC
Statistics
Matches: 212, Mismatches: 8, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
51 2 0.01
52 121 0.57
53 53 0.25
54 3 0.01
55 5 0.02
56 1 0.00
57 27 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAGAAAATCGCAATGCGAA
Found at i:101021 original size:71 final size:71
Alignment explanation
Indices: 100937--101177 Score: 348
Period size: 71 Copynumber: 3.4 Consensus size: 71
100927 GCAACGAGAG
*
100937 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
101002 AATGAA
66 AATGAA
* * *
101008 AATCGCAATGCGAAATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-AA--AGAATCGCAA
*
101068 TACGAAATGAA
61 TGCGAAATGAA
101079 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGG
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGC-G
101144 AAATGAA
65 AAATGAA
101151 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
101178 CGAGATAATC
Statistics
Matches: 150, Mismatches: 9, Indels: 21
0.83 0.05 0.12
Matches are distributed among these distances:
66 8 0.05
68 2 0.01
69 6 0.04
70 2 0.01
71 78 0.52
72 37 0.25
73 7 0.05
74 2 0.01
76 8 0.05
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAA
Found at i:101315 original size:19 final size:19
Alignment explanation
Indices: 101206--101307 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
101196 AAATTATAAA
101206 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
101225 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
101245 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
101261 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
*
101278 CACATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
101297 CGCATTGCGAT
1 CGCATTGCGAT
101308 AGTCATTTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 6 0.08
19 35 0.48
20 19 0.26
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:101433 original size:14 final size:14
Alignment explanation
Indices: 101414--101450 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
101404 CATCAATTAC
101414 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
101428 ACAAATCATCTTTT
1 ACAAATCAACTTTT
101442 ACAAATCAA
1 ACAAATCAA
101451 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:101462 original size:12 final size:12
Alignment explanation
Indices: 101445--101517 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
101435 ATCTTTTACA
101445 AATCAATTAAAC
1 AATCAATTAAAC
*
101457 AATCAA--AAATTG
1 AATCAATTAAA--C
**
101469 AATCAACTTTTAC
1 AATCAA-TTAAAC
101482 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
101495 AATCAA-AAAAC
1 AATCAATTAAAC
101506 AATCAATTAAAC
1 AATCAATTAAAC
101518 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:101479 original size:38 final size:38
Alignment explanation
Indices: 101431--101503 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
101421 AACTTTTACA
*
101431 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
101469 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
101504 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:103394 original size:14 final size:14
Alignment explanation
Indices: 103375--103431 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
103365 GCGAAATGAA
*
103375 AATCGCAACGACAG
1 AATCGCAACGAAAG
103389 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
103406 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
103422 AATCGCAACG
1 AATCGCAACG
103432 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:103402 original size:33 final size:33
Alignment explanation
Indices: 103356--103448 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
103346 GCGAAACCAA
*
103356 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
103389 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
103422 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
103449 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:103413 original size:19 final size:19
Alignment explanation
Indices: 103319--103453 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
103309 TAGTTTACTT
* *
103319 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
103339 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
103358 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
103377 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
103391 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
103410 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
103424 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
103443 TCGCAATGCGA
1 TCGCAACGCGA
103454 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:103471 original size:19 final size:19
Alignment explanation
Indices: 103449--103577 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
103439 AAAATCGCAA
103449 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
103468 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
103482 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
103501 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
103515 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
103534 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
103553 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
103573 TGCGA
1 TGCGA
103578 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:103491 original size:33 final size:33
Alignment explanation
Indices: 103449--103540 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
103439 AAAATCGCAA
103449 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
103482 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
103515 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
103541 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:103910 original size:92 final size:93
Alignment explanation
Indices: 103620--103998 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
103610 TTGAATGGAT
103620 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
103685 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
103713 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
103778 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
103806 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
103870 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
103898 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
103962 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
103990 AAATTTACT
1 AAATTTACT
103999 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
91 22 0.08
92 131 0.46
93 132 0.46
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:105724 original size:14 final size:14
Alignment explanation
Indices: 105705--105794 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
105695 TTGAAATGAA
105705 AATCGCAACGAGAG
1 AATCGCAACGAGAG
105719 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
105736 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
105752 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
105771 AATCGCAACGAGAG
1 AATCGCAACGAGAG
105785 AATCGCAACG
1 AATCGCAACG
105795 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:105742 original size:33 final size:33
Alignment explanation
Indices: 105697--105811 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
105687 TCTTTTGGTT
105697 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
105730 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
105763 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
105796 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
105812 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:105743 original size:19 final size:18
Alignment explanation
Indices: 105704--105816 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
105694 GTTGAAATGA
105704 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
105719 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
105736 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
105752 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
105769 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
105785 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
105802 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
105817 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:105847 original size:14 final size:14
Alignment explanation
Indices: 105828--105882 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
105818 TTTGGTTTCG
105828 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
105842 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
105861 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
105875 CGTTGCGA
1 CGTTGCGA
105883 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:106045 original size:33 final size:33
Alignment explanation
Indices: 106003--106073 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
105993 AATACTAACT
*
106003 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
106036 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
106069 TGAAA
1 TGAAA
106074 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:106307 original size:22 final size:22
Alignment explanation
Indices: 106255--106309 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
106245 TGGTTGTGAG
**
106255 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
106277 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
106299 GGATTTCTTCG
1 GGATTTCTTCG
106310 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:106480 original size:20 final size:20
Alignment explanation
Indices: 106455--106647 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
106445 CTTTAAATAT
106455 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
106475 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
106497 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
106516 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
106536 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
106556 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
106576 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
106596 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
106616 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
106636 CGCGTTGCGATT
1 CGCGTTGCGATT
106648 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:106642 original size:60 final size:60
Alignment explanation
Indices: 106455--106647 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
106445 CTTTAAATAT
**
106455 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
106516 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
106576 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
106636 CGCGTTGCGATT
1 CGCGTTGCGATT
106648 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:106728 original size:20 final size:20
Alignment explanation
Indices: 106703--106754 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
106693 AAGAATCGCG
*
106703 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
106723 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
106743 TTGCGATTCTGG
1 TTGCGATTCTGG
106755 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:114171 original size:6 final size:6
Alignment explanation
Indices: 114160--114198 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
114150 ATGATAACAA
114160 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTA
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTA
114199 AAGTGAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.36
Consensus pattern (6 bp):
TTAGGG
Found at i:117758 original size:14 final size:14
Alignment explanation
Indices: 117739--117768 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
117729 GGTTTCATAC
117739 AATTTGTCGTTGAT
1 AATTTGTCGTTGAT
117753 AATTTGTCGTTGAT
1 AATTTGTCGTTGAT
117767 AA
1 AA
117769 GTTCAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (14 bp):
AATTTGTCGTTGAT
Found at i:120071 original size:16 final size:15
Alignment explanation
Indices: 120050--120079 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
120040 TTTTCCATCA
120050 TCTTAATTCTCTCACG
1 TCTTAATTCT-TCACG
120066 TCTTAATTCTTCAC
1 TCTTAATTCTTCAC
120080 CAAATCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.30, G:0.03, T:0.47
Consensus pattern (15 bp):
TCTTAATTCTTCACG
Found at i:124520 original size:15 final size:15
Alignment explanation
Indices: 124500--124528 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
124490 TTAATATTAT
124500 ATAAAATAAACCTAC
1 ATAAAATAAACCTAC
124515 ATAAAATAAACCTA
1 ATAAAATAAACCTA
124529 AAATAGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAAATAAACCTAC
Found at i:133230 original size:118 final size:119
Alignment explanation
Indices: 133000--133235 Score: 343
Period size: 118 Copynumber: 2.0 Consensus size: 119
132990 ATAGTTAGGT
* * *
133000 ATTTCGATTTAAAAAATTGAAAAATTGGTGGTTAAAGTAAAAGAATAAATAGTTAGGTGGTCAAT
1 ATTTCGATTTAAAAAATTAAAAAATCGGTGGTTAAAGTAAAAGAATAAATAGTTAGGTAGTCAAT
* *
133065 CATATATTTATCCTAAAAACTAATGTTTTTATAGATATTGTATTTTAATTAAAC
66 CATATATTTATCCTAAAAACTAATGATTTTATAGATATTGAATTTTAATTAAAC
*
133119 ATTTCGATTTAAAAAA-TAAAAAATCGGTGGTTAAAGTAAAATAGATAAATAGTTAGGTAGTCAA
1 ATTTCGATTTAAAAAATTAAAAAATCGGTGGTTAAAGTAAAAGA-ATAAATAGTTAGGTAGTCAA
* * * *
133183 TGATATAGTTTATTCT-CAAACTACT-ATTTTATAGATATTGAATTTTAATTAAA
65 TCATATA-TTTATCCTAAAAACTAATGATTTTATAGATATTGAATTTTAATTAAA
133236 TTATATTTAA
Statistics
Matches: 105, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
118 50 0.48
119 48 0.46
120 7 0.07
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (119 bp):
ATTTCGATTTAAAAAATTAAAAAATCGGTGGTTAAAGTAAAAGAATAAATAGTTAGGTAGTCAAT
CATATATTTATCCTAAAAACTAATGATTTTATAGATATTGAATTTTAATTAAAC
Found at i:133267 original size:29 final size:28
Alignment explanation
Indices: 133234--133290 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
133224 ATTTTAATTA
133234 AATTAT-ATTTAAAATTTTAACTAATTTAT
1 AATTATAATTTAAAATTTT-A-TAATTTAT
*
133263 AATTATACATTTAATATTTTATAATTTA
1 AATTATA-ATTTAAAATTTTATAATTTA
133291 ACATTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 13 0.52
30 1 0.04
31 11 0.44
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (28 bp):
AATTATAATTTAAAATTTTATAATTTAT
Found at i:133291 original size:15 final size:15
Alignment explanation
Indices: 133236--133301 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
133226 TTTAATTAAA
*
133236 TTAT-ATTTAAAATT
1 TTATAATTTAATATT
*
133250 TTAACTAATTT-ATA-A
1 TT-A-TAATTTAATATT
133265 TTATACATTTAATATT
1 TTATA-ATTTAATATT
*
133281 TTATAATTTAACATT
1 TTATAATTTAATATT
133296 TTATAA
1 TTATAA
133302 ATTACTTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 2 0.05
14 7 0.17
15 21 0.50
16 8 0.19
17 4 0.10
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATAATTTAATATT
Found at i:133298 original size:23 final size:24
Alignment explanation
Indices: 133224--133298 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 24
133214 TAGATATTGA
* * *
133224 ATTTTAATTAAATTAT-ATTTAAA
1 ATTTTAACTAATTTATAATTTAAC
133247 ATTTTAACTAATTTATAA-TTATAC
1 ATTTTAACTAATTTATAATTTA-AC
*
133271 A-TTTAA-TATTTTATAATTTAAC
1 ATTTTAACTAATTTATAATTTAAC
133293 ATTTTA
1 ATTTTA
133299 TAAATTACTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 12 0.27
23 29 0.66
24 3 0.07
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTTAACTAATTTATAATTTAAC
Found at i:136028 original size:83 final size:83
Alignment explanation
Indices: 135690--137200 Score: 1916
Period size: 83 Copynumber: 18.3 Consensus size: 83
135680 ATGCTTAATA
* * * * ** * * *
135690 TAATCAAACTCAAAGGTATTTGATGATGGATAACCCTTCTCGCCTCGAGTTATGCTGTAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
**
135755 ACGCCTTTGAGCTGAGTG
66 GTGCCTTTGAGCTGAGTG
* ** *
135773 TAATCAAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGA
1 TAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
*
135838 TGTGCATTTGAGCTGAGTG
65 TGTGCCTTTGAGCTGAGTG
* * * **
135857 TAATCGAAATCGAAGGTCTTTGTTGACAGATAACCCTTATAGCCTTGAGTTAT-ATATAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
*
135921 GTGTCTTTGAGCTGAGTG
66 GTGCCTTTGAGCTGAGTG
* * * * * * **
135939 TAATCGAACTCGAAGATCTTGGTTGGCAGATAACCCTTTTTGCCTTGAGCTATATTGCAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
136004 GTGCCTTTGAGCTGAGTG
66 GTGCCTTTGAGCTGAGTG
* *
136022 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
*
136087 GTACCTTTGAGCTGAGTG
66 GTGCCTTTGAGCTGAGTG
* * * * * * *
136105 TAATCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTTGTCTTGAGCTATGATACAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
136170 GTGCCTTTGAGCTGAGTG
66 GTGCCTTTGAGCTGAGTG
* * * *
136188 TAATCGAACTCGAAGGTCTTTGTTAACAGATAACCCTTTTAGCCTTGAGTTATGCTGTAAATTAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
*
136253 GTGTCTTTGAGCTGAGTG
66 GTGCCTTTGAGCTGAGTG
* * * *
136271 TAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTTGCCTTGAGCTATACTGCAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
* *
136336 GTGCCTTTAAGTTGAGTG
66 GTGCCTTTGAGCTGAGTG
* * * *
136354 TAATCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTTGCCTTGAGTTATTCTGCAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
*
136419 GTGCCTTTGAGGTGAGTG
66 GTGCCTTTGAGCTGAGTG
*
136437 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
*
136502 GTGTCTTTGAGCTGAGTG
66 GTGCCTTTGAGCTGAGTG
* ** ** * * *
136520 TAATCGAACTCGAAGGTCTTGGTTGGTAGATAATTCTTATTGCCTTGAGCTATGCTGCAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
136585 GTGCCTTTGAGCTGAGTG
66 GTGCCTTTGAGCTGAGTG
* * * * *
136603 TAATTGAACTCGAAGGTCTTTGTTGACAAATAACCCTTCTAGCCTTTAGTTATGTTGTAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
136668 GTGCCTTTGAGCTGAGTG
66 GTGCCTTTGAGCTGAGTG
* ** * * *
136686 TAATCGAACTCGAAGGTCTTAGTTGGTAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
**
136751 GTGTTTTTGAGCTGAGTG
66 GTGCCTTTGAGCTGAGTG
* ** *
136769 TAATTGAACTCGAAGGTC-----T---A-ATAACCCTTCTAGCCTTGAGTTATATTGTAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
136825 GTGCCTTTGAGCTGAGTG
66 GTGCCTTTGAGCTGAGTG
* * *
136843 TAACCGAACTCGAAGGTCTTGGTTGGA-AGATAACCCTTCTTA-CCTTGAGCTATGCTGCAAATG
1 TAATCGAACTCGAAGGTCTTTGTT-GACAGATAACCCTTC-TAGCCTTGAGTTATGCTGCAAATG
136906 ATGTGCCTTTGAGCTGAGTG
64 ATGTGCCTTTGAGCTGAGTG
* * * * * * *
136926 TAATTGAACTCGAAGGTCTTGGTTGGCATATATCCCTTCTCGCCTTGAGTTATGCTACAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
*
136991 GTGCCTTTGAGTTGAGTG
66 GTGCCTTTGAGCTGAGTG
* * * *
137009 TAATCGAACTCAAAGGTCTTTATTGATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
*
137074 GTGCCTTTGAGCTGAATG
66 GTGCCTTTGAGCTGAGTG
* * * * *
137092 TAATCGAACTTGAAGGTATTTTGTTGATAGATAACCCTTCTAGCCTTGAATTATGCTGTAAAT--
1 TAATCGAACTCGAAGGT-CTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
*
137155 TGTGCCTTTGAGATGAGTG
65 TGTGCCTTTGAGCTGAGTG
* *
137174 TAATCGAACTTGAAGGGTTTTTGTTGA
1 TAATCGAACTCGAA-GGTCTTTGTTGA
137201 AGGTGCTTCT
Statistics
Matches: 1246, Mismatches: 166, Indels: 33
0.86 0.11 0.02
Matches are distributed among these distances:
74 62 0.05
75 1 0.00
78 1 0.00
79 1 0.00
82 113 0.09
83 952 0.76
84 116 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (83 bp):
TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
GTGCCTTTGAGCTGAGTG
Found at i:138207 original size:100 final size:99
Alignment explanation
Indices: 137982--138241 Score: 353
Period size: 100 Copynumber: 2.6 Consensus size: 99
137972 GGCTAGCTAG
* ** * *
137982 ATCCGTAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACCGCTCAA--TATCATTGTATAGA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCT-TTATTGTATAAA
* *
138045 TATTATAATCACCTTTATCAGGCTAGTTGAATGTT
65 TATTATAATCACCTTTATCAGGCTAGCTGAATCTT
** * * *
138080 ATCCATAAAGCCAAGGCATTTAACCAATTGCTCTATAGGGACAACTCAAGCTTTATTATATAAAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAAAT
138145 ATTATAATCACCTTTATCAGGCTTAGCTGAATCTT
66 ATTATAATCACCTTTATCAGGC-TAGCTGAATCTT
* * *
138180 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGACAATTCAAGCTTTATTGTATA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATA
138242 TATGTAATAT
Statistics
Matches: 139, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
98 42 0.30
99 32 0.23
100 65 0.47
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (99 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAAAT
ATTATAATCACCTTTATCAGGCTAGCTGAATCTT
Found at i:142149 original size:20 final size:20
Alignment explanation
Indices: 142126--142163 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
142116 AAAGAAATTA
142126 AAAAATAT-TAAAAATAAAAG
1 AAAAATATGT-AAAATAAAAG
142146 AAAAATATGTAAAATAAA
1 AAAAATATGTAAAATAAA
142164 TAAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAAATATGTAAAATAAAAG
Found at i:150668 original size:16 final size:16
Alignment explanation
Indices: 150647--150677 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
150637 TAATATTAAA
150647 ACTTGAACTCAAAAAG
1 ACTTGAACTCAAAAAG
150663 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
150678 AAAAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Done.