Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008098.1 Hibiscus syriacus cultivar Beakdansim tig00110622_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: 522112
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 2 of 3
Found at i:295859 original size:37 final size:37
Alignment explanation
Indices: 295818--295935 Score: 105
Period size: 37 Copynumber: 3.2 Consensus size: 37
295808 CTTTGATGTT
* * *
295818 GTTTCTATCGAAACAAAATGTCGTCTCGCTAGAGACA
1 GTTTCTATAGAAACAAAATGTTGTCTCGCTTGAGACA
* * *
295855 GTTTCGT-TTGAAAAACAAATTTTGTCTCGCTTGAGACAA
1 GTTTC-TATAGAAACA-AAATGTTGTCTCGCTTGAGAC-A
* * *
295894 TTTTCTAAAAAAAC-AAATGTTGTCTCGCTTGAGACA
1 GTTTCTATAGAAACAAAATGTTGTCTCGCTTGAGACA
*
295930 ATTTCT
1 GTTTCT
295936 CTAAAAAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
36 6 0.09
37 31 0.48
38 20 0.31
39 8 0.12
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (37 bp):
GTTTCTATAGAAACAAAATGTTGTCTCGCTTGAGACA
Found at i:295884 original size:38 final size:38
Alignment explanation
Indices: 295865--295963 Score: 164
Period size: 37 Copynumber: 2.6 Consensus size: 38
295855 GTTTCGTTTG
295865 AAAAACAAATTTTGTCTCGCTTGAGACAATTT-TCTAA
1 AAAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTAA
*
295902 AAAAACAAATGTTGTCTCGCTTGAGACAATTTCTCTAA
1 AAAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTAA
* *
295940 AAAAACAAATTCTATCTCGCTTGA
1 AAAAACAAATTTTGTCTCGCTTGA
295964 TACATTTTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 31 0.54
38 26 0.46
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (38 bp):
AAAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTAA
Found at i:295921 original size:75 final size:76
Alignment explanation
Indices: 295828--295973 Score: 188
Period size: 75 Copynumber: 1.9 Consensus size: 76
295818 GTTTCTATCG
* ** * *
295828 AAACAAAATGTCGTCTCGCTAGAGACAGTTTCGT-TTGAAAAACAAATTTTGTCTCGCTTGAGAC
1 AAACAAAATGTCGTCTCGCTAGAGACAATTTC-TCTAAAAAAACAAATTCTATCTCGCTTGAGAC
295892 AATTTTCTAAAA
65 AATTTTCTAAAA
* * *
295904 AAAC-AAATGTTGTCTCGCTTGAGACAATTTCTCTAAAAAAACAAATTCTATCTCGCTTGATACA
1 AAACAAAATGTCGTCTCGCTAGAGACAATTTCTCTAAAAAAACAAATTCTATCTCGCTTGAGACA
*
295968 TTTTTC
66 ATTTTC
295974 AGCAAATTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
74 1 0.02
75 55 0.92
76 4 0.07
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (76 bp):
AAACAAAATGTCGTCTCGCTAGAGACAATTTCTCTAAAAAAACAAATTCTATCTCGCTTGAGACA
ATTTTCTAAAA
Found at i:295942 original size:37 final size:38
Alignment explanation
Indices: 295828--295963 Score: 161
Period size: 38 Copynumber: 3.6 Consensus size: 38
295818 GTTTCTATCG
* * * **
295828 AAACAAAATGTCGTCTCGCTAGAGACAGTTTCGT-TTGAA
1 AAAC-AAATGTTGTCTCGCTTGAGACAATTTC-TCTAAAA
*
295867 AAACAAATTTTGTCTCGCTTGAGACAATTT-TCTAAAA
1 AAACAAATGTTGTCTCGCTTGAGACAATTTCTCTAAAA
295904 AAACAAATGTTGTCTCGCTTGAGACAATTTCTCTAAAA
1 AAACAAATGTTGTCTCGCTTGAGACAATTTCTCTAAAA
*
295942 AAACAAAT-TCTATCTCGCTTGA
1 AAACAAATGT-TGTCTCGCTTGA
295964 TACATTTTTC
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
36 1 0.01
37 33 0.38
38 48 0.56
39 4 0.05
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (38 bp):
AAACAAATGTTGTCTCGCTTGAGACAATTTCTCTAAAA
Found at i:296329 original size:28 final size:27
Alignment explanation
Indices: 296298--296399 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 27
296288 ACAGTTTCTC
* *
296298 TTGAAACAAATCTTTGAGTATGTTCCTT
1 TTGAAAAAAATCTTTGAGT-TGTTACTT
*
296326 TTGAATAAAAATATTTGAGTTGTTTAC-T
1 TTGAA-AAAAATCTTTGAGTTG-TTACTT
*
296354 TTGAGAAGAAAATCATTGAGTCTGTTACTT
1 TTGA-AA-AAAATCTTTGAGT-TGTTACTT
296384 TTGAAACAAAAT-TTTG
1 TTGAAA-AAAATCTTTG
296400 TCTTTCTTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
28 16 0.26
29 38 0.62
30 7 0.11
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (27 bp):
TTGAAAAAAATCTTTGAGTTGTTACTT
Found at i:296435 original size:60 final size:61
Alignment explanation
Indices: 296362--296516 Score: 224
Period size: 60 Copynumber: 2.5 Consensus size: 61
296352 CTTTGAGAAG
* * *
296362 AAAATCATTGAGTCTGTTACTTTTGAAACAAAATTTTGTCTTTCTTGAGACAATTTCGT-A
1 AAAATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTCGTAA
* *
296422 AAAATCTTTGAGTCTATTTCTTTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTTGTGAA
1 AAAATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTCGT-AA
*
296484 AAAATCTTTGAGT-TGTTTCTTTTGGAAAAAAAA
1 AAAATCTTTGAGTCTGTTTCTTTT-GAAACAAAA
296517 ATCTTTGAGT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
60 54 0.64
61 9 0.11
62 22 0.26
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.42
Consensus pattern (61 bp):
AAAATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTCGTAA
Found at i:296518 original size:30 final size:30
Alignment explanation
Indices: 296482--296546 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
296472 CAATTTTGTG
296482 AAAAAATCTTTGAGT-TGTTTCTTTTGGAAA
1 AAAAAATCTTTGAGTCTGTTTC-TTTGGAAA
296512 AAAAAATCTTTGAGTCTGTTTCTTTGGAAA
1 AAAAAATCTTTGAGTCTGTTTCTTTGGAAA
*
296542 CAAAA
1 AAAAA
296547 TTTTGTTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 27 0.82
31 6 0.18
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (30 bp):
AAAAAATCTTTGAGTCTGTTTCTTTGGAAA
Found at i:296523 original size:92 final size:95
Alignment explanation
Indices: 296421--296591 Score: 285
Period size: 92 Copynumber: 1.8 Consensus size: 95
296411 ACAATTTCGT
*
296421 AAAAATCTTTGAGTCTATTTCTTTTGAAACAAAATTTTGTCTCTCTTGAGACAA-TT-TTGTGA-
1 AAAAATCTTTGAGTCTATTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTTGTGAG
296483 AAAAATCTTTGAGTTGTTTCTTTTGGAAAA
66 AAAAATCTTTGAGTTGTTTCTTTTGGAAAA
* * *
296513 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTTTCTCTTGAGACAATTTCTTTTGAG
1 AAAAATCTTTGAGTCTATTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTTGTGAG
296578 AAAAATCTTTGAGT
66 AAAAATCTTTGAGT
296592 CTTTGGTAAC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
92 51 0.71
93 2 0.03
94 5 0.07
95 14 0.19
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (95 bp):
AAAAATCTTTGAGTCTATTTCTTTGGAAACAAAATTTTGTCTCTCTTGAGACAATTTCTTGTGAG
AAAAATCTTTGAGTTGTTTCTTTTGGAAAA
Found at i:296637 original size:95 final size:89
Alignment explanation
Indices: 296421--296641 Score: 234
Period size: 92 Copynumber: 2.4 Consensus size: 89
296411 ACAATTTCGT
* *
296421 AAAAATCTTTGAGTCTATTTCTTTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTTGTGAAAA
1 AAAAATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTTGTGAAAA
296486 AATCTTTGAGTTGTTTCTTTTGGAAAA
66 AATCTTTGA--TG-TTCTTTTGGAAAA
* *
296513 AAAAATCTTTGAGTCTGTTT-CTTTGGAAACAAAATTTTGTTTCTCTTGAGACAATTTCTTTTGA
1 AAAAATCTTTGAGTCTGTTTCCTTT-GAAACAAAATTTTGTCTCTCTTGAGACAA-TT-TTGTGA
296577 GAAAAATCTTTGA-G-TC-TTTGGTAACAA
63 -AAAAATCTTTGATGTTCTTTTGG-AA-AA
* * *
296604 AATTTACCATCTTTAAGTCTGTTTCCCTTGAAACAAAA
1 AA---A-AATCTTTGAGTCTGTTTCCTTTGAAACAAAA
296642 CAAACATCTT
Statistics
Matches: 111, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
89 5 0.05
90 4 0.04
91 7 0.06
92 48 0.43
93 2 0.02
94 6 0.05
95 36 0.32
96 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.42
Consensus pattern (89 bp):
AAAAATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTGTCTCTCTTGAGACAATTTTGTGAAAA
AATCTTTGATGTTCTTTTGGAAAA
Found at i:297129 original size:133 final size:133
Alignment explanation
Indices: 296874--297213 Score: 432
Period size: 134 Copynumber: 2.5 Consensus size: 133
296864 CCATCATCCT
* * * * *
296874 TAAAGATGGCCAGCCATCCTCATCATGTAGGAACCGTGTCATCCCCTGACTAGACCTCTTCATCA
1 TAAAGATGGCCAGCAATCCTCATCACGTAGGAACCGTGTCATCCCC-GACCAGATCTCCTCATCA
* * *
296939 CGTAGGAGTCGTGTCAACCATAGATAACTAGTCATCCTCATCACGTAGGAACCGAGTTATCACCA
65 CGTAGGAGCCGTATCAACCATAGATAACCAGTCATCCTCATCACGTAGGAACCGAGTTATCACC-
297004 CT-CC
129 CTACC
** * *
297008 TAAAGATGGCCAGCTGTCCTCATCACGTAGGAATCGTGTCATCCCCGACCAGGTCTCCTCATCAC
1 TAAAGATGGCCAGCAATCCTCATCACGTAGGAACCGTGTCATCCCCGACCAGATCTCCTCATCAC
* * ** *
297073 GTAGGAGCCGTATCACCCTTAGATAACCAGTTTTCCTCATCACGTAGGAACTGAGTTATCACCCT
66 GTAGGAGCCGTATCAACCATAGATAACCAGTCATCCTCATCACGTAGGAACCGAGTTATCACCCT
297138 ACC
131 ACC
* * * *
297141 TAAAGATGGCCA-CGAACTCTTCATCACGTATGAGCAGTGTCATCCCCGACCAGATCTCCTCATC
1 TAAAGATGGCCAGC-AA-TCCTCATCACGTAGGAACCGTGTCATCCCCGACCAGATCTCCTCATC
*
297205 AAGTAGGAG
64 ACGTAGGAG
297214 TCGTGTCTCC
Statistics
Matches: 178, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
132 3 0.02
133 84 0.47
134 91 0.51
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (133 bp):
TAAAGATGGCCAGCAATCCTCATCACGTAGGAACCGTGTCATCCCCGACCAGATCTCCTCATCAC
GTAGGAGCCGTATCAACCATAGATAACCAGTCATCCTCATCACGTAGGAACCGAGTTATCACCCT
ACC
Found at i:297425 original size:3 final size:3
Alignment explanation
Indices: 297419--297477 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
297409 CTTTTTTTTA
* * * *
297419 ATT ATT ATT -TT ATT -TT ATT AGT ATT AGT ATT ATT ATT ATT AGT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
297465 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
297478 ATTTACATGT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 4 0.09
3 43 0.91
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:299034 original size:30 final size:30
Alignment explanation
Indices: 299000--299071 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
298990 AGGTTTTCTA
* *
299000 TTTTTGTTATTTGGATCCTTTAATTTTATG
1 TTTTTGTCATTTGGATACTTTAATTTTATG
299030 TTTTTGTCATTTGGATACTTTAATTTTATG
1 TTTTTGTCATTTGGATACTTTAATTTTATG
*
299060 TTTTTGTGATTT
1 TTTTTGTCATTT
299072 TAGTCCTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (30 bp):
TTTTTGTCATTTGGATACTTTAATTTTATG
Found at i:299081 original size:30 final size:30
Alignment explanation
Indices: 299000--299082 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
298990 AGGTTTTCTA
* *
299000 TTTTTGTTATTTGGATCCTTTAATTTTATG
1 TTTTTGTCATTTAGATCCTTTAATTTTATG
* *
299030 TTTTTGTCATTTGGATACTTTAATTTTATG
1 TTTTTGTCATTTAGATCCTTTAATTTTATG
*
299060 TTTTTGTGATTTTAG-TCCTTTAA
1 TTTTTGTCA-TTTAGATCCTTTAA
299083 ACTTCTATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 43 0.91
31 4 0.09
ACGTcount: A:0.18, C:0.07, G:0.13, T:0.61
Consensus pattern (30 bp):
TTTTTGTCATTTAGATCCTTTAATTTTATG
Found at i:302136 original size:36 final size:36
Alignment explanation
Indices: 302088--302234 Score: 199
Period size: 36 Copynumber: 4.1 Consensus size: 36
302078 TGGCTAACAG
302088 AAAGAAGAACGAAAGGAAGCATC-AGCACTTTCGATTC
1 AAAG-AGAACGAAAGGAAGCATCGA-CACTTTCGATTC
302125 -AAGAAGAACGAAAGGAAGCATCGACACTTTCGATTC
1 AAAG-AGAACGAAAGGAAGCATCGACACTTTCGATTC
* * *
302161 AAAGTGAACGGAAGGAAGCATCGACACTTTCGATTT
1 AAAGAGAACGAAAGGAAGCATCGACACTTTCGATTC
* * *
302197 AAAGTGAACGGAAGGAAGCATCGGCACTTTCGATTC
1 AAAGAGAACGAAAGGAAGCATCGACACTTTCGATTC
302233 AA
1 AA
302235 TTGTTCATCT
Statistics
Matches: 103, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
36 99 0.96
37 4 0.04
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (36 bp):
AAAGAGAACGAAAGGAAGCATCGACACTTTCGATTC
Found at i:303536 original size:36 final size:36
Alignment explanation
Indices: 303489--303557 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
303479 TGAGAAAGAA
* *
303489 GAACGAAAGGAAGTATCGGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCAGCACTTTCGATTCAAAGT
*
303525 GAACGGAAGGAAGCATCAGCACTTTCGATTCAA
1 GAACGAAAGGAAGCATCAGCACTTTCGATTCAA
303558 TTGTTCATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (36 bp):
GAACGAAAGGAAGCATCAGCACTTTCGATTCAAAGT
Found at i:308436 original size:38 final size:38
Alignment explanation
Indices: 308342--308418 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
308332 GTGGACTTTC
*
308342 TATATCCTGTTCAATTTTCAGAGGAAGAATAAATTCTT
1 TATATCCTATTCAATTTTCAGAGGAAGAATAAATTCTT
308380 TATATCCTATTCAATTTTCAGAGGAAGAATAAATTCTT
1 TATATCCTATTCAATTTTCAGAGGAAGAATAAATTCTT
308418 T
1 T
308419 CTTCATCTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (38 bp):
TATATCCTATTCAATTTTCAGAGGAAGAATAAATTCTT
Found at i:320889 original size:2 final size:2
Alignment explanation
Indices: 320882--320909 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
320872 GTGTTGGCAA
320882 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
320910 GAGAAAATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:321077 original size:21 final size:20
Alignment explanation
Indices: 320991--321148 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
320981 AAATGACCAA
**
320991 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
321010 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
321030 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
321050 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
321071 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
321092 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
321112 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
321133 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
321149 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:321177 original size:20 final size:20
Alignment explanation
Indices: 321115--321344 Score: 223
Period size: 20 Copynumber: 11.5 Consensus size: 20
321105 CGATTTTCCA
* ** *
321115 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
321135 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
321155 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
321175 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
321195 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
321215 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
321235 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
321255 AAATCGCAACG-ATAATCCAT
1 AAATCGCAACGCGT-ATCCGT
* * *
321275 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
321295 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
321315 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
321335 AAATCACAAC
1 AAATCGCAAC
321345 ACTGAAATTT
Statistics
Matches: 174, Mismatches: 30, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 170 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:322066 original size:24 final size:24
Alignment explanation
Indices: 322027--322073 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
322017 AAATTTGGTC
322027 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
322051 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
322074 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:324621 original size:19 final size:18
Alignment explanation
Indices: 324568--324697 Score: 79
Period size: 19 Copynumber: 7.7 Consensus size: 18
324558 GCAACGAGAG
324568 AATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATGA
*
324586 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATG-A
324600 AATCGCAATGCGGAAATGA
1 AATCGCAATGC-GAAATGA
*
324619 AATCGCAA--CGAGA-G-
1 AATCGCAATGCGAAATGA
324633 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-A
*
324652 AATCGCAA--CGAGA-G-
1 AATCGCAATGCGAAATGA
* *
324666 AATCACAATGCGAAATTAA
1 AATCGCAATGCGAAA-TGA
*
324685 AATCGCATTGCGA
1 AATCGCAATGCGA
324698 TTCTCTCGTT
Statistics
Matches: 85, Mismatches: 10, Indels: 33
0.66 0.08 0.26
Matches are distributed among these distances:
13 3 0.04
14 23 0.27
15 1 0.01
16 14 0.16
17 6 0.07
18 7 0.08
19 28 0.33
20 3 0.04
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (18 bp):
AATCGCAATGCGAAATGA
Found at i:324687 original size:33 final size:33
Alignment explanation
Indices: 324546--324691 Score: 190
Period size: 33 Copynumber: 4.5 Consensus size: 33
324536 TCGCAACACG
*
324546 GAAATTACAATCGCAACGAGAGAATCGCAATGC
1 GAAATTAAAATCGCAACGAGAGAATCGCAATGC
* * *
324579 GAAA-TGAAATCCCAAC-ATGAAAATCGCAATGC
1 GAAATTAAAATCGCAACGA-GAGAATCGCAATGC
*
324611 GGAAA-TGAAATCGCAACGAGAGAATCGCAATGC
1 -GAAATTAAAATCGCAACGAGAGAATCGCAATGC
* *
324644 GAAATGAAAATCGCAACGAGAGAATCACAATGC
1 GAAATTAAAATCGCAACGAGAGAATCGCAATGC
324677 GAAATTAAAATCGCA
1 GAAATTAAAATCGCA
324692 TTGCGATTCT
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
31 1 0.01
32 26 0.26
33 71 0.72
34 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (33 bp):
GAAATTAAAATCGCAACGAGAGAATCGCAATGC
Found at i:324800 original size:52 final size:53
Alignment explanation
Indices: 324687--324803 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
324677 GAAATTAAAA
324687 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
324740 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
324792 TCGCATTGCGAT
1 TCGCATTGCGAT
324804 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.47
53 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:324811 original size:19 final size:19
Alignment explanation
Indices: 324706--324803 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
324696 GATTCTCTCG
324706 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
324726 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
324745 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
324759 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
324778 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
324797 TTGCGAT
1 TTGCGAT
324804 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:324928 original size:14 final size:14
Alignment explanation
Indices: 324909--324945 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
324899 CATCAATTAC
324909 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
324923 ACAAATCATCTTTT
1 ACAAATCAACTTTT
324937 ACAAATCAA
1 ACAAATCAA
324946 TTAACAATCA
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:326908 original size:19 final size:19
Alignment explanation
Indices: 326866--327038 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
326856 TAGTTTACTT
* *
326866 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
326886 TCGCAACGCGAAATGATAA
1 TCGCAACGCGAAATGAAAA
* **
326905 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
326924 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
326943 TCGCAACGCAAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
326962 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
326976 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
326995 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
327009 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
327028 TCGCAATGCGA
1 TCGCAACGCGA
327039 TTTTGGTTTC
Statistics
Matches: 128, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
14 16 0.12
16 11 0.09
17 10 0.08
19 79 0.62
20 12 0.09
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:326977 original size:14 final size:14
Alignment explanation
Indices: 326960--327016 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
326950 GCAAAATGAA
*
326960 AATCGCAACGACAG
1 AATCGCAACGAAAG
326974 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
326991 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
327007 AATCGCAACG
1 AATCGCAACG
327017 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:326979 original size:33 final size:33
Alignment explanation
Indices: 326941--327033 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
326931 GCGAAACCAA
* *
326941 AATCGCAACGCAAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
326974 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
327007 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
327034 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:327030 original size:52 final size:51
Alignment explanation
Indices: 326903--327038 Score: 139
Period size: 52 Copynumber: 2.6 Consensus size: 51
326893 GCGAAATGAT
* * * *
326903 AATCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGCAA
1 AATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGAAA
* ** * **
326954 AAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAAA
1 AATCGCAACGCGAAACGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAAA
*
327006 GAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 -AATCGCAACGCGAAACGAAAATCGCAATGCGA
327039 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
50 8 0.12
51 4 0.06
52 41 0.62
53 4 0.06
54 9 0.14
ACGTcount: A:0.48, C:0.24, G:0.19, T:0.10
Consensus pattern (51 bp):
AATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGAAA
Found at i:327056 original size:19 final size:19
Alignment explanation
Indices: 327034--327162 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
327024 AAAATCGCAA
327034 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
327053 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
327067 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
327086 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
327100 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
327119 TGCGATTTTGGTTTCGTGT
1 TGCGATTTTGGTTTCGCGT
* *
327138 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
327158 TGCGA
1 TGCGA
327163 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 47 0.52
20 14 0.16
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:327076 original size:33 final size:33
Alignment explanation
Indices: 327034--327125 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
327024 AAAATCGCAA
327034 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
327067 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
327100 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
327126 TTGGTTTCGT
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:327480 original size:93 final size:93
Alignment explanation
Indices: 327210--327584 Score: 691
Period size: 93 Copynumber: 4.1 Consensus size: 93
327200 ATGGATTGCA
*
327210 TTAC-TTCAACCAAAAGACAAAAAAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
327274 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
327302 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
327366 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
* *
327394 TTACTTTCAACCAAAAGACAAAACAAAGATAAATACTATTTCATAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
327459 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
327487 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
* *
327552 TAGCAGAATTGGCAGCAACCGAATATAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
327580 TTACT
1 TTACT
327585 AAGCAATCTA
Statistics
Matches: 274, Mismatches: 7, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
92 95 0.35
93 179 0.65
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:328298 original size:20 final size:20
Alignment explanation
Indices: 328267--328363 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
328257 TTTTGGTTGA
328267 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
328287 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
328307 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
328326 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
328341 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
328361 AAT
1 AAT
328364 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:328319 original size:21 final size:21
Alignment explanation
Indices: 328265--328329 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
328255 TCTTTTGGTT
328265 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
328286 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
328306 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
328327 GAA
1 GAA
328330 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:328333 original size:14 final size:14
Alignment explanation
Indices: 328314--328370 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
328304 GAGAAATGAA
328314 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
328328 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
328347 AATCGCAACGAGAG
1 AATCGCAACGAGAG
328361 AATCGCAACG
1 AATCGCAACG
328371 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:328346 original size:33 final size:33
Alignment explanation
Indices: 328265--328387 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
328255 TCTTTTGGTT
*
328265 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
328306 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
328339 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
328372 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
328388 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:328423 original size:14 final size:14
Alignment explanation
Indices: 328404--328460 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
328394 TTTGGTTTCG
328404 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
328418 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
328437 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
328451 CGTTGCGATT
1 CGTTGCGATT
328461 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:328436 original size:33 final size:33
Alignment explanation
Indices: 328388--328468 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
328378 AAAATCGCAA
**
328388 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
328421 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
328454 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
328469 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:328471 original size:21 final size:21
Alignment explanation
Indices: 328445--328520 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
328435 CGCGTTGCGA
328445 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
328466 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
328486 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
328507 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
328521 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:328501 original size:41 final size:41
Alignment explanation
Indices: 328444--328521 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
328434 TCGCGTTGCG
*
328444 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
328485 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
328522 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:328642 original size:33 final size:33
Alignment explanation
Indices: 328600--328670 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
328590 AATACTAACT
*
328600 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* * *
328633 TGAAAATCGCAATGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
328666 TGAAA
1 TGAAA
328671 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:328904 original size:22 final size:22
Alignment explanation
Indices: 328852--328906 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
328842 TGGTTGTGAG
**
328852 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
* **
328874 GAAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
328896 GGATTTCTTCG
1 GGATTTCTTCG
328907 CCGTAGAGAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:329081 original size:20 final size:20
Alignment explanation
Indices: 329053--329246 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
329043 CTTTAAATAT
329053 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
329073 CGTGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
329095 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
329114 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
329134 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
329154 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
329174 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
329194 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
329214 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
329234 CGCGTTGCGATTT
1 CGCGTTGCGATTT
329247 TGGAAAATCG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.88
21 14 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:329240 original size:60 final size:60
Alignment explanation
Indices: 329053--329246 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
329043 CTTTAAATAT
* **
329053 CGCGTTGCGATTTACGGATACGTGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
329114 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
329174 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
329234 CGCGTTGCGATTT
1 CGCGTTGCGATTT
329247 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 84 0.76
61 27 0.24
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:329263 original size:21 final size:21
Alignment explanation
Indices: 329233--329315 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
329223 ATTTTCATAT
*
329233 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
329254 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
329275 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
329296 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
329316 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:329306 original size:42 final size:43
Alignment explanation
Indices: 329213--329311 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
329203 ATTTATGTGT
* *
329213 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
329254 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
329296 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
329312 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:336912 original size:74 final size:74
Alignment explanation
Indices: 336764--336969 Score: 261
Period size: 74 Copynumber: 2.7 Consensus size: 74
336754 CAAAGCCAAA
* * * **
336764 AATTCCAGATTGCTCAGAGGGAACCGATTCCCTCCCATAGGAGGAACCGATTCCCCCTGAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CC-CCCATAGGAGGAACCGATTCCCCCTAAACAGT
336829 TTGGCTCCGAG
64 TTGGCTCCGAG
*
336840 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTT
* *
336905 TGTTCCGAG
66 GGCTCCGAG
* * * *
336914 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGAT--TCCCCCATAGGAGGAACCGATTCCCCC
336970 CTGTTCAACG
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
74 64 0.56
75 19 0.17
76 32 0.28
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (74 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTTT
GGCTCCGAG
Found at i:342712 original size:21 final size:21
Alignment explanation
Indices: 342686--342725 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
342676 CCTCCTTTGA
*
342686 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
342707 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
342726 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:344701 original size:9 final size:8
Alignment explanation
Indices: 344679--344729 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
344669 TGTTTCAACA
344679 TTTTGGAT
1 TTTTGGAT
344687 ATTTTGGAT
1 -TTTTGGAT
344696 TGTTT-GAT
1 T-TTTGGAT
344704 TTTGTGGAT
1 TTT-TGGAT
*
344713 TGTTGGA-
1 TTTTGGAT
344720 TTTTGGAT
1 TTTTGGAT
344728 TT
1 TT
344730 ATGAATGGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 8 0.22
8 12 0.33
9 16 0.44
ACGTcount: A:0.14, C:0.00, G:0.27, T:0.59
Consensus pattern (8 bp):
TTTTGGAT
Found at i:344713 original size:17 final size:17
Alignment explanation
Indices: 344681--344724 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
344671 TTTCAACATT
344681 TTGGATATTT-TGGATTG
1 TTGGAT-TTTGTGGATTG
*
344698 TTTGATTTTGTGGATTG
1 TTGGATTTTGTGGATTG
344715 TTGGATTTTG
1 TTGGATTTTG
344725 GATTTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
TTGGATTTTGTGGATTG
Found at i:345454 original size:54 final size:54
Alignment explanation
Indices: 345375--345498 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
345365 TCCCATAGGA
* * *
345375 GGAACCGATTCCCCCCTGAATAGTTTGGCTCCGAGATTTCCAGAATGCTCGGAG
1 GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAG
* * *
345429 GGAACCGATTCCCCCCTAAACAGTTTTGTTCCGAGAATTCCAGTATGCTCGGAG
1 GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAG
*
345483 GGAACCGATCCCCCCC
1 GGAACCGATTCCCCCC
345499 AAGGGGGTAC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (54 bp):
GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAG
Found at i:350981 original size:6 final size:6
Alignment explanation
Indices: 350964--350995 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
350954 TATATAAATA
*
350964 ATTTAT AATTAT ATTTAT ATTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
350996 ATACACTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATTTAT
Found at i:356468 original size:21 final size:21
Alignment explanation
Indices: 356439--356491 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
356429 ATTCTGACTA
356439 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
356460 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
356481 TCGCAATGCGA
1 TCGCATTGCGA
356492 AAACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:356510 original size:20 final size:20
Alignment explanation
Indices: 356481--356673 Score: 323
Period size: 20 Copynumber: 9.7 Consensus size: 20
356471 TTTTCCTAAT
*
356481 TCGCAATGCGAAAACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
356501 TCGTAATGCGAATACATAAA
1 TCGCAATGCGAATACGTAAA
356521 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
356541 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
356561 TCGCAATGCGAATACATAAA
1 TCGCAATGCGAATACGTAAA
356581 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
356601 TCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
356621 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
356641 TCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
356661 TCGCAACGCGAAT
1 TCGCAATGCGAAT
356674 CTGACTATCG
Statistics
Matches: 161, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 161 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:356683 original size:20 final size:20
Alignment explanation
Indices: 356660--356726 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
356650 GAATACGTAA
* *
356660 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
356680 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
* *
356700 ATTGCAATGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
356720 ATCGCAA
1 ATCGCAA
356727 TACTGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:357595 original size:24 final size:24
Alignment explanation
Indices: 357568--357621 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
357558 GTATTCGAAA
357568 TTTGATCTTGGTCAATAAC-CGGAC
1 TTTGATCTTGGTCAAT-ACTCGGAC
*
357592 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
357616 TTTGAT
1 TTTGAT
357622 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:360079 original size:20 final size:20
Alignment explanation
Indices: 360054--360142 Score: 135
Period size: 20 Copynumber: 4.5 Consensus size: 20
360044 TAACGCGGAA
360054 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
360074 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
360094 ATCGCAACGCGTAATTGACT
1 ATCGCAACGCGGAAATGACT
360114 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
360134 ATCGCAACG
1 ATCGCAACG
360143 AGAGAATCGC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 59 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:360113 original size:40 final size:40
Alignment explanation
Indices: 360054--360142 Score: 153
Period size: 40 Copynumber: 2.2 Consensus size: 40
360044 TAACGCGGAA
360054 ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
1 ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
*
360094 ATCGCAACGCGTAAT-TGACTATCGCAACGCGGAAATGACT
1 ATCGCAACGCG-AATATGACTATCGCAACACGGAAATGACT
360134 ATCGCAACG
1 ATCGCAACG
360143 AGAGAATCGC
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 44 0.94
41 3 0.06
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
Found at i:360164 original size:33 final size:33
Alignment explanation
Indices: 360114--360209 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
360104 GTAATTGACT
* **
360114 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
360148 ATCGCAATGCGAAATGAAAATCGTAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
360181 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
360210 CGAATTTAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 31 0.55
34 25 0.45
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:360267 original size:34 final size:34
Alignment explanation
Indices: 360224--360319 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 34
360214 TTTAGTTTCG
360224 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
360258 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
** * *
360291 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
360320 AGTCTGTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:360298 original size:14 final size:14
Alignment explanation
Indices: 360246--360299 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
360236 CATTTTCGCA
360246 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
360260 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
360277 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
360293 TTGCGAT
1 TTGCGAT
360300 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:360444 original size:14 final size:14
Alignment explanation
Indices: 360425--360461 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
360415 CATCAATTAA
360425 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
360439 ACAAATCATCTTTT
1 ACAAATCAACATTT
360453 ACAAATCAA
1 ACAAATCAA
360462 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:361950 original size:42 final size:42
Alignment explanation
Indices: 361843--361952 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
361833 TCTAGAATGT
* *
361843 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAGTGGCCTCTTGAACGA
* * ** *
361885 TGGGAGGGGACTCTTGAGGGATGATAG-GAGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGACAGTG-GCCTCTTGAACGA
361927 TAGGG-GAGGCCTCTTGAACGATGACA
1 T-GGGAGAGGCCTCTTGAACGATGACA
361953 AGTGAGTCAG
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 48 0.89
43 5 0.09
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGTGGCCTCTTGAACGA
Found at i:362457 original size:20 final size:20
Alignment explanation
Indices: 362434--362502 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
362424 GAAACTTAAA
**
362434 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAATTTGACT
*
362454 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
362474 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
362494 ATTGCAACG
1 ATCGCAACG
362503 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:362572 original size:20 final size:20
Alignment explanation
Indices: 362547--362653 Score: 160
Period size: 20 Copynumber: 5.3 Consensus size: 20
362537 GATTCTTTCG
**
362547 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
362567 TTGCGATAGTCATTTTCGAA
1 TTGCGATAGTCATTTTCGCA
*
362587 TTGCGAAAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
362607 TTGCGATATTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
362627 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
362647 TTGCGAT
1 TTGCGAT
362654 TTTGTTGTTG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:362598 original size:40 final size:40
Alignment explanation
Indices: 362526--362653 Score: 160
Period size: 40 Copynumber: 3.4 Consensus size: 40
362516 GCGATTTTCA
*
362526 TTTCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCAA
1 TTTCGCATTGCGATAGTCATTTTCGAATTGCGATAGTCAT
* *
362560 ATTCGCATTGCGATAGTCATTTTCGAATTGCGAAAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGAATTGCGATAGTCAT
* *
362600 TTTCGCATTGCGATATTCATTTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGAATTGCGATAGTCAT
*
362640 TTTCGCGTTGCGAT
1 TTTCGCATTGCGAT
362654 TTTGTTGTTG
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
34 13 0.16
36 2 0.03
38 5 0.06
40 60 0.75
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (40 bp):
TTTCGCATTGCGATAGTCATTTTCGAATTGCGATAGTCAT
Found at i:362707 original size:33 final size:33
Alignment explanation
Indices: 362523--362708 Score: 122
Period size: 40 Copynumber: 5.2 Consensus size: 33
362513 AATGCGATTT
362523 TCATTTCGCATTGCGATTCT-TTCGTTGCGATAG
1 TCATTTCGCATTGCGATTCTCTT-GTTGCGATAG
* * *
362556 TCAAATTCGCATTGCGATAGTCATTTTCGAATTGCGAAAG
1 TC-ATTTCGCATTGCGAT--TC-TCTT-G--TTGCGATAG
*
362596 TCATTTTCGCATTGCGATATTCATTTTCGCATTGCGATAG
1 TCA-TTTCGCATTGCG--ATTC-TCTT-G--TTGCGATAG
* * * **
362636 TCATTTTCGCGTTGCGATTTTGTTGTTGCGATTT
1 TCA-TTTCGCATTGCGATTCTCTTGTTGCGATAG
**
362670 TCATTTCGCATTGTTATTCTCTTGTTGCGATAG
1 TCATTTCGCATTGCGATTCTCTTGTTGCGATAG
362703 TCATTT
1 TCATTT
362709 TCACGTTGCG
Statistics
Matches: 126, Mismatches: 17, Indels: 20
0.77 0.10 0.12
Matches are distributed among these distances:
33 31 0.25
34 24 0.19
36 3 0.02
37 4 0.03
38 7 0.06
39 1 0.01
40 54 0.43
42 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.44
Consensus pattern (33 bp):
TCATTTCGCATTGCGATTCTCTTGTTGCGATAG
Found at i:364645 original size:20 final size:20
Alignment explanation
Indices: 364620--364673 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
364610 CTGAAACTTT
364620 AAATCGCAACACAAAAATGA
1 AAATCGCAACACAAAAATGA
*
364640 AAATCGCAACACGAAAATGA
1 AAATCGCAACACAAAAATGA
**
364660 CTATCGCAACACAA
1 AAATCGCAACACAA
364674 GAATCGCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.54, C:0.24, G:0.11, T:0.11
Consensus pattern (20 bp):
AAATCGCAACACAAAAATGA
Found at i:365077 original size:22 final size:22
Alignment explanation
Indices: 365049--365102 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
365039 ATAATTTCGC
365049 CGGAGAT-GGAGACTGATATCGT
1 CGGAGATGGGA-ACTGATATCGT
*
365071 CGGAGATGGGAACTGATTTCGT
1 CGGAGATGGGAACTGATATCGT
365093 CGGAGATGGG
1 CGGAGATGGG
365103 GACGGATGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 27 0.90
23 3 0.10
ACGTcount: A:0.24, C:0.13, G:0.41, T:0.22
Consensus pattern (22 bp):
CGGAGATGGGAACTGATATCGT
Found at i:365325 original size:20 final size:20
Alignment explanation
Indices: 365302--365354 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
365292 CGATAGTCAG
* *
365302 ATTCGCGTTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
365322 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
365342 ATTCGCATTGCGA
1 ATTCGCATTGCGA
365355 ATTTGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:365368 original size:21 final size:21
Alignment explanation
Indices: 365344--365396 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
365334 ATTTACGTAT
*
365344 TCGCATTGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
*
365365 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
365386 TCGCAATGCGA
1 TCGCAATGCGA
365397 TAGTCAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:365647 original size:30 final size:30
Alignment explanation
Indices: 365612--365672 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
365602 AGAAGGCCAA
*
365612 AGCCATTACATTATTGCTTCACTCGAGAGT
1 AGCCATTACATTATTACTTCACTCGAGAGT
365642 AGCCATTACATTATTACTTCACTCGAGAGT
1 AGCCATTACATTATTACTTCACTCGAGAGT
365672 A
1 A
365673 AGGAGGACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (30 bp):
AGCCATTACATTATTACTTCACTCGAGAGT
Found at i:366540 original size:16 final size:18
Alignment explanation
Indices: 366519--366555 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
366509 AGAATTTGTT
*
366519 ATAATTT-TGAAAA-AAA
1 ATAATTTCTAAAAATAAA
366535 ATAATTTCTAAAAATAAA
1 ATAATTTCTAAAAATAAA
366553 ATA
1 ATA
366556 TAAAATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 5 0.28
18 6 0.33
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATTTCTAAAAATAAA
Found at i:367745 original size:223 final size:227
Alignment explanation
Indices: 367223--367932 Score: 1250
Period size: 223 Copynumber: 3.1 Consensus size: 227
367213 GTAAATTATC
* * * *
367223 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAATATATTTATTATTATCTTTCG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
* *
367287 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAAACAAATAATTTT
66 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-TTT
367352 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATT
367417 GAAACATAAATTACATAACTTTCAAAAAAGTATA
194 GAAACATAAATTACATAACTTTCAAAAAAGTATA
*
367451 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
367516 TTAATATTGTTAAATTTAAATTCTAAAT-A-ATTTT-TAAAATATCAAAACAATCAAATAATTTT
66 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTT
367578 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTGA
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTGA
*
367643 AACATAAATTACATAATTTTCAAAAAAGTATA
196 AACATAAATTACATAACTTTCAAAAAAGTATA
367675 TATCA-TTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
367739 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
66 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAT-TT
*
367804 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATT
*
367869 GAAACATAAATTACATAACTTTAAAAAAAGTATA
194 GAAACATAAATTACATAACTTTCAAAAAAGTATA
*
367903 TATCATTTTTATAAAAGTGTTCATACTTAT
1 TATCATTTTTATAAAAGTGTCCATACTTAT
367933 AAAAGTAGGT
Statistics
Matches: 462, Mismatches: 13, Indels: 13
0.95 0.03 0.03
Matches are distributed among these distances:
223 86 0.19
224 47 0.10
225 64 0.14
226 48 0.10
227 65 0.14
228 78 0.17
229 74 0.16
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTGA
AACATAAATTACATAACTTTCAAAAAAGTATA
Found at i:368232 original size:20 final size:19
Alignment explanation
Indices: 368209--368255 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
368199 CGATATACCA
368209 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
368229 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
368249 GGTAAAA
1 GGTAAAA
368256 CGTTACCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:368295 original size:181 final size:181
Alignment explanation
Indices: 367998--368469 Score: 678
Period size: 181 Copynumber: 2.6 Consensus size: 181
367988 GATCCCAATT
* * * *
367998 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * *
368062 AAAACCGGTCAAGCGCTACCGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
65 AAAACCGGTAAAACGATACCGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
368127 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
*
368179 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
368244 AAACCGGTAAAACGTTACCGAATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCG-ATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
368308 GTGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTAA
130 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
* * * *
368360 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATTATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
368425 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACC-GATATATTAAAAGTGTCGATACTTT
368470 CGTAAGTACG
Statistics
Matches: 262, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
180 1 0.00
181 239 0.91
182 22 0.08
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:368413 original size:20 final size:18
Alignment explanation
Indices: 368390--368436 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
368380 CGATATAACA
368390 GGTAAAAATATGATAAAACC
1 GGTAAAAAT-T-ATAAAACC
368410 GGTATCAAAATTATAAAACC
1 GGTA--AAAATTATAAAACC
368430 GGTAAAA
1 GGTAAAA
368437 TGATACCGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
20 16 0.64
21 1 0.04
22 5 0.20
ACGTcount: A:0.53, C:0.11, G:0.15, T:0.21
Consensus pattern (18 bp):
GGTAAAAATTATAAAACC
Found at i:370679 original size:21 final size:21
Alignment explanation
Indices: 370652--370716 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
370642 AAGACAATCA
*
370652 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* *
370673 TGAGTCGTAA-AGAAACTCGAG
1 AGAGTCG-AAGAGAAACTTGAG
* *
370694 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
370715 AG
1 AG
370717 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.40, C:0.12, G:0.29, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:370792 original size:33 final size:33
Alignment explanation
Indices: 370750--370815 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
370740 AAATAGATGG
*
370750 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
370783 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
370816 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:372622 original size:19 final size:19
Alignment explanation
Indices: 372600--372644 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
372590 GTGGGGTTAA
372600 TTTGTATAAGATTTATAAT
1 TTTGTATAAGATTTATAAT
* *
372619 TTTGTATACGATTTATATT
1 TTTGTATAAGATTTATAAT
372638 TTTGTAT
1 TTTGTAT
372645 GTGAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (19 bp):
TTTGTATAAGATTTATAAT
Found at i:373472 original size:198 final size:198
Alignment explanation
Indices: 372763--373727 Score: 1726
Period size: 199 Copynumber: 4.9 Consensus size: 198
372753 CAATATGGCC
* * *
372763 AACAGGGTGCACCCATAAAGTGTCGATCC--ATAT--AAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* * *
372824 CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAAA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
* *
372888 AAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 TAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
372953 TGGAA
194 TGGAA
*
372958 AACAGGGTGCACCCATGAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
373023 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCTGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
373088 AATATGTATAAATAATGTATCGACACTAATATAGTTTGTGTCGATATTTCTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTT-TTTTCCAGAATGAAT
373153 GGAA
195 GGAA
*
373157 AACAGGGTCCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
373222 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
373287 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
373352 GAA
196 GAA
*
373355 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATACCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
373420 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
373485 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
373550 GAA
196 GAA
373553 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
373617 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
373682 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
373728 CTAATTTAAA
Statistics
Matches: 743, Mismatches: 21, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
195 28 0.04
197 143 0.19
198 277 0.37
199 295 0.40
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (198 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAA
Found at i:373530 original size:397 final size:396
Alignment explanation
Indices: 372763--373727 Score: 1742
Period size: 397 Copynumber: 2.4 Consensus size: 396
372753 CAATATGGCC
* * *
372763 AACAGGGTGCACCCATAAAGTGTCGATCC--ATAT-AAAGTGTCAATCCCAAAAACATCGAAAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCG-AACC
* * * *
372825 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAAAA
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
372889 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
* *
372954 GGAAAACAGGGTGCACCCATGAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATACCAAAATCATCG
*
373019 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCTGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
373084 AGATAATATGTATAAATAATGTATCGACACTAATATAGTTTGTGTCGATATTTCTTTTCCAGAAT
325 AGATAATATGTATAAATAATGTATCGACACTAATATAGTTTGTGTCGATATTT-TTTTCCAGAAT
373149 GAATGGAA
389 GAATGGAA
*
373157 AACAGGGTCCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
373222 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
373287 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
130 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
373351 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATACCAAAATCATCG
195 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATACCAAAATCATCG
373416 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
373481 AGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATG
325 AGATAATATGTATAAATAATGTATCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATG
*
373546 AATTGAA
390 AATGGAA
373553 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
373618 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
*
373683 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
373728 CTAATTTAAA
Statistics
Matches: 551, Mismatches: 15, Indels: 9
0.96 0.03 0.02
Matches are distributed among these distances:
394 28 0.05
395 139 0.25
396 56 0.10
397 223 0.40
398 105 0.19
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (396 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCC
AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATACCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GATAATATGTATAAATAATGTATCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGA
ATGGAA
Found at i:373714 original size:23 final size:23
Alignment explanation
Indices: 373688--373739 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
373678 AGATAATATG
373688 TATAAATAATGTGTCGACACTAA
1 TATAAATAATGTGTCGACACTAA
* * *
373711 TAT-AGT-TTGTGTCGATACTAA
1 TATAAATAATGTGTCGACACTAA
*
373732 TTTAAATA
1 TATAAATA
373740 TCAAGTGTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
21 15 0.68
22 4 0.18
23 3 0.14
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (23 bp):
TATAAATAATGTGTCGACACTAA
Found at i:376531 original size:183 final size:183
Alignment explanation
Indices: 376219--377074 Score: 1527
Period size: 183 Copynumber: 4.7 Consensus size: 183
376209 TTCAACATAT
* *
376219 TATAAATATATCGGTTTTTTGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
* *
376284 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAATGTTGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACATTT
*
376349 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACTGG
131 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
*
376402 TATAAATATACCGGTTTTTTGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
376467 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACATTT
376532 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
131 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
376585 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
*
376650 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGACACATTGTTAAAAAGTGTCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACATTT
376715 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
131 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
*
376768 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
* * *
376833 TCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATT-TAAAAAAGTATCGACATT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTGTTAAAAAGTGTCGACATT
* *
376897 TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGG
130 TACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
* * *
376951 TATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
*
377016 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCG
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTTAAAAAGTGTCG
377075 GTAATTTTAA
Statistics
Matches: 654, Mismatches: 17, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
183 650 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACATTT
ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
Found at i:379570 original size:25 final size:25
Alignment explanation
Indices: 379542--379601 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
379532 TTATCATTAA
379542 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
379567 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
379592 ATTTAGGTAT
1 ATTTAGGTAT
379602 ATTAGTGAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:379957 original size:23 final size:23
Alignment explanation
Indices: 379926--379988 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
379916 ATAGGTAAAC
*
379926 ATATGATGTAATAGGT-TGCGCTT
1 ATATAATGTAATAGGTAT-CGCTT
*
379949 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGCTT
379972 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
379989 GTGGTTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 36 0.97
24 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:379996 original size:23 final size:23
Alignment explanation
Indices: 379926--379998 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
379916 ATAGGTAAAC
* * *
379926 ATATGATGTAATAGGTTGCGCTT
1 ATATAATGTAATAGGTAGTGCTT
*
379949 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
379972 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
379995 ATAT
1 ATAT
379999 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:380026 original size:21 final size:21
Alignment explanation
Indices: 380002--380041 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
379992 GTTATATTGT
* *
380002 AAAGTATCTATCCTTTTTATA
1 AAAGTATCCATACTTTTTATA
*
380023 AAAGTGTCCATACTTTTTA
1 AAAGTATCCATACTTTTTA
380042 CACTGTGGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (21 bp):
AAAGTATCCATACTTTTTATA
Found at i:380439 original size:18 final size:18
Alignment explanation
Indices: 380418--380454 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
380408 GTAATTGGAG
380418 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
380436 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
380454 T
1 T
380455 ATATATTTCG
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:380462 original size:24 final size:24
Alignment explanation
Indices: 380410--380456 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
380400 TTTCATATGT
* *
380410 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
380434 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
380457 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:380764 original size:34 final size:34
Alignment explanation
Indices: 380726--380791 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
380716 AAATCCAAAG
*
380726 CTCATATGGTGCCAAGCAAAAGGAAATCAAAAAT
1 CTCATATGATGCCAAGCAAAAGGAAATCAAAAAT
380760 CTCATATGATGCCAAGCAAAAGGAAATCAAAA
1 CTCATATGATGCCAAGCAAAAGGAAATCAAAA
380792 TCTACAACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.17
Consensus pattern (34 bp):
CTCATATGATGCCAAGCAAAAGGAAATCAAAAAT
Found at i:381246 original size:23 final size:23
Alignment explanation
Indices: 381215--381287 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
381205 ATAGGTAAAC
*
381215 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
381238 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
381261 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
381284 ATAT
1 ATAT
381288 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:382775 original size:24 final size:24
Alignment explanation
Indices: 382745--382790 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
382735 CGATTCAGCA
382745 GTTCTGGCCGGTTCACTAATAATG
1 GTTCTGGCCGGTTCACTAATAATG
382769 GTTCTGGCCGGTTCACTAATAA
1 GTTCTGGCCGGTTCACTAATAA
382791 CGATTCAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (24 bp):
GTTCTGGCCGGTTCACTAATAATG
Found at i:386878 original size:255 final size:247
Alignment explanation
Indices: 386422--386993 Score: 785
Period size: 255 Copynumber: 2.2 Consensus size: 247
386412 CTTATTCATA
* *
386422 TATTGAATACAAATATTTTTTTATTATTTTGGATC-GGTCGGGTTTCTAATTCATATATTTGGGT
1 TATTGAATAAAAATATTTTTTTATTATTTTGGGTCGGGTCGGGTTTCTAATTCATATA--T---T
386486 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGATTTTTTAAGTGTGATATTCGGGTCGGGTCG
61 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGATTTTTTAAGTGTGATATTCGGGTCGGGTCG
* * *
386551 AGTTTGGGTTTAGGGTGAAAAATACTCGACCCGAAAATATATATAATTTTACCTTATATATTTAG
126 AGTTCGGGTTTAGGGTAAAAAATACTCGACCCGAAAAAATATATAATTTTACCTTATATATTTAG
* *
386616 GAATAATTACAATAATACCCCTCTATATAT-TTTTTTTTCAATTAAGTCACTATTTT
191 GAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCAATATTTT
* *
386672 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGT
1 TATTGAATAAAAATATTTTTTTATTATTTTGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGT
* *
386737 CGGGTGCAACTTTATTTTGTTCGGGTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTC-GGTC
66 CGGGTGAAACTTTA--TT-TT--GGTCGGGTC-GGATTTTTTAAGTGTGATATTCGGGTCGGGTC
386801 G-GTGTCGGGTTTAGGGTAAAAAAAATCGGAC-CGACCCGAAAAAATATATAATTTTACCTTATA
125 GAGT-TCGGGTTTAGGGT--AAAAAAT---ACTCGACCCGAAAAAATATATAATTTTACCTTATA
*
386864 TATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCAATGTTTT
184 TATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCAATATTTT
*
386928 TATTGAATAAAAATAAATTTTTTATTATTTTGTGTCATGTCGGGTCGGGTTTCTAATTCATATAT
1 TATTGAATAAAAAT-ATTTTTTTATTATTTTG-G----GTCGGGTCGGGTTTCTAATTCATATAT
386993 T
60 T
386994 GAATAAAAAT
Statistics
Matches: 287, Mismatches: 15, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
246 19 0.07
248 2 0.01
249 3 0.01
250 34 0.12
251 47 0.16
252 26 0.09
253 6 0.02
255 68 0.24
256 39 0.14
257 15 0.05
258 1 0.00
262 27 0.09
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.42
Consensus pattern (247 bp):
TATTGAATAAAAATATTTTTTTATTATTTTGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGT
CGGGTGAAACTTTATTTTGGTCGGGTCGGATTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTC
GGGTTTAGGGTAAAAAATACTCGACCCGAAAAAATATATAATTTTACCTTATATATTTAGGAATA
ATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCAATATTTT
Found at i:387240 original size:15 final size:14
Alignment explanation
Indices: 387220--387251 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
387210 ATGTAAGTTG
387220 TAAAACAAAACAAAA
1 TAAAACAAAA-AAAA
387235 TAAAACAAAAAAAA
1 TAAAACAAAAAAAA
387249 TAA
1 TAA
387252 GAAGGGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (14 bp):
TAAAACAAAAAAAA
Found at i:387400 original size:17 final size:18
Alignment explanation
Indices: 387375--387421 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
387365 TATGGAATTG
* *
387375 GATTGCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
387392 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
*
387410 GATTTCAATTCC
1 GATTCCAATTCC
387422 CTCATAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:387746 original size:21 final size:21
Alignment explanation
Indices: 387720--387773 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
387710 CGAAGAGGTA
387720 GTATCGATACCATGATAAGGG
1 GTATCGATACCATGATAAGGG
387741 GTATCGATACCATGATAAGGG
1 GTATCGATACCATGATAAGGG
*
387762 GTATCAATACCA
1 GTATCGATACCA
387774 AGAAACATCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (21 bp):
GTATCGATACCATGATAAGGG
Found at i:387834 original size:95 final size:95
Alignment explanation
Indices: 387720--387918 Score: 251
Period size: 95 Copynumber: 2.1 Consensus size: 95
387710 CGAAGAGGTA
* *
387720 GTATCGATACCATGATAAGG-GGTATCGATACCATGATAAGGGGTATCAATACCAAGA-AACATC
1 GTATCGGTACCATGATAAGGTAGTATCGATACCATGATAA-GGGTATCAATACC-AGATAACATC
* *
387783 GAATCTAATTTTGGTATCAATACCGGTAGGGG
64 GAACCTAATTTTGGTATCAATACCGGAAGGGG
* * *
387815 GTATCGGTACCAT-AGTAAGGTAGTATCGATACCATGGTAAGGGTATCGATACCAGATAACATGG
1 GTATCGGTACCATGA-TAAGGTAGTATCGATACCATGATAAGGGTATCAATACCAGATAACATCG
* ** *
387879 AACCTATTTTTGGTATTGATACCTGAAGGGG
65 AACCTAATTTTGGTATCAATACCGGAAGGGG
387910 GTATCGGTA
1 GTATCGGTA
387919 ATATAATGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
94 4 0.04
95 69 0.77
96 17 0.19
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (95 bp):
GTATCGGTACCATGATAAGGTAGTATCGATACCATGATAAGGGTATCAATACCAGATAACATCGA
ACCTAATTTTGGTATCAATACCGGAAGGGG
Found at i:387862 original size:20 final size:20
Alignment explanation
Indices: 387813--387868 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 20
387803 TACCGGTAGG
*
387813 GGGTATCGGTACCATAGTAA
1 GGGTATCGATACCATAGTAA
*
387833 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGATACCATAGTAA
387855 GGGTATCGATACCA
1 GGGTATCGATACCA
387869 GATAACATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.44
22 18 0.56
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:387936 original size:95 final size:95
Alignment explanation
Indices: 387740--387961 Score: 236
Period size: 95 Copynumber: 2.3 Consensus size: 95
387730 CATGATAAGG
* * *
387740 GGTATCGATACCATGATAAGGGGTATCAATACCAAGAAACATCGAATCTAATTTTGGTATCAATA
1 GGTATCGATACCATGGTAA-GGGTATCGATACCAAGAAACATCGAACCTAATTTTGGTATCAATA
*
387805 CCGGTAGGGGGTATCGGTACCATAGTAAGGTA
65 CCGGAAGGGGGTATCGGTA-CATAGTAAGGTA
* * **
387837 -GTATCGATACCATGGTAAGGGTATCGATACC-AGATAACATGGAACCTATTTTTGGTATTGATA
1 GGTATCGATACCATGGTAAGGGTATCGATACCAAGA-AACATCGAACCTAATTTTGGTATCAATA
* *
387900 CCTGAAGGGGGTATCGGTA-ATA-TAATGTAGA
65 CCGGAAGGGGGTATCGGTACATAGTAAGGT--A
* * * **
387931 GGTATCGGTATCAGGGTAATAGTATCGATAC
1 GGTATCGATACCATGGTAAGGGTATCGATAC
387962 TATGGAGCAA
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
92 5 0.05
93 3 0.03
94 4 0.04
95 77 0.73
96 17 0.16
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (95 bp):
GGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATCGAACCTAATTTTGGTATCAATAC
CGGAAGGGGGTATCGGTACATAGTAAGGTA
Found at i:388797 original size:32 final size:32
Alignment explanation
Indices: 388693--388797 Score: 90
Period size: 32 Copynumber: 3.2 Consensus size: 32
388683 TGACAAAAAG
388693 GTGTCATTTATGCCAGTTAGATGAAAGACTAA
1 GTGTCATTTATGCCAGTTAGATGAAAGACTAA
* * * *
388725 GTGTC-TTTGAGGCC--TAACAATGCATATGACATAAA
1 GTGTCATTT-ATGCCAGTTA-GATG-A-AAGAC-T-AA
388760 GGTGTCATTTATGCCAGTTAGATGAAAGACTAA
1 -GTGTCATTTATGCCAGTTAGATGAAAGACTAA
388793 GTGTC
1 GTGTC
388798 TTTGAGGCTA
Statistics
Matches: 55, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
30 2 0.04
31 6 0.11
32 15 0.27
33 6 0.11
34 2 0.04
35 6 0.11
36 10 0.18
37 6 0.11
38 2 0.04
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (32 bp):
GTGTCATTTATGCCAGTTAGATGAAAGACTAA
Found at i:388870 original size:67 final size:68
Alignment explanation
Indices: 388665--388852 Score: 299
Period size: 68 Copynumber: 2.8 Consensus size: 68
388655 AAAAGATCAA
388665 GAGGCCTAACTGTGCATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
388730 TTT
66 TTT
** *
388733 GAGGCCTAACAATGCATATGACATAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
388798 TTT
66 TTT
* * *
388801 GAGG-CTAGCTGTGCA-ATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 GAGGCCTAACTGTGCATA-TGACAAAAAGGTGTCATTTATGCCAGTTAGATGAA
388853 CGGTTAATTA
Statistics
Matches: 111, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
66 1 0.01
67 41 0.37
68 69 0.62
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:388940 original size:81 final size:80
Alignment explanation
Indices: 388805--389182 Score: 553
Period size: 81 Copynumber: 4.7 Consensus size: 80
388795 GTCTTTGAGG
* *
388805 CTAGCTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAATTACCGTTGA
1 CTAGCTGTGCAATTG-CAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGTTGA
388870 GTAAAAGAAAAATGGC
65 GTAAAAGAAAAATGGC
* *
388886 CTAGCTATGCAATTAGCAGAAAGGTGTCAGTTATGCCAGTTAGATGAACAGTTAAGTACCGTTGA
1 CTAGCTGTGCAATT-GCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGTTGA
388951 GTAAAAGAAAAATGGC
65 GTAAAAGAAAAATGGC
* *
388967 CTAGCTGTACAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACATTTAAGTACCGTTGA
1 CTAGCTGTGCAATTG-CAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGTTGA
*
389032 GAAAAAGAAAAATGGC
65 GTAAAAGAAAAATGGC
* * *
389048 CTAGTTGTGCAATTGGCAGAAAGGTGTCAATTACGCCAGTTAGATGAACAGTTAAGTATCGTTGA
1 CTAGCTGTGCAATT-GCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGTTGA
* *
389113 GTAAAACAAAAAATAGC
65 GTAAAA-GAAAAATGGC
* * *
389130 CTAACTGTGC-ATTGGCAGAAATGTGTCAATTATGCCAGTTAGACGAAC-GTTAA
1 CTAGCTGTGCAATT-GCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAA
389183 ACACTGTTGA
Statistics
Matches: 271, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
80 6 0.02
81 247 0.91
82 18 0.07
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (80 bp):
CTAGCTGTGCAATTGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGTTGAG
TAAAAGAAAAATGGC
Found at i:402518 original size:23 final size:23
Alignment explanation
Indices: 402492--402538 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
402482 GAACGTTGAG
*
402492 TGAATATATTCACGAACACTAAA
1 TGAACATATTCACGAACACTAAA
* *
402515 TGAACATGTTCACGAACATTAAA
1 TGAACATATTCACGAACACTAAA
402538 T
1 T
402539 AAACGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.28
Consensus pattern (23 bp):
TGAACATATTCACGAACACTAAA
Found at i:420192 original size:3 final size:3
Alignment explanation
Indices: 420184--420230 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
420174 CTTATCTCTA
420184 TAT TAT TAT TAT TA- TAT TA- TAT TAT TAT TATT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
420228 TAT
1 TAT
420231 ATAAATAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:420206 original size:19 final size:18
Alignment explanation
Indices: 420182--420230 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 18
420172 GTCTTATCTC
420182 TATATTATTATTATTATAT
1 TATATTATTATTATT-TAT
420201 TATATTATTATTATTTAT
1 TATATTATTATTATTTAT
420219 TATTATTATTAT
1 TA-TATTATTAT
420231 ATAAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.17
19 24 0.83
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATTATTATTATTTAT
Found at i:420208 original size:16 final size:17
Alignment explanation
Indices: 420184--420232 Score: 84
Period size: 16 Copynumber: 3.0 Consensus size: 17
420174 CTTATCTCTA
420184 TATTATTATTATTATAT
1 TATTATTATTATTATAT
420201 TA-TATTATTATTAT-T
1 TATTATTATTATTATAT
420216 TATTATTATTATTATAT
1 TATTATTATTATTATAT
420233 AAATAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.10
16 24 0.80
17 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATTATTATTATAT
Found at i:423120 original size:51 final size:51
Alignment explanation
Indices: 423065--423165 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
423055 TCGAACAAAT
*
423065 TGTGAACTTGATAACAAATCGAGATTATCTTTAAAAAATGATAGAAATTAG
1 TGTGAACTTGAAAACAAATCGAGATTATCTTTAAAAAATGATAGAAATTAG
* * *
423116 TGTGAACTTGAAAACAAATCGAGCTTATCTTTAAAAATTGATAGTAATTA
1 TGTGAACTTGAAAACAAATCGAGATTATCTTTAAAAAATGATAGAAATTA
423166 ATTTGTTCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.33
Consensus pattern (51 bp):
TGTGAACTTGAAAACAAATCGAGATTATCTTTAAAAAATGATAGAAATTAG
Found at i:425433 original size:16 final size:16
Alignment explanation
Indices: 425409--425450 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
425399 AACGTCTTTT
*
425409 AAAACAATTTT-TAAG
1 AAAAAAATTTTATAAG
425424 AAAAATAATTTTATAAG
1 AAAAA-AATTTTATAAG
*
425441 ACAAAAATTT
1 AAAAAAATTT
425451 GATCTACGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 8 0.35
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (16 bp):
AAAAAAATTTTATAAG
Found at i:431179 original size:28 final size:28
Alignment explanation
Indices: 431145--431200 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
431135 AAGCCTTGAA
431145 GCTTTCAGGGTCAGTTCTTCCATTGAGT
1 GCTTTCAGGGTCAGTTCTTCCATTGAGT
431173 GCTTTCAGGGTCAGTTCTTCCATTGAGT
1 GCTTTCAGGGTCAGTTCTTCCATTGAGT
431201 CCCAGATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.39
Consensus pattern (28 bp):
GCTTTCAGGGTCAGTTCTTCCATTGAGT
Found at i:432467 original size:20 final size:19
Alignment explanation
Indices: 432416--432469 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
432406 ATGACTAACA
432416 AAATCGCAATGCGATCTCT
1 AAATCGCAATGCGATCTCT
432435 AAATCGCAATGCGATCTCT
1 AAATCGCAATGCGATCTCT
*
432454 AAATCCGCATTGCGAT
1 AAAT-CGCAATGCGAT
432470 TTTAGATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 23 0.70
20 10 0.30
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (19 bp):
AAATCGCAATGCGATCTCT
Found at i:432521 original size:20 final size:20
Alignment explanation
Indices: 432498--432603 Score: 133
Period size: 20 Copynumber: 5.2 Consensus size: 20
432488 AAATATGTAA
432498 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
432518 ATCGCAACGCGATTCGGACT
1 ATCGCAACGCGATTCTGACT
**
432538 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
**
432558 GATTACAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
432579 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
432599 ATCGC
1 ATCGC
432604 GTTGCGATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.03
20 55 0.76
21 13 0.18
22 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:432632 original size:61 final size:61
Alignment explanation
Indices: 432496--432633 Score: 168
Period size: 61 Copynumber: 2.3 Consensus size: 61
432486 GCAAATATGT
* *
432496 AAATCGCAACGCGATTCTGACTATCGCAACGCGATTCGGACTATCGCAACGCGATAATACG
1 AAATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACTATCGCAACGCGATAATACA
** ** * *** *
432557 TGATTACAACGCGATTCTGACTATCGCAACGAGATTCTGACTATCGCGTTGCGATAATATA
1 AAATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACTATCGCAACGCGATAATACA
*
432618 AAATCGCAATGCGATT
1 AAATCGCAACGCGATT
432634 TTCAAAGCGC
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (61 bp):
AAATCGCAACGCGATTCTGACTATCGCAACGAGATTCGGACTATCGCAACGCGATAATACA
Found at i:432799 original size:22 final size:22
Alignment explanation
Indices: 432773--432845 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
432763 CTACGGCGAC
*
432773 ATCCGTCCCCATCTCTGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* * **
432795 ATCCGTCCACATTTCCGGTGAA
1 ATCCGTCCCCATCTCCGACGAA
* **
432817 ATCCGTCCCCATTTCCGGTGAA
1 ATCCGTCCCCATCTCCGACGAA
432839 ATCCGTC
1 ATCCGTC
432846 TATCTCCATC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.21, C:0.37, G:0.16, T:0.26
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:433230 original size:20 final size:20
Alignment explanation
Indices: 433205--433253 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
433195 GCGATTATCT
*
433205 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
**
433225 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAATCAAATTCG
*
433245 TGTTGCGAT
1 CGTTGCGAT
433254 TTTCATTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:433259 original size:20 final size:20
Alignment explanation
Indices: 433221--433276 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
433211 GATAGTCAAA
* **
433221 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
433241 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
433261 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
433277 AAGTTTCAAA
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:0.12, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:433283 original size:20 final size:20
Alignment explanation
Indices: 433240--433283 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
433230 CGATAATCAT
* *
433240 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
433260 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
433280 TTTC
1 TTTC
433284 AAAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:435351 original size:34 final size:34
Alignment explanation
Indices: 435305--435441 Score: 130
Period size: 34 Copynumber: 3.9 Consensus size: 34
435295 GAAAATGATT
** *
435305 ATCGCAACGCGAATTTGACTATTGCAACGGGATA
1 ATCGCAACGCGAAAATGACTATCGCAACGGGATA
* *
435339 ATCGCAATGCGAAAACGACTATCGCAACGTGGAAATGA
1 ATCGCAACGCGAAAATGACTATCGCAACG-GG--AT-A
** **
435377 CTATCGCAACGCGAATTTGACTATCATAACGGGATA
1 --ATCGCAACGCGAAAATGACTATCGCAACGGGATA
*
435413 ATCGCAATGCGAAAATGACTATCGCAACG
1 ATCGCAACGCGAAAATGACTATCGCAACG
435442 CGAATTTAGT
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
34 48 0.59
35 2 0.02
36 1 0.01
37 4 0.05
38 1 0.01
39 2 0.02
40 23 0.28
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (34 bp):
ATCGCAACGCGAAAATGACTATCGCAACGGGATA
Found at i:435397 original size:20 final size:19
Alignment explanation
Indices: 435286--435445 Score: 79
Period size: 20 Copynumber: 8.6 Consensus size: 19
435276 AGAAGAATAG
* *
435286 TCGCAACACGAAAATGATTA
1 TCGCAACGCG-AAATGACTA
*
435306 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
* *
435326 TTGCAACG-G-GAT-A--A
1 TCGCAACGCGAAATGACTA
* *
435340 TCGCAATGCGAAAACGACTA
1 TCGCAACGCG-AAATGACTA
*
435360 TCGCAACGTGGAAATGACTA
1 TCGCAACG-CGAAATGACTA
*
435380 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAA-ATGACTA
** *
435400 TCATAACG-G-GAT-A--A
1 TCGCAACGCGAAATGACTA
*
435414 TCGCAATGCGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
435434 TCGCAACGCGAA
1 TCGCAACGCGAA
435446 TTTAGTTTCG
Statistics
Matches: 101, Mismatches: 24, Indels: 31
0.65 0.15 0.20
Matches are distributed among these distances:
14 13 0.13
15 2 0.02
16 2 0.02
17 5 0.05
18 2 0.02
19 9 0.09
20 67 0.66
21 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:435408 original size:74 final size:74
Alignment explanation
Indices: 435297--435441 Score: 245
Period size: 74 Copynumber: 2.0 Consensus size: 74
435287 CGCAACACGA
* **
435297 AAATGATTATCGCAACGCGAATTTGACTATTGCAACGGGATAATCGCAATGCGAAAACGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCACAACGGGATAATCGCAATGCGAAAACGACTATC
435362 GCAACGTGG
66 GCAACGTGG
* *
435371 AAATGACTATCGCAACGCGAATTTGACTATCATAACGGGATAATCGCAATGCGAAAATGACTATC
1 AAATGACTATCGCAACGCGAATTTGACTATCACAACGGGATAATCGCAATGCGAAAACGACTATC
435436 GCAACG
66 GCAACG
435442 CGAATTTAGT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (74 bp):
AAATGACTATCGCAACGCGAATTTGACTATCACAACGGGATAATCGCAATGCGAAAACGACTATC
GCAACGTGG
Done.