Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 43
Found at i:7492404 original size:7 final size:7
Alignment explanation
Indices: 7492356--7492389 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
7492346 CCCAGAATAG
7492356 CAACGGT
1 CAACGGT
7492363 CAACGGT
1 CAACGGT
7492370 CAACGGT
1 CAACGGT
7492377 CAACGGT
1 CAACGGT
7492384 CAACGG
1 CAACGG
7492390 GTCGGGTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.12
Consensus pattern (7 bp):
CAACGGT
Found at i:7492424 original size:18 final size:17
Alignment explanation
Indices: 7492387--7492437 Score: 84
Period size: 18 Copynumber: 2.9 Consensus size: 17
7492377 CAACGGTCAA
*
7492387 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTAAACGGT
7492404 CGGGTCGGGTAAACTGGT
1 CGGGTCGGGTAAAC-GGT
7492422 CGGGTCGGGTAAACGG
1 CGGGTCGGGTAAACGG
7492438 GTAAACGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.16, C:0.20, G:0.47, T:0.18
Consensus pattern (17 bp):
CGGGTCGGGTAAACGGT
Found at i:7492484 original size:11 final size:10
Alignment explanation
Indices: 7492459--7492503 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
7492449 GTGACCGGTC
*
7492459 AAACCGGTAA
1 AAACCGGTTA
7492469 AAACCGGTTCA
1 AAACCGGTT-A
7492480 AAACCGGTT-
1 AAACCGGTTA
*
7492489 AAACCGGTAA
1 AAACCGGTTA
7492499 AAACC
1 AAACC
7492504 AGTTTCCAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 8 0.26
10 13 0.42
11 10 0.32
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.13
Consensus pattern (10 bp):
AAACCGGTTA
Found at i:7503245 original size:42 final size:42
Alignment explanation
Indices: 7503179--7503331 Score: 227
Period size: 42 Copynumber: 3.6 Consensus size: 42
7503169 AAAGTTTCAA
7503179 TAAGTCTCAAGATAAAGTCTAAAATAAATAACACCATAACACCAT
1 TAAGTCTC-A-AT-AAGTCTAAAATAAATAACACCATAACACCAT
* *
7503224 TAAATCTCAATAAGTCTAAAATAAATAACATCATAACACCAT
1 TAAGTCTCAATAAGTCTAAAATAAATAACACCATAACACCAT
* * *
7503266 TAAGTCTCAATAAATCTAAAATAAATAACACCATAACACTAA
1 TAAGTCTCAATAAGTCTAAAATAAATAACACCATAACACCAT
7503308 TAAGTCTCAATAAGTCT-AAATAAA
1 TAAGTCTCAATAAGTCTAAAATAAA
7503332 ATCAACATCA
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
41 7 0.07
42 83 0.83
43 2 0.02
44 1 0.01
45 7 0.07
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.25
Consensus pattern (42 bp):
TAAGTCTCAATAAGTCTAAAATAAATAACACCATAACACCAT
Found at i:7503290 original size:84 final size:88
Alignment explanation
Indices: 7503179--7503341 Score: 255
Period size: 84 Copynumber: 1.9 Consensus size: 88
7503169 AAAGTTTCAA
*
7503179 TAAGTCTCAAGATAAAGTCTAAAATAAATAACACCATAACACCATTAAATCTCAATAAGTCTAAA
1 TAAGTCTCAAGATAAAGTCTAAAATAAATAACACCATAACACCAATAAATCTCAATAAGTCTAAA
7503244 -ATAAAT-AACATCATAACACCAT
66 TA-AAATCAACATCATAACACCAT
* *
7503266 TAAGTCTC-A-ATAAA-TCTAAAATAAATAACACCATAACACTAATAAGTCTCAATAAGTCTAAA
1 TAAGTCTCAAGATAAAGTCTAAAATAAATAACACCATAACACCAATAAATCTCAATAAGTCTAAA
7503328 TAAAATCAACATCA
66 TAAAATCAACATCA
7503342 ATAATATTCA
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
84 49 0.69
85 13 0.18
86 1 0.01
87 8 0.11
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.25
Consensus pattern (88 bp):
TAAGTCTCAAGATAAAGTCTAAAATAAATAACACCATAACACCAATAAATCTCAATAAGTCTAAA
TAAAATCAACATCATAACACCAT
Found at i:7506371 original size:57 final size:57
Alignment explanation
Indices: 7506307--7506618 Score: 493
Period size: 57 Copynumber: 5.5 Consensus size: 57
7506297 GTGCAAAATA
* * * *
7506307 TAAGAAATCATACTGATTGTATGAATTTCAGATAGGGCATTTTGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
7506364 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* **
7506421 TAAGAAATCATATTAAGTGTATGAATTTCAGATAGGGCGTTTCGTATACTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
7506478 TAAGAAATCATACTAAGTGTATGAATTTCATATA-GGCGTTTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * *
7506534 TAAGAAATCATACTAAGTGTAAGAATTTCAGATAGGGCGTTTCGTATGCTAAAATTT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
7506591 TAAGAAATCATA-TAAAGTGTATGAATTT
1 TAAGAAATCATACT-AAGTGTATGAATTT
7506619 ATGTACTGGA
Statistics
Matches: 235, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
56 52 0.22
57 183 0.78
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
Found at i:7506572 original size:113 final size:114
Alignment explanation
Indices: 7506307--7506618 Score: 502
Period size: 113 Copynumber: 2.7 Consensus size: 114
7506297 GTGCAAAATA
* * * * *
7506307 TAAGAAATCATACTGATTGTATGAATTTCAGATAGGGCATTTTGTACGCTAAAATGTTAAGAAAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTATGCTAAAATGTTAAGAAAT
*
7506372 CATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
66 CATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGT
* *
7506421 TAAGAAATCATATTAAGTGTATGAATTTCAGATAGGGCGTTTCGTATACTAAAATGTTAAGAAAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTATGCTAAAATGTTAAGAAAT
*
7506486 CATACTAAGTGTATGAATTTCATATA-GGCGTTTCATACGCTAAAATGT
66 CATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGT
* *
7506534 TAAGAAATCATACTAAGTGTAAGAATTTCAGATAGGGCGTTTCGTATGCTAAAATTTTAAGAAAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTATGCTAAAATGTTAAGAAAT
7506599 CATA-TAAAGTGTATGAATTT
66 CATACT-AAGTGTATGAATTT
7506619 ATGTACTGGA
Statistics
Matches: 184, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
112 1 0.01
113 100 0.54
114 83 0.45
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (114 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTATGCTAAAATGTTAAGAAAT
CATACTAAGTGTATGAATTTCAGATAGGGCGTTTCATACGCTAAAATGT
Found at i:7506596 original size:170 final size:171
Alignment explanation
Indices: 7506307--7506618 Score: 527
Period size: 170 Copynumber: 1.8 Consensus size: 171
7506297 GTGCAAAATA
* * **
7506307 TAAGAAATCATACTGATTGTATGAATTTCAGATAGGGCATTTTGTACGCTAAAATGTTAAGAAAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCATACGCTAAAATGTTAAGAAAT
* *
7506372 CATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATATTAA
66 CATACTAAGTGTAAGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATATAAA
7506437 GTGTATGAATTTCAGATAGGGCGTTTCGTATACTAAAATGT
131 GTGTATGAATTTCAGATAGGGCGTTTCGTATACTAAAATGT
* *
7506478 TAAGAAATCATACTAAGTGTATGAATTTCATATA-GGCGTTTCATACGCTAAAATGTTAAGAAAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCATACGCTAAAATGTTAAGAAAT
* *
7506542 CATACTAAGTGTAAGAATTTCAGATAGGGCGTTTCGTATGCTAAAATTTTAAGAAATCATATAAA
66 CATACTAAGTGTAAGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATATAAA
7506607 GTGTATGAATTT
131 GTGTATGAATTT
7506619 ATGTACTGGA
Statistics
Matches: 131, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
170 100 0.76
171 31 0.24
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (171 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCATTTCATACGCTAAAATGTTAAGAAAT
CATACTAAGTGTAAGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGTTAAGAAATCATATAAA
GTGTATGAATTTCAGATAGGGCGTTTCGTATACTAAAATGT
Found at i:7507393 original size:45 final size:45
Alignment explanation
Indices: 7507320--7507432 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
7507310 GCATAATTGT
* * * *
7507320 ATGAGAGGATGCCATAAATGAAATGTATAATAGTGTATTAAAGGC
1 ATGAAAGGATGCCATAAATGAAAGGTATAATAGTGTATAAAAGAC
7507365 ATGAAAGGATGCCATAAATGAAAGGTATAATAGTGTATAAAAGAC
1 ATGAAAGGATGCCATAAATGAAAGGTATAATAGTGTATAAAAGAC
* * *
7507410 ATGTAAGGATGACATAATTGAAA
1 ATGAAAGGATGCCATAAATGAAA
7507433 TGCATATAGG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.25
Consensus pattern (45 bp):
ATGAAAGGATGCCATAAATGAAAGGTATAATAGTGTATAAAAGAC
Found at i:7521883 original size:13 final size:13
Alignment explanation
Indices: 7521865--7521895 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
7521855 GGTCAACACC
*
7521865 GGTCAACGGGTCG
1 GGTCAACGGATCG
7521878 GGTCAACGGATCG
1 GGTCAACGGATCG
7521891 GGTCA
1 GGTCA
7521896 GGTCAACGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACGGATCG
Found at i:7521892 original size:18 final size:18
Alignment explanation
Indices: 7521871--7521947 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 18
7521861 CACCGGTCAA
7521871 CGGGTCGGGTCAACGGAT
1 CGGGTCGGGTCAACGGAT
*
7521889 CGGGTCAGGTCAAC-GA-
1 CGGGTCGGGTCAACGGAT
* *
7521905 ---GTCGGATCAACGGGT
1 CGGGTCGGGTCAACGGAT
**
7521920 CGGGTCGGGTCAACGGGG
1 CGGGTCGGGTCAACGGAT
7521938 CGGGTCGGGT
1 CGGGTCGGGT
7521948 TGTGACCGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
13 9 0.19
14 1 0.02
17 2 0.04
18 36 0.75
ACGTcount: A:0.16, C:0.22, G:0.47, T:0.16
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGAT
Found at i:7521902 original size:31 final size:31
Alignment explanation
Indices: 7521865--7521943 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
7521855 GGTCAACACC
7521865 GGTCAACGGGTCGGGTCAACGGATCGGGTCA
1 GGTCAACGGGTCGGGTCAACGGATCGGGTCA
* * * *
7521896 GGTCAACGAGTCGGATCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGATCGGGTCA
*
7521927 GGTCAACGGGGCGGGTC
1 GGTCAACGGGTCGGGTC
7521944 GGGTTGTGAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.18, C:0.23, G:0.44, T:0.15
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGATCGGGTCA
Found at i:7528437 original size:18 final size:17
Alignment explanation
Indices: 7528406--7528441 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
7528396 GATACATATT
7528406 TATAATATTATATATAG
1 TATAATATTATATATAG
*
7528423 TATATATATTTTATATAG
1 TATA-ATATTATATATAG
7528441 T
1 T
7528442 TTTGGAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TATAATATTATATATAG
Found at i:7528514 original size:22 final size:21
Alignment explanation
Indices: 7528489--7528552 Score: 78
Period size: 22 Copynumber: 3.1 Consensus size: 21
7528479 AAACATAAAG
*
7528489 TTTTTGAATATATATTATATAA
1 TTTTTGAAAATATATTATAT-A
*
7528511 TTTTTAAAAATATATTATATA
1 TTTTTGAAAATATATTATATA
*
7528532 TGTTTGAAAA-ATA-TATATA
1 TTTTTGAAAATATATTATATA
7528551 TT
1 TT
7528553 ATATATTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.19
20 3 0.08
21 9 0.24
22 18 0.49
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
TTTTTGAAAATATATTATATA
Found at i:7528562 original size:33 final size:30
Alignment explanation
Indices: 7528520--7528609 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 30
7528510 ATTTTTAAAA
*
7528520 ATATATTATATATGTTTGAAAAATATATATATT
1 ATATATTATATAT-TTTG-AAAATATATACA-T
*
7528553 ATATATTATAGT-TTTTGAAACTATATACAT
1 ATATATTATA-TATTTTGAAAATATATACAT
**
7528583 ATATATTATATAATTTTTTAAATATAT
1 ATATATTATAT-ATTTTGAAAATATAT
7528610 GGCTATCGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 1 0.02
30 11 0.22
31 21 0.43
32 4 0.08
33 11 0.22
34 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (30 bp):
ATATATTATATATTTTGAAAATATATACAT
Found at i:7528588 original size:30 final size:33
Alignment explanation
Indices: 7528520--7528594 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 33
7528510 ATTTTTAAAA
*
7528520 ATATATTATATATGTTTGAAAAATATATATATT
1 ATATATTATATATGTTTGAAAAATATATACATT
*
7528553 ATATATTATAGT-T-TTTG-AAACTATATACA-T
1 ATATATTATA-TATGTTTGAAAAATATATACATT
7528583 ATATATTATATA
1 ATATATTATATA
7528595 ATTTTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 1 0.03
30 11 0.29
31 10 0.26
32 4 0.11
33 11 0.29
34 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (33 bp):
ATATATTATATATGTTTGAAAAATATATACATT
Found at i:7528609 original size:31 final size:31
Alignment explanation
Indices: 7528520--7528609 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 31
7528510 ATTTTTAAAA
* * *
7528520 ATATATTATAT-ATGTTTGAAAAATATATAT
1 ATATATTATATAATTTTTGAAATATATACAT
*
7528550 AT-TATATATTATAGTTTTTGAAACTATATACAT
1 ATATAT-TA-TATAATTTTTGAAA-TATATACAT
*
7528583 ATATATTATATAATTTTTTAAATATAT
1 ATATATTATATAATTTTTGAAATATAT
7528610 GGCTATCGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
29 3 0.06
30 4 0.08
31 8 0.16
32 20 0.41
33 11 0.22
34 3 0.06
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (31 bp):
ATATATTATATAATTTTTGAAATATATACAT
Found at i:7530044 original size:20 final size:19
Alignment explanation
Indices: 7530019--7530072 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
7530009 GCGAAATAAA
7530019 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATCT-CAG
** *
7530039 AATCGCAAATCAGTTCTCAG
1 AATCGCAACGC-GATCTCAG
7530059 AATCGCAACGCGAT
1 AATCGCAACGCGAT
7530073 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 21 0.78
21 4 0.15
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (19 bp):
AATCGCAACGCGATCTCAG
Found at i:7530164 original size:20 final size:20
Alignment explanation
Indices: 7530122--7530174 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
7530112 GATTTTCCAT
*
7530122 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAACATGAA
7530142 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGAACATGA-A
*
7530162 AATCGCAATGCGA
1 AATCGCAACGCGA
7530175 TTCTGACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.15
Consensus pattern (20 bp):
AATCGCAACGCGAACATGAA
Found at i:7530226 original size:81 final size:81
Alignment explanation
Indices: 7530122--7530397 Score: 263
Period size: 81 Copynumber: 3.4 Consensus size: 81
7530112 GATTTTCCAT
* ** * **
7530122 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATAAATCGCAATGCG-ATTCTG-ACTTT
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAATGCGTA-TCTGTA-AAT
* *
7530185 CGCAAAGAGTATCCGTAA
64 CGCAAAGAGAATACGTAA
* * * ** *
7530203 AATCGCAACGCGTATCCGTAAATCACAACGACAATACGTA-AAATCGCAACACGTATCCGTAAAT
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CGA-ACATATAAATCGCAATGCGTATCTGTAAAT
* *
7530267 CGCAACGAGAATACGT-T
64 CGCAAAGAGAATACGTAA
* * * * ** *
7530284 AATCGCAACGCGTATCTGTAAATCGAAACGAGAATACGTAAATCGAAATGCGTATCTGTAAATCG
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAATGCGTATCTGTAAATCG
* *
7530349 CAATGCGAATACGTAA
66 CAAAGAGAATACGTAA
7530365 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
7530398 TTTTTAAAGC
Statistics
Matches: 154, Mismatches: 35, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
79 1 0.01
80 35 0.23
81 82 0.53
82 30 0.19
83 6 0.04
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (81 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACATATAAATCGCAATGCGTATCTGTAAATCG
CAAAGAGAATACGTAA
Found at i:7530231 original size:20 final size:20
Alignment explanation
Indices: 7530193--7530396 Score: 194
Period size: 20 Copynumber: 10.1 Consensus size: 20
7530183 TTCGCAAAGA
7530193 GTATCCGTAAAATCGCAACGC
1 GTATCCGT-AAATCGCAACGC
*
7530214 GTATCCGTAAATCACAACGAC
1 GTATCCGTAAATCGCAACG-C
* * *
7530235 -AATACGTAAAATCGCAACAC
1 GTATCCGT-AAATCGCAACGC
*
7530255 GTATCCGTAAATCGCAACGA
1 GTATCCGTAAATCGCAACGC
* * *
7530275 GAATACGTTAATCGCAACGC
1 GTATCCGTAAATCGCAACGC
* * *
7530295 GTATCTGTAAATCGAAACGA
1 GTATCCGTAAATCGCAACGC
* * * *
7530315 GAATACGTAAATCGAAATGC
1 GTATCCGTAAATCGCAACGC
* *
7530335 GTATCTGTAAATCGCAATGC
1 GTATCCGTAAATCGCAACGC
* *
7530355 GAATACGTAAAATCGCAACGC
1 GTATCCGT-AAATCGCAACGC
7530376 GTATCCGTAAATCGCAACGC
1 GTATCCGTAAATCGCAACGC
7530396 G
1 G
7530397 ATTTTTAAAG
Statistics
Matches: 145, Mismatches: 34, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
20 105 0.72
21 40 0.28
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
GTATCCGTAAATCGCAACGC
Found at i:7530299 original size:40 final size:41
Alignment explanation
Indices: 7530184--7530394 Score: 282
Period size: 41 Copynumber: 5.2 Consensus size: 41
7530174 ATTCTGACTT
* * *
7530184 TCGCAAAGAGTATCCGTAAAATCGCAACGCGTATCCGTAAA
1 TCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAA
* * *
7530225 TCACAACGACAATACGTAAAATCGCAACACGTATCCGTAAA
1 TCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAA
* *
7530266 TCGCAACGAGAATACGT-TAATCGCAACGCGTATCTGTAAA
1 TCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAA
* * * *
7530306 TCGAAACGAGAATACGT-AAATCGAAATGCGTATCTGTAAA
1 TCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAA
* *
7530346 TCGCAATGCGAATACGTAAAATCGCAACGCGTATCCGTAAA
1 TCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAA
7530387 TCGCAACG
1 TCGCAACG
7530395 CGATTTTTAA
Statistics
Matches: 147, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 70 0.48
41 77 0.52
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (41 bp):
TCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAA
Found at i:7530993 original size:19 final size:20
Alignment explanation
Indices: 7530956--7531004 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
7530946 TTCTAAACTT
*
7530956 AAAATCGCAACATGAAAATA
1 AAAATCGCAACACGAAAATA
*
7530976 AAAATCGCAACACG-AAATG
1 AAAATCGCAACACGAAAATA
7530995 AAAATCGCAA
1 AAAATCGCAA
7531005 AGAGATAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATA
Found at i:7531054 original size:19 final size:19
Alignment explanation
Indices: 7531032--7531144 Score: 101
Period size: 20 Copynumber: 6.1 Consensus size: 19
7531022 GAAACCAAAA
*
7531032 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
7531051 TCGCGTTGCGA--TT-A--
1 TCGCGTTGCGATTTTCATT
*
7531065 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
7531084 TCGCGTTGCGATAGTCATCT
1 TCGCGTTGCGATTTTCAT-T
* **
7531104 CCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
7531123 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
7531143 TC
1 TC
7531145 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.13
16 3 0.04
17 3 0.04
19 28 0.36
20 33 0.43
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:7533187 original size:42 final size:42
Alignment explanation
Indices: 7533136--7533229 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
7533126 CCACTCTTAT
* * *
7533136 CGTTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCA-TCATCGAAGAGGT-CCCTCCCAC
* *
7533178 CGTTCAAGAGGCCACTGTCATCATTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCATCGAAGAGGTCCCTCCCAC
*
7533220 CATTCAAGAG
1 CGTTCAAGAG
7533230 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 4 0.09
42 38 0.86
43 2 0.05
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCATCGAAGAGGTCCCTCCCAC
Found at i:7534595 original size:14 final size:14
Alignment explanation
Indices: 7534576--7534611 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
7534566 ATTGTTTAAT
7534576 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
7534590 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
7534604 TGATTTGT
1 TGATTTGT
7534612 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:7534728 original size:20 final size:20
Alignment explanation
Indices: 7534703--7534757 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
7534693 GCGATTCTCT
* *
7534703 CGTTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCAATTCCG
7534723 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCAATTCCG
*
7534743 CATTGCGATAGTCAA
1 CGTTGCGATAGTCAA
7534758 ATGAATGTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCG
Found at i:7538105 original size:20 final size:19
Alignment explanation
Indices: 7538082--7538293 Score: 174
Period size: 20 Copynumber: 10.6 Consensus size: 19
7538072 GTCAAAATCT
7538082 CATTGCGATTTACAGATTCG
1 CATTGCGATTTAC-GATTCG
*
7538102 CATTGTGATTTACGTATTCG
1 CATTGCGATTTACG-ATTCG
7538122 CATTGCGATTTACGTATTCG
1 CATTGCGATTTACG-ATTCG
*
7538142 CATTGCGATTTACGGATACG
1 CATTGCGATTTAC-GATTCG
*
7538162 CATTGCGATTTACGTATTCT
1 CATTGCGATTTACG-ATTCG
*
7538182 CATTGCGATTTACAGATACG
1 CATTGCGATTTAC-GATTCG
* * *
7538202 CGTTGCGATTTACATATTCT
1 CATTGCGATTTAC-GATTCG
* * *
7538222 CGTTGTGATTTACGGATACG
1 CATTGCGATTTAC-GATTCG
*
7538242 CGTTGCGATTTTACGTATT-G
1 CATTGCGA-TTTACG-ATTCG
* * *
7538262 TCGTTGTGATTTACGAATACG
1 -CATTGCGATTTACG-ATTCG
*
7538283 CGTTGCGATTT
1 CATTGCGATTT
7538294 TACGGATACT
Statistics
Matches: 162, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.01
20 143 0.88
21 17 0.10
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (19 bp):
CATTGCGATTTACGATTCG
Found at i:7538127 original size:40 final size:40
Alignment explanation
Indices: 7538082--7538293 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
7538072 GTCAAAATCT
* *
7538082 CATTGCGATTTACAG-ATTCGCATTGTGATTTACGTATTCG
1 CATTGCGATTTAC-GTATTCGCATTGTGATTTACGGATACG
*
7538122 CATTGCGATTTACGTATTCGCATTGCGATTTACGGATACG
1 CATTGCGATTTACGTATTCGCATTGTGATTTACGGATACG
* * *
7538162 CATTGCGATTTACGTATTCTCATTGCGATTTACAGATACG
1 CATTGCGATTTACGTATTCGCATTGTGATTTACGGATACG
* * * *
7538202 CGTTGCGATTTACATATTCTCGTTGTGATTTACGGATACG
1 CATTGCGATTTACGTATTCGCATTGTGATTTACGGATACG
* * *
7538242 CGTTGCGATTTTACGTATT-GTCGTTGTGATTTACGAATACG
1 CATTGCGA-TTTACGTATTCG-CATTGTGATTTACGGATACG
*
7538283 CGTTGCGATTT
1 CATTGCGATTT
7538294 TACGGATACT
Statistics
Matches: 156, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 119 0.76
41 36 0.23
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (40 bp):
CATTGCGATTTACGTATTCGCATTGTGATTTACGGATACG
Found at i:7538146 original size:60 final size:60
Alignment explanation
Indices: 7538082--7538260 Score: 225
Period size: 60 Copynumber: 3.0 Consensus size: 60
7538072 GTCAAAATCT
7538082 CATTGCGATTTACAGATTCGCATTGTGATTTACGTATTCGCATTGCGATTTACGTATTCG
1 CATTGCGATTTACAGATTCGCATTGTGATTTACGTATTCGCATTGCGATTTACGTATTCG
* * * * *
7538142 CATTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCATTGCGATTTACAG-ATACG
1 CATTGCGATTTACAGATTCGCATTGTGATTTACGTATTCGCATTGCGATTTAC-GTATTCG
* * * * * * *
7538202 CGTTGCGATTTACATATTCTCGTTGTGATTTACGGATACGCGTTGCGATTTTACGTATT
1 CATTGCGATTTACAGATTCGCATTGTGATTTACGTATTCGCATTGCGA-TTTACGTATT
7538261 GTCGTTGTGA
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
60 91 0.92
61 8 0.08
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (60 bp):
CATTGCGATTTACAGATTCGCATTGTGATTTACGTATTCGCATTGCGATTTACGTATTCG
Found at i:7538456 original size:20 final size:19
Alignment explanation
Indices: 7538403--7538456 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
7538393 ATTCTTCATA
7538403 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* ** *
7538422 AACTGATTTGTGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
7538443 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
7538457 TTTATTTCGC
Statistics
Matches: 25, Mismatches: 8, Indels: 3
0.69 0.22 0.08
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:7549355 original size:2 final size:2
Alignment explanation
Indices: 7549348--7549377 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7549338 AATGATTTTG
7549348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7549378 TAATTTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7561227 original size:14 final size:14
Alignment explanation
Indices: 7561208--7561234 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7561198 CGAAGCAACG
7561208 ATACCATACAAAAA
1 ATACCATACAAAAA
7561222 ATACCATACAAAA
1 ATACCATACAAAA
7561235 GAGGCAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.22, G:0.00, T:0.15
Consensus pattern (14 bp):
ATACCATACAAAAA
Found at i:7571784 original size:8 final size:8
Alignment explanation
Indices: 7571754--7571803 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
7571744 ATTAATTACC
7571754 TATTAAAA
1 TATTAAAA
* *
7571762 TAATAATAT
1 TATTAA-AA
7571771 TATTAAAA
1 TATTAAAA
7571779 TATTAAAA
1 TATTAAAA
*
7571787 -ATTATAA
1 TATTAAAA
7571794 TATTAAAA
1 TATTAAAA
7571802 TA
1 TA
7571804 AGAACATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 6 0.18
8 22 0.65
9 6 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TATTAAAA
Found at i:7571795 original size:15 final size:15
Alignment explanation
Indices: 7571772--7571801 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7571762 TAATAATATT
7571772 ATTAAAATATTAAAA
1 ATTAAAATATTAAAA
*
7571787 ATTATAATATTAAAA
1 ATTAAAATATTAAAA
7571802 TAAGAACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTAAAATATTAAAA
Found at i:7571971 original size:30 final size:30
Alignment explanation
Indices: 7571909--7572008 Score: 93
Period size: 33 Copynumber: 3.3 Consensus size: 30
7571899 TTAATAATTT
* *
7571909 ATTATATTATTAAAATAA-A-AAGTATAAT-
1 ATTATA-TATTATAATAATATAATTATAATA
7571937 ATTATATATTATAATAATATAATTATAATA
1 ATTATATATTATAATAATATAATTATAATA
*
7571967 ATTATTAAAATTATCAATAAATATAATT-TAATA
1 ATTA-T-ATATTAT-AAT-AATATAATTATAATA
7572000 ATTA-ATATT
1 ATTATATATT
7572009 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
27 10 0.16
28 7 0.11
29 8 0.13
30 8 0.13
31 1 0.02
32 6 0.10
33 12 0.20
34 9 0.15
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (30 bp):
ATTATATATTATAATAATATAATTATAATA
Found at i:7576662 original size:21 final size:21
Alignment explanation
Indices: 7576636--7576675 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7576626 GGTAGCTCGA
7576636 TCAATGACTCGATCAACTCTG
1 TCAATGACTCGATCAACTCTG
*
7576657 TCAATGGCTCGATCAACTC
1 TCAATGACTCGATCAACTC
7576676 AATTAATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (21 bp):
TCAATGACTCGATCAACTCTG
Found at i:7576683 original size:21 final size:21
Alignment explanation
Indices: 7576635--7576687 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7576625 AGGTAGCTCG
* *
7576635 ATCAATGACTCGATCAACTCT
1 ATCAATGGCTCGATCAACTCA
*
7576656 GTCAATGGCTCGATCAACTCA
1 ATCAATGGCTCGATCAACTCA
*
7576677 ATTAATGGCTC
1 ATCAATGGCTC
7576688 AAATCAGTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (21 bp):
ATCAATGGCTCGATCAACTCA
Found at i:7580674 original size:24 final size:24
Alignment explanation
Indices: 7580636--7580690 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
7580626 CGACTAAAAA
7580636 AATCGA-TTTTTCAACTCGACTCG
1 AATCGATTTTTTCAACTCGACTCG
7580659 AATCGATTTTTTCAACTCGACTCG
1 AATCGATTTTTTCAACTCGACTCG
7580683 AATCGATT
1 AATCGATT
7580691 CTAAAAGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 6 0.19
24 25 0.81
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (24 bp):
AATCGATTTTTTCAACTCGACTCG
Found at i:7583762 original size:13 final size:15
Alignment explanation
Indices: 7583744--7583777 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
7583734 CTAACTAGTG
7583744 AAATAAAT-AAGA-T
1 AAATAAATAAAGACT
7583757 AAATAAATAAAGACT
1 AAATAAATAAAGACT
7583772 AAATAA
1 AAATAA
7583778 TAATACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 4 0.21
15 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (15 bp):
AAATAAATAAAGACT
Found at i:7595696 original size:21 final size:20
Alignment explanation
Indices: 7595655--7595692 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7595645 AAATAAGTTG
*
7595655 ATTTTTTAAAAACAAGTAAT
1 ATTTTTTAAAAACAAATAAT
7595675 ATTTTTTAAAAA-AAATAA
1 ATTTTTTAAAAACAAATAA
7595693 AATAACGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTTTTTAAAAACAAATAAT
Found at i:7598261 original size:16 final size:15
Alignment explanation
Indices: 7598240--7598271 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
7598230 AAATCAACGC
7598240 ATTTATTTATGAAATT
1 ATTTATTTAT-AAATT
7598256 ATTTATTTATAAATT
1 ATTTATTTATAAATT
7598271 A
1 A
7598272 AATAAGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTATTTATAAATT
Found at i:7610590 original size:39 final size:39
Alignment explanation
Indices: 7610539--7610616 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
7610529 GGCACTGAAT
* * *
7610539 ATTTGTCTCAAAGGACCACTATATCCCGAAGGATCACTG
1 ATTTGTCCCAAAGGACCACTATATCCCGAAAGACCACTG
*
7610578 ATTTGTCCCAAAGGACCACTATGTCCCGAAAGACCACTG
1 ATTTGTCCCAAAGGACCACTATATCCCGAAAGACCACTG
7610617 TAACCCTCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (39 bp):
ATTTGTCCCAAAGGACCACTATATCCCGAAAGACCACTG
Found at i:7610604 original size:18 final size:18
Alignment explanation
Indices: 7610542--7610615 Score: 69
Period size: 18 Copynumber: 3.9 Consensus size: 18
7610532 ACTGAATATT
*
7610542 TGTCTCAAAGGACCACTA
1 TGTCCCAAAGGACCACTA
* * *
7610560 TATCCCGAAGGATCACTGA
1 TGTCCCAAAGGACCACT-A
7610579 TTTGTCCCAAAGGACCACTA
1 --TGTCCCAAAGGACCACTA
7610599 TGTCCCGAAA-GACCACT
1 TGTCCC-AAAGGACCACT
7610616 GTAACCCTCG
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 26 0.58
19 4 0.09
20 1 0.02
21 14 0.31
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:7617027 original size:21 final size:21
Alignment explanation
Indices: 7617001--7617051 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
7616991 ACAGTTCTCA
**
7617001 TTTCATATATCTTTCCTCATT
1 TTTCATATATCTTTAATCATT
*
7617022 TTTCATATCTCTTTAATCATT
1 TTTCATATATCTTTAATCATT
7617043 TTTCATATA
1 TTTCATATA
7617052 AACACATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTCATATATCTTTAATCATT
Found at i:7617531 original size:20 final size:20
Alignment explanation
Indices: 7617487--7617539 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
7617477 TCCCTAACTG
* *
7617487 AGGTATAGATACCCTGTATG
1 AGGTATAGATACCCTATATA
* *
7617507 GGGTATAGATACCCTATTTA
1 AGGTATAGATACCCTATATA
7617527 AGGTATAGATACC
1 AGGTATAGATACC
7617540 GTGATAACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (20 bp):
AGGTATAGATACCCTATATA
Found at i:7625344 original size:32 final size:32
Alignment explanation
Indices: 7625308--7625383 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
7625298 GGGGCCACGA
*
7625308 GGCCTACCTAAGAACAT-ATCTTAGGGCCGCAG
1 GGCCTACCTAAGAA-ATGATCTCAGGGCCGCAG
**
7625340 GGCCTACCCGAG-AATGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAAATGATCTCAGGGCCGCAG
*
7625371 AGCCTACCTAAGA
1 GGCCTACCTAAGA
7625384 GTCACATTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 2 0.06
31 24 0.67
32 10 0.28
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (32 bp):
GGCCTACCTAAGAAATGATCTCAGGGCCGCAG
Found at i:7631399 original size:26 final size:26
Alignment explanation
Indices: 7631370--7631422 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
7631360 TCAATTTTAT
* *
7631370 TCCATTCATTTCAGAGCTTGAG-GATA
1 TCCAATCATTCCAGAGCTT-AGTGATA
*
7631396 TCCAATCATTCCTGAGCTTAGTGATA
1 TCCAATCATTCCAGAGCTTAGTGATA
7631422 T
1 T
7631423 TCTTGGGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (26 bp):
TCCAATCATTCCAGAGCTTAGTGATA
Found at i:7635696 original size:2 final size:2
Alignment explanation
Indices: 7635689--7635715 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7635679 TCATACCTTA
7635689 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7635716 ATTTTTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7635764 original size:57 final size:56
Alignment explanation
Indices: 7635705--7635838 Score: 143
Period size: 56 Copynumber: 2.4 Consensus size: 56
7635695 ATATATATAT
* * * *
7635705 ATATATATATAATTTTTATCTTAACTT-ACTATTTTTTTTCTTATCTTAACTAAAA-
1 ATATATATTTAATTTTTATCTTAACTTAAATATTTTTATTCTTACCTTAAC-AAAAG
* *
7635760 ATATAT-TTTAA-TCTTATCTCAACTTAAAAATATTTTTATTCTTACCTTAACAAAAG
1 ATATATATTTAATTTTTATCTTAACTT--AAATATTTTTATTCTTACCTTAACAAAAG
*
7635816 A-ATATATTTTATTTTTATCTTAA
1 ATATATATTTAATTTTTATCTTAA
7635839 ATTTTAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
53 12 0.19
54 4 0.06
55 14 0.22
56 25 0.39
57 9 0.14
ACGTcount: A:0.37, C:0.11, G:0.01, T:0.51
Consensus pattern (56 bp):
ATATATATTTAATTTTTATCTTAACTTAAATATTTTTATTCTTACCTTAACAAAAG
Found at i:7635787 original size:29 final size:28
Alignment explanation
Indices: 7635737--7635929 Score: 129
Period size: 30 Copynumber: 6.6 Consensus size: 28
7635727 AACTTACTAT
*
7635737 TTTTTTTCTTATCTTAACTAAAAATATA
1 TTTTATTCTTATCTTAACTAAAAATATA
* *
7635765 TTTTAATCTTATCTCAACTTAAAAATAT-
1 TTTTATTCTTATCTTAAC-TAAAAATATA
* *
7635793 TTTTATTCTTACCTTAACAAAAGAATATA
1 TTTTATTCTTATCTTAACTAAA-AATATA
* *
7635822 TTTTATTTTTATCTTAAATTTTAAAAATATA
1 TTTTATTCTTATCTT-AA--CTAAAAATATA
* * * * *
7635853 TTTTGTTTTTATCCTAACTTATTATATATA
1 TTTTATTCTTATCTTAAC-TA-AAAATATA
** *
7635883 TTAAATTCTTAACTTCAA-TAATTAAATATA
1 TTTTATTCTTATCTT-AACTAA--AAATATA
* *
7635913 TTCTATTCTTATTTTAA
1 TTTTATTCTTATCTTAA
7635930 ATTATATTTA
Statistics
Matches: 126, Mismatches: 28, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
27 3 0.02
28 35 0.28
29 28 0.22
30 36 0.29
31 21 0.17
32 3 0.02
ACGTcount: A:0.37, C:0.10, G:0.01, T:0.52
Consensus pattern (28 bp):
TTTTATTCTTATCTTAACTAAAAATATA
Found at i:7635951 original size:22 final size:22
Alignment explanation
Indices: 7635904--7635949 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
7635894 ACTTCAATAA
*
7635904 TTAAATATATTCTATTCTTATT
1 TTAAATATATTCTATTATTATT
7635926 TTAAATTATATT-TATTATTGATT
1 TTAAA-TATATTCTATTATT-ATT
7635949 T
1 T
7635950 AACTTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (22 bp):
TTAAATATATTCTATTATTATT
Found at i:7635974 original size:18 final size:19
Alignment explanation
Indices: 7635953--7635993 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7635943 TTGATTTAAC
*
7635953 TTAAAATATAT-TTTTATT
1 TTAAAATAAATATTTTATT
*
7635971 TTAATATAAATATTTTATT
1 TTAAAATAAATATTTTATT
7635990 TTAA
1 TTAA
7635994 TTTTATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAAAATAAATATTTTATT
Found at i:7636359 original size:24 final size:22
Alignment explanation
Indices: 7636320--7636372 Score: 88
Period size: 24 Copynumber: 2.3 Consensus size: 22
7636310 ATAAAACCCG
7636320 TAAAAAACACCGTAGGAACCGT
1 TAAAAAACACCGTAGGAACCGT
7636342 TAAAATAATCACCGTAGGAACCGT
1 TAAAA-AA-CACCGTAGGAACCGT
7636366 TAAAAAA
1 TAAAAAA
7636373 AAGAAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.17
23 4 0.14
24 20 0.69
ACGTcount: A:0.49, C:0.19, G:0.15, T:0.17
Consensus pattern (22 bp):
TAAAAAACACCGTAGGAACCGT
Found at i:7636464 original size:2 final size:2
Alignment explanation
Indices: 7636457--7636510 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
7636447 CATCCAATCT
7636457 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7636499 TC TC TC TC TC TC
1 TC TC TC TC TC TC
7636511 ATTTTCCATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:7640004 original size:10 final size:11
Alignment explanation
Indices: 7639989--7640038 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 11
7639979 GTGAGGTGCA
7639989 AAAATAA-AAT
1 AAAATAATAAT
7639999 AAAATAA-AAT
1 AAAATAATAAT
7640009 AATAATAATAAT
1 AA-AATAATAAT
7640021 -AAATAATAAT
1 AAAATAATAAT
*
7640031 AATATAAT
1 AAAATAAT
7640039 TTTTTTTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
10 21 0.58
11 12 0.33
12 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:7640014 original size:3 final size:3
Alignment explanation
Indices: 7639991--7640038 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
7639981 GAGGTGCAAA
7639991 AAT AA- AAT AA- AAT AA- AAT AAT AAT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
7640034 -AT AAT
1 AAT AAT
7640039 TTTTTTTTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.20
3 29 0.73
4 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7640015 original size:16 final size:16
Alignment explanation
Indices: 7639989--7640037 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
7639979 GTGAGGTGCA
7639989 AAAATAA-AATAAAAT
1 AAAATAATAATAAAAT
7640004 AAAATAATAATAATAAT
1 AAAATAATAATAA-AAT
*
7640021 -AAATAATAATAATAT
1 AAAATAATAATAAAAT
7640036 AA
1 AA
7640038 TTTTTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.30
16 18 0.60
17 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATAATAATAAAAT
Found at i:7640025 original size:13 final size:13
Alignment explanation
Indices: 7639995--7640034 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
7639985 TGCAAAAATA
*
7639995 AAATAA-AATAAA
1 AAATAATAATAAT
7640007 ATAATAATAATAAT
1 A-AATAATAATAAT
7640021 AAATAATAATAAT
1 AAATAATAATAAT
7640034 A
1 A
7640035 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.72
14 6 0.24
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:7642948 original size:3 final size:3
Alignment explanation
Indices: 7642923--7642975 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
7642913 GCCTACAAAA
* * *
7642923 AAT AAA AAT AAA AAT ATT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
7642969 -AT AAT AA
1 AAT AAT AA
7642976 AATTTTTTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7643727 original size:110 final size:110
Alignment explanation
Indices: 7643509--7644595 Score: 1653
Period size: 110 Copynumber: 9.9 Consensus size: 110
7643499 TTGTTCTGTT
* * * *
7643509 TCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTC----TGAAACTGGAAAGTTGTTCGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
7643570 TGACAG-CTAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTC-AGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * * *
7643615 TCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAGGTTATTTAT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* * ** *
7643680 TGATAGTCAGTCGCCTCTTTACTGTGAAGTTGAGATTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
*
7643725 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAATGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
*
7643790 TGACAGTCAGTCGCCTCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * * * * *
7643835 TTGAGTCCAATATCATTCGTTGTGAAGTTAAAATTGGCTCTGAATGAAACTGAAAAGTTGTTTAT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* * *
7643900 TGACAGTCAATCGCCCCTTTGTTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * * * *
7643945 TTGAGTCCAATATCCTTCCCTGTGAAGTTGAAATTGACTCTGAATGAAACTAAAAAGTTATTGGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* * * * *
7644010 TCACAGTCAGTCGCCCCTTCGCTATGAAGTTAACCTTGTGTTATC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * **
7644055 TCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTATGAATGAAACTGAAAAGTTACTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
*
7644120 TGACAGTCAGTCGCCCCTTCGCTATGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* *
7644165 TCGAGTCCAATATTCTTCGCTGTTAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
* * *
7644230 TGACATTCAGTCGCCCCTTCGCTGTGAAATTGAGTTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
*
7644275 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTAT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
*
7644340 TGACAGTCAGTCGCCCCTTCACTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* *
7644385 TCGAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
*
7644450 TGACAGTCAGTTGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
* * *
7644495 TCGAGTCTAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGT
1 TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
*
7644560 TGACAGTCAGTCGCCCATTCGCTGTGAAGTTGAGCT
66 TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCT
7644596 ACCACCATCA
Statistics
Matches: 890, Mismatches: 86, Indels: 6
0.91 0.09 0.01
Matches are distributed among these distances:
106 37 0.04
110 852 0.96
111 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (110 bp):
TCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGT
TGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTC
Found at i:7648391 original size:19 final size:19
Alignment explanation
Indices: 7648367--7648411 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
7648357 AAATGACCAA
* *
7648367 CAAATTTTCAACGCGATCT
1 CAAATTTGCAACGCGAACT
*
7648386 CAAATTCGCAACGCGAACT
1 CAAATTTGCAACGCGAACT
*
7648405 CCAATTT
1 CAAATTT
7648412 CACAAACCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (19 bp):
CAAATTTGCAACGCGAACT
Found at i:7648523 original size:19 final size:19
Alignment explanation
Indices: 7648466--7648577 Score: 120
Period size: 19 Copynumber: 5.7 Consensus size: 19
7648456 AACAAAGATG
**
7648466 TCAAATTCGCAAC-GCGTT
1 TCAAATTCGCAACTGAATT
7648484 TGCTAAATTCGCAACACTGAATT
1 T-C-AAATTCGC-A-ACTGAATT
7648507 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
7648526 TCAAATTTGCAACTGAATT
1 TCAAATTCGCAACTGAATT
7648545 TCAAATTCGCAACTCG-ATT
1 TCAAATTCGCAACT-GAATT
*
7648564 TCCGAATTCGCAAC
1 T-CAAATTCGCAAC
7648578 ACGAATTTAA
Statistics
Matches: 82, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.01
19 44 0.54
20 21 0.26
21 9 0.11
22 3 0.04
23 4 0.05
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:7648565 original size:38 final size:41
Alignment explanation
Indices: 7648466--7648585 Score: 144
Period size: 38 Copynumber: 3.0 Consensus size: 41
7648456 AACAAAGATG
*
7648466 TCAAATTCGCAACGCG-TTTGCTAAATTCGCAACACTGAATT
1 TCAAATTCGCAACTCGATTT-CTAAATTCGCAACACTGAATT
*
7648507 TCAAATTCGCAACT-GAATTTC-AAATTTGC-A-ACTGAATT
1 TCAAATTCGCAACTCG-ATTTCTAAATTCGCAACACTGAATT
**
7648545 TCAAATTCGCAACTCGATTTCCGAATTCGCAACAC-GAATT
1 TCAAATTCGCAACTCGATTTCTAAATTCGCAACACTGAATT
7648585 T
1 T
7648586 AATTTTGCAA
Statistics
Matches: 69, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
38 27 0.39
39 8 0.12
40 15 0.22
41 16 0.23
42 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (41 bp):
TCAAATTCGCAACTCGATTTCTAAATTCGCAACACTGAATT
Found at i:7649596 original size:24 final size:24
Alignment explanation
Indices: 7649538--7649584 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
7649528 AGTTAGTATT
*
7649538 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
7649562 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
7649585 TCGGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:7652165 original size:20 final size:20
Alignment explanation
Indices: 7652137--7652175 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7652127 CGATTGATGC
7652137 GAAAGTCAAATTCGCAACGT
1 GAAAGTCAAATTCGCAACGT
*
7652157 GAAATTCAAATTCGCAACG
1 GAAAGTCAAATTCGCAACG
7652176 CGATTATCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAGTCAAATTCGCAACGT
Found at i:7652180 original size:62 final size:63
Alignment explanation
Indices: 7652083--7652224 Score: 187
Period size: 63 Copynumber: 2.3 Consensus size: 63
7652073 GTTTTCCTTG
* ** ***
7652083 AATTCGCAACGCGAAAGTCAAATTCACATTGCGATT-TTTTGTTGCGATTGATGCGAAAGTCA
1 AATTCGCAACGCGAAATTCAAATTCACAACGCGATTATCGCGTTGCGATTGATGCGAAAGTCA
* * *
7652145 AATTCGCAACGTGAAATTCAAATTCGCAACGCGATTATCGCGTTGCGATTGCTGCGAAAGTCA
1 AATTCGCAACGCGAAATTCAAATTCACAACGCGATTATCGCGTTGCGATTGATGCGAAAGTCA
*
7652208 AATTCGAAACGCGAAAT
1 AATTCGCAACGCGAAAT
7652225 CGCAACGCGA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
62 31 0.46
63 37 0.54
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (63 bp):
AATTCGCAACGCGAAATTCAAATTCACAACGCGATTATCGCGTTGCGATTGATGCGAAAGTCA
Found at i:7652247 original size:20 final size:20
Alignment explanation
Indices: 7652223--7652271 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
7652213 GAAACGCGAA
*
7652223 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCAAATTTGACT
* ***
7652243 TTCGCGTTGCAAATTTGACT
1 ATCGCAACGCAAATTTGACT
7652263 ATCGCAACG
1 ATCGCAACG
7652272 AAAAAATTGC
Statistics
Matches: 20, Mismatches: 9, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (20 bp):
ATCGCAACGCAAATTTGACT
Found at i:7652342 original size:20 final size:20
Alignment explanation
Indices: 7652287--7652349 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
7652277 ATTGCAATGT
* *
7652287 GAATTTGACTTTCGCATTAC
1 GAATTTGACTTTCGCGTTGC
* *
7652307 AAATTTGAGTTTCGCGTTGC
1 GAATTTGACTTTCGCGTTGC
7652327 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGCGTTGC
7652347 GAA
1 GAA
7652350 AATATACCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (20 bp):
GAATTTGACTTTCGCGTTGC
Found at i:7652483 original size:64 final size:64
Alignment explanation
Indices: 7652404--7652561 Score: 280
Period size: 64 Copynumber: 2.5 Consensus size: 64
7652394 TTGAATAAAC
7652404 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTACACATTAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTACACATTAATTA
* *
7652468 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTCCTCATTAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTACACATTAATTA
*
7652532 AACATATCAACTTTTACAAATCAATGTAAA
1 AACAAATCAACTTTTACAAATCAAT-TAAA
7652562 ATTCAATTAA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 86 0.96
65 4 0.04
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAATAATTCTTATTTACACATTAATTA
Found at i:7653952 original size:21 final size:21
Alignment explanation
Indices: 7653926--7654044 Score: 127
Period size: 21 Copynumber: 5.7 Consensus size: 21
7653916 GTGAATCGGG
* *
7653926 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAACGATGAGAGGGAC
* *
7653947 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGAGAGGGAC
* * *
7653968 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGAC
7653989 CTC-TGAAACGATGAGAGGGAC
1 CTCTTG-AACGATGAGAGGGAC
7654010 CTCTTGAACGAT-AGAAGGTG-C
1 CTCTTGAACGATGAG-AGG-GAC
7654031 CTCTTGAACGATGA
1 CTCTTGAACGATGA
7654045 TAGATGCATC
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
20 4 0.05
21 75 0.90
22 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.20
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGAC
Found at i:7653985 original size:42 final size:41
Alignment explanation
Indices: 7653926--7654044 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 41
7653916 GTGAATCGGG
*
7653926 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGG-CCTCTTGAACGATGACAGGGAC
*
7653968 CTCTTGAACGGTGGGAGGGGCCTC-TGAAACGATGAGAGGGAC
1 CTCTTGAACGGTGGGA-GGGCCTCTTG-AACGATGACAGGGAC
* * *
7654010 CTCTTGAACGATAGAAGGTGCCTCTTGAACGATGA
1 CTCTTGAACGGTGGGAGG-GCCTCTTGAACGATGA
7654045 TAGATGCATC
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
41 4 0.06
42 59 0.87
43 5 0.07
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.20
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGCCTCTTGAACGATGACAGGGAC
Found at i:7656272 original size:20 final size:20
Alignment explanation
Indices: 7656233--7656272 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7656223 TGCAATTTTT
* * *
7656233 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
7656253 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
7656273 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:7656984 original size:11 final size:11
Alignment explanation
Indices: 7656968--7656992 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7656958 TCTCAAAAAT
7656968 ATATTAAATAA
1 ATATTAAATAA
7656979 ATATTAAATAA
1 ATATTAAATAA
7656990 ATA
1 ATA
7656993 AATAAAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATTAAATAA
Found at i:7662163 original size:14 final size:15
Alignment explanation
Indices: 7662133--7662165 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7662123 AATAGAATAA
7662133 ATAAATAAATATTAT
1 ATAAATAAATATTAT
*
7662148 ATAAATATAT-TTAT
1 ATAAATAAATATTAT
7662162 ATAA
1 ATAA
7662166 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATAAATATTAT
Found at i:7662253 original size:15 final size:14
Alignment explanation
Indices: 7662223--7662282 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
7662213 TATCAAACGT
7662223 AATAATAAAA-TAA
1 AATAATAAAATTAA
7662236 AATAATAATAATTAA
1 AATAATAA-AATTAA
7662251 AATGAA-AGAAATTAA
1 AAT-AATA-AAATTAA
*
7662266 AAGTAATAATATTAA
1 AA-TAATAAAATTAA
7662281 AA
1 AA
7662283 ACTAATGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 25 0.62
16 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:7663511 original size:12 final size:11
Alignment explanation
Indices: 7663494--7663557 Score: 64
Period size: 12 Copynumber: 5.9 Consensus size: 11
7663484 TTTGGATTTG
7663494 TAATAATATATT
1 TAATAATA-ATT
7663506 TAATAATAA--
1 TAATAATAATT
7663515 TAATAATAATAT
1 TAATAATAAT-T
*
7663527 TTATAATAA--
1 TAATAATAATT
7663536 TAATAATAATTT
1 TAATAATAA-TT
7663548 TAATAATAAT
1 TAATAATAAT
7663558 AATAAAAACA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
9 17 0.39
11 2 0.05
12 25 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATAATAATT
Found at i:7663512 original size:3 final size:3
Alignment explanation
Indices: 7663506--7663562 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
7663496 ATAATATATT
* * **
7663506 TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TTT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7663554 TAA TAA TAA
1 TAA TAA TAA
7663563 AAACAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:7663520 original size:21 final size:21
Alignment explanation
Indices: 7663494--7663562 Score: 106
Period size: 21 Copynumber: 3.3 Consensus size: 21
7663484 TTTGGATTTG
7663494 TAATAATATATTTAATAATAA
1 TAATAATATATTTAATAATAA
7663515 TAATAATAATATTT-ATAATAA
1 TAATAAT-ATATTTAATAATAA
7663536 TAATAATA-ATTTTAATAATAA
1 TAATAATATA-TTTAATAATAA
7663557 TAATAA
1 TAATAA
7663563 AAACAAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.02
20 4 0.09
21 34 0.76
22 6 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAATATATTTAATAATAA
Found at i:7663818 original size:76 final size:76
Alignment explanation
Indices: 7663721--7664507 Score: 1393
Period size: 76 Copynumber: 10.4 Consensus size: 76
7663711 GAGGTCTTAA
*
7663721 AAACATCATGCACTGCAGGACTTACAGATAACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
7663786 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
7663797 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAACACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
7663862 AGGTTTTTTGG
66 AGGCTTTTTGG
* *
7663873 AAACATCATGCACTGTAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
7663938 AGGCTTTTTGG
66 AGGCTTTTTGG
7663949 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
7664014 AGGCTTTTTGG
66 AGGCTTTTTGG
*
7664025 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
7664090 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
7664101 AAACATCATGCACTGCAGGACTTATAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
7664165 AGGATTTTTGG
66 AGGCTTTTTGG
7664176 AAACATCATGCACTGCAGGACTTACAGATGA-CCTGAAGGC-TTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGCAGGACTTACAGATGACCCT-AAGGCTTTGAAAACATCAAAAAGCTCCCG
7664239 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* *
7664251 AAACATCAAGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
7664316 AGGCTTTTTGG
66 AGGCTTTTTGG
7664327 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
7664392 AGGCTTTTTGG
66 AGGCTTTTTGG
* * * *
7664403 AAACATCATGCATTGCAGGACTTACAGATGACCCGAAGG-TTTGAAGACATCAAAAAACTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
7664467 AGGCTTTTTGG
66 AGGCTTTTTGG
7664478 AAACATCATGCACTGCAGGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
7664508 TGGGAAATAG
Statistics
Matches: 680, Mismatches: 28, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
74 2 0.00
75 199 0.29
76 479 0.70
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:7664324 original size:302 final size:303
Alignment explanation
Indices: 7663721--7664507 Score: 1407
Period size: 302 Copynumber: 2.6 Consensus size: 303
7663711 GAGGTCTTAA
*
7663721 AAACATCATGCACTGCAGGACTTACAGATAACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
* *
7663786 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAACACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAA
* * *
7663851 AAAGCTCCCGAAGGTTTTTTGGAAACATCATGCACTGTAGGACTTATAGATGACCCTAAGGCTTT
130 AAAGCTCCCGAAGGATTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
*
7663916 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGAC
195 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAAGCACTGCAGGACTTACAGATGAC
7663981 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
260 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
7664025 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
* *
7664090 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTATAGATGACCCGAAGGCTTGAAAACATCAAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAA
7664155 AAGCTCCCGAAGGATTTTTGGAAACATCATGCACTGCAGGACTTACAGATGA-CCTGAAGGC-TT
131 AAGCTCCCGAAGGATTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCT-AAGGCTTT
7664218 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAAGCACTGCAGGACTTACAGATGAC
195 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAAGCACTGCAGGACTTACAGATGAC
*
7664283 CCTAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
260 CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
7664327 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
* *
7664392 AGGCTTTTTGGAAACATCATGCATTGCAGGACTTACAGATGACCCGAAGGTTTGAAGACATCAAA
66 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAA
* *
7664457 AAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
131 AAGCTCCCGAAGGATTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
7664508 TGGGAAATAG
Statistics
Matches: 464, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
302 286 0.62
303 67 0.14
304 111 0.24
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (303 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAA
AAGCTCCCGAAGGATTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTG
AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCAAGCACTGCAGGACTTACAGATGACC
CTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:7665207 original size:22 final size:22
Alignment explanation
Indices: 7665182--7665258 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
7665172 CATAAAGCTT
*
7665182 TCATCTTTGAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
7665204 TCATCTTTAAAAAGAGAATCTT
1 TCATCTTTGAAAAGAGAATCTA
7665226 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
7665248 TCATCTTTGAA
1 TCATCTTTGAA
7665259 GAATGTAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:7667822 original size:114 final size:114
Alignment explanation
Indices: 7667618--7667841 Score: 367
Period size: 114 Copynumber: 2.0 Consensus size: 114
7667608 AATCATGCAG
* * *
7667618 TTCATCTTTCAATTCTAATGATTGATTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
7667683 ACACTTCCAGAAGATGCTATGGGGTCTCCTTATTTTTACTATGAGCAAA
66 ACACTTCCAAAAGATGCTATGGGGTCTCCTTATTTCTACTATGAGCAAA
* *
7667732 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
7667797 ACACTTCCAAAAGATGCTATTGGGTCTTCTTATTTCTACTATGAG
66 ACACTTCCAAAAGATGCTATGGGGTCTCCTTATTTCTACTATGAG
7667842 AACGTGGCAC
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCTAATGATTGATTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAAAAGATGCTATGGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:7670436 original size:2 final size:2
Alignment explanation
Indices: 7670429--7670496 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
7670419 ACAACAAAGG
*
7670429 AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7670471 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
7670497 TAAAGGATAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7675162 original size:26 final size:26
Alignment explanation
Indices: 7675101--7675163 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
7675091 AATTAATACC
*
7675101 TGAAAAAAAT-ATTAATAAAATAATA
1 TGAAAAAAATAAGTAATAAAATAATA
*
7675126 T-AAAAATAATAAGTAATAAAA-AATT
1 TGAAAAA-AATAAGTAATAAAATAATA
7675151 TGAAAGAAAATAA
1 TGAAA-AAAATAA
7675164 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
24 5 0.16
25 8 0.25
26 17 0.53
27 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.25
Consensus pattern (26 bp):
TGAAAAAAATAAGTAATAAAATAATA
Found at i:7675864 original size:14 final size:15
Alignment explanation
Indices: 7675834--7675866 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7675824 AATAGAATAA
7675834 ATAAATAAATATTAT
1 ATAAATAAATATTAT
*
7675849 ATAAATATAT-TTAT
1 ATAAATAAATATTAT
7675863 ATAA
1 ATAA
7675867 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATAAATATTAT
Found at i:7675954 original size:15 final size:14
Alignment explanation
Indices: 7675924--7675983 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
7675914 TATCAAACGT
7675924 AATAATAAAA-TAA
1 AATAATAAAATTAA
7675937 AATAATAATAATTAA
1 AATAATAA-AATTAA
7675952 AATGAA-AGAAATTAA
1 AAT-AATA-AAATTAA
*
7675967 AAGTAATAATATTAA
1 AA-TAATAAAATTAA
7675982 AA
1 AA
7675984 ACTAATGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 25 0.62
16 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:7677135 original size:12 final size:11
Alignment explanation
Indices: 7677118--7677193 Score: 70
Period size: 12 Copynumber: 6.9 Consensus size: 11
7677108 TTTGGATTTG
7677118 TAATAATATATT
1 TAATAATA-ATT
7677130 TAATAATAA--
1 TAATAATAATT
7677139 TAATAATAA--
1 TAATAATAATT
*
7677148 TAATAATATTT
1 TAATAATAATT
*
7677159 ATAATAATAATAA
1 -TAATAATAAT-T
7677172 TAATAATAATTT
1 TAATAATAA-TT
7677184 TAATAATAAT
1 TAATAATAAT
7677194 AATAAAAACA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
9 17 0.31
11 2 0.04
12 35 0.64
13 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:7677136 original size:3 final size:3
Alignment explanation
Indices: 7677130--7677198 Score: 102
Period size: 3 Copynumber: 23.0 Consensus size: 3
7677120 ATAATATATT
* *
7677130 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
7677178 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
7677199 AAACAAAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:7677138 original size:15 final size:14
Alignment explanation
Indices: 7677118--7677196 Score: 94
Period size: 15 Copynumber: 5.7 Consensus size: 14
7677108 TTTGGATTTG
7677118 TAATAATATATTTAA
1 TAATAATA-ATTTAA
7677133 TAATAATAA--TAA
1 TAATAATAATTTAA
*
7677145 TAATAATAATATTTA
1 TAATAATAAT-TTAA
7677160 TAATAATAA--TAA
1 TAATAATAATTTAA
7677172 TAATAATAATTTTAA
1 TAATAATAA-TTTAA
7677187 TAATAATAAT
1 TAATAATAAT
7677197 AAAAACAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
12 23 0.41
14 2 0.04
15 31 0.55
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATAATAATTTAA
Found at i:7685261 original size:36 final size:36
Alignment explanation
Indices: 7685221--7685315 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
7685211 ATATTGATGC
* * * *
7685221 TAATAATAAGTAATGTCACTTGGTGAATAGCCTTAT
1 TAATAATAAGTAATGTCACTTGATAAATAGACTTAA
* *
7685257 TAATAATAAATAATGTCACTTGATAAATATACTTAA
1 TAATAATAAGTAATGTCACTTGATAAATAGACTTAA
* *
7685293 TAATAATAAGTCATGCCACTTGA
1 TAATAATAAGTAATGTCACTTGA
7685316 ATGGGCTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (36 bp):
TAATAATAAGTAATGTCACTTGATAAATAGACTTAA
Found at i:7687939 original size:55 final size:56
Alignment explanation
Indices: 7687878--7687990 Score: 147
Period size: 55 Copynumber: 2.0 Consensus size: 56
7687868 TTTACATGAG
** ** * *
7687878 TTGCACACCCACTACCAATATGGAAATTCAT-AAACTTATTATGAATTTCTTTGTT
1 TTGCACACAAACTACCAATACAGAAATTCATAAAACCTATTATGAATTTCTTAGTT
* *
7687933 TTGCACACAAAGTACCCATACAGAAATTCATAAAACCTATTATGAATTTCTTAGTT
1 TTGCACACAAACTACCAATACAGAAATTCATAAAACCTATTATGAATTTCTTAGTT
7687989 TT
1 TT
7687991 CACGTATAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
55 25 0.51
56 24 0.49
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.36
Consensus pattern (56 bp):
TTGCACACAAACTACCAATACAGAAATTCATAAAACCTATTATGAATTTCTTAGTT
Found at i:7692836 original size:36 final size:36
Alignment explanation
Indices: 7692805--7692994 Score: 183
Period size: 36 Copynumber: 5.3 Consensus size: 36
7692795 GTTATTGATA
*
7692805 CACAACATCATCTAGAGTTCTAGGTCGTTATTATTG
1 CACAACATCATCTAGAGTTCTAGGTCATTATTATTG
* *
7692841 CACAACATCATCTAGAGTT-TCAGCT-GTTATTATTG
1 CACAACATCATCTAGAGTTCT-AGGTCATTATTATTG
* * * * *
7692876 CACAACAT-ATTCTATAGTTTCAAGCT-ATTATGACTG
1 CACAACATCA-TCTAGAG-TTCTAGGTCATTATTATTG
* *
7692912 CACAACATCTTCTAGAGTT-TCAGGTCATTATTGTTG
1 CACAACATCATCTAGAGTTCT-AGGTCATTATTATTG
* * * *
7692948 CACAACATCATCTAAAGTTTTAGGACATTATTATTA
1 CACAACATCATCTAGAGTTCTAGGTCATTATTATTG
7692984 CACAACATCAT
1 CACAACATCAT
7692995 TTGAGGTTCA
Statistics
Matches: 128, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
34 1 0.01
35 30 0.23
36 96 0.75
37 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (36 bp):
CACAACATCATCTAGAGTTCTAGGTCATTATTATTG
Found at i:7693005 original size:107 final size:107
Alignment explanation
Indices: 7692805--7693005 Score: 257
Period size: 107 Copynumber: 1.9 Consensus size: 107
7692795 GTTATTGATA
* * *
7692805 CACAACATCATCTAGAGTTCTAGGTCGTTATTATTGCACAACATCATCTAGAGTTTCAGCTGTTA
1 CACAACATCATCTAGAGTTCTAGGTCATTATTATTGCACAACATCATCTAAAGTTTCAGCTATTA
* * *
7692870 TTATTGCACAACATATTCTATAGTTTCAAGCTATTATGACTG
66 TTATTACACAACATATTCTAGAGGTTCAAGCTATTATGACTG
* * *
7692912 CACAACATCTTCTAGAGTT-TCAGGTCATTATTGTTGCACAACATCATCTAAAGTTTTAGGAC-A
1 CACAACATCATCTAGAGTTCT-AGGTCATTATTATTGCACAACATCATCTAAAGTTTCA-G-CTA
7692975 TTATTATTACACAACATCATT-T-GAGGTTCAA
63 TTATTATTACACAACAT-ATTCTAGAGGTTCAA
7693006 TATTATTTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
106 1 0.01
107 58 0.72
108 18 0.22
109 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (107 bp):
CACAACATCATCTAGAGTTCTAGGTCATTATTATTGCACAACATCATCTAAAGTTTCAGCTATTA
TTATTACACAACATATTCTAGAGGTTCAAGCTATTATGACTG
Found at i:7693530 original size:35 final size:35
Alignment explanation
Indices: 7693481--7693554 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
7693471 TTCAAAATTT
** * *
7693481 CAAAAAATGCTAGAGGTGCATAAAATTAGA-TCTAG
1 CAAAAAATAATAGAGATGCATAAAACTA-ACTCTAG
*
7693516 CAAAAAATAATAGAGATGCCTAAAACTAACTCTAG
1 CAAAAAATAATAGAGATGCATAAAACTAACTCTAG
7693551 CAAA
1 CAAA
7693555 GAAAGGAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (35 bp):
CAAAAAATAATAGAGATGCATAAAACTAACTCTAG
Found at i:7695171 original size:17 final size:17
Alignment explanation
Indices: 7695151--7695203 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
7695141 TTTAGGGAAG
7695151 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
** *
7695168 TAGTTCATTCCTCAAAC
1 TAGTTCATTAATTAAAC
**
7695185 TAGTTCATTTTTTAAAC
1 TAGTTCATTAATTAAAC
7695202 TA
1 TA
7695204 ACTCTTAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:7699762 original size:15 final size:15
Alignment explanation
Indices: 7699742--7699771 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7699732 TTTTGAGTAA
7699742 AGTTTAATTATAACT
1 AGTTTAATTATAACT
7699757 AGTTTAATTATAACT
1 AGTTTAATTATAACT
7699772 TGAGACAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
AGTTTAATTATAACT
Found at i:7711315 original size:17 final size:17
Alignment explanation
Indices: 7711295--7711347 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
7711285 TTTAGGGAAG
*
7711295 TAGTTCATTCATCAGAC
1 TAGTTCATTCATCAAAC
* *
7711312 TAGTTCATTTATTAAAC
1 TAGTTCATTCATCAAAC
* *
7711329 TAGTTCATTTATTAAAC
1 TAGTTCATTCATCAAAC
7711346 TA
1 TA
7711348 ACTCTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (17 bp):
TAGTTCATTCATCAAAC
Found at i:7718081 original size:114 final size:114
Alignment explanation
Indices: 7717872--7718096 Score: 265
Period size: 114 Copynumber: 2.0 Consensus size: 114
7717862 AAGATCAGTG
* * * **
7717872 TCTTCTATTAGAATGCTACTAGCATATTATTCATTGAAGTCATTTTTTGATTCAATATCCTCGGT
1 TCTTCTATTACAATGCTACTAGCATAGTATTCATTGAAGTCATTGTCCGATTCAATATCCTCGGT
*
7717937 AAAAGGTGCAGTAGAAGAAAAAGTGAAAGTAGATGAATTACCTTGGGTA
66 AAAAGGTGCAGTAGAAGAAAAAGTGAAAGTAGATAAATTACCTTGGGTA
* * * * *
7717986 TCTTCTATTACAATGTTGCTAGCATCGTATTCATTGATGTCATTGTCCGATTCAGTATCCGT-GG
1 TCTTCTATTACAATGCTACTAGCATAGTATTCATTGAAGTCATTGTCCGATTCAATATCC-TCGG
* * * * * *
7718050 TAGAATGTGGAGTAGAA-AAAGTAGTGGAAGTATATAAATTACCTTGG
65 TAAAAGGTGCAGTAGAAGAAA-AAGTGAAAGTAGATAAATTACCTTGG
7718097 TAAGTAGATG
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
113 3 0.03
114 88 0.96
115 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (114 bp):
TCTTCTATTACAATGCTACTAGCATAGTATTCATTGAAGTCATTGTCCGATTCAATATCCTCGGT
AAAAGGTGCAGTAGAAGAAAAAGTGAAAGTAGATAAATTACCTTGGGTA
Found at i:7718114 original size:21 final size:21
Alignment explanation
Indices: 7718090--7718143 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
7718080 TATATAAATT
*
7718090 ACCTTGGTAAGTAGATGAAGG
1 ACCTTGGTAAGTAGATAAAGG
* * *
7718111 ACCTTGGTAAATAGGTAAAGT
1 ACCTTGGTAAGTAGATAAAGG
7718132 ACCTTGGTAAGT
1 ACCTTGGTAAGT
7718144 GTCTCTGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (21 bp):
ACCTTGGTAAGTAGATAAAGG
Found at i:7720072 original size:21 final size:21
Alignment explanation
Indices: 7720048--7720089 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7720038 TGAAAAATGG
7720048 TAAAAACAAT-AAATAAAAAGA
1 TAAAAA-AATAAAATAAAAAGA
* *
7720069 TAAATAAATAAAATAAGAAGA
1 TAAAAAAATAAAATAAAAAGA
7720090 AAATAATCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (21 bp):
TAAAAAAATAAAATAAAAAGA
Found at i:7723945 original size:19 final size:20
Alignment explanation
Indices: 7723923--7723966 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7723913 GAGAAAAGGT
7723923 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
7723942 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
7723962 AAAAG
1 AAAAG
7723967 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:7729892 original size:6 final size:6
Alignment explanation
Indices: 7729881--7729920 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
7729871 AAACTATACA
*
7729881 AAAAAT AAAAAT AAAAAT AAAAAT ACAAAA- CAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAA
7729921 TGCTCTGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 4 0.13
6 22 0.73
7 4 0.13
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:7730856 original size:24 final size:24
Alignment explanation
Indices: 7730812--7730861 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
7730802 ATAAAGAACC
*
7730812 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
7730836 AAAATAAAGTTTAAACA-ACCATTA
1 AAAATAAA-CTTAAACATACCATTA
7730860 AA
1 AA
7730862 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:7731276 original size:17 final size:19
Alignment explanation
Indices: 7731256--7731300 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
7731246 GTGTACTTTT
7731256 TAATAACTCAT-TAA-TTA
1 TAATAACTCATGTAATTTA
**
7731273 TAATAA-AAATGTAATTTA
1 TAATAACTCATGTAATTTA
7731291 TAATAACTCA
1 TAATAACTCA
7731301 CTATTAACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
16 2 0.10
17 9 0.43
18 9 0.43
19 1 0.05
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (19 bp):
TAATAACTCATGTAATTTA
Found at i:7731881 original size:3 final size:3
Alignment explanation
Indices: 7731875--7731918 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7731865 AAATTCAAAA
7731875 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7731919 ATGAATTAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7731986 original size:17 final size:18
Alignment explanation
Indices: 7731964--7732003 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
7731954 AAAAGATACA
7731964 AATAAAAATATA-ATTAT
1 AATAAAAATATATATTAT
*
7731981 AATAAAAATATATTTTAT
1 AATAAAAATATATATTAT
7731999 AATAA
1 AATAA
7732004 CTCGCTAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAAATATATATTAT
Found at i:7737431 original size:19 final size:19
Alignment explanation
Indices: 7737407--7737453 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
7737397 TTGAACCCTT
7737407 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
*
7737426 AGTGCATTGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
7737445 AGTGCATCG
1 AGTGCATCG
7737454 CCATTCGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:7737642 original size:65 final size:64
Alignment explanation
Indices: 7737479--7737644 Score: 194
Period size: 65 Copynumber: 2.6 Consensus size: 64
7737469 AAATAGCCAG
* *
7737479 AGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTC
1 AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATGCATTCGATGTTTTAATAAAAT-CTC
* * **
7737544 AGTGCATCGATGTATGGTAT-GTGCATCGATGCATGAAATGCATTCGATG-TTTAATTTAAT-TC
1 AGTGCATCGATGCATGGT-TGGTGCATCGATGCATCAAATGCATTCGATGTTTTAATAAAATCTC
* *
7737606 ATGGTGCATCGATGCATGGATTGGTGTATCGGTGCATCA
1 A--GTGCATCGATGCATGG-TTGGTGCATCGATGCATCA
7737645 CTCTGAAAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
62 3 0.03
64 24 0.28
65 58 0.67
66 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (64 bp):
AGTGCATCGATGCATGGTTGGTGCATCGATGCATCAAATGCATTCGATGTTTTAATAAAATCTC
Found at i:7740367 original size:21 final size:22
Alignment explanation
Indices: 7740310--7740384 Score: 91
Period size: 21 Copynumber: 3.4 Consensus size: 22
7740300 GCATTGTGCG
7740310 TCGATGCACATTCAAGGCATGCA
1 TCGATGCACATTCAAGG-ATGCA
* * *
7740333 TC-AGTGCACCTTCATGG-TGTA
1 TCGA-TGCACATTCAAGGATGCA
7740354 TCGATGCACATTCAAGGATGCA
1 TCGATGCACATTCAAGGATGCA
7740376 TCGATGCAC
1 TCGATGCAC
7740385 TGTTAGGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
21 16 0.37
22 14 0.33
23 13 0.30
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (22 bp):
TCGATGCACATTCAAGGATGCA
Found at i:7746268 original size:66 final size:65
Alignment explanation
Indices: 7746125--7746286 Score: 211
Period size: 66 Copynumber: 2.5 Consensus size: 65
7746115 TGGACCCTTA
* * * *
7746125 GTGCATCGATGCATCAAGTGCATTCAATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAAAGCCACAGTGCATCGATGCATGGCTG
* * *
7746189 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAAAAGCCACAGTGCATCGATGCATGGCT
*
7746253 AT
65 -G
*
7746255 GTGCATCGATGCATGAAATGCATTCGATGTTT
1 GTGCATCGATGCATCAAATGCATTCGATGTTT
7746287 AATTTAATTC
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
64 27 0.31
65 6 0.07
66 53 0.62
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAAAGCCACAGTGCATCGATGCATGGCTG
Found at i:7748968 original size:13 final size:14
Alignment explanation
Indices: 7748936--7748974 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
7748926 AATTTTCTAG
*
7748936 AATTTTCTATAAAT
1 AATTTTCTATAAAC
*
7748950 AATTTTCT-TATAC
1 AATTTTCTATAAAC
7748963 AATTTTCTATAA
1 AATTTTCTATAA
7748975 TAAATCTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (14 bp):
AATTTTCTATAAAC
Found at i:7750373 original size:21 final size:21
Alignment explanation
Indices: 7750347--7750434 Score: 113
Period size: 21 Copynumber: 4.2 Consensus size: 21
7750337 TTTCAGAGAC
*
7750347 ACTTACCAAGGTACTTCACCT
1 ACTTACCAAGGTACTTCATCT
* * *
7750368 ATTTACAAAGCTACTTCATCT
1 ACTTACCAAGGTACTTCATCT
*
7750389 ACATACCAAGGTACTTCATCT
1 ACTTACCAAGGTACTTCATCT
* *
7750410 ACTTACCATGGTAGTTCATCT
1 ACTTACCAAGGTACTTCATCT
7750431 ACTT
1 ACTT
7750435 CTACTTTTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (21 bp):
ACTTACCAAGGTACTTCATCT
Found at i:7756367 original size:108 final size:109
Alignment explanation
Indices: 7756159--7756355 Score: 299
Period size: 108 Copynumber: 1.8 Consensus size: 109
7756149 TCACGAGATG
* *
7756159 ACTCTACCTGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACCTAGAGTGTAGGATGGTAGG
1 ACTCTACCTGACTAGCTCGGGGGTAGAAGGTATGCTCCCTTTCACATAGAGTGTAGGATGGTAGG
* * **
7756224 TGTGATGGGCTGACTCCCCTCGAAGAAGTGTAAAAAGAAATCAA
66 TGTGATGAGCTGACTACCCTAAAAGAAGTGTAAAAAGAAATCAA
* *
7756268 ACTCTACTTGACTAGCTC-GGGGTAGAAGGTATGCTCCCTTTCACATAGAGTGTGGGATGGTA-G
1 ACTCTACCTGACTAGCTCGGGGGTAGAAGGTATGCTCCCTTTCACATAGAGTGTAGGATGGTAGG
*
7756331 TGTGATGAGTTGACTACCCTAAAAG
66 TGTGATGAGCTGACTACCCTAAAAG
7756356 TATGTTAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 21 0.27
108 41 0.52
109 17 0.22
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (109 bp):
ACTCTACCTGACTAGCTCGGGGGTAGAAGGTATGCTCCCTTTCACATAGAGTGTAGGATGGTAGG
TGTGATGAGCTGACTACCCTAAAAGAAGTGTAAAAAGAAATCAA
Found at i:7763799 original size:54 final size:54
Alignment explanation
Indices: 7763749--7764167 Score: 556
Period size: 54 Copynumber: 7.8 Consensus size: 54
7763739 TGTAGTGTCA
* * * *
7763749 ATACAGTCGTTCATTAACCTATGATAAATTCTATGGGTTGCACACATAGTGCCT
1 ATACGGTCGTTCATCAACATATGATGAATTCTATGGGTTGCACACATAGTGCCT
*
7763803 ATACGGTCGTTCATCAACATATGAGGAATT-TCATGGGTTGCACACATAGTGCCT
1 ATACGGTCGTTCATCAACATATGATGAATTCT-ATGGGTTGCACACATAGTGCCT
*
7763857 ATACGGTCGTTCATCAACATATGATGAATT-TAATGGGTTGCACACATAGTCCCT
1 ATACGGTCGTTCATCAACATATGATGAATTCT-ATGGGTTGCACACATAGTGCCT
* *
7763911 ATACGGTCGTTCATCAACATATGATGAATT-TCGTGGGTTGCACACATAGTACCT
1 ATACGGTCGTTCATCAACATATGATGAATTCT-ATGGGTTGCACACATAGTGCCT
* * *
7763965 ATAAGGTCTTTCATCAACATATGATGAATTCTATGGGTTGCACATATAGTGCCT
1 ATACGGTCGTTCATCAACATATGATGAATTCTATGGGTTGCACACATAGTGCCT
* * * * * **
7764019 ATATGGTCGTTCAACAACATATGATGAATTCTGTGAGTTGTACACATAGTGTTT
1 ATACGGTCGTTCATCAACATATGATGAATTCTATGGGTTGCACACATAGTGCCT
* * * * * *
7764073 ATATGGTCGTTCATCAACATATAATGAATTATGTGGGTTGTATACATAGTGCCT
1 ATACGGTCGTTCATCAACATATGATGAATTCTATGGGTTGCACACATAGTGCCT
* *
7764127 ATATGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGC
1 ATACGGTCGTTCATCAACATATGATGAATTCTATGGGTTGC
7764168 TGTCTGCAAA
Statistics
Matches: 328, Mismatches: 35, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
53 1 0.00
54 326 0.99
55 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (54 bp):
ATACGGTCGTTCATCAACATATGATGAATTCTATGGGTTGCACACATAGTGCCT
Found at i:7765883 original size:54 final size:53
Alignment explanation
Indices: 7765819--7765943 Score: 153
Period size: 54 Copynumber: 2.3 Consensus size: 53
7765809 TTATCAGTTG
*
7765819 CACACATAGTGCCTATACGGA-CGTTCATCAATATATGATGAATTCTGTGGGTTA
1 CACACATAGTGCCTATAC-GATCGTT-ATCAACATATGATGAATTCTGTGGGTTA
* * * *
7765873 CACACATAGTGCCTATACTATTGGTTATCAACATATGATGAATTTTGTGGGTTG
1 CACACATAGTGCCTATACGA-TCGTTATCAACATATGATGAATTCTGTGGGTTA
* *
7765927 CACACATAATGTCTATA
1 CACACATAGTGCCTATA
7765944 GTACACATAG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.02
54 58 0.94
55 3 0.05
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (53 bp):
CACACATAGTGCCTATACGATCGTTATCAACATATGATGAATTCTGTGGGTTA
Found at i:7767482 original size:10 final size:10
Alignment explanation
Indices: 7767467--7767495 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
7767457 TCTTCTTCCA
7767467 TTCATTTCTC
1 TTCATTTCTC
7767477 TTCATTTCTC
1 TTCATTTCTC
7767487 TTCATTTCT
1 TTCATTTCT
7767496 TATTCTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCATTTCTC
Found at i:7767504 original size:20 final size:20
Alignment explanation
Indices: 7767467--7767505 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7767457 TCTTCTTCCA
*
7767467 TTCATTTCTCTTCATTTCTC
1 TTCATTTCTATTCATTTCTC
7767487 TTCATTTCTTATTC-TTTCT
1 TTCATTTC-TATTCATTTCT
7767506 TTCTCCACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.10, C:0.26, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCATTTCTATTCATTTCTC
Found at i:7770789 original size:122 final size:121
Alignment explanation
Indices: 7770637--7770861 Score: 319
Period size: 122 Copynumber: 1.9 Consensus size: 121
7770627 ATAAAATACT
* * *
7770637 ATCTTTAGATTAATATGTTCGCGATCAAAGTAATGCTTTATCTGGCTAAAATGCACATTGATTAA
1 ATCTTTAGATTAATATGTTCGCGATCAAAGTAATACTTTATCAGGCTAAAATGCACAATGATTAA
* *
7770702 AAATTAAAGCCCAAATC-TATATGTACAAGCAAGCATATGTATTTTAAAATAATATA
66 AAATTAAAGCCCAAA-CATATATATACAAGCAAACATATGTATTTTAAAATAATATA
* * *
7770758 ATCTTTAGATTAATTATG-TGGACGATCAAAGTAATACTTTATGAGGCTAACATGCACAATGATT
1 ATCTTTAGATTAA-TATGTTCG-CGATCAAAGTAATACTTTATCAGGCTAAAATGCACAATGATT
* *
7770822 AAAAATTAAAGCCTAAACATATATATACTAGCAAACATAT
64 AAAAATTAAAGCCCAAACATATATATACAAGCAAACATAT
7770862 TTACATATAG
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
121 16 0.18
122 75 0.82
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.32
Consensus pattern (121 bp):
ATCTTTAGATTAATATGTTCGCGATCAAAGTAATACTTTATCAGGCTAAAATGCACAATGATTAA
AAATTAAAGCCCAAACATATATATACAAGCAAACATATGTATTTTAAAATAATATA
Found at i:7770965 original size:2 final size:2
Alignment explanation
Indices: 7770960--7771038 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
7770950 CAAATCATAA
7770960 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7771002 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7771039 CATGCGAGGG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.