Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009333.1 Hibiscus syriacus cultivar Beakdansim tig00113100_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: 110513
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:7400 original size:12 final size:12
Alignment explanation
Indices: 7383--7437 Score: 65
Period size: 12 Copynumber: 4.2 Consensus size: 12
7373 ACAACCCGAC
*
7383 CCGACCCGTTTA
1 CCGACCCGTTGA
7395 CCGACCCGTTGA
1 CCGACCCGTTGA
7407 CCCGACCCGTTGA
1 -CCGACCCGTTGA
7420 CCGTTGACCCGTTGA
1 CC---GACCCGTTGA
7435 CCG
1 CCG
7438 TTGACCGGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
12 14 0.37
13 12 0.32
15 12 0.32
ACGTcount: A:0.15, C:0.42, G:0.24, T:0.20
Consensus pattern (12 bp):
CCGACCCGTTGA
Found at i:7409 original size:25 final size:26
Alignment explanation
Indices: 7380--7436 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
7370 GTCACAACCC
*
7380 GACCCGACCCGTTTACC-GACCCGTT
1 GACCCGACCCGTTGACCTGACCCGTT
7405 GACCCGACCCGTTGACCGTTGACCCGTT
1 GACCCGACCCGTTGACC--TGACCCGTT
7433 GACC
1 GACC
7437 GTTGACCGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 16 0.57
28 12 0.43
ACGTcount: A:0.16, C:0.42, G:0.23, T:0.19
Consensus pattern (26 bp):
GACCCGACCCGTTGACCTGACCCGTT
Found at i:7410 original size:8 final size:8
Alignment explanation
Indices: 7397--7443 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
7387 CCCGTTTACC
7397 GACCCGTT
1 GACCCGTT
7405 GACCC---
1 GACCCGTT
7410 GACCCGTT
1 GACCCGTT
7418 GA-CCGTT
1 GACCCGTT
7425 GACCCGTT
1 GACCCGTT
7433 GA-CCGTT
1 GACCCGTT
7440 GACC
1 GACC
7444 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:7413 original size:13 final size:13
Alignment explanation
Indices: 7380--7436 Score: 71
Period size: 13 Copynumber: 4.3 Consensus size: 13
7370 GTCACAACCC
7380 GACCCGACCCGTT
1 GACCCGACCCGTT
*
7393 TA-CCGACCCGTT
1 GACCCGACCCGTT
7405 GACCCGACCCGTT
1 GACCCGACCCGTT
*
7418 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
7433 GACC
1 GACC
7437 GTTGACCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 11 0.29
13 15 0.39
15 12 0.32
ACGTcount: A:0.16, C:0.42, G:0.23, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:7425 original size:7 final size:7
Alignment explanation
Indices: 7413--7444 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
7403 TTGACCCGAC
7413 CCGTTGA
1 CCGTTGA
7420 CCGTTGA
1 CCGTTGA
7427 CCCGTTGA
1 -CCGTTGA
7435 CCGTTGA
1 CCGTTGA
7442 CCG
1 CCG
7445 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:7430 original size:15 final size:15
Alignment explanation
Indices: 7397--7443 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
7387 CCCGTTTACC
*
7397 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
7410 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
7425 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
7440 GACC
1 GACC
7444 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:8774 original size:18 final size:18
Alignment explanation
Indices: 8748--8783 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8738 TCGAAAGGAC
*
8748 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
8766 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
8784 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:9956 original size:24 final size:24
Alignment explanation
Indices: 9923--10026 Score: 95
Period size: 24 Copynumber: 4.3 Consensus size: 24
9913 ATATTTTATC
* *
9923 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
9947 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * *
9971 TGAT-TCCT-AACTTGGATTCTGTTA
1 TGATAT-CTGATC-TGAATTCTGTTT
*
9995 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
10019 TGATATCT
1 TGATATCT
10027 CCGTTTACCG
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
23 3 0.05
24 56 0.90
25 3 0.05
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.48
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:10188 original size:2 final size:2
Alignment explanation
Indices: 10181--10213 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10171 TGGGATGGGG
10181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10214 GTTTTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27908 original size:35 final size:35
Alignment explanation
Indices: 27835--27909 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
27825 CGTCACTAAC
**
27835 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
* *
27870 AGTAAGGCCCTGAGCACACAGCCGAGGAGCCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
27905 AGTAA
1 AGTAA
27910 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.29, G:0.29, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:28009 original size:23 final size:23
Alignment explanation
Indices: 27949--28038 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
27939 CATAATTCAA
* * *
27949 GTCAAGTATCATATCATAATTCAG
1 GTCAA-TATCAGATCAGAATCCAG
* *
27973 GTCATGTATCAGATCAGAATCCAT
1 GTCA-ATATCAGATCAGAATCCAG
27997 GTCAATATCAGATCAGAATCCAG
1 GTCAATATCAGATCAGAATCCAG
* *
28020 GTCAATATCATAACAGAAT
1 GTCAATATCAGATCAGAAT
28039 TCAAATTTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
23 34 0.61
24 22 0.39
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (23 bp):
GTCAATATCAGATCAGAATCCAG
Found at i:30570 original size:15 final size:15
Alignment explanation
Indices: 30550--30578 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30540 AACTCCGGTC
30550 AACGGTCAACGGGTT
1 AACGGTCAACGGGTT
30565 AACGGTCAACGGGT
1 AACGGTCAACGGGT
30579 CGGGTCAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.34, T:0.17
Consensus pattern (15 bp):
AACGGTCAACGGGTT
Found at i:30579 original size:8 final size:8
Alignment explanation
Indices: 30546--30592 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
30536 GGTCAACTCC
30546 GGTCAAC-
1 GGTCAACG
30553 GGTCAACG
1 GGTCAACG
*
30561 GGTTAAC-
1 GGTCAACG
30568 GGTCAACG
1 GGTCAACG
30576 GGT---CG
1 GGTCAACG
30581 GGTCAACG
1 GGTCAACG
30589 GGTC
1 GGTC
30593 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
5 5 0.15
7 13 0.39
8 15 0.45
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:30597 original size:18 final size:18
Alignment explanation
Indices: 30574--30650 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
30564 TAACGGTCAA
30574 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
30592 CGGGTCGGGTCAAC-GGT
1 CGGGTCGGGTCAACGGGT
*
30609 ----TCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
*
30623 CGGGTTGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
30641 CGGGTCGGGT
1 CGGGTCGGGT
30651 TGTGACCGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
13 9 0.18
14 3 0.06
17 3 0.06
18 35 0.70
ACGTcount: A:0.12, C:0.19, G:0.49, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:30606 original size:31 final size:31
Alignment explanation
Indices: 30568--30646 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
30558 ACGGGTTAAC
30568 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
* * *
30599 GGTCAACGGTTCGGGTAAACGGGTCGGGTTG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
30630 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
30647 GGGTTGTGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.14, C:0.20, G:0.47, T:0.19
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
Found at i:30614 original size:13 final size:13
Alignment explanation
Indices: 30568--30597 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
30558 ACGGGTTAAC
30568 GGTCAACGGGTCG
1 GGTCAACGGGTCG
30581 GGTCAACGGGTCG
1 GGTCAACGGGTCG
30594 GGTC
1 GGTC
30598 GGGTCAACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:30619 original size:13 final size:13
Alignment explanation
Indices: 30592--30627 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
30582 GTCAACGGGT
*
30592 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
30605 CGGTTCGGGTAAA
1 CGGGTCGGGTAAA
30618 CGGGTCGGGT
1 CGGGTCGGGT
30628 TGGGTCAACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.19, G:0.47, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:32760 original size:35 final size:35
Alignment explanation
Indices: 32687--32761 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
32677 CGTCACTAAC
**
32687 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
* *
32722 AGTAAGGCCCTGAGCACACAGCCGAGGAGCCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
32757 AGTAA
1 AGTAA
32762 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.29, G:0.29, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:32861 original size:23 final size:23
Alignment explanation
Indices: 32801--32890 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
32791 CATAATTCAA
* * *
32801 GTCAAGTATCATATCATAATTCAG
1 GTCAA-TATCAGATCAGAATCCAG
* *
32825 GTCATGTATCAGATCAGAATCCAT
1 GTCA-ATATCAGATCAGAATCCAG
32849 GTCAATATCAGATCAGAATCCAG
1 GTCAATATCAGATCAGAATCCAG
* *
32872 GTCAATATCATAACAGAAT
1 GTCAATATCAGATCAGAAT
32891 TCAAATTTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
23 34 0.61
24 22 0.39
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (23 bp):
GTCAATATCAGATCAGAATCCAG
Found at i:35424 original size:15 final size:15
Alignment explanation
Indices: 35404--35432 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35394 AACTCCGGTC
35404 AACGGTCAACGGGTT
1 AACGGTCAACGGGTT
35419 AACGGTCAACGGGT
1 AACGGTCAACGGGT
35433 CGGGTCAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.34, T:0.17
Consensus pattern (15 bp):
AACGGTCAACGGGTT
Found at i:35433 original size:8 final size:8
Alignment explanation
Indices: 35400--35446 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
35390 GGTCAACTCC
35400 GGTCAAC-
1 GGTCAACG
35407 GGTCAACG
1 GGTCAACG
*
35415 GGTTAAC-
1 GGTCAACG
35422 GGTCAACG
1 GGTCAACG
35430 GGT---CG
1 GGTCAACG
35435 GGTCAACG
1 GGTCAACG
35443 GGTC
1 GGTC
35447 GGGTCGGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
5 5 0.15
7 13 0.39
8 15 0.45
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:35451 original size:18 final size:18
Alignment explanation
Indices: 35428--35504 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
35418 TAACGGTCAA
35428 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
35446 CGGGTCGGGTCAAC-GGT
1 CGGGTCGGGTCAACGGGT
*
35463 ----TCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
*
35477 CGGGTTGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
35495 CGGGTCGGGT
1 CGGGTCGGGT
35505 TGTGACCGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
13 9 0.18
14 3 0.06
17 3 0.06
18 35 0.70
ACGTcount: A:0.12, C:0.19, G:0.49, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:35460 original size:31 final size:31
Alignment explanation
Indices: 35422--35500 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
35412 ACGGGTTAAC
35422 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
* * *
35453 GGTCAACGGTTCGGGTAAACGGGTCGGGTTG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
35484 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
35501 GGGTTGTGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.14, C:0.20, G:0.47, T:0.19
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
Found at i:35468 original size:13 final size:13
Alignment explanation
Indices: 35422--35451 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
35412 ACGGGTTAAC
35422 GGTCAACGGGTCG
1 GGTCAACGGGTCG
35435 GGTCAACGGGTCG
1 GGTCAACGGGTCG
35448 GGTC
1 GGTC
35452 GGGTCAACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:35473 original size:13 final size:13
Alignment explanation
Indices: 35446--35481 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
35436 GTCAACGGGT
*
35446 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
35459 CGGTTCGGGTAAA
1 CGGGTCGGGTAAA
35472 CGGGTCGGGT
1 CGGGTCGGGT
35482 TGGGTCAACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.19, G:0.47, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:41110 original size:410 final size:409
Alignment explanation
Indices: 40347--41172 Score: 1501
Period size: 410 Copynumber: 2.0 Consensus size: 409
40337 CACACTAAAG
*
40347 GAAA-AACCCAAATCTTATACAATATGGCAAGTCTCAATACTTTTTCTTTCCTAGTGGTTTTGTT
1 GAAACAACCCAAATCTTATAAAATATGGCAAGTCTCAATACTTTTTCTTTCCTAGTGGTTTTGTT
* *
40411 CATAACAATTTTGTAGCGACAGCTATAAACAAAAATGATCAGATAATTAAGGAGAAAAATTGTCA
66 CATAACAATTCTGTAGCGACAACTATAAACAAAAATGATCAGATAATTAAGGAGAAAAATTGTCA
* * *
40476 AGCTAAAATGGGCATGCATTGCGTGATGGAAGTTTTTGACAATATATTCAAAAGGGGAGCGTTTC
131 AGCTAAAATGGGCATGCATTGCCTGATGGAAGTTTTTGACAATATATTAAAAAAGGGAGCGTTTC
* * *
40541 TGACAAGTGTTGCGGTGAACTCATCGTATTTGGAAAAGTATGCCACTTTGCACTCGTAAAGAGAA
196 TAACAAGTGTTGCGGTGAACTCATCGTATTAGGAAAAGTATGCCACTTTGCACTAGTAAAGAGAA
40606 CCCTTGAAAATCATGTAGTCAAACACGTGAAGTCAAAGACAGTCATGGAAAAGAGTGTTAGGACT
261 CCCTTGAAAATCATGTAGTCAAACACGTGAAGTCAAAGACAGTCATGGAAAAGAGTGTTAGGACT
* *
40671 TGGGATAATTATCTCGTATTGAGCCATTCACCCTCACCGTCCACTTAATGATATTGACTTGCTCC
326 TGGGACAATTATCTCGTATGGAGCCATTCACCCTCACCGTCCACTTAATGATATTGACTTGCTCC
40736 AGTTAAAAAATGATTATAA
391 AGTTAAAAAATGATTATAA
*
40755 GAAACAACCCAATTCTTATAAAATATGGCAAGTCTCAATACTTTTTCTTTCCTAGTGGTTTTGTT
1 GAAACAACCCAAATCTTATAAAATATGGCAAGTCTCAATACTTTTTCTTTCCTAGTGGTTTTGTT
* *
40820 CATAACAATTGCTGTAGCGACAACTATAAACAAAAATGATCGGATAATTAAGGAGAAAAATTGTG
66 CATAACAATT-CTGTAGCGACAACTATAAACAAAAATGATCAGATAATTAAGGAGAAAAATTGTC
40885 AAGCTAAAATGGGCATGCATTGCCTGATGGAAGTTTTTGACAATATATTAAAAAAGGGAGCGTTT
130 AAGCTAAAATGGGCATGCATTGCCTGATGGAAGTTTTTGACAATATATTAAAAAAGGGAGCGTTT
40950 CTAACAAGTGTTGCGGTGAACTCATCGTATTAGGAAAAGTATGCCACTTTGCACTAGTAAAGAGA
195 CTAACAAGTGTTGCGGTGAACTCATCGTATTAGGAAAAGTATGCCACTTTGCACTAGTAAAGAGA
41015 ACCCTTGAAAATCATGTAGTCAAACACGTGAAGTCAAAGACAGTCATGGAAAAGAGTGTTAGGAC
260 ACCCTTGAAAATCATGTAGTCAAACACGTGAAGTCAAAGACAGTCATGGAAAAGAGTGTTAGGAC
*
41080 TTGGGACAATTGTCTCGTATGGAGCCATTCACCCTCACCGTCCACTTAATGATATTGACTTGCTC
325 TTGGGACAATTATCTCGTATGGAGCCATTCACCCTCACCGTCCACTTAATGATATTGACTTGCTC
41145 CAGTTAAAAAATGATTATAA
390 CAGTTAAAAAATGATTATAA
41165 GAAACAAC
1 GAAACAAC
41173 AACAATAATT
Statistics
Matches: 401, Mismatches: 15, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
408 4 0.01
409 68 0.17
410 329 0.82
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (409 bp):
GAAACAACCCAAATCTTATAAAATATGGCAAGTCTCAATACTTTTTCTTTCCTAGTGGTTTTGTT
CATAACAATTCTGTAGCGACAACTATAAACAAAAATGATCAGATAATTAAGGAGAAAAATTGTCA
AGCTAAAATGGGCATGCATTGCCTGATGGAAGTTTTTGACAATATATTAAAAAAGGGAGCGTTTC
TAACAAGTGTTGCGGTGAACTCATCGTATTAGGAAAAGTATGCCACTTTGCACTAGTAAAGAGAA
CCCTTGAAAATCATGTAGTCAAACACGTGAAGTCAAAGACAGTCATGGAAAAGAGTGTTAGGACT
TGGGACAATTATCTCGTATGGAGCCATTCACCCTCACCGTCCACTTAATGATATTGACTTGCTCC
AGTTAAAAAATGATTATAA
Found at i:44373 original size:15 final size:15
Alignment explanation
Indices: 44353--44383 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44343 GCACATTGTA
44353 TTAAAAAACGAAAAT
1 TTAAAAAACGAAAAT
*
44368 TTAAAAAACTAAAAT
1 TTAAAAAACGAAAAT
44383 T
1 T
44384 AGATTTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (15 bp):
TTAAAAAACGAAAAT
Found at i:46678 original size:18 final size:18
Alignment explanation
Indices: 46655--46694 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
46645 CGACCCGTTT
46655 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
* *
46673 ACCCGACCCGTTGACCTG
1 ACCCGACCAGTTGACCCG
46691 ACCC
1 ACCC
46695 ATTGACCGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.47, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:46678 original size:31 final size:31
Alignment explanation
Indices: 46642--46701 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
46632 CGACCCGTTT
*
46642 ACCCGACCCGTTTACCCGA-CCAGTTGACCCG
1 ACCCGACCCGTTGACCCGACCCA-TTGACCCG
*
46673 ACCCGACCCGTTGACCTGACCCATTGACC
1 ACCCGACCCGTTGACCCGACCCATTGACC
46702 GTTGACCCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.20, C:0.45, G:0.18, T:0.17
Consensus pattern (31 bp):
ACCCGACCCGTTGACCCGACCCATTGACCCG
Found at i:46688 original size:8 final size:8
Alignment explanation
Indices: 46677--46723 Score: 50
Period size: 7 Copynumber: 6.5 Consensus size: 8
46667 GACCCGACCC
46677 GACCCGTT
1 GACCCGTT
46685 GA-CC--T
1 GACCCGTT
*
46690 GACCCATT
1 GACCCGTT
46698 GA-CCGTT
1 GACCCGTT
46705 GACCCGTT
1 GACCCGTT
46713 GA-CCGTT
1 GACCCGTT
46720 GACC
1 GACC
46724 GGAGTTGACC
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 15 0.45
8 13 0.39
ACGTcount: A:0.17, C:0.36, G:0.23, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:46688 original size:13 final size:13
Alignment explanation
Indices: 46629--46677 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
46619 ACCGGTCATA
46629 ACCCGACCCGTTT
1 ACCCGACCCGTTT
46642 ACCCGACCCGTTT
1 ACCCGACCCGTTT
* *
46655 ACCCGACCAGTTG
1 ACCCGACCCGTTT
46668 ACCCGACCCG
1 ACCCGACCCG
46678 ACCCGTTGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.18, C:0.47, G:0.18, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:46693 original size:13 final size:13
Alignment explanation
Indices: 46672--46716 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
46662 CAGTTGACCC
*
46672 GACCCGACCCGTT
1 GACCTGACCCGTT
*
46685 GACCTGACCCATT
1 GACCTGACCCGTT
46698 GACCGTTGACCCGTT
1 GACC--TGACCCGTT
46713 GACC
1 GACC
46717 GTTGACCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
15 12 0.44
ACGTcount: A:0.18, C:0.40, G:0.22, T:0.20
Consensus pattern (13 bp):
GACCTGACCCGTT
Found at i:46709 original size:15 final size:15
Alignment explanation
Indices: 46677--46723 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
46667 GACCCGACCC
46677 GACCCGTTGACC--T
1 GACCCGTTGACCGTT
*
46690 GACCCATTGACCGTT
1 GACCCGTTGACCGTT
46705 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
46720 GACC
1 GACC
46724 GGAGTTGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 11 0.37
15 19 0.63
ACGTcount: A:0.17, C:0.36, G:0.23, T:0.23
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:49298 original size:47 final size:48
Alignment explanation
Indices: 49238--49328 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
49228 TCCGACTTGA
* * *
49238 ATTCTGTTATGATACCTGACCTGGATTATGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGGATTATGATATGATACTTGACATGG
* *
49285 ATTCTGATCTGATACATGACCTGGATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGGATTATGATATGATACTTGAC
49329 TTGAATTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 33 0.87
48 5 0.13
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGGATTATGATATGATACTTGACATGG
Found at i:49345 original size:24 final size:24
Alignment explanation
Indices: 49238--49328 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
49228 TCCGACTTGA
* *
49238 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* * *
49262 ATTATGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* *
49285 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
49309 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
49329 TTGAATTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.36
24 36 0.64
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:51545 original size:18 final size:18
Alignment explanation
Indices: 51522--51561 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
51512 CAACCCGTTT
51522 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
* *
51540 ACCCGACCCGTTGACCTG
1 ACCCGACCAGTTGACCCG
51558 ACCC
1 ACCC
51562 ATTGACCGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.47, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:51550 original size:31 final size:31
Alignment explanation
Indices: 51509--51568 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
51499 CGACCCGTTT
*
51509 ACCCAACCCGTTTACCCGA-CCAGTTGACCCG
1 ACCCAACCCGTTGACCCGACCCA-TTGACCCG
* *
51540 ACCCGACCCGTTGACCTGACCCATTGACC
1 ACCCAACCCGTTGACCCGACCCATTGACC
51569 GTTGACCCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.22, C:0.45, G:0.17, T:0.17
Consensus pattern (31 bp):
ACCCAACCCGTTGACCCGACCCATTGACCCG
Found at i:51555 original size:8 final size:8
Alignment explanation
Indices: 51544--51590 Score: 50
Period size: 7 Copynumber: 6.5 Consensus size: 8
51534 GACCCGACCC
51544 GACCCGTT
1 GACCCGTT
51552 GA-CC--T
1 GACCCGTT
*
51557 GACCCATT
1 GACCCGTT
51565 GA-CCGTT
1 GACCCGTT
51572 GACCCGTT
1 GACCCGTT
51580 GA-CCGTT
1 GACCCGTT
51587 GACC
1 GACC
51591 GGAGTTGACC
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 15 0.45
8 13 0.39
ACGTcount: A:0.17, C:0.36, G:0.23, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:51555 original size:13 final size:13
Alignment explanation
Indices: 51496--51544 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
51486 ACCGGTCATA
51496 ACCCGACCCGTTT
1 ACCCGACCCGTTT
*
51509 ACCCAACCCGTTT
1 ACCCGACCCGTTT
* *
51522 ACCCGACCAGTTG
1 ACCCGACCCGTTT
51535 ACCCGACCCG
1 ACCCGACCCG
51545 ACCCGTTGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.20, C:0.47, G:0.16, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:51560 original size:13 final size:13
Alignment explanation
Indices: 51539--51583 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
51529 CAGTTGACCC
*
51539 GACCCGACCCGTT
1 GACCTGACCCGTT
*
51552 GACCTGACCCATT
1 GACCTGACCCGTT
51565 GACCGTTGACCCGTT
1 GACC--TGACCCGTT
51580 GACC
1 GACC
51584 GTTGACCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
15 12 0.44
ACGTcount: A:0.18, C:0.40, G:0.22, T:0.20
Consensus pattern (13 bp):
GACCTGACCCGTT
Found at i:51576 original size:15 final size:15
Alignment explanation
Indices: 51544--51590 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
51534 GACCCGACCC
51544 GACCCGTTGACC--T
1 GACCCGTTGACCGTT
*
51557 GACCCATTGACCGTT
1 GACCCGTTGACCGTT
51572 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
51587 GACC
1 GACC
51591 GGAGTTGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 11 0.37
15 19 0.63
ACGTcount: A:0.17, C:0.36, G:0.23, T:0.23
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:54163 original size:47 final size:48
Alignment explanation
Indices: 54103--54193 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
54093 TCCGACTTGA
* * *
54103 ATTCTGTTATGATACCTGACCTGGATTATGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGGATTATGATATGATACTTGACATGG
* *
54150 ATTCTGATCTGATACATGACCTGGATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGGATTATGATATGATACTTGAC
54194 TTGAATTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 33 0.87
48 5 0.13
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGGATTATGATATGATACTTGACATGG
Found at i:54210 original size:24 final size:24
Alignment explanation
Indices: 54103--54193 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
54093 TCCGACTTGA
* *
54103 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* * *
54127 ATTATGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* *
54150 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
54174 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
54194 TTGAATTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.36
24 36 0.64
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:56422 original size:18 final size:18
Alignment explanation
Indices: 56399--56438 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
56389 CGACCCGTTT
56399 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
* *
56417 ACCCGACCCGTTGACCTG
1 ACCCGACCAGTTGACCCG
56435 ACCC
1 ACCC
56439 ATTGACCGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.47, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:56422 original size:31 final size:31
Alignment explanation
Indices: 56386--56445 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
56376 CGACCCGTTT
*
56386 ACCCGACCCGTTTACCCGA-CCAGTTGACCCG
1 ACCCGACCCGTTGACCCGACCCA-TTGACCCG
*
56417 ACCCGACCCGTTGACCTGACCCATTGACC
1 ACCCGACCCGTTGACCCGACCCATTGACC
56446 GTTGACCCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.20, C:0.45, G:0.18, T:0.17
Consensus pattern (31 bp):
ACCCGACCCGTTGACCCGACCCATTGACCCG
Found at i:56432 original size:8 final size:8
Alignment explanation
Indices: 56421--56467 Score: 50
Period size: 7 Copynumber: 6.5 Consensus size: 8
56411 GACCCGACCC
56421 GACCCGTT
1 GACCCGTT
56429 GA-CC--T
1 GACCCGTT
*
56434 GACCCATT
1 GACCCGTT
56442 GA-CCGTT
1 GACCCGTT
56449 GACCCGTT
1 GACCCGTT
56457 GA-CCGTT
1 GACCCGTT
56464 GACC
1 GACC
56468 GGAGTTGACC
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 15 0.45
8 13 0.39
ACGTcount: A:0.17, C:0.36, G:0.23, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:56432 original size:13 final size:13
Alignment explanation
Indices: 56373--56421 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
56363 ACCGGTCATA
56373 ACCCGACCCGTTT
1 ACCCGACCCGTTT
56386 ACCCGACCCGTTT
1 ACCCGACCCGTTT
* *
56399 ACCCGACCAGTTG
1 ACCCGACCCGTTT
56412 ACCCGACCCG
1 ACCCGACCCG
56422 ACCCGTTGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.18, C:0.47, G:0.18, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:56437 original size:13 final size:13
Alignment explanation
Indices: 56416--56460 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
56406 CAGTTGACCC
*
56416 GACCCGACCCGTT
1 GACCTGACCCGTT
*
56429 GACCTGACCCATT
1 GACCTGACCCGTT
56442 GACCGTTGACCCGTT
1 GACC--TGACCCGTT
56457 GACC
1 GACC
56461 GTTGACCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
15 12 0.44
ACGTcount: A:0.18, C:0.40, G:0.22, T:0.20
Consensus pattern (13 bp):
GACCTGACCCGTT
Found at i:56453 original size:15 final size:15
Alignment explanation
Indices: 56421--56467 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
56411 GACCCGACCC
56421 GACCCGTTGACC--T
1 GACCCGTTGACCGTT
*
56434 GACCCATTGACCGTT
1 GACCCGTTGACCGTT
56449 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
56464 GACC
1 GACC
56468 GGAGTTGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 11 0.37
15 19 0.63
ACGTcount: A:0.17, C:0.36, G:0.23, T:0.23
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:59027 original size:23 final size:24
Alignment explanation
Indices: 58989--59079 Score: 105
Period size: 23 Copynumber: 3.9 Consensus size: 24
58979 AATTCTGTTA
*
58989 TGATACCTGACCTGGATTATGATC
1 TGATACTTGACCTGGATTATGATC
* *
59013 TGATA-TTGACATGGATTCTGATC
1 TGATACTTGACCTGGATTATGATC
* *
59036 TGATACATGACCTGGATT-TGATA
1 TGATACTTGACCTGGATTATGATC
* *
59059 TGATACTTGACTTGAATTATG
1 TGATACTTGACCTGGATTATG
59080 TTTTGATTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
23 39 0.70
24 17 0.30
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (24 bp):
TGATACTTGACCTGGATTATGATC
Found at i:59040 original size:47 final size:47
Alignment explanation
Indices: 58980--59069 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
58970 TCCGACTTGA
* * *
58980 ATTCTGTTATGATACCTGACCTGGATTATGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGGATT-TGATATGATACTTGACATGG
*
59027 ATTCTGATCTGATACATGACCTGGATTTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGGATTTGATATGATACTTGAC
59070 TTGAATTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 9 0.24
47 29 0.76
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (47 bp):
ATTCTGATATGATACATGACCTGGATTTGATATGATACTTGACATGG
Found at i:59195 original size:34 final size:34
Alignment explanation
Indices: 59156--59220 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
59146 ATTACTTGGA
59156 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTAC
1 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTAC
59190 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACT
1 GGTTCCTCGGCTGTGTGCTCAGGGCCTTACT
59221 GTTAGTGACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.08, C:0.29, G:0.31, T:0.32
Consensus pattern (34 bp):
GGTTCCTCGGCTGTGTGCTCAGGGCCTTACTTAC
Found at i:74121 original size:24 final size:24
Alignment explanation
Indices: 74089--74152 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
74079 AGAGTCCATG
* *
74089 TCAAGTATCATATAAAAATTCAGA
1 TCAAATATCATATAAAAATCCAGA
* * *
74113 TCAAATATCATATCAGAATCCAGG
1 TCAAATATCATATAAAAATCCAGA
* *
74137 TCAAAAATCAGATAAA
1 TCAAATATCATATAAA
74153 CTATTTATAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (24 bp):
TCAAATATCATATAAAAATCCAGA
Found at i:74883 original size:29 final size:29
Alignment explanation
Indices: 74851--74975 Score: 110
Period size: 29 Copynumber: 4.3 Consensus size: 29
74841 CATTTTACAC
74851 AAATAGCACCATTTTCGAATTAATTCCCA
1 AAATAGCACCATTTTCGAATTAATTCCCA
** *** * * *
74880 AAATATTATTTTTTTCGAA-AAATTACTA
1 AAATAGCACCATTTTCGAATTAATTCCCA
74908 AAATAGCACCCA-TTTCGAATTAATTCCCA
1 AAATAGCA-CCATTTTCGAATTAATTCCCA
* ***
74937 GAATAGCACCAAAATCGAATTAATTCCCA
1 AAATAGCACCATTTTCGAATTAATTCCCA
*
74966 GAATAGCACC
1 AAATAGCACC
74976 GGTCAACGGT
Statistics
Matches: 74, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
28 22 0.30
29 52 0.70
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (29 bp):
AAATAGCACCATTTTCGAATTAATTCCCA
Found at i:75015 original size:13 final size:12
Alignment explanation
Indices: 74983--75025 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
74973 ACCGGTCAAC
*
74983 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
74997 GGTCAACGGGTCG
1 GGTCAAC-GGTCG
75010 GGTCAACGGTCG
1 GGTCAACGGTCG
75022 GGTC
1 GGTC
75026 GGGTAAACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 7 0.26
15 4 0.15
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.16
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:75020 original size:7 final size:7
Alignment explanation
Indices: 74975--75005 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
74965 AGAATAGCAC
74975 CGGTCAA
1 CGGTCAA
74982 CGGTCAA
1 CGGTCAA
74989 CGGTCAA
1 CGGTCAA
74996 CGGTCAA
1 CGGTCAA
75003 CGG
1 CGG
75006 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.32, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:75057 original size:18 final size:17
Alignment explanation
Indices: 75003--75053 Score: 84
Period size: 18 Copynumber: 2.9 Consensus size: 17
74993 CAACGGTCAA
*
75003 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTAAACGGT
75020 CGGGTCGGGTAAACTGGT
1 CGGGTCGGGTAAAC-GGT
75038 CGGGTCGGGTAAACGG
1 CGGGTCGGGTAAACGG
75054 GTCGTGACCG
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:75090 original size:11 final size:10
Alignment explanation
Indices: 75060--75111 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
75050 ACGGGTCGTG
75060 ACCGGTC-AA
1 ACCGGTCAAA
75069 ACCGGTCAAA
1 ACCGGTCAAA
75079 ACCGGTTCAAA
1 ACCGG-TCAAA
*
75090 ACCGGT-TAA
1 ACCGGTCAAA
75099 ACCGGTCAAA
1 ACCGGTCAAA
75109 ACC
1 ACC
75112 AGTTTCCAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 15 0.39
10 13 0.34
11 10 0.26
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:78665 original size:12 final size:12
Alignment explanation
Indices: 78640--78709 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
78630 ACGAAGATAT
* *
78640 CAGAAATCAAAA
1 CAGAATTCAGAA
78652 CAGAATTCAGAA
1 CAGAATTCAGAA
78664 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
78676 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
78688 CAGAAATCATAA
1 CAGAATTCAGAA
78700 CAGAATTCAG
1 CAGAATTCAG
78710 GTCATTTATC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:78709 original size:48 final size:48
Alignment explanation
Indices: 78638--78729 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
78628 AAACGAAGAT
78638 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
* ** **
78686 ATCAGAAATCATAACAGAATTCAGGTCATTTATCAGAACAGAAT
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAAT
78730 TCAAGTCGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
Found at i:78742 original size:48 final size:48
Alignment explanation
Indices: 78638--78744 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 48
78628 AAACGAAGAT
*
78638 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCAAG
* ** **
78686 ATCAGAAATCATAACAGAATTCAGGTCATTTATCAGAACAGAATTCAAG
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAA-TCAAG
*
78735 -TCGGAAATCA
1 ATCAGAAATCA
78745 GATAAAATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 47 0.92
49 4 0.08
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCAAG
Found at i:78744 original size:24 final size:25
Alignment explanation
Indices: 78638--78746 Score: 100
Period size: 24 Copynumber: 4.5 Consensus size: 25
78628 AAACGAAGAT
*
78638 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * *
78662 AACAGATATCAGAACAGAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
78686 ATCAGAAATCATAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* ***
78710 GTCATTTATCAGAACAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
78735 -TCGGAAATCAGA
1 ATCAGAAATCAGA
78747 TAAAATATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
23 2 0.03
24 61 0.91
25 4 0.06
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:81115 original size:7 final size:7
Alignment explanation
Indices: 81103--81132 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
81093 GTCAACGTGA
81103 GTCAACG
1 GTCAACG
81110 GTCAACGG
1 GTCAAC-G
81118 GTCAACG
1 GTCAACG
81125 GTCAACG
1 GTCAACG
81132 G
1 G
81133 GTTTAACGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.27, C:0.27, G:0.33, T:0.13
Consensus pattern (7 bp):
GTCAACG
Found at i:81122 original size:8 final size:8
Alignment explanation
Indices: 81092--81165 Score: 77
Period size: 8 Copynumber: 9.5 Consensus size: 8
81082 GGTTAACAGT
81092 GGTCAACG
1 GGTCAACG
81100 TGAGTCAAC-
1 -G-GTCAACG
81109 GGTCAACG
1 GGTCAACG
81117 GGTCAAC-
1 GGTCAACG
81124 GGTCAACG
1 GGTCAACG
*
81132 GGTTTAACG
1 GG-TCAACG
81141 GGTCAACG
1 GGTCAACG
81149 GGT---CG
1 GGTCAACG
81154 GGTCAACG
1 GGTCAACG
81162 GGTC
1 GGTC
81166 GGGTCGGGTC
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
5 5 0.09
7 13 0.23
8 24 0.43
9 8 0.14
10 6 0.11
ACGTcount: A:0.23, C:0.23, G:0.36, T:0.18
Consensus pattern (8 bp):
GGTCAACG
Found at i:81157 original size:13 final size:13
Alignment explanation
Indices: 81139--81213 Score: 78
Period size: 13 Copynumber: 5.4 Consensus size: 13
81129 ACGGGTTTAA
81139 CGGGTCAACGGGT
1 CGGGTCAACGGGT
81152 CGGGTCAACGGGTCGGGT
1 CGGGTCAA-----CGGGT
*
81170 CGGGTCAACTGGT
1 CGGGTCAACGGGT
*
81183 CGGGTAAACGGGT
1 CGGGTCAACGGGT
*
81196 CGGGTAAACGGGT
1 CGGGTCAACGGGT
81209 CGGGT
1 CGGGT
81214 TATGACCGGT
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
13 41 0.76
18 13 0.24
ACGTcount: A:0.16, C:0.20, G:0.47, T:0.17
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:81170 original size:18 final size:18
Alignment explanation
Indices: 81147--81187 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
81137 AACGGGTCAA
81147 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
81165 CGGGTCGGGTCAACTGGT
1 CGGGTCGGGTCAACGGGT
81183 CGGGT
1 CGGGT
81188 AAACGGGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.22, G:0.49, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:81177 original size:31 final size:31
Alignment explanation
Indices: 81139--81200 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
81129 ACGGGTTTAA
*
81139 CGGGTCAACGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
*
81170 CGGGTCAACTGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
81201 AAACGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.15, C:0.21, G:0.47, T:0.18
Consensus pattern (31 bp):
CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
Found at i:85434 original size:24 final size:24
Alignment explanation
Indices: 85372--85435 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
85362 AAGTACAAAA
* * *
85372 CAGAGTCCATGTCAAGTATCATAT
1 CAGAATCCAGGTCAAATATCATAT
* * * *
85396 AAAAATTCAGATCAAATATCATAT
1 CAGAATCCAGGTCAAATATCATAT
85420 CAGAATCCAGGTCAAA
1 CAGAATCCAGGTCAAA
85436 AATTAGATAA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (24 bp):
CAGAATCCAGGTCAAATATCATAT
Found at i:86177 original size:29 final size:29
Alignment explanation
Indices: 86145--86272 Score: 80
Period size: 29 Copynumber: 4.3 Consensus size: 29
86135 CATTTTACAC
86145 AAATAGCACCATTTTCGAATTAATTCCCA
1 AAATAGCACCATTTTCGAATTAATTCCCA
** *** * * *
86174 AAATATTATTTTTTTTTTCGAA-AAATTACTA
1 AAATAGCA---CCATTTTCGAATTAATTCCCA
86205 AAATAGCACCCA-TTTCGAATTAATTCCCA
1 AAATAGCA-CCATTTTCGAATTAATTCCCA
* ****
86234 GAATAGCACCAAAACCGAATTAATTCCCA
1 AAATAGCACCATTTTCGAATTAATTCCCA
*
86263 GAATAGCACC
1 AAATAGCACC
86273 GGTCAACGGT
Statistics
Matches: 73, Mismatches: 21, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
28 10 0.14
29 43 0.59
31 12 0.16
32 8 0.11
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (29 bp):
AAATAGCACCATTTTCGAATTAATTCCCA
Found at i:86305 original size:13 final size:12
Alignment explanation
Indices: 86273--86315 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
86263 GAATAGCACC
*
86273 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
86287 GGTCAACGGGTCG
1 GGTCAAC-GGTCG
86300 GGTCAACGGTCG
1 GGTCAACGGTCG
86312 GGTC
1 GGTC
86316 GGGTAAACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 7 0.26
15 4 0.15
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.16
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:86330 original size:18 final size:17
Alignment explanation
Indices: 86293--86343 Score: 84
Period size: 18 Copynumber: 2.9 Consensus size: 17
86283 CAACGGTCAA
*
86293 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTAAACGGT
86310 CGGGTCGGGTAAACTGGT
1 CGGGTCGGGTAAAC-GGT
86328 CGGGTCGGGTAAACGG
1 CGGGTCGGGTAAACGG
86344 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:86388 original size:11 final size:10
Alignment explanation
Indices: 86358--86409 Score: 72
Period size: 9 Copynumber: 5.3 Consensus size: 10
86348 ACGGGTCGTG
86358 ACCGGTC-AA
1 ACCGGTCAAA
86367 ACCGGTCAAA
1 ACCGGTCAAA
86377 ACCGGTTCAAA
1 ACCGG-TCAAA
*
86388 ACCGGT-TAA
1 ACCGGTCAAA
86397 ACCGGTCAAA
1 ACCGGTCAAA
86407 ACC
1 ACC
86410 AGTTTCCAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 15 0.39
10 13 0.34
11 10 0.26
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:95262 original size:13 final size:13
Alignment explanation
Indices: 95244--95292 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
95234 ACCAGACCCG
95244 ACCCGACCCGTTT
1 ACCCGACCCGTTT
*
95257 ACCCGACCCATTT
1 ACCCGACCCGTTT
** *
95270 ACCCGACTAGTTG
1 ACCCGACCCGTTT
95283 ACCCGACCCG
1 ACCCGACCCG
95293 ACCCGTTGAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:95292 original size:31 final size:31
Alignment explanation
Indices: 95257--95318 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
95247 CGACCCGTTT
*
95257 ACCCGACCCATTTACCCGAC-TAGTTGACCCG
1 ACCCGACCCATTGACCCGACAT-GTTGACCCG
*
95288 ACCCGACCCGTTGACCCGACATGTTGACCCG
1 ACCCGACCCATTGACCCGACATGTTGACCCG
95319 TTGACCCGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.21, C:0.42, G:0.19, T:0.18
Consensus pattern (31 bp):
ACCCGACCCATTGACCCGACATGTTGACCCG
Found at i:95293 original size:18 final size:18
Alignment explanation
Indices: 95270--95307 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
95260 CGACCCATTT
*
95270 ACCCGACTAGTTGACCCG
1 ACCCGACCAGTTGACCCG
*
95288 ACCCGACCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
95306 AC
1 AC
95308 ATGTTGACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.13
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:95331 original size:16 final size:19
Alignment explanation
Indices: 95309--95353 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
95299 TGACCCGACA
95309 TGTTGACC-CGTTGACC-C
1 TGTTGACCACGTTGACCAC
95326 -GTTGACCCACGTTGACCAC
1 TGTTGA-CCACGTTGACCAC
95345 TGTTGACCA
1 TGTTGACCA
95354 AAACTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 5 0.21
17 2 0.08
18 8 0.33
19 4 0.17
20 5 0.21
ACGTcount: A:0.18, C:0.33, G:0.22, T:0.27
Consensus pattern (19 bp):
TGTTGACCACGTTGACCAC
Found at i:95340 original size:10 final size:9
Alignment explanation
Indices: 95310--95353 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
95300 GACCCGACAT
95310 GTTGACC-C
1 GTTGACCAC
95318 GTTGACC-C
1 GTTGACCAC
95326 GTTGACCCAC
1 GTTGA-CCAC
95336 GTTGACCAC
1 GTTGACCAC
95345 TGTTGACCA
1 -GTTGACCA
95354 AAACTTTGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 13 0.39
9 6 0.18
10 14 0.42
ACGTcount: A:0.18, C:0.34, G:0.23, T:0.25
Consensus pattern (9 bp):
GTTGACCAC
Found at i:96654 original size:18 final size:18
Alignment explanation
Indices: 96628--96663 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
96618 TCGAAAGGAC
*
96628 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
96646 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
96664 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:97822 original size:24 final size:24
Alignment explanation
Indices: 97790--97874 Score: 109
Period size: 24 Copynumber: 3.5 Consensus size: 24
97780 AAATATTTTA
*
97790 TCTGATTTCCGA-CTTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGT
*
97814 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
97838 TCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
97862 TTTGATTTCTGAT
1 TCTGATTTCTGAT
97875 ATCTTCGTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 51 0.98
25 1 0.02
ACGTcount: A:0.15, C:0.16, G:0.18, T:0.51
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:97829 original size:12 final size:12
Alignment explanation
Indices: 97789--97874 Score: 59
Period size: 12 Copynumber: 7.2 Consensus size: 12
97779 TAAATATTTT
*
97789 ATCTGATTTCCG
1 ATCTGATTTCTG
*
97801 A-CTTGAATTCTG
1 ATC-TGATTTCTG
*
97813 TTCTGATTTCTG
1 ATCTGATTTCTG
97825 ATCTGGA-TTCTG
1 ATCT-GATTTCTG
* *
97837 TTCTGATATCTG
1 ATCTGATTTCTG
* *
97849 TTCTGAATTCTG
1 ATCTGATTTCTG
* *
97861 TTTTGATTTCTG
1 ATCTGATTTCTG
97873 AT
1 AT
97875 ATCTTCGTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
11 3 0.05
12 52 0.90
13 3 0.05
ACGTcount: A:0.16, C:0.16, G:0.17, T:0.50
Consensus pattern (12 bp):
ATCTGATTTCTG
Found at i:99983 original size:13 final size:13
Alignment explanation
Indices: 99965--100013 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
99955 ACCAGACCCG
99965 ACCCGACCCGTTT
1 ACCCGACCCGTTT
*
99978 ACCCGACCCATTT
1 ACCCGACCCGTTT
* *
99991 ACCCGACCAGTTG
1 ACCCGACCCGTTT
100004 ACCCGACCCG
1 ACCCGACCCG
100014 ACCCGTTGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.20, C:0.47, G:0.16, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:100013 original size:31 final size:31
Alignment explanation
Indices: 99978--100039 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
99968 CGACCCGTTT
*
99978 ACCCGACCCATTTACCCGACCA-GTTGACCCG
1 ACCCGACCCATTGACCCGA-CATGTTGACCCG
*
100009 ACCCGACCCGTTGACCCGACATGTTGACCCG
1 ACCCGACCCATTGACCCGACATGTTGACCCG
100040 TTGACCCGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.21, C:0.44, G:0.19, T:0.16
Consensus pattern (31 bp):
ACCCGACCCATTGACCCGACATGTTGACCCG
Found at i:100014 original size:18 final size:18
Alignment explanation
Indices: 99991--100028 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
99981 CGACCCATTT
99991 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
*
100009 ACCCGACCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
100027 AC
1 AC
100029 ATGTTGACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.11
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:100057 original size:7 final size:8
Alignment explanation
Indices: 100031--100080 Score: 57
Period size: 8 Copynumber: 5.9 Consensus size: 8
100021 GACCCGACAT
100031 GTTGACCC
1 GTTGACCC
100039 GTTGACCC
1 GTTGACCC
100047 GTTGA-CC
1 GTTGACCC
100054 GTTGACCCAC
1 GTTGA-CC-C
100064 GTTGACCAC
1 GTTGACC-C
100073 TGTTGACC
1 -GTTGACC
100081 AAAACTTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.18
8 13 0.34
9 5 0.13
10 13 0.34
ACGTcount: A:0.16, C:0.34, G:0.24, T:0.26
Consensus pattern (8 bp):
GTTGACCC
Found at i:100057 original size:15 final size:16
Alignment explanation
Indices: 100031--100080 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 16
100021 GACCCGACAT
100031 GTTGACCCGTTGACCC
1 GTTGACCCGTTGACCC
100047 GTTGA-CCGTTGACCCAC
1 GTTGACCCGTTGA-CC-C
100064 GTTGACCACTGTTGACC
1 GTTGACC-C-GTTGACC
100081 AAAACTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 6 0.21
18 1 0.03
19 3 0.10
20 5 0.17
ACGTcount: A:0.16, C:0.34, G:0.24, T:0.26
Consensus pattern (16 bp):
GTTGACCCGTTGACCC
Found at i:100081 original size:10 final size:9
Alignment explanation
Indices: 100031--100081 Score: 56
Period size: 10 Copynumber: 5.9 Consensus size: 9
100021 GACCCGACAT
100031 GTTGACC-C
1 GTTGACCAC
100039 GTTGACC-C
1 GTTGACCAC
100047 GTTGA-C-C
1 GTTGACCAC
100054 GTTGACCCAC
1 GTTGA-CCAC
100064 GTTGACCAC
1 GTTGACCAC
100073 TGTTGACCA
1 -GTTGACCA
100082 AAACTTTGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.18
8 13 0.33
9 5 0.13
10 14 0.36
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.25
Consensus pattern (9 bp):
GTTGACCAC
Found at i:101288 original size:18 final size:18
Alignment explanation
Indices: 101262--101297 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
101252 TCGAAAGGAC
*
101262 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
101280 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
101298 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:102453 original size:24 final size:24
Alignment explanation
Indices: 102421--102504 Score: 100
Period size: 24 Copynumber: 3.5 Consensus size: 24
102411 AAATATTTTA
*
102421 TCTGATTTCCGA-CTTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGT
*
102445 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
102469 T-TGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
102492 TTTGATTTCTGAT
1 TCTGATTTCTGAT
102505 ATCTTCGTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
23 20 0.39
24 30 0.59
25 1 0.02
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:102460 original size:12 final size:12
Alignment explanation
Indices: 102420--102504 Score: 50
Period size: 12 Copynumber: 7.2 Consensus size: 12
102410 TAAATATTTT
*
102420 ATCTGATTTCCG
1 ATCTGATTTCTG
*
102432 A-CTTGAATTCTG
1 ATC-TGATTTCTG
*
102444 TTCTGATTTCTG
1 ATCTGATTTCTG
102456 ATCTGGA-TTCTG
1 ATCT-GATTTCTG
* *
102468 -TTTGATATCTG
1 ATCTGATTTCTG
* *
102479 TTCTGAATTCTG
1 ATCTGATTTCTG
* *
102491 TTTTGATTTCTG
1 ATCTGATTTCTG
102503 AT
1 AT
102505 ATCTTCGTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
10 2 0.04
11 7 0.13
12 43 0.78
13 3 0.05
ACGTcount: A:0.16, C:0.15, G:0.18, T:0.51
Consensus pattern (12 bp):
ATCTGATTTCTG
Found at i:104882 original size:15 final size:16
Alignment explanation
Indices: 104862--104895 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
104852 GAGCATTGTA
104862 TTAAAAACGAAAAT-T
1 TTAAAAACGAAAATAT
*
104877 TTAAAAACTAAAATAT
1 TTAAAAACGAAAATAT
104893 TTA
1 TTA
104896 TGGATGGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (16 bp):
TTAAAAACGAAAATAT
Done.