Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011960.1 Kokia drynarioides strain JFW-HI SEQ_126958, 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: 102039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51 characters in sequence are not A, C, G, or T
Found at i:2563 original size:16 final size:18
Alignment explanation
Indices: 2537--2569 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2527 TAAAATTGAG
2537 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
2554 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
2570 GTTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:2604 original size:23 final size:23
Alignment explanation
Indices: 2559--2604 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2549 TTTAATTGAA
* * **
2559 AAATTAATTTAGTTAATTTTATT
1 AAATTAATTGAGTAAATAGTATT
2582 AAATTAATTGAGTAAATAGTATT
1 AAATTAATTGAGTAAATAGTATT
2605 TATATTTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (23 bp):
AAATTAATTGAGTAAATAGTATT
Found at i:7000 original size:41 final size:41
Alignment explanation
Indices: 6955--7226 Score: 330
Period size: 41 Copynumber: 6.6 Consensus size: 41
6945 AGTCAATAGT
* * **
6955 GGCGTTTATGTGAAAGCACCGCTAAAGGTCAGAGCATTAGC
1 GGCGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGC
* * * * * *
6996 GGCGTTTATGAGAAAGCGTTGATAAAAGTTAGAGCATTAGT
1 GGCGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGC
* * * *
7037 GGCACTTAAGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGT
1 GGCGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGC
* * *
7078 GGCACTTATGAGAAAGCGTCGCTAAACGTCATAGCATTAGC
1 GGCGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGC
* * * *
7119 GGCGCCTATGAGAAAGTG-CAGCTAAAAGTCAAAGCATTAGC
1 GGCGCTTATGAGAAAGCGTC-GCTAAAGGTCAGAGCATTAGC
7160 GGCGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGC
1 GGCGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGC
*
7201 GGCGTTTATGAGAAAGCGTCGCTAAA
1 GGCGCTTATGAGAAAGCGTCGCTAAA
7227 AGTTAGAGAA
Statistics
Matches: 198, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 1 0.01
41 196 0.99
42 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
GGCGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGC
Found at i:7129 original size:123 final size:123
Alignment explanation
Indices: 6951--7226 Score: 372
Period size: 123 Copynumber: 2.2 Consensus size: 123
6941 AGTAAGTCAA
* ** * ** **
6951 TAGTGGCGTTTATGTGAAAGCACCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGTT
1 TAGTGGCGTTTATGAGAAAGCGTCGCTAAACGTCAGAGCATTAGCGGCGCCTATGAGAAAGCGCA
* * *
7016 GATAAAAGTTAGAGCATTAGTGGCACTTAAGAGAAAGCGCCGCTAAAGGTCAGAGCAT
66 GATAAAAGTCAAAGCATTAGCGGCACTTAAGAGAAAGCGCCGCTAAAGGTCAGAGCAT
** * *
7074 TAGTGGCACTTATGAGAAAGCGTCGCTAAACGTCATAGCATTAGCGGCGCCTATGAGAAAGTGCA
1 TAGTGGCGTTTATGAGAAAGCGTCGCTAAACGTCAGAGCATTAGCGGCGCCTATGAGAAAGCGCA
* * * *
7139 GCTAAAAGTCAAAGCATTAGCGGCGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCAT
66 GATAAAAGTCAAAGCATTAGCGGCACTTAAGAGAAAGCGCCGCTAAAGGTCAGAGCAT
*
7197 TAGCGGCGTTTATGAGAAAGCGTCGCTAAA
1 TAGTGGCGTTTATGAGAAAGCGTCGCTAAA
7227 AGTTAGAGAA
Statistics
Matches: 131, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
123 131 1.00
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (123 bp):
TAGTGGCGTTTATGAGAAAGCGTCGCTAAACGTCAGAGCATTAGCGGCGCCTATGAGAAAGCGCA
GATAAAAGTCAAAGCATTAGCGGCACTTAAGAGAAAGCGCCGCTAAAGGTCAGAGCAT
Found at i:7273 original size:63 final size:63
Alignment explanation
Indices: 7169--7289 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 63
7159 CGGCGCTTAT
* * *
7169 GAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGTCGCTAAAAGTTA
1 GAGAAAGCGTCGCTAAAGGTCAGAGCATTAACGACGCTTATGAGAAAGCGTCGCTAAAAGTTA
* *
7232 GAGAAAGCGTCGCTAAAGGTCATAGCATTAACGACGCTTATGAGAAATCGTCGCTAAA
1 GAGAAAGCGTCGCTAAAGGTCAGAGCATTAACGACGCTTATGAGAAAGCGTCGCTAAA
7290 GGTCAGAGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (63 bp):
GAGAAAGCGTCGCTAAAGGTCAGAGCATTAACGACGCTTATGAGAAAGCGTCGCTAAAAGTTA
Found at i:7289 original size:41 final size:41
Alignment explanation
Indices: 7232--7539 Score: 280
Period size: 41 Copynumber: 7.5 Consensus size: 41
7222 CTAAAAGTTA
* *
7232 GAGAAAGCGTCGCTAAAGGTCATAGCATTAACGACGCTTAT
1 GAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGACGCTTAT
* * * *
7273 GAGAAATCGTCGCTAAAGGTCAGAGCATTAGTGGCGCCTAT
1 GAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGACGCTTAT
* * * * *
7314 GAGAAAGTG-CAGCTAAAAGTCAAAGCATTAGTGGCGCTTAT
1 GAGAAAGCGTC-GCTAAAGGTCAGAGCATTAGCGACGCTTAT
* * *
7355 GAGAAAGCGTTGCTAAAGGTCAGAGCATTAGCGATGCCTAT
1 GAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGACGCTTAT
** * *
7396 TTGAAAGCG-CTGCTAAAAGTCAGAGCATTAGTGGA-GCTTAT
1 GAGAAAGCGTC-GCTAAAGGTCAGAGCATTAG-CGACGCTTAT
* * * * * * *
7437 GAGAAAACGCCACTAAAAGTTAGAGTATTAGCGGCGCTTAT
1 GAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGACGCTTAT
* * *
7478 GAGAAAGCGTCGTTAAAGGTCAGAGCATTAGCGTCGTTTAT
1 GAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGACGCTTAT
* * *
7519 GGGAAAAACGTCGTTAAAGGT
1 GAG-AAAGCGTCGCTAAAGGT
7540 TGAGTTTTCC
Statistics
Matches: 216, Mismatches: 44, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
40 2 0.01
41 195 0.90
42 19 0.09
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (41 bp):
GAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGACGCTTAT
Found at i:7315 original size:104 final size:104
Alignment explanation
Indices: 7139--7333 Score: 293
Period size: 104 Copynumber: 1.9 Consensus size: 104
7129 AGAAAGTGCA
* *
7139 GCTAAAAGTCAAAGCATTAGCGGCGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGGC
1 GCTAAAAGTCAAAGCATTAACGACGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGGC
**
7204 GTTTATGAGAAAGCGTC-GCTAAAAGTTAGAGAAAGCGTC
66 GCCTATGAGAAAGCG-CAGCTAAAAGTTAGAGAAAGCGTC
* * * *
7243 GCTAAAGGTCATAGCATTAACGACGCTTATGAGAAATCGTCGCTAAAGGTCAGAGCATTAGTGGC
1 GCTAAAAGTCAAAGCATTAACGACGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGGC
*
7308 GCCTATGAGAAAGTGCAGCTAAAAGT
66 GCCTATGAGAAAGCGCAGCTAAAAGT
7334 CAAAGCATTA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 1 0.01
104 80 0.99
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (104 bp):
GCTAAAAGTCAAAGCATTAACGACGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGGC
GCCTATGAGAAAGCGCAGCTAAAAGTTAGAGAAAGCGTC
Found at i:7355 original size:145 final size:145
Alignment explanation
Indices: 7087--7371 Score: 396
Period size: 145 Copynumber: 2.0 Consensus size: 145
7077 TGGCACTTAT
* *
7087 GAGAAAGCGTCGCTAAACGTCATAGCATTAGCGGCGCCTATGAGAAAGTGCAGCTAAAAGTCAAA
1 GAGAAAGCGTCGCTAAACGTCATAGCATTAACGACGCCTATGAGAAAGTGCAGCTAAAAGTCAAA
* * * *
7152 GCATTAGCGGCGCTTATGAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAG
66 GCATTAGCGGCGCCTATGAGAAAGCGTCGCTAAAAGTCAAAGCATTAGCGGCGCTTATGAGAAAG
7217 CGTCGCTAAAAGTTA
131 CGTCGCTAAAAGTTA
* * *
7232 GAGAAAGCGTCGCTAAAGGTCATAGCATTAACGACGCTTATGAGAAA-TCGTC-GCTAAAGGTCA
1 GAGAAAGCGTCGCTAAACGTCATAGCATTAACGACGCCTATGAGAAAGT-G-CAGCTAAAAGTCA
* * * *
7295 GAGCATTAGTGGCGCCTATGAGAAAGTG-CAGCTAAAAGTCAAAGCATTAGTGGCGCTTATGAGA
64 AAGCATTAGCGGCGCCTATGAGAAAGCGTC-GCTAAAAGTCAAAGCATTAGCGGCGCTTATGAGA
*
7359 AAGCGTTGCTAAA
128 AAGCGTCGCTAAA
7372 GGTCAGAGCA
Statistics
Matches: 123, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
144 2 0.02
145 120 0.98
146 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.21
Consensus pattern (145 bp):
GAGAAAGCGTCGCTAAACGTCATAGCATTAACGACGCCTATGAGAAAGTGCAGCTAAAAGTCAAA
GCATTAGCGGCGCCTATGAGAAAGCGTCGCTAAAAGTCAAAGCATTAGCGGCGCTTATGAGAAAG
CGTCGCTAAAAGTTA
Found at i:7359 original size:186 final size:186
Alignment explanation
Indices: 7045--7387 Score: 578
Period size: 186 Copynumber: 1.8 Consensus size: 186
7035 GTGGCACTTA
** * *
7045 AGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGTGGCACTTATGAGAAAGCGTCGCTAAACGTCAT
1 AGAGAAAGCGCCGCTAAAGGTCAGAGCATTAACGACACTTATGAGAAAGCGTCGCTAAACGTCAG
7110 AGCATTAGCGGCGCCTATGAGAAAGTGCAGCTAAAAGTCAAAGCATTAGCGGCGCTTATGAGAAA
66 AGCATTAGCGGCGCCTATGAGAAAGTGCAGCTAAAAGTCAAAGCATTAGCGGCGCTTATGAGAAA
7175 GCGTCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGTCGCTAAAAGTT
131 GCGTCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGTCGCTAAAAGTT
* * * * *
7231 AGAGAAAGCGTCGCTAAAGGTCATAGCATTAACGACGCTTATGAGAAATCGTCGCTAAAGGTCAG
1 AGAGAAAGCGCCGCTAAAGGTCAGAGCATTAACGACACTTATGAGAAAGCGTCGCTAAACGTCAG
* *
7296 AGCATTAGTGGCGCCTATGAGAAAGTGCAGCTAAAAGTCAAAGCATTAGTGGCGCTTATGAGAAA
66 AGCATTAGCGGCGCCTATGAGAAAGTGCAGCTAAAAGTCAAAGCATTAGCGGCGCTTATGAGAAA
*
7361 GCGTTGCTAAAGGTCAGAGCATTAGCG
131 GCGTCGCTAAAGGTCAGAGCATTAGCG
7388 ATGCCTATTT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
186 145 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.20
Consensus pattern (186 bp):
AGAGAAAGCGCCGCTAAAGGTCAGAGCATTAACGACACTTATGAGAAAGCGTCGCTAAACGTCAG
AGCATTAGCGGCGCCTATGAGAAAGTGCAGCTAAAAGTCAAAGCATTAGCGGCGCTTATGAGAAA
GCGTCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGTCGCTAAAAGTT
Found at i:7453 original size:123 final size:123
Alignment explanation
Indices: 7232--7510 Score: 364
Period size: 123 Copynumber: 2.3 Consensus size: 123
7222 CTAAAAGTTA
* * * * *
7232 GAGAAAGCGTCGCTAAAGGTCATAGCATTAACGACGCTTATGAGAAATCGTCGCTAAAGGTCAGA
1 GAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGACGCCTATGAGAAAGCGTCGCTAAAAGTCAGA
* ** *
7297 GCATTAGTGGCGCCTATGAGAAAGTGCAGCTAAAAGTCAAAGCATTAGTGGCGCTTAT
66 GCATTAGTGGAGCCTATGAGAAAACGCAGCTAAAAGTCAAAGCATTAGCGGCGCTTAT
* * **
7355 GAGAAAGCGTTGCTAAAGGTCAGAGCATTAGCGATGCCTATTTGAAAGCG-CTGCTAAAAGTCAG
1 GAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGACGCCTATGAGAAAGCGTC-GCTAAAAGTCAG
* * * *
7419 AGCATTAGTGGAGCTTATGAGAAAACGCCA-CTAAAAGTTAGAGTATTAGCGGCGCTTAT
65 AGCATTAGTGGAGCCTATGAGAAAACG-CAGCTAAAAGTCAAAGCATTAGCGGCGCTTAT
*
7478 GAGAAAGCGTCGTTAAAGGTCAGAGCATTAGCG
1 GAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCG
7511 TCGTTTATGG
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
122 1 0.01
123 132 0.98
124 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (123 bp):
GAGAAAGCGTCGCTAAAGGTCAGAGCATTAGCGACGCCTATGAGAAAGCGTCGCTAAAAGTCAGA
GCATTAGTGGAGCCTATGAGAAAACGCAGCTAAAAGTCAAAGCATTAGCGGCGCTTAT
Found at i:10993 original size:43 final size:43
Alignment explanation
Indices: 10935--11090 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 43
10925 GAAAATTGCA
* * * *
10935 CTAAAGATCATGTTCTATAGTGGCGCTTGTGTGAAAAACGCCG
1 CTAAAGACCAAGTTCTATAGTGGCGTTTGTGTGAAAAGCGCCG
* * * *
10978 CTAAAGACCAAGTTCTTTAGCGGCATTTGT-TGTAAAAGCGCTG
1 CTAAAGACCAAGTTCTATAGTGGCGTTTGTGTG-AAAAGCGCCG
* * * *
11021 CTAAAAACCATGGTT-TTTA-TCGGCGTTTGTGGGAAAAGCGCCG
1 CTAAAGACCA-AGTTCTATAGT-GGCGTTTGTGTGAAAAGCGCCG
* **
11064 CTAAAGACC-ATTTCTATACCGGCGTTT
1 CTAAAGACCAAGTTCTATAGTGGCGTTT
11091 TTCCGAAAAA
Statistics
Matches: 88, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
41 2 0.02
42 12 0.14
43 70 0.80
44 4 0.05
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (43 bp):
CTAAAGACCAAGTTCTATAGTGGCGTTTGTGTGAAAAGCGCCG
Found at i:11312 original size:43 final size:43
Alignment explanation
Indices: 11257--11413 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
11247 GAAAATCGCA
* * * *
11257 CTAAAGATCATGTTCTATAGTGGTGCTTGTGTGAAAAACGCCG
1 CTAAAGACCATGTTCTATAGTGGCGTTTGTGTGAAAAGCGCCG
* ** *
11300 CTAAAGACCATGTTCTTTAGCAGCATTTGT-TGTAAAAGCGCCG
1 CTAAAGACCATGTTCTATAGTGGCGTTTGTGTG-AAAAGCGCCG
* * *
11343 CTAAAAACCATGGTT-TTTA-TCGGCGTTTGTGGGAAAAGCGCCG
1 CTAAAGACCAT-GTTCTATAGT-GGCGTTTGTGTGAAAAGCGCCG
**
11386 CTAAAGACCATGTTCTATACCGGCGTTT
1 CTAAAGACCATGTTCTATAGTGGCGTTT
11414 TTCCGCAAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
42 5 0.05
43 83 0.90
44 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (43 bp):
CTAAAGACCATGTTCTATAGTGGCGTTTGTGTGAAAAGCGCCG
Found at i:14671 original size:23 final size:25
Alignment explanation
Indices: 14643--14688 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
14633 CCAATTAAGA
14643 AATTAT-TGTTTAGAA-TTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
14666 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
14689 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 8 0.40
25 6 0.30
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:25778 original size:18 final size:18
Alignment explanation
Indices: 25710--25804 Score: 75
Period size: 18 Copynumber: 5.2 Consensus size: 18
25700 GAAGAAATTA
* *
25710 CATACTGGCTCGTAAGAG
1 CATATTGGCTCGTTAGAG
* * * *
25728 TAATATTGACTCGTAAGGG
1 -CATATTGGCTCGTTAGAG
* *
25747 TATATTAGCTCGTTAGAG
1 CATATTGGCTCGTTAGAG
25765 CATATTGGCTCGTTTA-AG
1 CATATTGGCTCG-TTAGAG
* *
25783 CATACTAGCTCGTTAGAG
1 CATATTGGCTCGTTAGAG
25801 CATA
1 CATA
25805 CTGACTCGTA
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
17 3 0.05
18 41 0.67
19 17 0.28
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (18 bp):
CATATTGGCTCGTTAGAG
Found at i:25812 original size:18 final size:18
Alignment explanation
Indices: 25755--25813 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
25745 GGTATATTAG
* *
25755 CTCGTTAGAGCATATTGG
1 CTCGTTAGAGCATACTGA
25773 CTCGTTTA-AGCATACT-A
1 CTCG-TTAGAGCATACTGA
25790 GCTCGTTAGAGCATACTGA
1 -CTCGTTAGAGCATACTGA
25809 CTCGT
1 CTCGT
25814 ACGAGCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 3 0.09
18 28 0.80
19 4 0.11
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (18 bp):
CTCGTTAGAGCATACTGA
Found at i:25821 original size:18 final size:18
Alignment explanation
Indices: 25752--25806 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
25742 AAGGGTATAT
*
25752 TAGCTCGTTAGAGCATAT
1 TAGCTCGTTAGAGCATAC
*
25770 TGGCTCGTTTA-AGCATAC
1 TAGCTCG-TTAGAGCATAC
25788 TAGCTCGTTAGAGCATAC
1 TAGCTCGTTAGAGCATAC
25806 T
1 T
25807 GACTCGTACG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 3 0.09
18 26 0.81
19 3 0.09
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (18 bp):
TAGCTCGTTAGAGCATAC
Found at i:25821 original size:36 final size:36
Alignment explanation
Indices: 25710--25821 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 36
25700 GAAGAAATTA
* * * *
25710 CATACTGGCTCGTAAGAGTAATATTGACTCGTAAGGG
1 CATACTAGCTCGTTAGAG-CATATTGACTCGTAAGAG
* * * *
25747 TATATTAGCTCGTTAGAGCATATTGGCTCGTTTA-AG
1 CATACTAGCTCGTTAGAGCATATTGACTCG-TAAGAG
* *
25783 CATACTAGCTCGTTAGAGCATACTGACTCGTACGAG
1 CATACTAGCTCGTTAGAGCATATTGACTCGTAAGAG
25819 CAT
1 CAT
25822 TTCTGAATAA
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
35 1 0.02
36 42 0.71
37 16 0.27
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (36 bp):
CATACTAGCTCGTTAGAGCATATTGACTCGTAAGAG
Found at i:26444 original size:24 final size:26
Alignment explanation
Indices: 26406--26456 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
26396 GATAGTTCTA
26406 TAAAAGGTATAGGTAG-TTCTGTACT
1 TAAAAGGTATAGGTAGTTTCTGTACT
* *
26431 TAAAA-GTATCGGTAGTTTGTGTACT
1 TAAAAGGTATAGGTAGTTTCTGTACT
26456 T
1 T
26457 GTATTGGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (26 bp):
TAAAAGGTATAGGTAGTTTCTGTACT
Found at i:33341 original size:109 final size:108
Alignment explanation
Indices: 33149--33366 Score: 418
Period size: 109 Copynumber: 2.0 Consensus size: 108
33139 CTCCATGGAA
*
33149 CTAGCCCTTCTCGTACAAAGATAAACTCCTTCTCCTGATCCACCAAATTCACATAAAACTCCCTC
1 CTAGCCCTTCTCGTACAAAGATAAACTCCTGCTCCTGATCCACCAAATTCACATAAAACTCCCTC
33214 ACCATTGTGTGAGAGTAGCCAGAAGGATGGTCGCAGAAATATT
66 ACCATTGTGTGAGAGTAGCCAGAAGGATGGTCGCAGAAATATT
33257 CNTAGCCCTTCTCGTACAAAGATAAACTCCTGCTCCTGATCCACCAAATTCACATAAAACTCCCT
1 C-TAGCCCTTCTCGTACAAAGATAAACTCCTGCTCCTGATCCACCAAATTCACATAAAACTCCCT
33322 CACCATTGTGTGAGAGTAGCCAGAAGGATGGTCGCAGAAATATT
65 CACCATTGTGTGAGAGTAGCCAGAAGGATGGTCGCAGAAATATT
33366 C
1 C
33367 CCATCCGAGG
Statistics
Matches: 108, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
108 1 0.01
109 107 0.99
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (108 bp):
CTAGCCCTTCTCGTACAAAGATAAACTCCTGCTCCTGATCCACCAAATTCACATAAAACTCCCTC
ACCATTGTGTGAGAGTAGCCAGAAGGATGGTCGCAGAAATATT
Found at i:45415 original size:17 final size:18
Alignment explanation
Indices: 45386--45419 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
45376 AATTACATAC
45386 TGGCTCGTAAGGGCGTAT
1 TGGCTCGTAAGGGCGTAT
45404 TGGCTC-TAAGGGCGTA
1 TGGCTCGTAAGGGCGTA
45420 CCGGCTCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (18 bp):
TGGCTCGTAAGGGCGTAT
Found at i:45425 original size:17 final size:18
Alignment explanation
Indices: 45387--45428 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
45377 ATTACATACT
**
45387 GGCTCGTAAGGGCGTATT
1 GGCTCGTAAGGGCGTACC
45405 GGCTC-TAAGGGCGTACC
1 GGCTCGTAAGGGCGTACC
45422 GGCTCGT
1 GGCTCGT
45429 TAGAGCATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.14, C:0.24, G:0.38, T:0.24
Consensus pattern (18 bp):
GGCTCGTAAGGGCGTACC
Found at i:45451 original size:18 final size:18
Alignment explanation
Indices: 45381--45459 Score: 70
Period size: 18 Copynumber: 4.4 Consensus size: 18
45371 GAAGAAATTA
*
45381 CATACTGGCTCGTAAGGG
1 CATACTGGCTCGTAAGAG
* * *
45399 CGTATTGGCTC-TAAGGG
1 CATACTGGCTCGTAAGAG
* * *
45416 CGTACCGGCTCGTTAGAG
1 CATACTGGCTCGTAAGAG
*
45434 CATACTGGCTTGTAAGAG
1 CATACTGGCTCGTAAGAG
45452 CATTACTG
1 CA-TACTG
45460 AATAATGAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
17 15 0.31
18 29 0.59
19 5 0.10
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (18 bp):
CATACTGGCTCGTAAGAG
Found at i:46060 original size:24 final size:26
Alignment explanation
Indices: 46026--46076 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 26
46016 AAAAGTTGTA
46026 TAGAACGTATCGATAGTTC-TGTACT
1 TAGAACGTATCGATAGTTCGTGTACT
*
46051 TAGAA-GTATCGGTAGTTCGTGTACT
1 TAGAACGTATCGATAGTTCGTGTACT
46076 T
1 T
46077 GTATTGGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (26 bp):
TAGAACGTATCGATAGTTCGTGTACT
Found at i:49314 original size:102 final size:102
Alignment explanation
Indices: 49208--49421 Score: 284
Period size: 102 Copynumber: 2.1 Consensus size: 102
49198 CTTCGAAAAC
* * * * * **
49208 AAAGAACATTTATCGATTTTAAATAAGATATTTAATTACTTAGGTTCAAGGAAAGACCATGTCCA
1 AAAGAACATTTATCGATTTTAAATAAGATACTCAATTACTTAAGTTCAAAGAAAAACCATACCCA
* **** *
49273 ACACGTTAGGGCACAATTTTTTGTGTTCCCTAAAATT
66 ACACGTTAGGGCACAATTTCTCAAATTCCCTAAAATA
* * *
49310 AAAGAACATTTATCGATTTTAAATAGGATACTCAATTATTTAAGTTCAAAGAAAAATCATACCCA
1 AAAGAACATTTATCGATTTTAAATAAGATACTCAATTACTTAAGTTCAAAGAAAAACCATACCCA
49375 ACACGTTAGGGCACAATTTCTCAAATTCCCTAAAATA
66 ACACGTTAGGGCACAATTTCTCAAATTCCCTAAAATA
49412 AAAGAACATT
1 AAAGAACATT
49422 GTCTTGATTT
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
102 96 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (102 bp):
AAAGAACATTTATCGATTTTAAATAAGATACTCAATTACTTAAGTTCAAAGAAAAACCATACCCA
ACACGTTAGGGCACAATTTCTCAAATTCCCTAAAATA
Found at i:53442 original size:42 final size:42
Alignment explanation
Indices: 53337--53540 Score: 164
Period size: 42 Copynumber: 4.9 Consensus size: 42
53327 TGATGTATAA
* * * * *
53337 AAAGGAAGACTCTTGTCTCGGGTTGAGCATGAGAATT-TG-TAT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATAAG-ATTATGAT-T
*
53379 AAATGGATA-ACTCATGTCTCGAGATGAGAATAAGATTGTGATT
1 AAA-GGA-AGACTCATGTCTCGAGATGAGAATAAGATTATGATT
* ** * *
53422 AAATGAAGACTCATGTCTCGAGAAAAGAATGAGATTATGATC
1 AAAGGAAGACTCATGTCTCGAGATGAGAATAAGATTATGATT
* * * * *
53464 AAAGGAAGACTCATGCCTCGGGATGAGAATGAGAATATAATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATAAGATTATGATT
* * * *
53506 AAAGGAAGACTTATGACTCGATA-GAGCATAAGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATAAGATT
53541 GATTGAAGAG
Statistics
Matches: 131, Mismatches: 26, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
41 10 0.08
42 90 0.69
43 29 0.22
44 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATAAGATTATGATT
Found at i:63199 original size:17 final size:17
Alignment explanation
Indices: 63157--63238 Score: 60
Period size: 17 Copynumber: 4.8 Consensus size: 17
63147 GTAGCCGTAA
*
63157 TTTAATTGTCACTACAT
1 TTTAATTGTCATTACAT
*
63174 TCATT--TTGTCATTGCAT
1 T--TTAATTGTCATTACAT
*
63191 TTTAATTGTCACTACAT
1 TTTAATTGTCATTACAT
** *
63208 TTGCATTGTCATTAAAT
1 TTTAATTGTCATTACAT
*
63225 TTTCATTTGTCATT
1 TTT-AATTGTCATT
63239 GTAAATTAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
15 2 0.04
17 37 0.76
18 8 0.16
19 2 0.04
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (17 bp):
TTTAATTGTCATTACAT
Found at i:63227 original size:34 final size:33
Alignment explanation
Indices: 63157--63236 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 33
63147 GTAGCCGTAA
**
63157 TTTAATTGTCACTACATTCATTTTGTCATTGCAT
1 TTTAATTGTCACTACATTCA-TTTGTCATTAAAT
63191 TTTAATTGTCACTACATTTGCA-TTGTCATTAAAT
1 TTTAATTGTCACTACA-TT-CATTTGTCATTAAAT
*
63225 TTTCATTTGTCA
1 TTT-AATTGTCA
63237 TTGTAAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
34 29 0.73
35 9 0.22
36 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (33 bp):
TTTAATTGTCACTACATTCATTTGTCATTAAAT
Found at i:65183 original size:16 final size:16
Alignment explanation
Indices: 65162--65198 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
65152 TCAGGAACCC
65162 CATTTAATTATTATTG
1 CATTTAATTATTATTG
*
65178 CATTTAATTATTGTTG
1 CATTTAATTATTATTG
65194 CATTT
1 CATTT
65199 CATTTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (16 bp):
CATTTAATTATTATTG
Found at i:65589 original size:5 final size:5
Alignment explanation
Indices: 65579--65611 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
65569 AAATATTAAA
65579 ATAAT ATAAT ATAAT ATAAT ATAAT ATAA- ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
65612 GGATCAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:67237 original size:18 final size:18
Alignment explanation
Indices: 67211--67254 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
67201 AAAAATGGAC
*
67211 TTTGGTTTATTATTTATT
1 TTTGTTTTATTATTTATT
*
67229 TTTGTTTTATTTTTTATT
1 TTTGTTTTATTATTTATT
*
67247 TTGGTTTT
1 TTTGTTTT
67255 GGTCTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77
Consensus pattern (18 bp):
TTTGTTTTATTATTTATT
Found at i:70265 original size:22 final size:23
Alignment explanation
Indices: 70239--70295 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
70229 ATTTTTAGAA
* *
70239 TTTTTGGTACTTCGTATTGTTTTT
1 TTTTTGGTACTTC-CATTGTTTAT
*
70263 TTTTTGGTA-TTCCCTTG-TTAT
1 TTTTTGGTACTTCCATTGTTTAT
70284 TTTTTGGTACTT
1 TTTTTGGTACTT
70296 TGTCTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 12 0.41
22 5 0.17
23 3 0.10
24 9 0.31
ACGTcount: A:0.09, C:0.11, G:0.16, T:0.65
Consensus pattern (23 bp):
TTTTTGGTACTTCCATTGTTTAT
Found at i:70462 original size:20 final size:22
Alignment explanation
Indices: 70414--70466 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
70404 TGGTATTTTA
* *
70414 CTCATAATTTTTTTTATTTATC
1 CTCATAATTTTTTGTATTTAGC
*
70436 CTTATAATTTTTTGTA-TT-GC
1 CTCATAATTTTTTGTATTTAGC
70456 CTCATAATTTT
1 CTCATAATTTT
70467 GAGTATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 11 0.41
21 2 0.07
22 14 0.52
ACGTcount: A:0.23, C:0.13, G:0.04, T:0.60
Consensus pattern (22 bp):
CTCATAATTTTTTGTATTTAGC
Found at i:73997 original size:24 final size:24
Alignment explanation
Indices: 73970--74022 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
73960 TTTTTTTCTA
73970 TTTTGGTGCTGCTTTAACTGTTAT
1 TTTTGGTGCTGCTTTAACTGTTAT
* * * **
73994 TTTTGTTGTTGTTTTTGCTGTTAT
1 TTTTGGTGCTGCTTTAACTGTTAT
74018 TTTTG
1 TTTTG
74023 TTGTTTTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.08, G:0.21, T:0.64
Consensus pattern (24 bp):
TTTTGGTGCTGCTTTAACTGTTAT
Found at i:74008 original size:12 final size:12
Alignment explanation
Indices: 73988--74071 Score: 59
Period size: 12 Copynumber: 7.3 Consensus size: 12
73978 CTGCTTTAAC
*
73988 TGTTATTTTTGT
1 TGTTGTTTTTGT
*
74000 TGTTGTTTTTGC
1 TGTTGTTTTTGT
*
74012 TG-T-TATTT-T
1 TGTTGTTTTTGT
74021 TGTTG-TTTTGT
1 TGTTGTTTTTGT
* * *
74032 TATTATTTTTGC
1 TGTTGTTTTTGT
* *
74044 TATTGTTTTGGT
1 TGTTGTTTTTGT
*
74056 TGTTGTTTTTAT
1 TGTTGTTTTTGT
74068 TGTT
1 TGTT
74072 TGGATGCTAT
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
9 2 0.04
10 8 0.15
11 5 0.09
12 39 0.72
ACGTcount: A:0.07, C:0.02, G:0.19, T:0.71
Consensus pattern (12 bp):
TGTTGTTTTTGT
Found at i:74030 original size:32 final size:32
Alignment explanation
Indices: 73994--74068 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
73984 TAACTGTTAT
* * * *
73994 TTTTGTTGTTGTTTTTGCTGTTATTTTTGTTG
1 TTTTGTTATTATTTTTGCTATTATTTTGGTTG
*
74026 TTTTGTTATTATTTTTGCTATTGTTTTGGTTG
1 TTTTGTTATTATTTTTGCTATTATTTTGGTTG
*
74058 TTGTTTTTATT
1 TT-TTGTTATT
74069 GTTTGGATGC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 29 0.81
33 7 0.19
ACGTcount: A:0.07, C:0.03, G:0.19, T:0.72
Consensus pattern (32 bp):
TTTTGTTATTATTTTTGCTATTATTTTGGTTG
Found at i:75046 original size:21 final size:19
Alignment explanation
Indices: 75022--75060 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
75012 AAAGAAAGAG
75022 AAATAATGTAAAAGAATAATA
1 AAATAAT-TAAAA-AATAATA
75043 AAATAATTAAAAAATAAT
1 AAATAATTAAAAAATAAT
75061 TTTTTTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
AAATAATTAAAAAATAATA
Found at i:77701 original size:25 final size:26
Alignment explanation
Indices: 77659--77715 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
77649 TAGGATGACT
77659 ATATAAAAAATTTCAATAAATAAAA-A
1 ATATAAAAAATTTCAAT-AATAAAATA
*
77685 ATAT-AAAAATATT-AATATTAAAATA
1 ATATAAAAAAT-TTCAATAATAAAATA
77710 ATATAA
1 ATATAA
77716 TATAAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 14 0.52
26 7 0.26
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
ATATAAAAAATTTCAATAATAAAATA
Found at i:77722 original size:14 final size:14
Alignment explanation
Indices: 77674--77723 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
77664 AAAAATTTCA
*
77674 ATAAATAA-AAAAT
1 ATAAATAATATAAT
77687 ATAAA-AATATTAAT
1 ATAAATAATA-TAAT
77701 ATTAAAATAATATAAT
1 A-T-AAATAATATAAT
77717 ATAAATA
1 ATAAATA
77724 TTTTTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.19
14 9 0.29
15 2 0.06
16 8 0.26
17 4 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAATAATATAAT
Found at i:80519 original size:12 final size:12
Alignment explanation
Indices: 80490--80528 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
80480 AACTGCGACT
*
80490 TTTTTATTTTGTA
1 TTTTT-TTTTGAA
*
80503 CTTTTTTTTGAA
1 TTTTTTTTTGAA
80515 TTTTTTTTTGAA
1 TTTTTTTTTGAA
80527 TT
1 TT
80529 ATAAGAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:84993 original size:13 final size:13
Alignment explanation
Indices: 84975--85000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84965 CATTTCCAGG
84975 TCATTTTCATTTT
1 TCATTTTCATTTT
84988 TCATTTTCATTTT
1 TCATTTTCATTTT
85001 GGAGAAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:85044 original size:51 final size:49
Alignment explanation
Indices: 84979--85082 Score: 136
Period size: 51 Copynumber: 2.1 Consensus size: 49
84969 TCCAGGTCAT
* *
84979 TTTCATTTTTCATTTTCATTTTGGAGAAAACCACATTCATCTTCAAATG
1 TTTCATTTTCCATTTTCATTTTGGAGAAAACCACAATCATCTTCAAATG
** * *
85028 ATTTCATTTCTCCATTTTCATTTTTTAGAAAACCATAATCATTTTCAAATG
1 -TTTCATTT-TCCATTTTCATTTTGGAGAAAACCACAATCATCTTCAAATG
85079 TTTC
1 TTTC
85083 CCTTTTCTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 12 0.26
51 35 0.74
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (49 bp):
TTTCATTTTCCATTTTCATTTTGGAGAAAACCACAATCATCTTCAAATG
Found at i:86424 original size:35 final size:35
Alignment explanation
Indices: 86281--86432 Score: 114
Period size: 35 Copynumber: 4.3 Consensus size: 35
86271 ACGCCAATCC
* **
86281 TCTTTCAATTAACATCCCGCCACAACACCGATACT
1 TCTTTCAATTAACATCTCTTCACAACACCGATACT
* *
86316 TCTTCCAATTAAC-T-TCTTGCCATAACACCGATACT
1 TCTTTCAATTAACATCTCTT--CACAACACCGATACT
* * ** * *
86351 TCATTC-ATCTAACATCT-TTCCTCAATGCTGATATT
1 TCTTTCAAT-TAACATCTCTT-CACAACACCGATACT
* *
86386 TCTTTCGATTAACATCTCTTCACAACATCGATACT
1 TCTTTCAATTAACATCTCTTCACAACACCGATACT
*
86421 TCTTACAATTAA
1 TCTTTCAATTAA
86433 TATCAAGAAG
Statistics
Matches: 88, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
33 1 0.01
34 3 0.03
35 76 0.86
36 7 0.08
37 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.36
Consensus pattern (35 bp):
TCTTTCAATTAACATCTCTTCACAACACCGATACT
Found at i:88487 original size:21 final size:22
Alignment explanation
Indices: 88426--88477 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
88416 GAAACCAAAC
* *
88426 AAATTTAGGAAAACAAAAATAAG
1 AAATTTAAGAACA-AAAAATAAG
88449 AAATTTAAGAACAAAAAATAA-
1 AAATTTAAGAACAAAAAATAAG
*
88470 ATATTTAA
1 AAATTTAA
88478 AATAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 7 0.27
22 8 0.31
23 11 0.42
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.23
Consensus pattern (22 bp):
AAATTTAAGAACAAAAAATAAG
Found at i:95553 original size:75 final size:75
Alignment explanation
Indices: 95470--95621 Score: 268
Period size: 75 Copynumber: 2.0 Consensus size: 75
95460 AAATAAAAAG
*
95470 AATATTTAAAGTCAAGTTTTAATAATCCTCTACAAATCCAATCAAAACTCATAATCTAAAAACAA
1 AATATTTAAAGCCAAGTTTTAATAATCCTCTACAAATCCAATCAAAACTCATAATCTAAAAACAA
95535 AAGAGAAATA
66 AAGAGAAATA
* * *
95545 AATATTTAATGCCAAGTTTTAATAATCCTTTACAAATCCAATCAAAACTCATAATCTAGAAACAA
1 AATATTTAAAGCCAAGTTTTAATAATCCTCTACAAATCCAATCAAAACTCATAATCTAAAAACAA
95610 AAGAGAAATA
66 AAGAGAAATA
95620 AA
1 AA
95622 ACGATAATTA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (75 bp):
AATATTTAAAGCCAAGTTTTAATAATCCTCTACAAATCCAATCAAAACTCATAATCTAAAAACAA
AAGAGAAATA
Found at i:96786 original size:20 final size:19
Alignment explanation
Indices: 96750--96798 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
96740 ATCATGTATT
*
96750 TTATAATTTT-AAGTAATATA
1 TTAT-ATTTTAAAATAAT-TA
96770 TTATATTTTAAAATAATTA
1 TTATATTTTAAAATAATTA
96789 TTATATTTTA
1 TTATATTTTA
96799 TTATTTAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATATTTTAAAATAATTA
Found at i:97359 original size:126 final size:123
Alignment explanation
Indices: 97199--97672 Score: 403
Period size: 126 Copynumber: 3.7 Consensus size: 123
97189 CAACACTATG
*
97199 CCAACACTATGGC-GACACTTTCCTAAGTGTTGGGATAAACTTGTCGGCATACGCTTTGGTCAAC
1 CCAACACTAT-ACTGACACTTTCCTAAGTGTTGGGATAAACTTGTCGGCATACGCTTTGG-CAAC
* * *
97263 TCTTTGTAGAAAGGTTGAGATATGCATGCTTAAGGCAACGCTTAAATAGGAGTTGGCTTTGT
64 TCTTTGTATAAA-GTTG-GATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGCTTTGT
* * * * ** * *
97325 TCAATACTATACTGACACTTTCCTAAGTGTTGGGATAGAGTTG-CTAACATATGTTTTGGCCAAC
1 CCAACACTATACTGACACTTTCCTAAGTGTTGGGATAAACTTGTC-GGCATACGCTTTGG-CAAC
* *
97389 TCTTTGTATAAAAGTTGGGATATGCATGCCTAAGGCAACGCATAAATAAGAGTCGGCTTTGT
64 TCTTTGTAT-AAAGTT-GGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGCTTTGT
* *
97451 CCAACACTATGCTGACAATTTTGGGCCGACACTTTCTTAAGTGTTGGAATAAACTTGTCGGCATA
1 CCAACACTA---T-AC-----T-----GACACTTTCCTAAGTGTTGGGATAAACTTGTCGGCATA
* * * * *
97516 CGCCTTAGCATACTCTTTGTATAATAGTTGGAATATGTATACCTAAGGCAACCCTTAAATAAGAG
52 CGCTTTGGCA-ACTCTTTGTATAA-AGTTGG-ATATGCATGCCTAAGGCAACGCTTAAATAAGAG
*
97581 TTGACTTTGT
114 TTGGCTTTGT
* * * * * * * * * *
97591 CCAACACTATGCTAACACTTTCCTAAATGTTGGGATAGACTTGCCGACAAATGTTTTAGCCAACT
1 CCAACACTATACTGACACTTTCCTAAGTGTTGGGATAAACTTGTCGGCATACGCTTT-GGCAACT
97656 CTTTGTATAAGAGTTGG
65 CTTTGTATAA-AGTTGG
97673 CAGATCAATT
Statistics
Matches: 277, Mismatches: 48, Indels: 46
0.75 0.13 0.12
Matches are distributed among these distances:
125 2 0.01
126 160 0.58
127 6 0.02
129 1 0.00
130 2 0.01
131 1 0.00
135 1 0.00
136 1 0.00
137 1 0.00
139 6 0.02
140 95 0.34
141 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (123 bp):
CCAACACTATACTGACACTTTCCTAAGTGTTGGGATAAACTTGTCGGCATACGCTTTGGCAACTC
TTTGTATAAAGTTGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGCTTTGT
Found at i:97611 original size:266 final size:260
Alignment explanation
Indices: 97082--97672 Score: 728
Period size: 266 Copynumber: 2.2 Consensus size: 260
97072 TTTACGGCGT
* * *
97082 CACTTTTCTAAGTGTTGGGATAGACTTGC-CAA-GCTTTGGCCAACTCTTTGTAT-AAGGATTGG
1 CACTTTCCTAAGTGTTGGGATAGACTTGCACAATGTTTTGGCCAACTCTTTGTATAAAAG-TTGG
* *
97144 AATACGCATGCCTAAGACAATGATTAAATAAGAGTTGGCTTTGTCCAACACTATGCCAACACTAT
65 AATACGCATGCCTAAGACAACGATTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACACTAT
* * *
97209 GGCGACACTTTCCTAAGTGTTGGGATAAACTTGTCGGCATACGCTTTGGTCAACTCTTTGTAGAA
130 GGCGACACTTTCCTAAGTGTTGGAATAAACTTGTCGGCATACGCCTTAGTCAACTCTTTGTAGAA
* * * * * * * *
97274 AGGTTGAGATATGCATGCTTAAGGCAACGCTTAAATAGGAGTTGGCTTTGTTCAATACTATACTG
195 AGGTTGAGATATGCATACCTAAGGCAACCCTTAAATAAGAGTTGACTTTGTCCAACACTATACTA
97339 A
260 A
*
97340 CACTTTCCTAAGTGTTGGGATAGAGTTGCTAACATATGTTTTGGCCAACTCTTTGTATAAAAGTT
1 CACTTTCCTAAGTGTTGGGATAGACTTGC--ACA-ATGTTTTGGCCAACTCTTTGTATAAAAGTT
* * * **
97405 GGGATATGCATGCCTAAGGCAACGCA-TAAATAAGAGTCGGCTTTGTCCAACACTATGCTGACAA
63 GGAATACGCATGCCTAAGACAACG-ATTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAAC-A
* * *
97469 TTTTGGGCCGACACTTTCTTAAGTGTTGGAATAAACTTGTCGGCATACGCCTTAG-CATACTCTT
126 CTAT-GG-CGACACTTTCCTAAGTGTTGGAATAAACTTGTCGGCATACGCCTTAGTCA-ACTCTT
* *
97533 TGTATAATA-GTTG-GAATATGTATACCTAAGGCAACCCTTAAATAAGAGTTGACTTTGTCCAAC
188 TGTAGAA-AGGTTGAG-ATATGCATACCTAAGGCAACCCTTAAATAAGAGTTGACTTTGTCCAAC
*
97596 ACTATGCTAA
251 ACTATACTAA
* * *
97606 CACTTTCCTAAATGTTGGGATAGACTTGCCGACAAATGTTTTAGCCAACTCTTTGTATAAGAGTT
1 CACTTTCCTAAGTGTTGGGATAGACTTG-C-AC-AATGTTTTGGCCAACTCTTTGTATAAAAGTT
97671 GG
63 GG
97673 CAGATCAATT
Statistics
Matches: 285, Mismatches: 33, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
258 27 0.09
261 2 0.01
262 1 0.00
263 75 0.26
264 7 0.02
265 5 0.02
266 165 0.58
267 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (260 bp):
CACTTTCCTAAGTGTTGGGATAGACTTGCACAATGTTTTGGCCAACTCTTTGTATAAAAGTTGGA
ATACGCATGCCTAAGACAACGATTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACACTATG
GCGACACTTTCCTAAGTGTTGGAATAAACTTGTCGGCATACGCCTTAGTCAACTCTTTGTAGAAA
GGTTGAGATATGCATACCTAAGGCAACCCTTAAATAAGAGTTGACTTTGTCCAACACTATACTAA
Found at i:98028 original size:35 final size:35
Alignment explanation
Indices: 97989--98070 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 35
97979 CATAAACCAT
*
97989 AACCCCAAACCCTTAAACCCTA-AGCATGAACATTA
1 AACCCCAAACCCTTAAACCCTATAGCATGAAC-TCA
* *
98024 AACCCCAAA-CCTTAAACCTTATATCATGAACTCA
1 AACCCCAAACCCTTAAACCCTATAGCATGAACTCA
*
98058 AACCCTAAACCCT
1 AACCCCAAACCCT
98071 AAGGTTCAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 21 0.51
35 20 0.49
ACGTcount: A:0.41, C:0.35, G:0.04, T:0.20
Consensus pattern (35 bp):
AACCCCAAACCCTTAAACCCTATAGCATGAACTCA
Found at i:98443 original size:36 final size:36
Alignment explanation
Indices: 98398--98788 Score: 384
Period size: 36 Copynumber: 10.9 Consensus size: 36
98388 ACTTTAGACG
* *
98398 GGTCTATCCCAACTTTTTTAAGGTTGTCTTAGACAA
1 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
* * * *
98434 GGTTTATCCCAA---TTTTAAAGTTACCTTAGAC-G
1 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
* * * *
98466 GGTTTATCCCAACCTTTTTAAGGTCGCTTTGGACAA
1 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
* *
98502 GGTCTATCCTAACCTTTTTATGGTTGCCTTAGACAA
1 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
* * *
98538 GATCTATCTCAACCTTTTTTAAAGGTTGCCTCAGACAA
1 GGTCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAA
* *
98576 GGACTATCCCAACCTTTTTAAGGTTGCCTTAAACAA
1 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
* * * * * *
98612 TGTTTATCCTAACATTTTTAAGGTTGCGTTAGAC-G
1 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
** * *
98647 GGTCTATCTTAACTTTTTTAAAAAGTTGCCTTAGACAA
1 GGTCTATCCCAACCTTTTT--AAGGTTGCCTTAGACAA
*
98685 -GACT-TACCTCAACCTTTTTAAGGTTGCCTTAGAC-A
1 GGTCTAT-CC-CAACCTTTTTAAGGTTGCCTTAGACAA
*
98720 GGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACAA
1 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
* * *
98756 AGTTTATCCCAACCTTTTTAAGGTTACCTTAGA
1 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGA
98789 TGGGTTTATC
Statistics
Matches: 288, Mismatches: 53, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
32 12 0.04
33 16 0.06
35 54 0.19
36 144 0.50
37 28 0.10
38 34 0.12
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (36 bp):
GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
Found at i:98466 original size:68 final size:68
Alignment explanation
Indices: 98391--98780 Score: 221
Period size: 73 Copynumber: 5.5 Consensus size: 68
98381 TATCCCAACT
*
98391 TTAGACGGGTCTATCCCAACTTTTTTAAGGTTGTCTTAGACAAGGTTTATCCCAA-TTTTAAAGT
1 TTAGACGGGTCTATCCCAACTTTTTTAAGGTTG-CTTAGACAAGGTCTATCCCAACTTTTAAAGT
98455 TACC
65 TACC
* * * * * **
98459 TTAGACGGGTTTATCCCAACCTTTTTAAGGTCGCTTTGGACAAGGTCTATCCTAACCTTTTTATG
1 TTAGACGGGTCTATCCCAACTTTTTTAAGGTTGC-TTAGACAAGGTCTATCCCAA-C-TTTTAAA
*
98524 GTTGCC
63 GTTACC
* * * * *
98530 TTAGACAAGATCTATCTCAACCTTTTTTAAAGGTTGCCTCAGACAAGGACTATCCCAACCTTTTT
1 TTAGAC-GGGTCTATCCCAA-CTTTTTT-AAGGTTG-CTTAGACAAGGTCTATCCCAA-C-TTTT
* *
98595 AAGGTTGCC
60 AAAGTTACC
* ** * * * * **
98604 TTAAACAATGTTTATCCTAACATTTTTAAGGTTGCGTTAGAC-GGGTCTATCTTAACTTTTTTAA
1 TTAGAC-GGGTCTATCCCAACTTTTTTAAGGTTGC-TTAGACAAGGTCTATCCCAAC--TTTT--
*
98668 AAAGTTGCC
60 AAAGTTACC
** * *
98677 TTAGACAAGACT-TACCTCAACCTTTTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTA
1 TTAGACGGGTCTAT-CC-CAACTTTTTTAAGGTTG-CTTAGACAAGGTCTATCCCAA-C-TTTTA
* **
98740 AGGTTGTC
61 AAGTTACC
** * *
98748 TTAGACAAAGTTTATCCCAACCTTTTTAAGGTT
1 TTAGAC-GGGTCTATCCCAACTTTTTTAAGGTT
98781 ACCTTAGATG
Statistics
Matches: 258, Mismatches: 46, Indels: 33
0.77 0.14 0.10
Matches are distributed among these distances:
67 1 0.00
68 47 0.18
70 1 0.00
71 61 0.24
72 32 0.12
73 62 0.24
74 53 0.21
75 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (68 bp):
TTAGACGGGTCTATCCCAACTTTTTTAAGGTTGCTTAGACAAGGTCTATCCCAACTTTTAAAGTT
ACC
Found at i:98475 original size:32 final size:33
Alignment explanation
Indices: 98391--98486 Score: 95
Period size: 33 Copynumber: 2.8 Consensus size: 33
98381 TATCCCAACT
* * **
98391 TTAGACGGGTCTATCCCAACTTTTTTAAGGTTGTC
1 TTAGACGGGTTTATCCCAA--TTTTTAAAGTTACC
*
98426 TTAGACAAGGTTTATCCCAA-TTTTAAAGTTACC
1 TTAGAC-GGGTTTATCCCAATTTTTAAAGTTACC
98459 TTAGACGGGTTTATCCCAACCTTTTTAA
1 TTAGACGGGTTTATCCCAA--TTTTTAA
98487 GGTCGCTTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
32 12 0.24
33 16 0.31
35 12 0.24
36 11 0.22
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (33 bp):
TTAGACGGGTTTATCCCAATTTTTAAAGTTACC
Found at i:98678 original size:73 final size:70
Alignment explanation
Indices: 98402--98800 Score: 331
Period size: 71 Copynumber: 5.6 Consensus size: 70
98392 TAGACGGGTC
* * * * * *
98402 TATCCCAACTTTTTTAAGGTTGTCTTAGACAAGGTTTATCCCAA---TTTTAAAGTTACCTTAGA
1 TATCCTAACCTTTTTAAGGTTGCCTTAGAC-GGGTCTATCCCAACCTTTTTAAAGTTGCCTTAGA
**
98464 CGGGTT
65 CAAGTT
* * * * * * **
98470 TATCCCAACCTTTTTAAGGTCGCTTTGGACAAGGTCTATCCTAACCTTTTTATGGTTGCCTTAGA
1 TATCCTAACCTTTTTAAGGTTGCCTTAGAC-GGGTCTATCCCAACCTTTTTAAAGTTGCCTTAGA
*
98535 CAAGATC
65 CAAG-TT
* * * *
98542 TAT-CTCAACCTTTTTTAAAGGTTGCCTCAGACAAGGACTATCCCAACCTTTTTAAGGTTGCCTT
1 TATCCT-AACC-TTTTT-AAGGTTGCCTTAGAC-GGGTCTATCCCAACCTTTTTAAAGTTGCCTT
*
98606 AAACAATGTT
62 AGACAA-GTT
* * ** *
98616 TATCCTAACATTTTTAAGGTTGCGTTAGACGGGTCTATCTTAACTTTTTTAAAAAGTTGCCTTAG
1 TATCCTAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTT--AAAGTTGCCTTAG
*
98681 ACAAGACT
64 ACAAG-TT
* * *
98689 TA-CCTCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGA
1 TATCCT-AACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAAGTTGCCTTAGA
98753 CAAAGTT
65 C-AAGTT
* * * *
98760 TATCCCAACCTTTTTAAGGTTACCTTAGATGGGTTTATCCC
1 TATCCTAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCC
98801 TGTAACCCCT
Statistics
Matches: 268, Mismatches: 48, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
68 37 0.14
71 80 0.30
72 30 0.11
73 66 0.25
74 52 0.19
75 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (70 bp):
TATCCTAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTAAAGTTGCCTTAGAC
AAGTT
Found at i:98761 original size:144 final size:143
Alignment explanation
Indices: 98407--98799 Score: 447
Period size: 144 Copynumber: 2.7 Consensus size: 143
98397 GGGTCTATCC
* * * * * **
98407 CAACTTTTTTAAGGTTGTCTTAGACAAGGTTTATCCCAA---TTTTAAAGTTACCTTAGAC-GGG
1 CAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAAG
* * * * **
98468 TTTATCCCAACCTTTTTAAGGTCGCTTTGGACAAGGTCTATCCTAACCTTTTTATGGTTGCCTTA
66 TTTATCCCAACCTTTTTAAGGTTGCCTTAGAC-GGGTCTATCCTAACCTTTTTAAAGTTGCCTTA
*
98533 GACAAGATCTATCT
130 GACAAGATCTACCT
* * *
98547 CAACCTTTTTTAAAGGTTGCCTCAGACAAGGACTATCCCAACCTTTTTAAGGTTGCCTTAAACAA
1 CAACC-TTTTT-AAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
* * * * * *
98612 TGTTTATCCTAACATTTTTAAGGTTGCGTTAGACGGGTCTATCTTAACTTTTTTAAAAAGTTGCC
64 AGTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCTAACCTTTTT--AAAGTTGCC
98677 TTAGACAAGA-CTTACCT
127 TTAGACAAGATC-TACCT
*
98694 CAACCTTTTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAAG
1 CAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAAG
* * *
98758 TTTATCCCAACCTTTTTAAGGTTACCTTAGATGGGTTTATCC
66 TTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCC
98800 CTGTAACCCC
Statistics
Matches: 211, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
140 4 0.02
141 5 0.02
142 25 0.12
144 70 0.33
145 47 0.22
146 34 0.16
147 26 0.12
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (143 bp):
CAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAAG
TTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCTAACCTTTTTAAAGTTGCCTTAG
ACAAGATCTACCT
Found at i:98774 original size:109 final size:109
Alignment explanation
Indices: 98398--98776 Score: 391
Period size: 109 Copynumber: 3.5 Consensus size: 109
98388 ACTTTAGACG
* * *
98398 GGTCTATCCCAACTTTTTTAAGGTTGTCTTAGACAAGGTTTATCCCAA---TTTT--AAAGTTAC
1 GGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACAA-GTCTATCCCAACCTTTTTAAAAAGTTGC
* ** * * *
98458 CTTAGAC-GGGTTTATCCCAACCTTTTTAAGGTCGCTTTGGACAA
65 CTTAGACAAGACTTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
* * * * * *
98502 GGTCTATCCTAACCTTTTTATGGTTGCCTTAGACAAGATCTATCTCAACCTTTTTTAAAGGTTGC
1 GGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAG-TCTATCCCAACCTTTTTAAAAAGTTGC
* *
98567 CTCAGACAAGGAC-TATCCCAACCTTTTTAAGGTTGCCTTAAACAA
65 CTTAGACAA-GACTTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
* * * * ** ** *
98612 TGTTTATCCTAACATTTTTAAGGTTG-CGTTAGACGGGTCTATCTTAACTTTTTTAAAAAGTTGC
1 GGTCTATCCCAACCTTTTTAAGGTTGTC-TTAGACAAGTCTATCCCAACCTTTTTAAAAAGTTGC
98676 CTTAGACAAGACTTA-CCTCAACCTTTTTAAGGTTGCCTTAGAC-A
65 CTTAGACAAGACTTATCC-CAACCTTTTTAAGGTTGCCTTAGACAA
*
98720 GGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAAGTTTATCCCAACCTTTTTAA
1 GGTCTATCCCAACCTTTTTAAGGTTGTCTTAGAC-AAGTCTATCCCAACCTTTTTAA
98777 GGTTACCTTA
Statistics
Matches: 224, Mismatches: 38, Indels: 21
0.79 0.13 0.07
Matches are distributed among these distances:
103 1 0.00
104 40 0.18
107 4 0.02
108 34 0.15
109 87 0.39
110 57 0.25
111 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (109 bp):
GGTCTATCCCAACCTTTTTAAGGTTGTCTTAGACAAGTCTATCCCAACCTTTTTAAAAAGTTGCC
TTAGACAAGACTTATCCCAACCTTTTTAAGGTTGCCTTAGACAA
Found at i:98939 original size:15 final size:16
Alignment explanation
Indices: 98919--98951 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
98909 GTTAGAGCAA
98919 TTATTTTA-TTTTATT
1 TTATTTTACTTTTATT
*
98934 TTATTTTACTTTTGTT
1 TTATTTTACTTTTATT
98950 TT
1 TT
98952 GTAAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (16 bp):
TTATTTTACTTTTATT
Found at i:99249 original size:37 final size:35
Alignment explanation
Indices: 99191--99519 Score: 155
Period size: 37 Copynumber: 8.7 Consensus size: 35
99181 GTGTCTATTT
99191 CAACTTTTTTAAGGTTGCCTTAGACGGATCTATCC
1 CAACTTTTTTAAGGTTGCCTTAGACGGATCTATCC
* *
99226 TAACTTTTGTTAAAGGTTGCCTTAGACAAGG-TTTATCC
1 CAACTTTT-TT-AAGGTTGCCTTAGAC--GGATCTATCC
* *
99264 CAACCTTTTTAAGGTTGCCTTAGATGGGA-CTATCC
1 CAACTTTTTTAAGGTTGCCTTAGA-CGGATCTATCC
* * * *
99299 CAACTTTTTTTAAAGGTTGTCTTGGAC-AATGCTTATAC
1 CAAC-TTTTTT-AAGGTTGCCTTAGACGGAT-C-TATCC
** * * *
99337 CAACCCTTTTAAGGTTGCCTTAGAC-TAGTTTATTC
1 CAACTTTTTTAAGGTTGCCTTAGACGGA-TCTATCC
*
99372 CAACTTTTTTAAAAGATTGCCTTAGAAATGCCTTAGACGAGTCTATCC
1 CAACTTTTTT--AAGGTTGCCTTAG--A---C---G--GA-TCTATCC
* ** *
99420 TAACCTTTTTTAAAAGGTTATCTTAGACAAGG-TTTATCC
1 CAA-CTTTTTT--AAGGTTGCCTTAGAC--GGATCTATCC
* * * *
99459 CAACCTTTTTAAGGTTGTCTTAGAAGGGTCTATCC
1 CAACTTTTTTAAGGTTGCCTTAGACGGATCTATCC
99494 CAACTTTTTTTAAAGGTTGCCTTAGA
1 CAAC-TTTTTT-AAGGTTGCCTTAGA
99520 TAATGTCTAT
Statistics
Matches: 227, Mismatches: 38, Indels: 56
0.71 0.12 0.17
Matches are distributed among these distances:
34 2 0.01
35 41 0.18
36 53 0.23
37 60 0.26
38 26 0.11
39 11 0.05
41 1 0.00
42 1 0.00
43 2 0.01
44 1 0.00
47 1 0.00
48 9 0.04
49 19 0.08
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (35 bp):
CAACTTTTTTAAGGTTGCCTTAGACGGATCTATCC
Found at i:99315 original size:73 final size:72
Alignment explanation
Indices: 99191--99397 Score: 243
Period size: 73 Copynumber: 2.8 Consensus size: 72
99181 GTGTCTATTT
* * * *
99191 CAACTTTTTTAAGGTTGCCTTAGACGGATCTATCCTAACTTTTGTTAAAGGTTGCCTTAGACAAG
1 CAACCTTTTTAAGGTTGCCTTAGATGGA-CTATCCCAACTTTTTTTAAAGGTTGCCTTAGACAAG
* *
99256 GTTTATCC
65 GCTTATAC
* * *
99264 CAACCTTTTTAAGGTTGCCTTAGATGGGACTATCCCAACTTTTTTTAAAGGTTGTCTTGGACAAT
1 CAACCTTTTTAAGGTTGCCTTAGAT-GGACTATCCCAACTTTTTTTAAAGGTTGCCTTAGACAAG
99329 GCTTATAC
65 GCTTATAC
* * ** * * *
99337 CAACCCTTTTAAGGTTGCCTTAGACTAGTTTATTCCAACTTTTTTAAAAGATTGCCTTAGA
1 CAACCTTTTTAAGGTTGCCTTAGA-TGGACTATCCCAACTTTTTTTAAAGGTTGCCTTAGA
99398 AATGCCTTAG
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
73 110 0.96
74 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (72 bp):
CAACCTTTTTAAGGTTGCCTTAGATGGACTATCCCAACTTTTTTTAAAGGTTGCCTTAGACAAGG
CTTATAC
Found at i:99445 original size:49 final size:48
Alignment explanation
Indices: 99352--99446 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 48
99342 CTTTTAAGGT
* * *
99352 TGCCTTAGACTAGTTTATTCCAACTTTTTTAAAAGATTGCCTTAGAAA
1 TGCCTTAGACGAGTCTATTCCAACTTTTTTAAAAGATTACCTTAGAAA
* *
99400 TGCCTTAGACGAGTCTA-TCCTAACCTTTTTTAAAAGGTTATCTTAGA
1 TGCCTTAGACGAGTCTATTCC-AA-CTTTTTTAAAAGATTACCTTAGA
99447 CAAGGTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
47 3 0.08
48 17 0.43
49 20 0.50
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (48 bp):
TGCCTTAGACGAGTCTATTCCAACTTTTTTAAAAGATTACCTTAGAAA
Found at i:99497 original size:122 final size:122
Alignment explanation
Indices: 99279--99524 Score: 305
Period size: 122 Copynumber: 2.0 Consensus size: 122
99269 TTTTTAAGGT
* * * * * *
99279 TGCCTTAGATGGGACTATCCCAACTTTTTTTAAAGGTTGTCTTGGACAATGCTTATACCAACCCT
1 TGCCTTAGACGAGACTATCCCAACTTTTTTAAAAGGTTATCTTAGACAAGGCTTATACCAACCCT
** * *
99344 TTTAAGGTTGCCTTAGACTAGTTTATTCCAACTTTTTTAAAAGATTGCCTTAGA-AA
66 TTTAAGGTTGCCTTAGAAGAGTCTATCCCAACTTTTTTAAAAGATTGCCTTAGATAA
* * * * *
99400 TGCCTTAGACGAGTCTATCCTAACCTTTTTTAAAAGGTTATCTTAGACAAGGTTTATCCCAACCT
1 TGCCTTAGACGAGACTATCCCAA-CTTTTTTAAAAGGTTATCTTAGACAAGGCTTATACCAACCC
* * * *
99465 TTTTAAGGTTGTCTTAGAAGGGTCTATCCCAACTTTTTTTAAAGGTTGCCTTAGATAA
65 TTTTAAGGTTGCCTTAGAAGAGTCTATCCCAACTTTTTTAAAAGATTGCCTTAGATAA
99523 TG
1 TG
99525 TCTATCTCAA
Statistics
Matches: 104, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
121 19 0.18
122 81 0.78
123 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (122 bp):
TGCCTTAGACGAGACTATCCCAACTTTTTTAAAAGGTTATCTTAGACAAGGCTTATACCAACCCT
TTTAAGGTTGCCTTAGAAGAGTCTATCCCAACTTTTTTAAAAGATTGCCTTAGATAA
Found at i:99536 original size:38 final size:37
Alignment explanation
Indices: 99412--99564 Score: 143
Period size: 36 Copynumber: 4.2 Consensus size: 37
99402 CCTTAGACGA
* * *
99412 GTCTATCCTAACCTTTTTTAAAAGGTTATCTTAGACAAG
1 GTCTATCCCAA-CTTTTTTTAAAGGTTGTCTTAGA-AAG
* * *
99451 GTTTATCCCAAC-CTTTTT-AAGGTTGTCTTAGAAGG
1 GTCTATCCCAACTTTTTTTAAAGGTTGTCTTAGAAAG
* *
99486 GTCTATCCCAACTTTTTTTAAAGGTTGCCTTAGATAAT
1 GTCTATCCCAACTTTTTTTAAAGGTTGTCTTAGA-AAG
* * * *
99524 GTCTATCTCAAC-TTTTCT-AAGGTTGTTTTAGACAG
1 GTCTATCCCAACTTTTTTTAAAGGTTGTCTTAGAAAG
99559 GTCTAT
1 GTCTAT
99565 TTCGACCTTT
Statistics
Matches: 94, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
35 20 0.21
36 30 0.32
37 22 0.23
38 13 0.14
39 9 0.10
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (37 bp):
GTCTATCCCAACTTTTTTTAAAGGTTGTCTTAGAAAG
Found at i:99545 original size:73 final size:74
Alignment explanation
Indices: 99403--99564 Score: 186
Period size: 73 Copynumber: 2.2 Consensus size: 74
99393 TTAGAAATGC
* * * * *
99403 CTTAGACGAGTCTATCCTAACCTTTTTTAAAAGGTTATCTTAGACAAGGTTTATCCCAACCTTTT
1 CTTAGAAGGGTCTATCCCAACCTTTTTTAAAAGGTTACCTTAGACAAGGTCTATCCCAACCTTTT
99468 TAAGGTTGT
66 TAAGGTTGT
* * * * *
99477 CTTAGAAGGGTCTATCCCAA-CTTTTTTTAAAGGTTGCCTTAGATAATGTCTATCTCAA-CTTTT
1 CTTAGAAGGGTCTATCCCAACCTTTTTTAAAAGGTTACCTTAGACAAGGTCTATCCCAACCTTTT
99540 CTAAGGTTGT
66 -TAAGGTTGT
*
99550 TTTAGACA-GGTCTAT
1 CTTAGA-AGGGTCTAT
99565 TTCGACCTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
72 5 0.07
73 52 0.69
74 18 0.24
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (74 bp):
CTTAGAAGGGTCTATCCCAACCTTTTTTAAAAGGTTACCTTAGACAAGGTCTATCCCAACCTTTT
TAAGGTTGT
Found at i:99605 original size:29 final size:28
Alignment explanation
Indices: 99551--99605 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
99541 TAAGGTTGTT
* * *
99551 TTAGACAGGTCTATTTCGACCTTTTACC
1 TTAGACAGGTCTATTCCAACCATTTACC
99579 TTAGACAAGGTCTATTCCAACCATTTA
1 TTAGAC-AGGTCTATTCCAACCATTTA
99606 AAGGTTGCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (28 bp):
TTAGACAGGTCTATTCCAACCATTTACC
Done.