Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 14 of 153
Found at i:4678837 original size:259 final size:259
Alignment explanation
Indices: 4678378--4678894 Score: 998
Period size: 259 Copynumber: 2.0 Consensus size: 259
4678368 TTCCTACACT
4678378 CCAAACAATGGAGTTTCACTCACGGTTGCCCAGTCTAATGCAGACTTCCACCGTCTCACCGGCAA
1 CCAAACAATGGAGTTTCACTCACGGTTGCCCAGTCTAATGCAGACTTCCACCGTCTCACCGGCAA
4678443 TGGAATCTATGAAGCTGTTGAGTTACATCCTTTGATACCCCACCTGAAATCCTCAGATGATTCAG
66 TGGAATCTATGAAGCTGTTGAGTTACATCCTTTGATACCCCACCTGAAATCCTCAGATGATTCAG
4678508 CATCAATTCTAGCTCTTCAAATAACCCTTTTTCCTGGTAAAGGGTTTTCTATTGGAATCACAGCT
131 CATCAATTCTAGCTCTTCAAATAACCCTTTTTCCTGGTAAAGGGTTTTCTATTGGAATCACAGCT
4678573 CACCATACGGTTCTTGATGGTAAAACTACAACCATGTTCATGAAATCCTGGGCGTACCTTTGCC
196 CACCATACGGTTCTTGATGGTAAAACTACAACCATGTTCATGAAATCCTGGGCGTACCTTTGCC
* *
4678637 CCAAACAATGGAGTTTCTCTCACGGTTGCCGAGTCTAATGCAGACTTCCACCGTCTCACCGGCAA
1 CCAAACAATGGAGTTTCACTCACGGTTGCCCAGTCTAATGCAGACTTCCACCGTCTCACCGGCAA
4678702 TGGAATCTATGAAGCTGTTGAGTTACATCCTTTGATACCCCACCTGAAATCCTCAGATGATTCAG
66 TGGAATCTATGAAGCTGTTGAGTTACATCCTTTGATACCCCACCTGAAATCCTCAGATGATTCAG
* *
4678767 CATCAATTCTAGCTCTTCAGATAACCCTTTTTCCTGGTAAAGGGTTTTCTATTGGAATCACGGCT
131 CATCAATTCTAGCTCTTCAAATAACCCTTTTTCCTGGTAAAGGGTTTTCTATTGGAATCACAGCT
4678832 CACCATACGGTTCTTGATGGTAAAACTACAACCATGTTCATGAAATCCTGGGCGTACCTTTGC
196 CACCATACGGTTCTTGATGGTAAAACTACAACCATGTTCATGAAATCCTGGGCGTACCTTTGC
4678895 AAGCAAAGGA
Statistics
Matches: 254, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
259 254 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (259 bp):
CCAAACAATGGAGTTTCACTCACGGTTGCCCAGTCTAATGCAGACTTCCACCGTCTCACCGGCAA
TGGAATCTATGAAGCTGTTGAGTTACATCCTTTGATACCCCACCTGAAATCCTCAGATGATTCAG
CATCAATTCTAGCTCTTCAAATAACCCTTTTTCCTGGTAAAGGGTTTTCTATTGGAATCACAGCT
CACCATACGGTTCTTGATGGTAAAACTACAACCATGTTCATGAAATCCTGGGCGTACCTTTGCC
Found at i:4680984 original size:17 final size:17
Alignment explanation
Indices: 4680964--4681038 Score: 64
Period size: 16 Copynumber: 4.4 Consensus size: 17
4680954 TTTTTACAAT
*
4680964 TTTTTTAAAAAATATAA
1 TTTTTTAAAAAATTTAA
*
4680981 -TTTTTAATAAATTTAA
1 TTTTTTAAAAAATTTAA
*
4680997 ATTTTTAATAAAATTTAA
1 TTTTTTAA-AAAATTTAA
**
4681015 TAATTTTTCTAAAATTT-A
1 T--TTTTTAAAAAATTTAA
4681033 TTTTTT
1 TTTTTT
4681039 TTCTAATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
16 19 0.40
17 7 0.15
18 10 0.21
19 7 0.15
20 5 0.10
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTTAAAAAATTTAA
Found at i:4681002 original size:18 final size:17
Alignment explanation
Indices: 4680965--4681014 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
4680955 TTTTACAATT
* *
4680965 TTTTTAAAAAATAT-AA
1 TTTTTAATAAATTTAAA
4680981 TTTTTAATAAATTTAAA
1 TTTTTAATAAATTTAAA
4680998 TTTTTAATAAAATTTAA
1 TTTTTAAT-AAATTTAA
4681015 TAATTTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 12 0.40
17 10 0.33
18 8 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTTAATAAATTTAAA
Found at i:4681713 original size:8 final size:9
Alignment explanation
Indices: 4681670--4681715 Score: 51
Period size: 8 Copynumber: 5.2 Consensus size: 9
4681660 AATTTATTAA
4681670 AAATATTTT
1 AAATATTTT
4681679 AAATCATTTT
1 AAAT-ATTTT
4681689 AAAT-TTTT
1 AAATATTTT
* *
4681697 TAATTTTTT
1 AAATATTTT
4681706 AAA-ATTTT
1 AAATATTTT
4681714 AA
1 AA
4681716 TAACAAACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
8 13 0.41
9 10 0.31
10 9 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (9 bp):
AAATATTTT
Found at i:4682543 original size:21 final size:22
Alignment explanation
Indices: 4682503--4682546 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4682493 ATAAACAATA
*
4682503 TAATGATTTTGACTTTTTAACT
1 TAATGATTTTAACTTTTTAACT
*
4682525 TAATGGTTTTAAC-TTTTAACT
1 TAATGATTTTAACTTTTTAACT
4682546 T
1 T
4682547 TAGAAAAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (22 bp):
TAATGATTTTAACTTTTTAACT
Found at i:4683127 original size:19 final size:19
Alignment explanation
Indices: 4683105--4683145 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4683095 TAAACTATGA
*
4683105 TTTATATTTTAAATTA-ATT
1 TTTAAATTTT-AATTAGATT
4683124 TTTAAATTTTAATTAGATT
1 TTTAAATTTTAATTAGATT
4683143 TTT
1 TTT
4683146 TCGTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAATTTTAATTAGATT
Found at i:4684449 original size:14 final size:14
Alignment explanation
Indices: 4684430--4684456 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4684420 TGTGAAGCTA
4684430 GAAAATATTATGTC
1 GAAAATATTATGTC
4684444 GAAAATATTATGT
1 GAAAATATTATGT
4684457 GTAGTTGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (14 bp):
GAAAATATTATGTC
Found at i:4684582 original size:12 final size:12
Alignment explanation
Indices: 4684555--4684593 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
4684545 TATTTTTTAG
4684555 AATATATAAA-A
1 AATATATAAATA
* *
4684566 AATATTTTAATA
1 AATATATAAATA
4684578 AATATATAAATA
1 AATATATAAATA
4684590 AATA
1 AATA
4684594 AAATTAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AATATATAAATA
Found at i:4686384 original size:18 final size:17
Alignment explanation
Indices: 4686357--4686392 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
4686347 GAGGAAGAAG
*
4686357 AAAGAAAAATAATATAT
1 AAAGAAAAATAAAATAT
4686374 AAAGTAAAAATAAAATAT
1 AAAG-AAAAATAAAATAT
4686392 A
1 A
4686393 TAGAGAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
AAAGAAAAATAAAATAT
Found at i:4692509 original size:18 final size:18
Alignment explanation
Indices: 4692486--4692578 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
4692476 CCCAACTACT
*
4692486 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
4692504 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
4692522 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
4692540 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
4692558 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
4692576 GTA
1 GTA
4692579 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:4692538 original size:36 final size:36
Alignment explanation
Indices: 4692486--4692578 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
4692476 CCCAACTACT
*
4692486 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
4692522 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
4692558 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
4692579 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:4697215 original size:18 final size:18
Alignment explanation
Indices: 4697192--4697284 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
4697182 CCCAACTACT
* *
4697192 GTATACGTGAACAGTATC
1 GTATACGTGAATAGTACC
*
4697210 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
4697228 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
4697246 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
4697264 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
4697282 GTA
1 GTA
4697285 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:4697250 original size:36 final size:37
Alignment explanation
Indices: 4697192--4697284 Score: 147
Period size: 36 Copynumber: 2.6 Consensus size: 37
4697182 CCCAACTACT
*
4697192 GTATACGTGAACAGTA-TCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTCGTATACGTGAATAGTGCC
4697228 GTATACGTGAATAGTACT-GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTCGTATACGTGAATAGTGCC
*
4697264 ATATACGTGAATAGTAC-CGTA
1 GTATACGTGAATAGTACTCGTA
4697285 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
36 52 0.98
37 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (37 bp):
GTATACGTGAATAGTACTCGTATACGTGAATAGTGCC
Found at i:4705166 original size:30 final size:30
Alignment explanation
Indices: 4705104--4705162 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
4705094 TTAAATTCAT
* *
4705104 TTTATATCTTTTATATATTTTCATAATTAA
1 TTTACATCTTATATATATTTTCATAATTAA
*
4705134 TTTACATCTTATAT-TATTTTCGTAATTAA
1 TTTACATCTTATATATATTTTCATAATTAA
4705163 ATTTTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (30 bp):
TTTACATCTTATATATATTTTCATAATTAA
Found at i:4705171 original size:26 final size:25
Alignment explanation
Indices: 4705112--4705184 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
4705102 ATTTTATATC
4705112 TTTTATA-TATTTTCATAATTAATT
1 TTTTATATTATTTTCATAATTAATT
*
4705136 TACATCTTATATTATTTTCGTAATTAAATT
1 T---T-TTATATTATTTTCATAATT-AATT
*
4705166 TTTTATATTATTTTAATAA
1 TTTTATATTATTTTCATAA
4705185 AAAATTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
24 1 0.03
26 15 0.38
27 2 0.05
28 5 0.12
29 12 0.30
30 5 0.12
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.59
Consensus pattern (25 bp):
TTTTATATTATTTTCATAATTAATT
Found at i:4705195 original size:26 final size:26
Alignment explanation
Indices: 4705142--4705195 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
4705132 AATTTACATC
** *
4705142 TTATATTATTTTCGTAATTAAATTTT
1 TTATATTATTTTAATAATAAAATTTT
4705168 TTATATTATTTTAATAA-AAAATTCTT
1 TTATATTATTTTAATAATAAAATT-TT
4705194 TT
1 TT
4705196 TTCTGTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (26 bp):
TTATATTATTTTAATAATAAAATTTT
Found at i:4707080 original size:20 final size:21
Alignment explanation
Indices: 4707044--4707082 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4707034 TTCAATACAA
4707044 TAATTGAACCAAGTTAAAAAT
1 TAATTGAACCAAGTTAAAAAT
4707065 TAATTGAACC-AGTTAAAA
1 TAATTGAACCAAGTTAAAA
4707083 CGATTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (21 bp):
TAATTGAACCAAGTTAAAAAT
Found at i:4707167 original size:14 final size:15
Alignment explanation
Indices: 4707130--4707177 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
4707120 TACACATAAA
4707130 AATAATAATTATATTT
1 AATAATAATT-TATTT
4707146 GAAATAATAATTT-TTT
1 --AATAATAATTTATTT
*
4707162 AATAATTATTTATTT
1 AATAATAATTTATTT
4707177 A
1 A
4707178 TTATTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.36
15 4 0.14
16 3 0.11
17 1 0.04
18 10 0.36
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
AATAATAATTTATTT
Found at i:4707207 original size:21 final size:19
Alignment explanation
Indices: 4707182--4707221 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
4707172 TATTTATTAT
*
4707182 TTTATTTATATAAATAAAATA
1 TTTATTAAT-TAAA-AAAATA
4707203 TTTATTAATTAAAAAAATA
1 TTTATTAATTAAAAAAATA
4707222 AATTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTATTAATTAAAAAAATA
Found at i:4707217 original size:17 final size:17
Alignment explanation
Indices: 4707184--4707216 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4707174 TTTATTATTT
4707184 TATTTATATAAATAAAA
1 TATTTATATAAATAAAA
*
4707201 TATTTAT-TAATTAAAA
1 TATTTATATAAATAAAA
4707217 AAATAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTTATATAAATAAAA
Found at i:4710444 original size:130 final size:128
Alignment explanation
Indices: 4710139--4710470 Score: 404
Period size: 130 Copynumber: 2.6 Consensus size: 128
4710129 AAAAAACTGA
* * * *
4710139 AACCCAGCACAATAGGGCACGATTCCTCGAATTTCTAGACGTTGAACATTACCTT-GTTTT--AG
1 AACCCAGCACGATAGGGCACGATTCC-CGAA-TTCTAAACATTGAACATTACCTTCATTTTAAAG
** * *
4710201 AATTTAGAAGACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAGGAAATTGC
64 AATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATTGC
* * ** *
4710266 AACCCAGCACGATAGGGCACGATTCCCCGAATTTTCAAATATCAAACATTATCTTCATTTTAAAG
1 AACCCAGCACGATAGGGCACGATT-CCCGAATTCT-AAACATTGAACATTACCTTCATTTTAAAG
* *
4710331 AATTTTTAAAACATGAGTGAGATTCCAAAGGAATATTTGATTATTTTGAACAAAC-GAGAAATTG
64 AATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAG-GAAATTG
4710395 C
128 C
* *
4710396 AACCCAGCACGATAGGGCACGATTAACCGAATTCCTAAACATTGAACATTGCCTTCGA-TTTAAA
1 AACCCAGCACGATAGGGCACGATT-CCCGAATT-CTAAACATTGAACATTACCTTC-ATTTTAAA
4710460 GAATTTTTAAA
63 GAATTTTTAAA
4710471 CGAATAATTA
Statistics
Matches: 174, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
126 3 0.02
127 40 0.23
128 6 0.03
129 1 0.01
130 122 0.70
131 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (128 bp):
AACCCAGCACGATAGGGCACGATTCCCGAATTCTAAACATTGAACATTACCTTCATTTTAAAGAA
TTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATTGC
Found at i:4713641 original size:75 final size:75
Alignment explanation
Indices: 4713555--4713756 Score: 343
Period size: 75 Copynumber: 2.7 Consensus size: 75
4713545 GTAGAAGTAA
4713555 ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAATACTT-TTGGTTTATCCAACTA
1 ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAATA-TTGTTGGTTTATCCAACTA
4713619 GAGCTGGGCTC
65 GAGCTGGGCTC
*
4713630 ACAATTATTATCGTCAGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAG
1 ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAG
*
4713695 AGTTGGGCTC
66 AGCTGGGCTC
* * *
4713705 ACAATTATTATCGTCGGTATATCCAACTAGTACTGGATGCAAATATTGTTGG
1 ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATTGTTGG
4713757 GTTTGAGAAA
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
74 2 0.02
75 118 0.98
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (75 bp):
ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAG
AGCTGGGCTC
Found at i:4713666 original size:40 final size:39
Alignment explanation
Indices: 4713555--4713745 Score: 147
Period size: 40 Copynumber: 5.0 Consensus size: 39
4713545 GTAGAAGTAA
*
4713555 ACAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGC
1 ACAATTATTATCGTCGGTATATCCAACTAG-ACTGGGTGC
*
4713595 A-AA-TACTT-T--T-GGTTTATCCAACTAGAGCTGGGCT-C
1 ACAATTA-TTATCGTCGGTATATCCAACTAGA-CTGGG-TGC
* *
4713630 ACAATTATTATCGTCAGTATATCCGACTAGCACTGGGTGC
1 ACAATTATTATCGTCGGTATATCCAACTAG-ACTGGGTGC
* * *
4713670 A-AA-TA-T-T-GTTGGTTTATCCAACTAGAGTTGGGCT-C
1 ACAATTATTATCGTCGGTATATCCAACTAGA-CTGGG-TGC
*
4713705 ACAATTATTATCGTCGGTATATCCAACTAGTACTGGATGC
1 ACAATTATTATCGTCGGTATATCCAACTAG-ACTGGGTGC
4713745 A
1 A
4713746 AATATTGTTG
Statistics
Matches: 117, Mismatches: 14, Indels: 40
0.68 0.08 0.23
Matches are distributed among these distances:
34 2 0.02
35 40 0.34
36 10 0.09
37 6 0.05
38 6 0.05
39 10 0.09
40 41 0.35
41 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (39 bp):
ACAATTATTATCGTCGGTATATCCAACTAGACTGGGTGC
Found at i:4713781 original size:10 final size:11
Alignment explanation
Indices: 4713765--4713794 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
4713755 GGGTTTGAGA
4713765 AAAAATAAAAT
1 AAAAATAAAAT
4713776 -AAAATAAAAT
1 AAAAATAAAAT
4713786 AAAAATAAA
1 AAAAATAAA
4713795 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:4717041 original size:19 final size:19
Alignment explanation
Indices: 4717009--4717049 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4716999 TAAATATAAA
4717009 TTAATATATGTTTTATTAT
1 TTAATATATGTTTTATTAT
* *
4717028 TTAATGTATTTTTTATTAT
1 TTAATATATGTTTTATTAT
4717047 TTA
1 TTA
4717050 TTTTACATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTAATATATGTTTTATTAT
Found at i:4718257 original size:17 final size:18
Alignment explanation
Indices: 4718217--4718259 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
4718207 CAAGAGAAAA
4718217 AATATAAATTTCAAAATT
1 AATATAAATTTCAAAATT
* *
4718235 ATATATAAATTT-TAATTT
1 A-ATATAAATTTCAAAATT
4718253 AATATAA
1 AATATAA
4718260 TTATACACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 6 0.27
19 10 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATAAATTTCAAAATT
Found at i:4727889 original size:12 final size:12
Alignment explanation
Indices: 4727872--4727899 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4727862 ATAAAGTTAC
4727872 ATTTCTAAAATT
1 ATTTCTAAAATT
4727884 ATTTCTAAAATT
1 ATTTCTAAAATT
4727896 ATTT
1 ATTT
4727900 ATGGAAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTTCTAAAATT
Found at i:4728273 original size:29 final size:29
Alignment explanation
Indices: 4728236--4728296 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
4728226 ACAATATAAG
* *
4728236 TTTTGAAAAAAT--TTGTAACGAGTTGGA
1 TTTTGAAAAAATAATTTTAACGAGATGGA
* *
4728263 TTTTGAAAAAATTATTTTGACGAGATGGA
1 TTTTGAAAAAATAATTTTAACGAGATGGA
4728292 TTTTG
1 TTTTG
4728297 TTTTTTTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 12 0.41
29 17 0.59
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.41
Consensus pattern (29 bp):
TTTTGAAAAAATAATTTTAACGAGATGGA
Found at i:4729293 original size:20 final size:20
Alignment explanation
Indices: 4729268--4729305 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
4729258 TAATGTGGTC
*
4729268 AATAATTAATTATTATAATT
1 AATAATTAAGTATTATAATT
4729288 AATAATTAAGTATTATAA
1 AATAATTAAGTATTATAA
4729306 AAATATTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AATAATTAAGTATTATAATT
Found at i:4740900 original size:13 final size:13
Alignment explanation
Indices: 4740882--4740909 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4740872 AGGCAGTAAA
4740882 ATATGAATATATC
1 ATATGAATATATC
4740895 ATATGAATATATC
1 ATATGAATATATC
4740908 AT
1 AT
4740910 TAAAATGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATATGAATATATC
Found at i:4748446 original size:32 final size:32
Alignment explanation
Indices: 4748405--4748467 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
4748395 TTTAACTATT
4748405 ATTTAAAAATTTGAACATTGGGCCCAACGGTC
1 ATTTAAAAATTTGAACATTGGGCCCAACGGTC
* *
4748437 ATTTAAAAATTTGACCGTTGGGCCCAACGGT
1 ATTTAAAAATTTGAACATTGGGCCCAACGGT
4748468 TAAGAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (32 bp):
ATTTAAAAATTTGAACATTGGGCCCAACGGTC
Found at i:4749643 original size:27 final size:27
Alignment explanation
Indices: 4749605--4749656 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
4749595 TGTATGTAAA
4749605 TATTTATTCTATTTTGAACTATATAAG
1 TATTTATTCTATTTTGAACTATATAAG
4749632 TATTTATTCTATTTTGAACTATATA
1 TATTTATTCTATTTTGAACTATATA
4749657 TAAATAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (27 bp):
TATTTATTCTATTTTGAACTATATAAG
Found at i:4753583 original size:59 final size:58
Alignment explanation
Indices: 4753494--4753721 Score: 237
Period size: 59 Copynumber: 3.9 Consensus size: 58
4753484 ATGTATTAAT
* * *
4753494 GTTTTTT-AATATATTTT-TACAAACTGTTTTTATATTGTTTCATTTAATAAAACAGAT
1 GTTTTTTGAATAT-TTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
*
4753551 GTTGTTTTGAATATTTTTATACAAATTATTTTTATATTATTTCATTTAATAAAACAGAA
1 GTT-TTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
* * * * * * *
4753610 GTTATTTTGAATATATTTGTACAAATTATTTTTATATTGTTTCGTTCAATGAAATATAA
1 GTT-TTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
* *****
4753669 ATTCTTTTGAATAAGAAAATACAAATTATTTTT-TCATTGTTTCATTTAATAAA
1 GTT-TTTTGAATATTTTTATACAAATTATTTTTAT-ATTGTTTCATTTAATAAA
4753722 TTAAGAGTTA
Statistics
Matches: 143, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
57 3 0.02
58 9 0.06
59 131 0.92
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.50
Consensus pattern (58 bp):
GTTTTTTGAATATTTTTATACAAATTATTTTTATATTGTTTCATTTAATAAAACAGAA
Found at i:4753760 original size:28 final size:28
Alignment explanation
Indices: 4753728--4753783 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
4753718 TAAATTAAGA
**
4753728 GTTACTTTGATTTTGAAATGTTCGCATT
1 GTTACTTCAATTTTGAAATGTTCGCATT
4753756 GTTACTTCAATTTTGAAATGTTCGCATT
1 GTTACTTCAATTTTGAAATGTTCGCATT
4753784 ATATGACCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.48
Consensus pattern (28 bp):
GTTACTTCAATTTTGAAATGTTCGCATT
Found at i:4754963 original size:14 final size:14
Alignment explanation
Indices: 4754946--4754984 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
4754936 ATAGGGAGAA
4754946 AACAATAAAAAAAT
1 AACAATAAAAAAAT
*
4754960 AAC-ATTAAAAAAT
1 AACAATAAAAAAAT
*
4754973 AAAAATAAAAAA
1 AACAATAAAAAA
4754985 GAGTAGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (14 bp):
AACAATAAAAAAAT
Found at i:4757612 original size:46 final size:46
Alignment explanation
Indices: 4757559--4757770 Score: 370
Period size: 46 Copynumber: 4.6 Consensus size: 46
4757549 ATTTGGGCAT
4757559 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
4757605 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
* * *
4757651 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
* *
4757697 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
*
4757743 CTGAACTCGTTGAGTTGAGTCCGAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
4757771 GAGAGATGTA
Statistics
Matches: 156, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
Found at i:4758609 original size:14 final size:14
Alignment explanation
Indices: 4758568--4758610 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
4758558 ATCCCGGGAT
*
4758568 ATTTTTTCAGAACC
1 ATTTTTTCAGAATC
* *
4758582 ATCTTTTCAAAATC
1 ATTTTTTCAGAATC
4758596 ATTTTTTCAGAATC
1 ATTTTTTCAGAATC
4758610 A
1 A
4758611 GCTGTACAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (14 bp):
ATTTTTTCAGAATC
Found at i:4758620 original size:28 final size:28
Alignment explanation
Indices: 4758568--4758621 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
4758558 ATCCCGGGAT
* * *
4758568 ATTTTTTCAGAACCATCTTTTCAAAATC
1 ATTTTTTCAGAACCAGCTGTACAAAATC
*
4758596 ATTTTTTCAGAATCAGCTGTACAAAA
1 ATTTTTTCAGAACCAGCTGTACAAAA
4758622 AAAGAGGTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (28 bp):
ATTTTTTCAGAACCAGCTGTACAAAATC
Found at i:4758913 original size:29 final size:29
Alignment explanation
Indices: 4758851--4758938 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
4758841 TAAATAAAAT
* *
4758851 CCATCTCGTCAAAATAATTTTTTCAGAAC
1 CCATCTCGTCAAATTTATTTTTTCAGAAC
* * * *
4758880 ACATCACGTCAAATTTATTTTTTCATATC
1 CCATCTCGTCAAATTTATTTTTTCAGAAC
* *
4758909 CCATCTTGTCAAATTTATTTCTTTCGGAAC
1 CCATCTCGTCAAATTTATTT-TTTCAGAAC
4758939 AATACTTACC
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 40 0.87
30 6 0.13
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (29 bp):
CCATCTCGTCAAATTTATTTTTTCAGAAC
Found at i:4759041 original size:29 final size:28
Alignment explanation
Indices: 4758979--4759042 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
4758969 AAAACAATAT
*
4758979 ACCCTAAACCTTAATTTATTTTAAAAAA
1 ACCCTAAACCCTAATTTATTTTAAAAAA
* **
4759007 ATCCTAAACCCTAATTTATTTTTCCAAAA
1 ACCCTAAACCCTAATTTA-TTTTAAAAAA
4759036 ACCCTAA
1 ACCCTAA
4759043 TTAAACACGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.34
Consensus pattern (28 bp):
ACCCTAAACCCTAATTTATTTTAAAAAA
Found at i:4774651 original size:21 final size:21
Alignment explanation
Indices: 4774610--4774671 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
4774600 AATGAATTAA
*
4774610 AATATGCAAATATTGGGATTTG-
1 AATATGCACA-ATT-GGATTTGT
*
4774632 AATATGCACTCATTGGATTTGT
1 AATATGCAC-AATTGGATTTGT
4774654 AATATGCACAATTGGATT
1 AATATGCACAATTGGATT
4774672 AATAAACCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (21 bp):
AATATGCACAATTGGATTTGT
Found at i:4781155 original size:53 final size:53
Alignment explanation
Indices: 4781029--4781179 Score: 187
Period size: 53 Copynumber: 2.8 Consensus size: 53
4781019 ATAAGTGCGC
* * ** *
4781029 CCGTTTAAGACCATAGCTGCGCTATGGCATCGGTGCAATGTGATGATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
4781082 CCGTATAAGACCATAGCTGGGCTATCGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
4781135 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
4781180 ACCGTGTAAG
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:4786947 original size:17 final size:17
Alignment explanation
Indices: 4786900--4786947 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
4786890 TTTATTTATT
*
4786900 TTAAAATAATTTAATAA
1 TTAAAATAAATTAATAA
4786917 --AAATATAAATTTAATAA
1 TTAAA-ATAAA-TTAATAA
4786934 TTAAAATAAATTAA
1 TTAAAATAAATTAA
4786948 AATAAAGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
15 3 0.12
16 4 0.15
17 11 0.42
18 5 0.19
19 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAATAAATTAATAA
Found at i:4787642 original size:31 final size:31
Alignment explanation
Indices: 4787584--4787655 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
4787574 TCACTAGTTG
* *
4787584 GGTCACCCAACTTTTAAGGAACATTCATTTT
1 GGTCACTCAACTTTTAAGAAACATTCATTTT
*
4787615 GGTCACTCAACTTTTAA-AATACTTTCATTTT
1 GGTCACTCAACTTTTAAGAA-ACATTCATTTT
*
4787646 AGTCACTCAA
1 GGTCACTCAA
4787656 AGCGTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38
Consensus pattern (31 bp):
GGTCACTCAACTTTTAAGAAACATTCATTTT
Found at i:4789493 original size:2 final size:2
Alignment explanation
Indices: 4789488--4789518 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4789478 TATGCAAAAA
*
4789488 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4789519 ATATAGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4796513 original size:21 final size:20
Alignment explanation
Indices: 4796468--4796513 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
4796458 TAATGTTTGT
*
4796468 ATTTTAATATTTAAATTATA
1 ATTTTAATATTAAAATTATA
4796488 A-TTTATATAATTAAAATTA-A
1 ATTTTA-AT-ATTAAAATTATA
4796508 ATTTTA
1 ATTTTA
4796514 CAAATGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 4 0.18
20 5 0.23
21 13 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTTAATATTAAAATTATA
Found at i:4801574 original size:17 final size:17
Alignment explanation
Indices: 4801552--4801585 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4801542 GAACTTGTAC
*
4801552 AAAAATTTATATTTTAA
1 AAAAATTAATATTTTAA
*
4801569 AAAAATTAATTTTTTAA
1 AAAAATTAATATTTTAA
4801586 TTTATGTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAAATTAATATTTTAA
Found at i:4814001 original size:46 final size:47
Alignment explanation
Indices: 4813926--4814145 Score: 250
Period size: 46 Copynumber: 4.7 Consensus size: 47
4813916 TTATCTTCGA
* * * *
4813926 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTAGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
* * **
4813972 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTTGTTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
*
4814019 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATCCA--TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA-CTAGTTTTCATGT
* * ** *
4814065 TACGTTGCCATGGTATCTTTCAACCATGGTCTTAC-ACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
* * *
4814111 CAGGTTGTCATGATATCTTTCAACCATGGTCTTAC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
4814146 ACATTTCATT
Statistics
Matches: 151, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 113 0.75
47 36 0.24
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTAGTTTTCATGT
Found at i:4814090 original size:93 final size:92
Alignment explanation
Indices: 4813926--4814098 Score: 249
Period size: 93 Copynumber: 1.9 Consensus size: 92
4813916 TTATCTTCGA
* * * *
4813926 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTAGTTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACCAG-TTTCTGTCACGTTGCCATGGTATCTT
4813991 TCAACCATGGTCTTATTTGTTTTCCCGT
65 TCAACCATGGTCTTATTTGTTTTCCCGT
* * *
4814019 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATCCA-TTTCATGTTACGTTGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTA-CCAGTTTC-TGTCACGTTGCCATGGTATCT
4814083 TTCAACCATGGTCTTA
64 TTCAACCATGGTCTTA
4814099 CACATTTCAT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
92 4 0.06
93 65 0.92
94 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (92 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACCAGTTTCTGTCACGTTGCCATGGTATCTTT
CAACCATGGTCTTATTTGTTTTCCCGT
Found at i:4822434 original size:51 final size:51
Alignment explanation
Indices: 4822358--4822467 Score: 184
Period size: 51 Copynumber: 2.2 Consensus size: 51
4822348 CTGATCGCAT
4822358 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* **
4822409 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGTTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
4822460 TTGTCACT
1 TTATCACT
4822468 GATCAGAAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.35
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:4825098 original size:14 final size:15
Alignment explanation
Indices: 4825065--4825123 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 15
4825055 TAAATATCTT
4825065 ATAATA-TAATTATA
1 ATAATATTAATTATA
4825079 AT-ATATTAATT-TA
1 ATAATATTAATTATA
4825092 ATAATATTAATTACTA
1 ATAATATTAATTA-TA
4825108 AT-ATA-TATATTATA
1 ATAATATTA-ATTATA
4825122 AT
1 AT
4825124 TAAAATCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.17
14 22 0.55
15 7 0.17
16 4 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATATTAATTATA
Found at i:4825123 original size:21 final size:21
Alignment explanation
Indices: 4825068--4825125 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
4825058 ATATCTTATA
*
4825068 ATATA-ATTATAATATATTAAT
1 ATATATATTATAAT-TACTAAT
* *
4825089 TTA-ATAATATTAATTACTAAT
1 ATATATATTA-TAATTACTAAT
4825110 ATATATATTATAATTA
1 ATATATATTATAATTA
4825126 AAATCTAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 1 0.03
21 19 0.66
22 9 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATATATTATAATTACTAAT
Found at i:4827064 original size:14 final size:15
Alignment explanation
Indices: 4827031--4827089 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 15
4827021 TAAATATCTT
4827031 ATAATA-TAATTATA
1 ATAATATTAATTATA
4827045 AT-ATATTAATT-TA
1 ATAATATTAATTATA
4827058 ATAATATTAATTACTA
1 ATAATATTAATTA-TA
4827074 AT-ATA-TATATTATA
1 ATAATATTA-ATTATA
4827088 AT
1 AT
4827090 TAAAATCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.17
14 22 0.55
15 7 0.17
16 4 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATATTAATTATA
Found at i:4827089 original size:21 final size:21
Alignment explanation
Indices: 4827034--4827091 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
4827024 ATATCTTATA
*
4827034 ATATA-ATTATAATATATTAAT
1 ATATATATTATAAT-TACTAAT
* *
4827055 TTA-ATAATATTAATTACTAAT
1 ATATATATTA-TAATTACTAAT
4827076 ATATATATTATAATTA
1 ATATATATTATAATTA
4827092 AAATCTAAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 1 0.03
21 19 0.66
22 9 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATATATTATAATTACTAAT
Found at i:4829195 original size:42 final size:43
Alignment explanation
Indices: 4829121--4829204 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 43
4829111 TTGTGAGTAT
*
4829121 GGTAAATTCTAATATTATAAAATAAAATAATTATTTTAAATAA
1 GGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAATAA
* *
4829164 GGTAAAATCTAATA-TATAAAATCAATTAATTATTTTAAATA
1 GGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAATA
4829205 TAATTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 25 0.66
43 13 0.34
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (43 bp):
GGTAAAATCTAATATTATAAAATAAAATAATTATTTTAAATAA
Found at i:4829297 original size:30 final size:32
Alignment explanation
Indices: 4829255--4829326 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
4829245 TTTAAATAAT
*
4829255 TATTTC-AATATCATTA-TTTT-TATGTGAAA
1 TATTTCAAATATCAATATTTTTATATGTGAAA
4829284 TATTTCAAATATCAATATTTTTATATGTGAAA
1 TATTTCAAATATCAATATTTTTATATGTGAAA
* *
4829316 AACTTCAAATA
1 TATTTCAAATA
4829327 ATTGCTTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.16
30 9 0.24
31 4 0.11
32 18 0.49
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (32 bp):
TATTTCAAATATCAATATTTTTATATGTGAAA
Found at i:4850921 original size:96 final size:95
Alignment explanation
Indices: 4850753--4851043 Score: 483
Period size: 95 Copynumber: 3.1 Consensus size: 95
4850743 ACTCTTGGGT
* *
4850753 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTTTTTCTCT
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
**
4850818 CCTCTTTAACCGTCATTTATTCAATTCTAC
66 CCTCTTTAACCCCCATTTATTCAATTCTAC
*
4850848 GTTTCGTGGCAATAAACAAGATTGTGGGTCTCGATTTTGGTGAGGTAAGCCAACATCTCTTGCTC
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGA-TTTGGTGAGGTAAGCCAACATCTCTTGCTC
*
4850913 TCCTCTTTAACCCCCGTTTATTCAATTCTAC
65 TCCTCTTTAACCCCCATTTATTCAATTCTAC
4850944 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
1 GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
* * *
4851009 CCTCTTTAACCCCGATTTGTTTAATTCTAC
66 CCTCTTTAACCCCCATTTATTCAATTCTAC
*
4851039 TTTTT
1 GTTTT
4851044 TTGAATTTAG
Statistics
Matches: 183, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
95 94 0.51
96 89 0.49
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (95 bp):
GTTTTGTGGCAATAAACAAGATTGTGGGTCTCGATTTGGTGAGGTAAGCCAACATCTCTTGCTCT
CCTCTTTAACCCCCATTTATTCAATTCTAC
Found at i:4863011 original size:13 final size:14
Alignment explanation
Indices: 4862995--4863023 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4862985 TTTTTTTATC
4862995 TAAATTTAT-TTTT
1 TAAATTTATATTTT
4863008 TAAATTTATATTTT
1 TAAATTTATATTTT
4863022 TA
1 TA
4863024 TTTAAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAAATTTATATTTT
Found at i:4863527 original size:90 final size:85
Alignment explanation
Indices: 4863433--4863597 Score: 231
Period size: 90 Copynumber: 1.9 Consensus size: 85
4863423 ATCTATTTTC
*
4863433 ATAAATATTTTACCTGTTTCATATATTCTGTAAAGAAAACCAAAAAAAAAAATTACTTACAAAAT
1 ATAAATATTTTACCTGTTTCATATATTCTATAAAGAAAACC----AAAAAAA-TACTTACAAAAT
4863498 TGATAAAATACAACTTATTATTATA
61 TGATAAAATACAACTTATTATTATA
* * * * *
4863523 ATAAATATTTTACCTGTTTTATTTATTCTATAACGAAAACCAAAAAAATACTTGCAAAATTGATC
1 ATAAATATTTTACCTGTTTCATATATTCTATAAAGAAAACCAAAAAAATACTTACAAAATTGATA
4863588 AAATACAACT
66 AAATACAACT
4863598 CGTTATAATC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 25 0.36
86 7 0.10
90 37 0.54
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.35
Consensus pattern (85 bp):
ATAAATATTTTACCTGTTTCATATATTCTATAAAGAAAACCAAAAAAATACTTACAAAATTGATA
AAATACAACTTATTATTATA
Found at i:4869875 original size:33 final size:31
Alignment explanation
Indices: 4869799--4869875 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 31
4869789 TATTTTACAT
*
4869799 AAAAATATAAAAAAATTATATTTTAAAAATAA
1 AAAAATA-AAAAAAATTAAATTTTAAAAATAA
4869831 AAAAATGAAAAAAACATTAAAATTTTTAAAAAT-A
1 AAAAAT-AAAAAAA-ATT-AAA-TTTTAAAAATAA
4869865 AAAAATAAAAA
1 AAAAATAAAAA
4869876 TGATTTTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
32 12 0.30
33 9 0.22
34 9 0.22
35 10 0.25
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (31 bp):
AAAAATAAAAAAAATTAAATTTTAAAAATAA
Found at i:4870529 original size:17 final size:17
Alignment explanation
Indices: 4870507--4870545 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4870497 TTTTAAAGAG
* * *
4870507 TTTTTTAATAATTTTTA
1 TTTTTTAAAAATATATA
4870524 TTTTTTAAAAATATATA
1 TTTTTTAAAAATATATA
4870541 TTTTT
1 TTTTT
4870546 ATTTTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTAAAAATATATA
Found at i:4870551 original size:24 final size:24
Alignment explanation
Indices: 4870514--4870575 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 24
4870504 GAGTTTTTTA
4870514 ATAATTTTTATTTTTTAAAAATAT
1 ATAATTTTTATTTTTTAAAAATAT
4870538 AT-ATTTTTA-TTTTTAAAACAT-T
1 ATAATTTTTATTTTTTAAAA-ATAT
4870560 ATAATTTTTTATTTTT
1 ATAA-TTTTTATTTTT
4870576 ATTTAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
22 12 0.35
23 10 0.29
24 8 0.24
25 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
ATAATTTTTATTTTTTAAAAATAT
Found at i:4870576 original size:24 final size:22
Alignment explanation
Indices: 4870514--4870576 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 22
4870504 GAGTTTTTTA
4870514 ATAA-TTTTTATTTTTTAAAAAT
1 ATAATTTTTTA-TTTTTAAAAAT
4870536 AT-ATATTTTTATTTTTAAAACATT
1 ATAAT-TTTTTATTTTTAAAA-A-T
4870560 ATAATTTTTTATTTTTA
1 ATAATTTTTTATTTTTA
4870577 TTTAAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 11 0.31
23 7 0.19
24 15 0.42
25 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
ATAATTTTTTATTTTTAAAAAT
Found at i:4871011 original size:3 final size:3
Alignment explanation
Indices: 4871003--4871034 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4870993 GAAAAACAGG
*
4871003 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4871035 AAGAGAGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4875265 original size:12 final size:12
Alignment explanation
Indices: 4875245--4875276 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4875235 AGCAATTGTC
4875245 GGAGAAGGGGAA
1 GGAGAAGGGGAA
*
4875257 GGGGAAGGGGAA
1 GGAGAAGGGGAA
4875269 GGAGAAGG
1 GGAGAAGG
4875277 AGATAAAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (12 bp):
GGAGAAGGGGAA
Found at i:4879386 original size:53 final size:53
Alignment explanation
Indices: 4879245--4879395 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
4879235 ATAAGTGCGC
* **
4879245 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
4879298 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
4879351 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
4879396 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:4885345 original size:52 final size:53
Alignment explanation
Indices: 4885260--4885399 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 53
4885250 ATAAGTGTGC
* *
4885260 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATACTGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATACTGTGACT
* * *
4885313 CCGTATAAGACCATAGCTGGGCTAT-GCATCGGTATAATGTGATAGTGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATACTGTGACT
* *
4885365 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTA
4885400 TGATATGTGA
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.01
52 45 0.58
53 32 0.41
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATACTGTGACT
Found at i:4887111 original size:168 final size:168
Alignment explanation
Indices: 4886817--4887163 Score: 486
Period size: 168 Copynumber: 2.1 Consensus size: 168
4886807 AAGAAACGCG
* * * *
4886817 TTTGTTTAAATTAAGACTTCAATTTTATAGCTTGATAAGTTAGACTTTGTGATGACATGCAATTT
1 TTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTTGTGATGACATCCAA-TT
*
4886882 GAATGCTTTCTTGTCCTTGATTTATATGGTTTTTCAATCACACAAAGGAATATAAGTAAATAGTA
65 GAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGAATATAAGTAAATAGTA
4886947 ATGAAACCTTGGGTCTT-AAATTTTGATTCTAGGAAACAT-A
130 ATGAAACCTT-GGTCTTAAAATTTT-ATTCTAGGAAAC-TGA
*
4886987 TTTGTTTAAA-TAAGACTTCAATTTTACAGCATGATAAATTAGATTTTGTGATGACATCCACA-T
1 TTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTTGTGATGACATCCA-ATT
* * ** * *
4887050 GAATGCTTTTTTGTCCTTTATTTATATGGTTTTCCAATTTCACAATGGAATATATGTAAATAGTA
65 GAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGAATATAAGTAAATAGTA
* *
4887115 ATGAAATCTTGGTCTTAAAATTTTATTTTAGGAAACTGA
130 ATGAAACCTTGGTCTTAAAATTTTATTCTAGGAAACTGA
*
4887154 TTTGCTTAAA
1 TTTGTTTAAA
4887164 ATTATATCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
166 1 0.01
167 27 0.17
168 75 0.47
169 45 0.28
170 11 0.07
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (168 bp):
TTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTTGTGATGACATCCAATTG
AATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGAATATAAGTAAATAGTAA
TGAAACCTTGGTCTTAAAATTTTATTCTAGGAAACTGA
Found at i:4889272 original size:9 final size:9
Alignment explanation
Indices: 4889246--4889279 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
4889236 TTTTATTATT
*
4889246 TAATTTAAA
1 TAATTTTAA
4889255 TATATTTTAA
1 TA-ATTTTAA
4889265 TAATTTTAA
1 TAATTTTAA
4889274 TAATTT
1 TAATTT
4889280 ATTATTATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAATTTTAA
Found at i:4894271 original size:12 final size:12
Alignment explanation
Indices: 4894254--4894287 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
4894244 GACACTCCAT
4894254 AAATATTTATAA
1 AAATATTTATAA
4894266 AAATATTTATAA
1 AAATATTTATAA
4894278 AAATATTTAT
1 AAATATTTAT
4894288 GGCTCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:4895941 original size:42 final size:42
Alignment explanation
Indices: 4895878--4896004 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 42
4895868 CTTCGTTTTC
** * *
4895878 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
4895921 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
4895962 TCGATGCCATAGCCTAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
4896003 TC
1 TC
4896005 TCACTGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:4896274 original size:47 final size:47
Alignment explanation
Indices: 4895963--4896273 Score: 471
Period size: 47 Copynumber: 6.6 Consensus size: 47
4895953 ATTCATATAT
* * * * * * * *
4895963 CGATGCCATAGCCTAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
*
4896009 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
4896056 CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
4896103 CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
* * *
4896150 TGATGCCATATCCCAGATATGGTTTTTTACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
* *
4896197 CGATGTCATATCCCAGATATGGTCTTATACGGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
* *
4896244 TGATGCCATATCCTAGATATGGTCTTATAC
1 CGATGCCATATCCCAGATATGGTCTTATAC
4896274 GAAAATCACT
Statistics
Matches: 243, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
46 25 0.10
47 218 0.90
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
Found at i:4902868 original size:38 final size:38
Alignment explanation
Indices: 4902819--4902999 Score: 245
Period size: 38 Copynumber: 4.6 Consensus size: 38
4902809 TGATATGAAA
* *
4902819 TGTGTAAGACCATGGTTGAAAGATACCGTGACAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
4902857 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
4902895 TATGTAAGACCATGGTTGAAATATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
4902933 ATATAAAATGTGTAATACCATGGTTGAAAGATACCATGGCAACCTG
1 --------TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
4902979 TGTGTAAGACCATGGTTGAAA
1 TGTGTAAGACCATGGTTGAAA
4903000 AGTTGAAAGA
Statistics
Matches: 127, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
38 92 0.72
46 35 0.28
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (38 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:4907550 original size:25 final size:22
Alignment explanation
Indices: 4907507--4907564 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 22
4907497 ATATAGTAAA
* * *
4907507 TAAAATATTTTAAATATTTTAAT
1 TAAATTATATTAAAAATTTT-AT
4907530 ATATAATTATATTAAAAATTTTAT
1 -TA-AATTATATTAAAAATTTTAT
4907554 TAAATTATATT
1 TAAATTATATT
4907565 TAATAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 9 0.30
23 2 0.07
24 4 0.13
25 15 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAATTATATTAAAAATTTTAT
Found at i:4907579 original size:38 final size:36
Alignment explanation
Indices: 4907508--4907584 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 36
4907498 TATAGTAAAT
4907508 AAAATATTTTAAATATTTTAATATATAATTATATTA
1 AAAATATTTTAAATATTTTAATATATAATTATATTA
*
4907544 AAAATTTTATTAAATTATATTTAATA-ATAATTATATTA
1 AAAATATT-TTAAA-TAT-TTTAATATATAATTATATTA
4907582 AAA
1 AAA
4907585 TATGATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
36 7 0.19
37 5 0.14
38 18 0.49
39 7 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (36 bp):
AAAATATTTTAAATATTTTAATATATAATTATATTA
Found at i:4908155 original size:2 final size:2
Alignment explanation
Indices: 4908150--4908174 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4908140 TTCTCTTTTT
4908150 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
4908175 TTGACGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4917577 original size:6 final size:6
Alignment explanation
Indices: 4917566--4917611 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
4917556 AGCTAAGCTT
4917566 GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCT
1 GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCTCA GCCT
4917612 GAATGCTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.15, C:0.50, G:0.17, T:0.17
Consensus pattern (6 bp):
GCCTCA
Found at i:4922505 original size:52 final size:48
Alignment explanation
Indices: 4922486--4922688 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
4922476 TGACAAGTGG
* *
4922486 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4922532 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
4922584 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
4922630 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4922676 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4922689 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:4922540 original size:98 final size:98
Alignment explanation
Indices: 4922420--4922688 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
4922410 TTTGAGTACT
*
4922420 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4922485 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
4922518 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4922583 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
4922616 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
4922681 GATAAGTG
65 GAAAAGTG
4922689 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:4922696 original size:37 final size:37
Alignment explanation
Indices: 4922652--4922797 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
4922642 GATAGCTTTA
*
4922652 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4922689 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4922726 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4922763 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4922798 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4935272 original size:17 final size:17
Alignment explanation
Indices: 4935250--4935285 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4935240 AAGGCTGTAA
*
4935250 GATAACTTAGAATGATG
1 GATAACTTAGAATAATG
4935267 GATAACTTAGAATAATG
1 GATAACTTAGAATAATG
4935284 GA
1 GA
4935286 ATAAATTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (17 bp):
GATAACTTAGAATAATG
Found at i:4938603 original size:46 final size:47
Alignment explanation
Indices: 4938536--4938705 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 47
4938526 CGTAACCCGC
*
4938536 CCATAAGCGAAATCGGACTCAACTCAACGAGCTCAAG-CATTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAAGACATTCACAT
* * *
4938582 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCA-A-GAC-A-TTCACAT
* * * * *
4938632 --TTCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAAGACATTCACAT
*
4938675 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
4938706 TTCGGATGCT
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 55 0.54
47 25 0.25
48 3 0.03
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAAGACATTCACAT
Found at i:4938670 original size:93 final size:93
Alignment explanation
Indices: 4938543--4938714 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
4938533 CGCCCATAAG
4938543 CGAAATCGGACTCAACTCAACGAGCTCAAGCATTCACATCCATAAGTGAACTCAGACTCAACTCA
1 CGAAATCGGACTCAACTCAACGAGCTCAAGCATTCACATCCATAAGTGAACTCAGACTCAACTCA
4938608 ACGAGCTCAGATGCCTAGTTACATTTCA
66 ACGAGCTCAGATGCCTAGTTACATTTCA
* * * * *
4938636 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAAATCGGACTCAACTCAACGAGCTCAAG-CATTCACATCCATAAGTGAACTCAGACTCAACTC
* *
4938700 AACGAGTTCGGATGC
65 AACGAGCTCAGATGC
4938715 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (93 bp):
CGAAATCGGACTCAACTCAACGAGCTCAAGCATTCACATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATTTCA
Found at i:4938730 original size:46 final size:45
Alignment explanation
Indices: 4938637--4938722 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
4938627 TACATTTCAC
* *
4938637 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
4938683 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
4938723 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:4940380 original size:25 final size:25
Alignment explanation
Indices: 4940352--4940434 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
4940342 ATGAGCGTCT
4940352 TGATATATGGCTCTTTGGAGCTTCC
1 TGATATATGGCTCTTTGGAGCTTCC
* *
4940377 TGAT-TAAAGGCTCTTTCACGAGCTTCC
1 TGATAT-ATGGCTCTTT--GGAGCTTCC
* * *
4940404 TAGA-ATATGTCTCTTCGAAGCTTCC
1 T-GATATATGGCTCTTTGGAGCTTCC
*
4940429 CGATAT
1 TGATAT
4940435 TGACTCACTT
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
24 3 0.07
25 22 0.50
27 16 0.36
28 3 0.07
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (25 bp):
TGATATATGGCTCTTTGGAGCTTCC
Found at i:4940486 original size:24 final size:24
Alignment explanation
Indices: 4940448--4940576 Score: 62
Period size: 25 Copynumber: 5.2 Consensus size: 24
4940438 CTCACTTGAA
* * *
4940448 CTTCCCGATATTGGCTTGTATGAG
1 CTTCCCGTTAATGGCTTGCATGAG
*
4940472 CTTCCCGTTAATGGCTCT-CAGGAG
1 CTTCCCGTTAATGGCT-TGCATGAG
* ** **
4940496 CTTCCCATTATACAGCTCACATGAG
1 CTTCCCGTTA-ATGGCTTGCATGAG
* * * *
4940521 CTTCCTGTTATATGGCTCGAAAGAG
1 CTTCCCGTTA-ATGGCTTGCATGAG
* * *
4940546 CTTTCCGTTTATGTGCTTGTATGAG
1 CTTCCCGTTAATG-GCTTGCATGAG
4940571 CATTCC
1 C-TTCC
4940577 TGAATATAAA
Statistics
Matches: 77, Mismatches: 23, Indels: 8
0.71 0.21 0.07
Matches are distributed among these distances:
24 30 0.39
25 44 0.57
26 3 0.04
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (24 bp):
CTTCCCGTTAATGGCTTGCATGAG
Found at i:4940531 original size:25 final size:25
Alignment explanation
Indices: 4940467--4940532 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
4940457 ATTGGCTTGT
** *
4940467 ATGAGCTTCCCGTTA-ATGGCTCTC
1 ATGAGCTTCCCGTTATACAGCTCAC
* *
4940491 AGGAGCTTCCCATTATACAGCTCAC
1 ATGAGCTTCCCGTTATACAGCTCAC
*
4940516 ATGAGCTTCCTGTTATA
1 ATGAGCTTCCCGTTATA
4940533 TGGCTCGAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 13 0.39
25 20 0.61
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAGCTCAC
Found at i:4940538 original size:25 final size:25
Alignment explanation
Indices: 4940422--4940538 Score: 87
Period size: 24 Copynumber: 4.8 Consensus size: 25
4940412 GTCTCTTCGA
* * *
4940422 AGCTTCCCGATAT-TGACTCACTTG
1 AGCTTCCCGTTATATGGCTCACATG
* * ***
4940446 AACTTCCCGATAT-TGGCTTGTATG
1 AGCTTCCCGTTATATGGCTCACATG
* *
4940470 AGCTTCCCGTTA-ATGGCTCTCAGG
1 AGCTTCCCGTTATATGGCTCACATG
* **
4940494 AGCTTCCCATTATACAGCTCACATG
1 AGCTTCCCGTTATATGGCTCACATG
*
4940519 AGCTTCCTGTTATATGGCTC
1 AGCTTCCCGTTATATGGCTC
4940539 GAAAGAGCTT
Statistics
Matches: 70, Mismatches: 21, Indels: 3
0.74 0.22 0.03
Matches are distributed among these distances:
24 46 0.66
25 24 0.34
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCACATG
Found at i:4942444 original size:15 final size:16
Alignment explanation
Indices: 4942411--4942444 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4942401 ATATTATAAT
*
4942411 ATAATTATTCAATTGA
1 ATAATCATTCAATTGA
4942427 ATAATCATTCAA-TGA
1 ATAATCATTCAATTGA
4942442 ATA
1 ATA
4942445 GACACATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (16 bp):
ATAATCATTCAATTGA
Found at i:4950310 original size:7 final size:7
Alignment explanation
Indices: 4950300--4950331 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4950290 TATTTTAAAT
*
4950300 TTTTTAA
1 TTTTGAA
4950307 TTTTGAA
1 TTTTGAA
4950314 TTTTGAA
1 TTTTGAA
4950321 TTTTGAA
1 TTTTGAA
4950328 TTTT
1 TTTT
4950332 AAGAATCAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (7 bp):
TTTTGAA
Found at i:4950315 original size:15 final size:15
Alignment explanation
Indices: 4950287--4950331 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
4950277 GTTTTAGGTA
*
4950287 TTTT-ATTTTAAATT
1 TTTTAATTTTGAATT
4950301 TTTTAATTTTGAA-T
1 TTTTAATTTTGAATT
*
4950315 TTTGAATTTTGAATT
1 TTTTAATTTTGAATT
4950330 TT
1 TT
4950332 AAGAATCAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TTTTAATTTTGAATT
Found at i:4951409 original size:27 final size:26
Alignment explanation
Indices: 4951330--4951423 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
4951320 AATCTTGAAG
*
4951330 TAAT-TAATATAAATTATTTTTAAAATT
1 TAATATAATATAAATTATATTT--AATT
* **
4951357 AAATATAATAATAAGATT-TAGATAATT
1 TAATATAAT-ATAA-ATTATATTTAATT
*
4951384 TAATATAATCATAAATTATATTTAATA
1 TAATATAAT-ATAAATTATATTTAATT
*
4951411 TAATTTAATATAA
1 TAATATAATATAA
4951424 TAATACATGA
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
26 7 0.13
27 33 0.62
28 4 0.08
29 6 0.11
30 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (26 bp):
TAATATAATATAAATTATATTTAATT
Found at i:4951418 original size:10 final size:10
Alignment explanation
Indices: 4951378--4951424 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
4951368 TAAGATTTAG
4951378 ATAATTTAAT
1 ATAATTTAAT
*
4951388 ATAATCATAA-
1 ATAAT-TTAAT
4951398 ATTATATTTAAT
1 A-TA-ATTTAAT
4951410 ATAATTTAAT
1 ATAATTTAAT
4951420 ATAAT
1 ATAAT
4951425 AATACATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 18 0.58
11 10 0.32
12 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAATTTAAT
Found at i:4951454 original size:33 final size:34
Alignment explanation
Indices: 4951388--4951471 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 34
4951378 ATAATTTAAT
*
4951388 ATAAT-CATAAATTATATTTAATATAATTTAATATA
1 ATAATACATAAA--ATATTTAATATAATTCAATATA
*
4951423 ATAATACATGAAATATTTAA-ATAATTCAATATA
1 ATAATACATAAAATATTTAATATAATTCAATATA
* *
4951456 ATCATATATAAAATAT
1 ATAATACATAAAATAT
4951472 AAATCAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
33 25 0.58
34 8 0.19
35 5 0.12
36 5 0.12
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (34 bp):
ATAATACATAAAATATTTAATATAATTCAATATA
Found at i:4956286 original size:18 final size:18
Alignment explanation
Indices: 4956263--4956299 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4956253 TGAACAAATC
4956263 ATTTTATGATTTTAATTT
1 ATTTTATGATTTTAATTT
4956281 ATTTTATGATTTTAATTT
1 ATTTTATGATTTTAATTT
4956299 A
1 A
4956300 GTAGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATTTTATGATTTTAATTT
Found at i:4964128 original size:44 final size:44
Alignment explanation
Indices: 4964052--4964157 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
4964042 TCACATTTAT
* *
4964052 CACTTGTCACTTCTCACTAATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTAC
* * * * * * *
4964096 CAGTTATTACTTGTCACTGATTAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTAC
4964140 CACTTATCACTTATCACT
1 CACTTATCACTTATCACT
4964158 TGCCACTTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
CACTTATCACTTATCACTAATCAGATAAGTGTAGCTAAAGCTAC
Found at i:4964194 original size:58 final size:58
Alignment explanation
Indices: 4964104--4964215 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
4964094 ACCAGTTATT
* *
4964104 ACTTGTCACTGATTAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGCC
1 ACTTGTCACTGATCAGATAAGTGTAGCCGAGGCTACCACTTATCACTTATCACTTGCC
* *
4964162 ACTTGTCACTGATCAGATAAGTGTAGCCGAGGCTACCAGTTATCACTTGTCACT
1 ACTTGTCACTGATCAGATAAGTGTAGCCGAGGCTACCACTTATCACTTATCACT
4964216 GATTAGAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (58 bp):
ACTTGTCACTGATCAGATAAGTGTAGCCGAGGCTACCACTTATCACTTATCACTTGCC
Found at i:4968539 original size:17 final size:17
Alignment explanation
Indices: 4968513--4968547 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4968503 GATATATATT
*
4968513 TAAAACTATGATTTTAA
1 TAAAAATATGATTTTAA
4968530 TAAAAATATGATTTTAA
1 TAAAAATATGATTTTAA
4968547 T
1 T
4968548 TTTTTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (17 bp):
TAAAAATATGATTTTAA
Found at i:4971221 original size:28 final size:27
Alignment explanation
Indices: 4971184--4971242 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
4971174 ATTTCATGTA
*
4971184 TTATTATA-TTAAATTATTTAAATATAAT
1 TTATTATATTTAAAAT-TTTAAA-ATAAT
* *
4971212 TTATTGTATTTAAAATTTTAAAATATT
1 TTATTATATTTAAAATTTTAAAATAAT
4971239 TTAT
1 TTAT
4971243 GTACATTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 13 0.48
29 6 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
TTATTATATTTAAAATTTTAAAATAAT
Found at i:4973928 original size:14 final size:14
Alignment explanation
Indices: 4973909--4973936 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4973899 GATTAGATTA
4973909 ATTTTCATTATCTT
1 ATTTTCATTATCTT
4973923 ATTTTCATTATCTT
1 ATTTTCATTATCTT
4973937 TCCATTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTCATTATCTT
Found at i:4975642 original size:20 final size:21
Alignment explanation
Indices: 4975609--4975659 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
4975599 CTATTTTAAA
* *
4975609 TATTTTTAAGACATGTAT-TT
1 TATTTTAAAAACATGTATATT
*
4975629 TATTTTAAAAACATTTATACTT
1 TATTTTAAAAACATGTATA-TT
4975651 TATTTTAAA
1 TATTTTAAA
4975660 TTTAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 15 0.58
22 11 0.42
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (21 bp):
TATTTTAAAAACATGTATATT
Found at i:4980369 original size:21 final size:22
Alignment explanation
Indices: 4980330--4980374 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
4980320 CATGATTTTG
* *
4980330 TAATTAAAAGTAAAGAAATGAA
1 TAATTAAAAGTAAAAAAATAAA
*
4980352 TAATTTAAA-TAAAAAAATAAA
1 TAATTAAAAGTAAAAAAATAAA
4980373 TA
1 TA
4980375 GATGAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (22 bp):
TAATTAAAAGTAAAAAAATAAA
Found at i:4985146 original size:9 final size:9
Alignment explanation
Indices: 4985132--4985174 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
4985122 AATAAATGTG
4985132 ATTTAAATA
1 ATTTAAATA
4985141 ATTTAATATA
1 ATTTAA-ATA
*
4985151 ATTAATAAT-
1 ATTTA-AATA
4985160 ATTTAAATA
1 ATTTAAATA
4985169 ATTTAA
1 ATTTAA
4985175 TATATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
8 3 0.10
9 16 0.55
10 9 0.31
11 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTTAAATA
Found at i:4985149 original size:31 final size:28
Alignment explanation
Indices: 4985109--4985184 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
4985099 TTTATCAAAA
*
4985109 AATTAAATATAATAATAAATGTGATTTAAAT
1 AATTTAATATAATAATAAA--T-ATTTAAAT
4985140 AATTTAATATAATTAAT-AATATTTAAAT
1 AATTTAATATAA-TAATAAATATTTAAAT
*
4985168 AATTTAATATATTAATA
1 AATTTAATATAATAATA
4985185 TATAAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
27 4 0.10
28 19 0.46
29 1 0.02
31 13 0.32
32 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
AATTTAATATAATAATAAATATTTAAAT
Found at i:4990701 original size:3 final size:3
Alignment explanation
Indices: 4990693--4990724 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4990683 TTTTTCTTTA
4990693 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4990725 AAAAAGGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4990741 original size:11 final size:12
Alignment explanation
Indices: 4990724--4990756 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4990714 TATTATTATT
4990724 AAAAAAGGAAAG
1 AAAAAAGGAAAG
4990736 -AAAAA-GAAAG
1 AAAAAAGGAAAG
4990746 AAAAAAGGAAA
1 AAAAAAGGAAA
4990757 TCTGAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.26
11 10 0.53
12 4 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAAGGAAAG
Found at i:5012139 original size:23 final size:23
Alignment explanation
Indices: 5012107--5012185 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
5012097 AACATCGCTG
* *
5012107 AAGCGAATAACAGAACACTGCCA
1 AAGCGGATAATAGAACACTGCCA
*
5012130 AAGTGGATAATAGAACA-TCGCCA
1 AAGCGGATAATAGAACACT-GCCA
* * *
5012153 AAGCGGGTAATAGAACACCGCCG
1 AAGCGGATAATAGAACACTGCCA
5012176 AAGCGGATAA
1 AAGCGGATAA
5012186 ACAAAGTGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.98
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (23 bp):
AAGCGGATAATAGAACACTGCCA
Found at i:5012157 original size:46 final size:46
Alignment explanation
Indices: 5012090--5012185 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 46
5012080 TATACATAAC
** * *
5012090 ATAACAGAACATCGCTGAAGCGAATAACAGAACACTGCCAAAGTGG
1 ATAACAGAACATCGCCAAAGCGAATAACAGAACACCGCCAAAGCGG
* ** * *
5012136 ATAATAGAACATCGCCAAAGCGGGTAATAGAACACCGCCGAAGCGG
1 ATAACAGAACATCGCCAAAGCGAATAACAGAACACCGCCAAAGCGG
5012182 ATAA
1 ATAA
5012186 ACAAAGTGCG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (46 bp):
ATAACAGAACATCGCCAAAGCGAATAACAGAACACCGCCAAAGCGG
Found at i:5016194 original size:18 final size:18
Alignment explanation
Indices: 5016171--5016210 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
5016161 CAACAGATAC
*
5016171 GGTCATACGCCTTTTCTA
1 GGTCATAAGCCTTTTCTA
5016189 GGTCATAAGCCTTTTCTA
1 GGTCATAAGCCTTTTCTA
5016207 GGTC
1 GGTC
5016211 CACTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (18 bp):
GGTCATAAGCCTTTTCTA
Found at i:5019571 original size:29 final size:29
Alignment explanation
Indices: 5019551--5019626 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 29
5019541 TAAACCGACT
5019551 ACTACCTCCATCACCCTACTAAACCATCC
1 ACTACCTCCATCACCCTACTAAACCATCC
* * *
5019580 ACTACCTTCATCACCC--CCACACTC-TCC
1 ACTACCTCCATCACCCTACTAAAC-CATCC
5019607 ACTACCTCCATCACCCTACT
1 ACTACCTCCATCACCCTACT
5019627 TGTTATAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 22 0.56
28 1 0.03
29 16 0.41
ACGTcount: A:0.26, C:0.51, G:0.00, T:0.22
Consensus pattern (29 bp):
ACTACCTCCATCACCCTACTAAACCATCC
Found at i:5020035 original size:11 final size:11
Alignment explanation
Indices: 5020015--5020048 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
5020005 ATGTTTCATA
5020015 TTATTATATTAT
1 TTATT-TATTAT
5020027 TTATTTATTAT
1 TTATTTATTAT
*
5020038 ATATTTATTAT
1 TTATTTATTAT
5020049 GTAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:5020036 original size:16 final size:15
Alignment explanation
Indices: 5020015--5020046 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5020005 ATGTTTCATA
5020015 TTATTATATTATTTAT
1 TTATTATA-TATTTAT
5020031 TTATTATATATTTAT
1 TTATTATATATTTAT
5020046 T
1 T
5020047 ATGTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTATATATTTAT
Found at i:5020043 original size:64 final size:63
Alignment explanation
Indices: 5019904--5020037 Score: 159
Period size: 63 Copynumber: 2.2 Consensus size: 63
5019894 CCTTTCTTTA
* * *
5019904 TTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGTT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATATTTGTT
* * *
5019968 TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA-TTATT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATATTTGTT
*
5020028 TATTTATTAT
1 TTTTTATTAT
5020038 ATATTTATTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
60 13 0.21
61 13 0.21
62 4 0.06
63 20 0.32
64 12 0.19
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.63
Consensus pattern (63 bp):
TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATATTTGTT
Found at i:5020674 original size:29 final size:30
Alignment explanation
Indices: 5020624--5020691 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
5020614 TGGCCCAAGA
* * *
5020624 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTAAAGGACTAATAGT
*
5020654 GTAAATATGAAAAGTTAAAGGACTAATAGT
1 GTAAATATCAAAAGTTAAAGGACTAATAGT
*
5020684 GCAAATAT
1 GTAAATAT
5020692 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTAAAGGACTAATAGT
Found at i:5021361 original size:29 final size:30
Alignment explanation
Indices: 5021314--5021381 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
5021304 TGGCCCAAGA
* *
5021314 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
5021344 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
5021374 GCAAATAT
1 GTAAATAT
5021382 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:5024253 original size:126 final size:126
Alignment explanation
Indices: 5024028--5024271 Score: 416
Period size: 126 Copynumber: 1.9 Consensus size: 126
5024018 CATTGATCTT
* *
5024028 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
* *
5024093 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAAGATCCTCTTACCAGTTCA
* * *
5024154 CTCTCAAAAATTTTCATAATAAAGGCAATTTTCGGTATTTAAAAAATTTGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
*
5024219 ACGTACTGGGTTTCACTTTCTTTGTTTGTTTTGAATATTCGAAGATCCTCTTA
66 ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAAGATCCTCTTA
5024272 AGGCTAAAAC
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAAGATCCTCTTACCAGTTCA
Found at i:5027801 original size:21 final size:21
Alignment explanation
Indices: 5027777--5027821 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
5027767 GAGGGATCAA
*
5027777 ATGCTGGAGTCCCAGAAAAAC
1 ATGCTGGAGTCACAGAAAAAC
*
5027798 ATGCTGGAGTCACAGAACAAC
1 ATGCTGGAGTCACAGAAAAAC
5027819 ATG
1 ATG
5027822 ATGAGCCAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (21 bp):
ATGCTGGAGTCACAGAAAAAC
Found at i:5030392 original size:15 final size:15
Alignment explanation
Indices: 5030369--5030448 Score: 60
Period size: 15 Copynumber: 5.3 Consensus size: 15
5030359 CACTTAAAAA
5030369 AAAGAAGAAAAAAAGG
1 AAAG-AGAAAAAAAGG
*
5030385 AAAGAGAAAAAAAGA
1 AAAGAGAAAAAAAGG
5030400 AAAG-GAAAAAGAAGAG
1 AAAGAGAAAAA-AAG-G
*
5030416 AAA-A-CAAAAAAGAG
1 AAAGAGAAAAAAAG-G
*
5030430 AAAGA-AAATAAAAGC
1 AAAGAGAAA-AAAAGG
5030445 AAAG
1 AAAG
5030449 GAGAGGCCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
14 14 0.26
15 28 0.52
16 12 0.22
ACGTcount: A:0.75, C:0.03, G:0.21, T:0.01
Consensus pattern (15 bp):
AAAGAGAAAAAAAGG
Found at i:5030394 original size:14 final size:13
Alignment explanation
Indices: 5030366--5030432 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 13
5030356 CTTCACTTAA
5030366 AAAAAAG-AAGA-
1 AAAAAAGAAAGAG
5030377 AAAAAAGGAAAGAG
1 AAAAAA-GAAAGAG
5030391 AAAAAAAGAAA-AG
1 -AAAAAAGAAAGAG
*
5030404 GAAAAAG-AAGAG
1 AAAAAAGAAAGAG
*
5030416 AAAACAAAAAAGAG
1 AAAA-AAGAAAGAG
5030430 AAA
1 AAA
5030433 GAAAATAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
11 8 0.17
12 12 0.26
13 8 0.17
14 12 0.26
15 6 0.13
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAGAG
Found at i:5030414 original size:25 final size:27
Alignment explanation
Indices: 5030365--5030432 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 27
5030355 ACTTCACTTA
5030365 AAAAAAAGAAGAA--AAAAAGGAAAGAG
1 AAAAAAAGAA-AAGGAAAAAGGAAAGAG
5030391 AAAAAAAGAAAAGGAAAAA-G-AAGAG
1 AAAAAAAGAAAAGGAAAAAGGAAAGAG
*
5030416 AAAACAA-AAAAGAGAAA
1 AAAAAAAGAAAAG-GAAA
5030433 GAAAATAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
24 5 0.13
25 17 0.45
26 11 0.29
27 5 0.13
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (27 bp):
AAAAAAAGAAAAGGAAAAAGGAAAGAG
Done.