Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 14 of 311
Found at i:3948008 original size:9 final size:9
Alignment explanation
Indices: 3947994--3948019 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
3947984 ACTATTTAAT
3947994 TTTTTTTTA
1 TTTTTTTTA
3948003 TTTTTTTTA
1 TTTTTTTTA
3948012 TTTTTTTT
1 TTTTTTTT
3948020 TCATATTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:3950728 original size:24 final size:24
Alignment explanation
Indices: 3950701--3950803 Score: 80
Period size: 24 Copynumber: 4.5 Consensus size: 24
3950691 ATTCGGGAAT
*
3950701 GGTGGAGGATATGACGGCGGAGGC
1 GGTGGCGGATATGACGGCGGAGGC
3950725 GGTGGTGGCGGATAT---GGCGGAGGC
1 ---GGTGGCGGATATGACGGCGGAGGC
3950749 GGTGGCGGATAT------GGAGGC
1 GGTGGCGGATATGACGGCGGAGGC
* *
3950767 GGTGGCGGATATGGCGGCGGTGGC
1 GGTGGCGGATATGACGGCGGAGGC
*
3950791 GGTGGTGGATATG
1 GGTGGCGGATATG
3950804 GAGGTTGACG
Statistics
Matches: 67, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
18 18 0.27
21 12 0.18
24 26 0.39
27 11 0.16
ACGTcount: A:0.15, C:0.12, G:0.56, T:0.17
Consensus pattern (24 bp):
GGTGGCGGATATGACGGCGGAGGC
Found at i:3950766 original size:18 final size:18
Alignment explanation
Indices: 3950728--3950792 Score: 94
Period size: 18 Copynumber: 3.4 Consensus size: 18
3950718 CGGAGGCGGT
3950728 GGTGGCGGATATGGCGGAGGC
1 GGTGGCGGATAT---GGAGGC
3950749 GGTGGCGGATATGGAGGC
1 GGTGGCGGATATGGAGGC
*
3950767 GGTGGCGGATATGGCGGC
1 GGTGGCGGATATGGAGGC
3950785 GGTGGCGG
1 GGTGGCGG
3950793 TGGTGGATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
18 31 0.72
21 12 0.28
ACGTcount: A:0.12, C:0.14, G:0.58, T:0.15
Consensus pattern (18 bp):
GGTGGCGGATATGGAGGC
Found at i:3952982 original size:30 final size:30
Alignment explanation
Indices: 3952946--3953060 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
3952936 ACTTTTCTCA
3952946 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
3952976 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
3953006 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
3953036 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
3953061 CTTGTACCTA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 80 1.00
ACGTcount: A:0.26, C:0.50, G:0.03, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:3953585 original size:23 final size:23
Alignment explanation
Indices: 3953548--3953677 Score: 72
Period size: 23 Copynumber: 5.5 Consensus size: 23
3953538 CCTTTTTTGT
3953548 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
3953571 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
3953593 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
3953616 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
3953641 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
3953666 TATTATTTATAT
1 TATTATATATAT
3953678 ATATTTTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 26 0.32
24 6 0.07
25 26 0.32
26 2 0.02
27 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:3953641 original size:25 final size:25
Alignment explanation
Indices: 3953562--3953764 Score: 100
Period size: 25 Copynumber: 8.2 Consensus size: 25
3953552 ATTATATTTC
* * *
3953562 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
3953586 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
3953607 TAAATTCTATATTACGTATATATAT
1 TTAATACTATATTATGTATATATAT
* *
3953632 ATT-ATACTATTTTATGTATATATCT
1 -TTAATACTATATTATGTATATATAT
* *
3953657 TTAATATTATATTATTTATATATATTTTT
1 TTAATACTATATTATGTATATATA----T
** * *
3953686 TTACATGTTATCTTATGTATATAT-C
1 TTA-ATACTATATTATGTATATATAT
* *
3953711 TT-A-ACTATATTATGTATGTATTT
1 TTAATACTATATTATGTATATATAT
* * *
3953734 TTAACACTATATTATGTACATATTT
1 TTAATACTATATTATGTATATATAT
3953759 TTAATA
1 TTAATA
3953765 TTATCACGTA
Statistics
Matches: 137, Mismatches: 28, Indels: 27
0.71 0.15 0.14
Matches are distributed among these distances:
21 2 0.01
22 29 0.21
23 17 0.12
24 6 0.04
25 61 0.45
26 1 0.01
29 4 0.03
30 17 0.12
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:3953939 original size:16 final size:15
Alignment explanation
Indices: 3953915--3953962 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3953905 TAATTATTAT
*
3953915 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
3953931 TATTTTAATATTTTA
1 TATTTTAATATTTTA
3953946 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
3953962 T
1 T
3953963 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:3953950 original size:7 final size:8
Alignment explanation
Indices: 3953915--3953966 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3953905 TAATTATTAT
*
3953915 TATTCTAA
1 TATTTTAA
*
3953923 TATTTTGA
1 TATTTTAA
3953931 TATTTTAA
1 TATTTTAA
3953939 TATTTT-A
1 TATTTTAA
3953946 TATTTTATA
1 TATTTTA-A
*
3953955 TATTTTAT
1 TATTTTAA
3953963 TATT
1 TATT
3953967 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:3962393 original size:69 final size:70
Alignment explanation
Indices: 3962218--3962393 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
3962208 CTTTCCAAGG
* ** *
3962218 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
3962283 TTTTT
66 GTTTT
* ** * *
3962288 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
3962353 TGTTTT
65 TGTTTT
** *
3962359 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
3962394 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
69 31 0.34
71 60 0.66
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:3962570 original size:195 final size:191
Alignment explanation
Indices: 3962218--3962588 Score: 485
Period size: 195 Copynumber: 1.9 Consensus size: 191
3962208 CTTTCCAAGG
* * *
3962218 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTT
*** * * * * *
3962283 TTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCA
* **
3962348 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTTTTTC
131 G-TTATGTTTTAAATTAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTTTTTTC
* * *
3962410 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT-T
*
3962475 GTTGTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
65 -TT-TTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCCGAGGTAATT
* *
3962540 TCA-TT-TGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCT
128 TCAGTTATGTTTT--AAATT-AACTCATATTGCGAGAAATGAGTTAAGCCT
3962589 CAAGACACGT
Statistics
Matches: 153, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
192 63 0.41
193 3 0.02
194 7 0.05
195 80 0.52
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (191 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTT
TTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCCGAGGTAATTTCA
GTTATGTTTTAAATTAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTTTTTTC
Found at i:3962763 original size:77 final size:74
Alignment explanation
Indices: 3962410--3962743 Score: 428
Period size: 77 Copynumber: 4.5 Consensus size: 74
3962400 TTTTTTTTTC
* *
3962410 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
3962475 GTTGTTAAA
66 GTTTTTAAA
** *
3962484 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC-A-TT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
3962546 G-TTTT-CA
66 GTTTTTAAA
* * ** * *
3962553 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
3962618 GTTTTCAAAA
66 GTTTT-TAAA
* *
3962628 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
3962692 TCTGTTTTTTAAA
63 TCTG-TTTTTAAA
*
3962705 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
3962744 ATTACACACT
Statistics
Matches: 228, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
69 54 0.24
70 4 0.02
71 4 0.02
72 4 0.02
73 4 0.02
74 56 0.25
75 35 0.15
77 62 0.27
78 5 0.02
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTAAA
Found at i:3963215 original size:76 final size:75
Alignment explanation
Indices: 3963043--3963301 Score: 352
Period size: 75 Copynumber: 3.5 Consensus size: 75
3963033 ATTTGTTTCA
* * *
3963043 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA--AGACGCTGAGGTAATTTC-AATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAATT
*
3963105 T-TTGTTTGTC
66 TCTT-TTTATC
*
3963115 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAATT
3963180 CTCTTTTTATC
66 -TCTTTTTATC
* *
3963191 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA-AT
3963255 TTGCTTTTTA--
65 TT-CTTTTTATC
*
3963265 AAAGAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGC
3963302 TCGGGCACAC
Statistics
Matches: 169, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
72 39 0.23
74 18 0.11
75 57 0.34
76 53 0.31
77 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (75 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAATT
TCTTTTTATC
Found at i:3963531 original size:70 final size:69
Alignment explanation
Indices: 3963450--3963582 Score: 239
Period size: 70 Copynumber: 1.9 Consensus size: 69
3963440 TTTTAATTCA
*
3963450 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACATTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC-CATTGAGGTATTTTCAATTTA
3963515 TCATC
65 TCATC
*
3963520 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCGTTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCATTGAGGTATTTTCAATTT
3963583 CTGCTCAATT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
69 19 0.31
70 42 0.69
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (69 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCATTGAGGTATTTTCAATTTAT
CATC
Found at i:3963691 original size:155 final size:154
Alignment explanation
Indices: 3963361--3963707 Score: 406
Period size: 155 Copynumber: 2.2 Consensus size: 154
3963351 TTATTTTGTG
* *
3963361 TTCAAAAAATCAGCTCATATTGCGAGAGGTGAG-TGAACCTCAAGACGCTGAGTGTTTCCATTTC
1 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGTGTTTCAATTTC
** *
3963425 TATTTTCAATTTCTGTTTTAATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAA
66 -ATGCTCAATTTATGTTTT-ATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAA
3963490 GTCACATTGAGGTATTTTCAATTTATC
129 GTCACA-TGAGGTATTTTCAATTTATC
* * *
3963517 ATC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCGTTGAGGTATTTTCAAT
1 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-CGCTGA-GT-GTTTCAAT
*
3963581 TTC-TGCTCAATTTATG-TTT-TTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
63 TTCATGCTCAATTTATGTTTTATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
* * * *
3963642 CA-T-GC-TGAGGTGTTTTCAATTTCTGTTTT
128 -AGTCACATGAGGTATTTTCAA--T-T-TATC
*
3963671 TTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGA
1 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
3963708 GCCTTGGCTT
Statistics
Matches: 166, Mismatches: 15, Indels: 21
0.82 0.07 0.10
Matches are distributed among these distances:
150 13 0.08
152 2 0.01
153 40 0.24
154 8 0.05
155 60 0.36
156 17 0.10
157 15 0.09
158 2 0.01
159 9 0.05
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (154 bp):
TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGTGTTTCAATTTC
ATGCTCAATTTATGTTTTATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGT
CACATGAGGTATTTTCAATTTATC
Found at i:3963764 original size:78 final size:75
Alignment explanation
Indices: 3963587--3963821 Score: 311
Period size: 78 Copynumber: 3.1 Consensus size: 75
3963577 CAATTTCTGC
* *
3963587 TCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--C-ACATGC
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTACATGC
*
3963647 TGAGGTGTTT
66 TGAGGTTTTT
*
3963657 TCAATTTCTGTTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTTACAC
1 TCAATTTCTG-TTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGC-TACAT
3963722 GCTGAGGTATTTT
64 GCTGAGGT-TTTT
* * *
3963735 TCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCGGCTCACAT
1 TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCT-ACAT
3963800 GCTGAGGTCTTTT
64 GCTGAGGT-TTTT
3963813 T-AATTTCTG
1 TCAATTTCTG
3963822 CTTTCAATTT
Statistics
Matches: 146, Mismatches: 9, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
70 9 0.06
71 6 0.04
72 35 0.24
73 1 0.01
75 1 0.01
77 25 0.17
78 69 0.47
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (75 bp):
TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTACATGC
TGAGGTTTTT
Found at i:3963831 original size:238 final size:233
Alignment explanation
Indices: 3963097--3964245 Score: 784
Period size: 238 Copynumber: 4.7 Consensus size: 233
3963087 GCTGAGGTAA
* *
3963097 TTTCAATTTTTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GACACG
* *
3963162 CTGAGATATTTTCAAATTCTCT-TTTTATCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAG
63 CTGAGGTATTTTC-AATT-TCTGTTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
3963226 CCTCGG---ACACGCTGAGGTATTTTCAATTTTTGCTTTTTAAAAGAATTCAACTCATATTGCGA
125 CCTCGGCTCACACGCTGAGGTATTTTCAATTTCTG-TTTTCAAAA-AAATCAACTCATATTGCGA
** **
3963288 GAGGTGAGTTGAG-CTCGGGCACACG-TCGAGGTCCTTTCAA-TTCTAT
188 GAGGTGAGTTGAGCCTC-GG-ACACGCT-GAGGTATTTTCAATTTCTGC
* * * *
3963334 TTTTAATTTTCTTTTTTTTATTTTGTGTTCAAAAAATCAGCTCATATTGCGAGAGGTGAG-TGAA
1 TTTCAA----------TTTATGTT-T-TTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
3963398 CCTCAAGACGCTGAGTGTTTCCATTTCTATTTTCAATTTCTGTTTTAATTCAAAAAATCAACTCA
53 CCTCGACACGCTGAG-G----------TATTTTCAATTTCTG-TTT--TTCAAAAAATCAACTCA
* * * * **
3963463 TATTGCGAGAGGTGAGTTGAACCTCAAG-TCACA--TTGAGGTATTTTCAA-TT-TATCATC--A
104 TATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAATTTCTGTTTTCAAA
* * *
3963521 AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC-CGTTGAGGTATTTTCAATTTCT
168 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTTCT
3963585 GC
232 GC
*
3963587 --TCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-ACATGCTG
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACACGCTG
* * *
3963649 AGGTGTTTTCAATTTCTGTTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTG
66 AGGTATTTTCAATTTCTG-TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
3963714 GCTTACACGCTGAGGTATTTTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGT
130 GCTCACACGCTGAGGTA-TTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGT
* * *
3963779 GAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTCAATTTCTGTTTT
193 GAGTTGAGCCTCGG---ACACGCTGAGG------T-A----T--TTTCAATTTCTG---C
* *
3963839 TTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAAAGGTG-GTTTGAGCCTCGGGACAC
1 TTTCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTC--GACAC
* * *
3963903 GCTGAGGTAATTTCAATTTCTGTTTGTC--AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCC
62 GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
3963966 TCGGCTCACATGCTGAGGT-CTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAATCAACT
127 TCGGCTCACACGCTGAGGTATTTTCAATTTCTG----------T-T-TTC--AAAAAAATCAACT
* *
3964030 CATATTGGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAAATTTCTG-
178 CATATT-GCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTA-TTTTCAATTTCTGC
* * *
3964088 TTT---TTCA-------AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GACACGC
* * * *
3964143 TGAGGTAATTTCAATTTCTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC
64 TGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * * *
3964207 CGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAA
129 GGCTCACACGCTGAGGTATTTTCAATTTCTG-TTTTCAA
3964246 TTTCTGTTTT
Statistics
Matches: 750, Mismatches: 73, Indels: 188
0.74 0.07 0.19
Matches are distributed among these distances:
224 1 0.00
225 43 0.06
227 27 0.04
228 7 0.01
229 5 0.01
230 3 0.00
231 3 0.00
232 1 0.00
233 35 0.05
235 2 0.00
236 6 0.01
237 6 0.01
238 107 0.14
239 63 0.08
240 12 0.02
241 7 0.01
242 1 0.00
243 1 0.00
246 12 0.02
247 7 0.01
248 8 0.01
249 46 0.06
251 3 0.00
252 13 0.02
253 60 0.08
254 22 0.03
255 88 0.12
256 6 0.01
257 16 0.02
258 65 0.09
259 17 0.02
261 3 0.00
263 1 0.00
264 3 0.00
265 11 0.01
266 19 0.03
267 19 0.03
268 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (233 bp):
TTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACACGCTG
AGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
CTCACACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
TTGAGCCTCGGACACGCTGAGGTATTTTCAATTTCTGC
Found at i:3963971 original size:177 final size:181
Alignment explanation
Indices: 3963654--3964162 Score: 548
Period size: 177 Copynumber: 2.9 Consensus size: 181
3963644 TGCTGAGGTG
* * * * * *
3963654 TTTTCAATTTCTGTTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTTA
1 TTTTCAATTTATGATTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGC-GA
* *
3963719 CACGCTGAGGTATTTTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTT
65 CACGCTGAGGTATATTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
3963784 GAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCT-TTCAATTTCTGTTT
128 GAGCCTCGGCTCACATGCTGAGGTC-TTTCAATTTCTGCTCTTCAATTTCTGTTT
3963838 TTTTCAATTTAT-ATTTTTCAAAAAATCAACTCATATTGCGAAAGGTG-GTTTGAGCCTCGG-GA
1 TTTTCAATTTATGATTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAG-TTGAGCCTCGGCGA
*
3963900 CACGCTGAGGTA-ATTTCAATTTCTGTTTGTC-AAAATTAACTCATATTGCGAGAGGTGAGTTGA
65 CACGCTGAGGTATATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
3963963 GCCTCGGCTCACATGCTGAGGTCTTTCAATTTCTGTTCTTCAATTTCTG---
130 GCCTCGGCTCACATGCTGAGGTCTTTCAATTTCTGCTCTTCAATTTCTGTTT
* * **
3964012 --TTC-------G-----TAAAAAAATCAACTCATATTGGCGAGAGGTGAGTTGAGCCTC-AAGA
1 TTTTCAATTTATGATTTTTCAAAAAATCAACTCATATT-GCGAAAGGTGAGTTGAGCCTCGGCGA
* * * *
3964062 CACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTT
65 CACGCTGAGGTATATTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
3964127 GAGCCTCGG--GACACGCTGAGGTAATTTCAATTTCTG
128 GAGCCTCGGCTCACATGCTGAGGT-CTTTCAATTTCTG
3964163 TTTGTCAAAA
Statistics
Matches: 291, Mismatches: 23, Indels: 41
0.82 0.06 0.12
Matches are distributed among these distances:
161 19 0.07
162 32 0.11
163 17 0.06
164 11 0.04
165 12 0.04
166 37 0.13
172 3 0.01
176 12 0.04
177 63 0.22
180 18 0.06
181 13 0.04
182 1 0.00
183 42 0.14
184 11 0.04
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (181 bp):
TTTTCAATTTATGATTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCGAC
ACGCTGAGGTATATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGCTCACATGCTGAGGTCTTTCAATTTCTGCTCTTCAATTTCTGTTT
Found at i:3964006 original size:14 final size:14
Alignment explanation
Indices: 3963987--3964014 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3963977 GCTGAGGTCT
3963987 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3964001 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3964015 GTAAAAAAAT
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:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:3964084 original size:90 final size:85
Alignment explanation
Indices: 3963914--3964164 Score: 220
Period size: 90 Copynumber: 3.0 Consensus size: 85
3963904 CTGAGGTAAT
* * * * *
3963914 TTCAATTTCTGTTTGTCAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
1 TTCAATTTCTGTTCGTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CACACGC
*
3963979 TGAGGTCTTTCAATTTCTGTTC
64 TGAGGTCTTTAAATTTCTGTTC
3964001 TTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGGCGAGAGGTGAGTTGAGCCTCAAG-ACAC
1 TTCAATTTCTGTTCGT--AAAAATCAACTCATATT-GCGAGAGGTGAGTTGAGCCTC-AGCACAC
* *
3964065 GCTGAGGTATTTTTAAATTTCTGTTT
62 GCTGAGG--TCTTTAAATTTCTGTTC
* * *
3964091 TTCAA-----------AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTG
1 TTCAATTTCTGTTCGTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTG
* *
3964145 AGGTAATTTCAATTTCTGTT
66 AGGT-CTTTAAATTTCTGTT
3964165 TGTCAAAAAT
Statistics
Matches: 144, Mismatches: 12, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
74 1 0.01
75 14 0.10
76 31 0.22
77 17 0.12
87 15 0.10
88 10 0.07
89 15 0.10
90 40 0.28
91 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (85 bp):
TTCAATTTCTGTTCGTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTG
AGGTCTTTAAATTTCTGTTC
Found at i:3964130 original size:76 final size:74
Alignment explanation
Indices: 3964004--3964245 Score: 285
Period size: 76 Copynumber: 3.2 Consensus size: 74
3963994 TCTGTTCTTC
*
3964004 AATTTCTGTTCGT-AAAAAAATCAACTCATATTGGCGAGAGGTGAGTTGAGCCTCAAGACACGCT
1 AATTTCTGTTTGTCAAAAAAATCAACTCATATT-GCGAGAGGTGAGTTGAGCCTC-AGACACGCT
3964068 GAGGTATTTTT
64 GAGGTATTTTT
* * *
3964079 AAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCT
1 -AATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCT
* *
3964144 GAGGTAATTTC
64 GAGGTATTTTT
* * * *
3964155 AATTTCTGTTTGTC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCCGCTCACATGC
1 AATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG---ACACGC
*
3964218 TGAGGTCTTTTT
63 TGAGGTATTTTT
3964230 AATTTCTGCTTT-TCAA
1 AATTTCTG-TTTGTCAA
3964246 TTTCTGTTTT
Statistics
Matches: 143, Mismatches: 16, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
72 1 0.01
73 35 0.24
75 37 0.26
76 51 0.36
77 19 0.13
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (74 bp):
AATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGA
GGTATTTTT
Found at i:3964130 original size:166 final size:160
Alignment explanation
Indices: 3963857--3964164 Score: 431
Period size: 166 Copynumber: 1.9 Consensus size: 160
3963847 TATATTTTTC
** *
3963857 AAAAAATCAACTCATATTGCGAAAGGTGGTTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAAAGGTGGTTTGAGCCTCAAGACACGCTGAGGTAATTTAAATTT
* * * *
3963922 CTGTTTGTCAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGT-C
66 CTGTTTGTCAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG--CACACGCTGAGGTAA
3963986 TTTCAATTTCTGTTCTTCAATTTCTGTTCGTA
129 TTTCAATTTCTGTTCTTCAATTTCTGTTCGTA
* *
3964018 AAAAAATCAACTCATATTGGCGAGAGGTGAG-TTGAGCCTCAAGACACGCTGAGGTATTTTTAAA
1 AAAAAATCAACTCATATT-GCGAAAGGTG-GTTTGAGCCTCAAGACACGCTGAGGTA-ATTTAAA
* *
3964082 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAG
63 TTTCTGTTTGTC---AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAG
3964147 GTAATTTCAATTTCTGTT
125 GTAATTTCAATTTCTGTT
3964165 TGTCAAAAAT
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
161 18 0.14
162 32 0.25
163 17 0.13
164 11 0.09
165 14 0.11
166 37 0.29
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (160 bp):
AAAAAATCAACTCATATTGCGAAAGGTGGTTTGAGCCTCAAGACACGCTGAGGTAATTTAAATTT
CTGTTTGTCAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAATT
TCAATTTCTGTTCTTCAATTTCTGTTCGTA
Found at i:3964214 original size:416 final size:407
Alignment explanation
Indices: 3963446--3964306 Score: 1150
Period size: 416 Copynumber: 2.1 Consensus size: 407
3963436 TCTGTTTTAA
* * * *
3963446 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGTCACATTGAGGTATTTTCAA
1 TTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTCAAGACACACTGAGGTAATTTCAA
* *
3963511 TTTATCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCGTTGAGGTATTT
66 TTTATCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCGCTGAGGTACTT
* **
3963576 TCAATTTCTGCTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
131 TCAATTTCTGCTCAATTTATGTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * * *
3963641 ACATGCTGAGGTGTTTTCAATTTCTGTTTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTT
196 ACACGCTGAGGTGTTTTAAATTTCTGTTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTT
* * *
3963706 GAGCCTTGGCTTACACGCTGAGGTATTTTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTG
261 GAGCCTCGGC-GACACGCTGAGGTATATTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTG
* *
3963771 TGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGC-TTTCAATTTCTG
324 CGAGAGGTGAGTTGAGTCTCCGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTG
*
3963835 TTTTTTTCAATTTATATTT
389 TTTTTTTCAAATTATATTT
* ** *
3963854 TTCAAAAAATCAACTCATATTGCGAAAGGTG-GTTTGAGCCTCGGGACACGCTGAGGTAATTTCA
1 TTCAAAAAATCAACTCATATTGCGAAAGGTGAG-TTGAACCTCAAGACACACTGAGGTAATTTCA
* ** * * * *
3963918 ATTTCTGTTTGTC-AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTG
65 A-TT-T-ATCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG---AC-CGCTG
*
3963981 AGGT-CTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGGCGAGAGG
123 AGGTACTTTCAATTTCTG--C-TCAATTTATGTT-GTAAAAAAATCAACTCATATT-GCGAGAGG
*
3964045 TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAAATTTCTG-TTTTTCAAAAAAATCAACTCA
183 TGAGTTGAGCCTC---ACACGCTGAGGT-GTTTTAAATTTCTGTTTTTTC-AAAAAATCAACTCA
3964109 TATTGCGAAAGGTGAGTTGAGCCTCGG-GACACGCTGAGGTA-ATTTCAATTTCTGTTTGTC-AA
243 TATTGCGAAAGGTGAGTTGAGCCTCGGCGACACGCTGAGGTATATTTCAATTTCTGTTTGTCAAA
*
3964171 AAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCCGCTCACATGCTGAGGTCTTTTTAATTTC
308 AAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCCGCTCACATGCTGAGGTCTTTTTAATTTC
3964236 TGCTTTTCAATTTCTGTTTTTTTCAAATTATATTT
373 TGCTTTTCAATTTCTGTTTTTTTCAAATTATATTT
*
3964271 TTC-AAAAATCAACTCATATTGC-AAGATGTGAGTTGA
1 TTCAAAAAATCAACTCATATTGCGAA-AGGTGAGTTGA
3964307 GCCTTGGGTT
Statistics
Matches: 398, Mismatches: 34, Indels: 34
0.85 0.07 0.07
Matches are distributed among these distances:
407 1 0.00
408 55 0.14
409 3 0.01
410 36 0.09
411 3 0.01
412 14 0.04
413 7 0.02
414 1 0.00
415 13 0.03
416 112 0.28
417 55 0.14
418 18 0.05
419 13 0.03
420 17 0.04
421 50 0.13
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (407 bp):
TTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTCAAGACACACTGAGGTAATTTCAA
TTTATCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCGCTGAGGTACTT
TCAATTTCTGCTCAATTTATGTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
ACACGCTGAGGTGTTTTAAATTTCTGTTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTT
GAGCCTCGGCGACACGCTGAGGTATATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGTCTCCGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTT
TTTTTCAAATTATATTT
Found at i:3964445 original size:77 final size:75
Alignment explanation
Indices: 3964347--3964831 Score: 351
Period size: 77 Copynumber: 6.3 Consensus size: 75
3964337 AAATCTACTT
* ** * * * *
3964347 TTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTGCTTTTCAAAAG
1 TTGCGAGAGGTGAGTTGAGCCTCAGCACAC--GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAA
3964412 AATCAACTCATA
64 AATCAACTCATA
* ** * *
3964424 TTGTGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAA
1 TTGCGAGAGGTGAGTTGAGCCTCAGCACAC--GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAA
3964489 AATCAACTCATA
64 AATCAACTCATA
* *
3964501 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT-TCGTTTTTTTAATTT
1 TTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAATTTCT-G-TTTTTCAA---
* *
3964565 ATGTTTCAAAA-AAAATCA-A
61 A------AAAATCAACTCATA
* * * * * * * * *
3964584 CT-C-ATATTGCGAGAAG-TGAG-TTGAGCCTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGT
1 TTGCGAGA--G-GTG-AGTTGAGCCTCAG---C-ACACGCTGAGGTATTTTCAATTTCTGTTTTT
3964645 C--AAAAATCAACTCATA
58 CAAAAAAATCAACTCATA
* * * *
3964661 TTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAATTCTATTTTTATCAAAAA
1 TTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAATTTCT-GTTTT-TCAAAAA
3964726 AATCAACTCATA
64 AATCAACTCATA
* * * * *
3964738 TTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTGCTTTTT-AAAAGA
1 TTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAATTTCTG-TTTTTCAAAAAA
*
3964802 ATTAACTCATA
65 ATCAACTCATA
3964813 TTGCGAGAGGTGAGTTGAG
1 TTGCGAGAGGTGAGTTGAG
3964832 TCTCGGGCCA
Statistics
Matches: 330, Mismatches: 47, Indels: 64
0.75 0.11 0.15
Matches are distributed among these distances:
73 20 0.06
74 4 0.01
75 60 0.18
76 19 0.06
77 169 0.51
78 1 0.00
79 3 0.01
81 3 0.01
82 1 0.00
83 6 0.02
84 11 0.03
85 6 0.02
86 4 0.01
87 22 0.07
88 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (75 bp):
TTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAA
TCAACTCATA
Found at i:3964588 original size:89 final size:86
Alignment explanation
Indices: 3964480--3964642 Score: 263
Period size: 89 Copynumber: 1.9 Consensus size: 86
3964470 AATTTCTGTT
* *
3964480 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA--ACACGCTGAGGTAATTTC
3964545 AATTTTCGTTTTTTTAATTTATG
64 AATTTTCGTTTTTTTAATTTATG
*
3964568 TTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACGCTGAGGTAATTTCA
1 TTTC-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAACACGCTGAGGTAATTTCA
*
3964633 ATTTTTGTTT
65 ATTTTCGTTT
3964643 GTCAAAAATC
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
87 26 0.37
88 4 0.06
89 40 0.57
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (86 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAACACGCTGAGGTAATTTCAA
TTTTCGTTTTTTTAATTTATG
Found at i:3965087 original size:71 final size:71
Alignment explanation
Indices: 3964987--3965124 Score: 240
Period size: 71 Copynumber: 1.9 Consensus size: 71
3964977 CTGTTTTAAT
* *
3964987 TCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTCAAGTCACATTGAGGTATTTTCAAT
1 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
3965052 TTATCA
66 TTATCA
* *
3965058 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCCGTTGAGGTATTTTCAAT
1 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
3965123 TT
66 TT
3965125 CTGCTCAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (71 bp):
TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
TTATCA
Found at i:3965227 original size:155 final size:156
Alignment explanation
Indices: 3964896--3965248 Score: 441
Period size: 155 Copynumber: 2.2 Consensus size: 156
3964886 AATTTATGTG
* * * *
3964896 TTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGCTGAACCTCAAGACGCTGAGGTGTTTTCCA
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTTCAA
** * *
3964961 TTTCTATTTTCAATTTCTGTTTTAATTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAACC
65 TTTC-ATGCTCAATTTATGTTTT-ATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC
3965026 TCAAGTCACATTGAGGTATTTTCAATTTAT
128 TCAAGTCACA-TGAGGTATTTTCAATTTAT
** *
3965056 CATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCCGTTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA--CGCTGAGGTATTTTCA
*
3965121 ATTTC-TGCTCAATTTATG-TTT-TTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64 ATTTCATGCTCAATTTATGTTTTATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT
* *
3965182 CACA-T-GC-TGAGGTGTTTTCAATTTCTATT
129 CA-AGTCACATGAGGTATTTTCAA-TT-TA-T
3965211 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
3965249 GCCTTGGCTT
Statistics
Matches: 171, Mismatches: 16, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
152 13 0.08
153 2 0.01
154 3 0.02
155 75 0.44
156 4 0.02
158 3 0.02
159 51 0.30
160 2 0.01
161 18 0.11
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (156 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTTCAAT
TTCATGCTCAATTTATGTTTTATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
AGTCACATGAGGTATTTTCAATTTAT
Found at i:3965317 original size:78 final size:75
Alignment explanation
Indices: 3965129--3965367 Score: 310
Period size: 78 Copynumber: 3.2 Consensus size: 75
3965119 CAATTTCTGC
*
3965129 TCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--C-ACATGC
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTACATGC
*
3965189 TGAGGTGTTT
66 TGAGGTTTTT
* *
3965199 TCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTTACACG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TACATG
3965264 CTGAGGTATTTT
65 CTGAGGT-TTTT
* * * *
3965276 TCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCGGCTCACAT
1 TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT-ACAT
3965341 GCTGAGGTCTTTT
64 GCTGAGGT-TTTT
*
3965354 T-AATTTCTGCTTTT
1 TCAATTTCTGTTTTT
3965368 GAATTTCTGT
Statistics
Matches: 147, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
70 14 0.10
71 36 0.24
72 1 0.01
74 1 0.01
76 11 0.07
77 29 0.20
78 55 0.37
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (75 bp):
TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTACATGC
TGAGGTTTTT
Found at i:3965499 original size:73 final size:73
Alignment explanation
Indices: 3965380--3965541 Score: 216
Period size: 73 Copynumber: 2.2 Consensus size: 73
3965370 ATTTCTGTTT
* * * * *
3965380 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCTTCGGGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
3965445 TGAGGTAA
66 TGAGGTAA
* * *
3965453 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACAC
**
3965518 GCTGAGGTCT
64 GCTGAGGTAA
3965528 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
3965542 CTTCAATTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 52 0.68
75 25 0.32
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (73 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
TGAGGTAA
Found at i:3965513 original size:177 final size:181
Alignment explanation
Indices: 3965196--3965704 Score: 623
Period size: 177 Copynumber: 2.9 Consensus size: 181
3965186 TGCTGAGGTG
* * *
3965196 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTTAC
1 TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGC-GAC
* *
3965261 ACGCTGAGGTATTTTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTG
65 ACGCTGAGGTATATTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *
3965326 AGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTT-TTGAATTTCTGTT
129 AGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTG-TTCTTCAATTTCTGTT
3965379 TTTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAAAGGTGAGTTGAG-CTTCGG-GAC
1 TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTT-GGCGAC
*
3965441 ACGCTGAGGTA-ATTTCAATTTCTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGA
65 ACGCTGAGGTATATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
3965504 GCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTG--
130 GCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTT
* * **
3965554 --TTC---GTA-A------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACA
1 TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCGACA
* * * *
3965606 CGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAAGATCAACTCATATTGCGAAAGGTGAGTTGA
66 CGCTGAGGTATATTTCAATTTCTGTTTGTCAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGA
* * **
3965671 GCCTCGG--GACACGCTGAGGTAATTTCAATTTCTG
130 GCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTG
3965705 CTTGTCAAAA
Statistics
Matches: 297, Mismatches: 22, Indels: 32
0.85 0.06 0.09
Matches are distributed among these distances:
164 48 0.16
165 41 0.14
166 4 0.01
167 34 0.11
169 1 0.00
170 2 0.01
173 3 0.01
176 2 0.01
177 75 0.25
179 18 0.06
180 13 0.04
181 3 0.01
182 35 0.12
183 18 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (181 bp):
TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCGACA
CGCTGAGGTATATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTT
Found at i:3965548 original size:14 final size:14
Alignment explanation
Indices: 3965529--3965556 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3965519 CTGAGGTCTT
3965529 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3965543 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3965557 GTAAAAAAAA
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:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:3965736 original size:417 final size:396
Alignment explanation
Indices: 3965061--3966134 Score: 1261
Period size: 417 Copynumber: 2.7 Consensus size: 396
3965051 TTTATCATCA
* * * *
3965061 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC-C-C-GTTGAGGTATTTTCAAT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGCTCACTGCTGAGGTATTTTCAAT
* ** *
3965123 TTCTGCTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-ACAT
64 TTCTGCTCAATTT-TGTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACAC
* *
3965187 GCTGAGGTGTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
128 GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
3965252 TTGGCTTACACGCTGAGGTATTTTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGAGA
193 TCGG--GACACGCTGAGGTATTTTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGA
* * *
3965317 GGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTGAATTTCTGTTTTT
254 GGTGAGTTGAGTCTCCGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTATTTTT
*
3965382 TCAATTTATATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAG-CTTCGGG-ACACGC
319 TCAATTTATATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAATTGAGCCTT-GGGTACA--C
* * *
3965445 TGAGGTAATTTCAATTTCTGTTTGTC
381 -------ATGTCAA--GCTATTT-TC
*
3965471 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC-TGCTGAGGTATTTTCAATT
3965536 TCTGTTCTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
65 TCTG--C-TCAATTT-TGTTC-T-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-
* *
3965601 GGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAAGATCAACTCATATTGCGAAAGGTGA
123 -GACACGCTGAGGTA-TTTTCAATTTCTGTTTTTCAAAAA-ATCAACTCATATTGCGAGAGGTGA
* * *
3965666 GTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTTCTGCTTGTCAAAAATTAACTCATATTGC
185 GTTGAGCCTCGGGACACGCTGAGGTATTTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGC
3965730 GAGAGGTGAGTTGAGTCTCCGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTAT
250 GAGAGGTGAGTTGAGTCTCCGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTAT
* * *
3965795 TTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGATGTGAATTGAGCCTTGGGTTCA
315 TTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAATTGAGCCTTGGGTACA
* *
3965860 CATGTCGAGGTATTTTC
380 CATGTCAAGCTATTTTC
* ** * *
3965877 -AAAATCT-ACT--T-TTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTACTGAGCTATTTTCAAT
1 AAAAAT-TAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC-TGCTGAGGTATTTTCAAT
* * * *
3965937 TTCTG--C----TT-TTC-AAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTTGCTCA
64 TTCTGCTCAATTTTGTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCG-ACA
*
3965994 CGTGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
127 C--GCTGAGGTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *
3966059 AGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGA
189 AGCCTCGGGACACGCTGAGGTATTTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGA
*
3966124 TGTGAGTTGAG
254 GGTGAGTTGAG
3966135 CCTTGGGTTC
Statistics
Matches: 588, Mismatches: 53, Indels: 66
0.83 0.07 0.09
Matches are distributed among these distances:
387 1 0.00
388 39 0.07
389 67 0.11
390 60 0.10
391 3 0.01
392 1 0.00
393 1 0.00
397 1 0.00
402 47 0.08
403 1 0.00
405 8 0.01
406 3 0.01
407 4 0.01
408 2 0.00
409 6 0.01
410 37 0.06
412 20 0.03
414 1 0.00
415 11 0.02
416 2 0.00
417 171 0.29
418 5 0.01
419 17 0.03
420 24 0.04
421 22 0.04
422 34 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (396 bp):
AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACTGCTGAGGTATTTTCAATTT
CTGCTCAATTTTGTTCTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACACGCT
GAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
GGACACGCTGAGGTATTTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGTCTCCGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTATTTTTTCAATTT
ATATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAATTGAGCCTTGGGTACACATGTCAAGCT
ATTTTC
Found at i:3965776 original size:75 final size:73
Alignment explanation
Indices: 3965562--3965787 Score: 299
Period size: 76 Copynumber: 3.0 Consensus size: 73
3965552 TGTTCGTAAA
*
3965562 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCGGACACGCTGAGGTATTTTT-AATTT
*
3965627 CTGTTTTTC
65 CTGCTTTTC
* * * *
3965636 AAAAAGATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 -AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCGGACACGCTGAGGTATTTTTAATT
*
3965701 TCTGCTTGTC
64 TCTGCTTTTC
* * * * *
3965711 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCCGCTCACATGCTGAGGTCTTTTTAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCG--GACACGCTGAGGTATTTTTAATT
3965776 TCTGCTTTTC
64 TCTGCTTTTC
3965786 AA
1 AA
3965788 TTTCTATTTT
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
73 32 0.24
74 4 0.03
75 45 0.34
76 51 0.39
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCGGACACGCTGAGGTATTTTTAATTTC
TGCTTTTC
Found at i:3965798 original size:14 final size:14
Alignment explanation
Indices: 3965767--3965816 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
3965757 TGCTGAGGTC
*
3965767 TTTTT-AATTTCTG
1 TTTTTCAATTTCTA
*
3965780 CTTTTCAATTTCTA
1 TTTTTCAATTTCTA
*
3965794 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTA
3965809 TTTTTCAA
1 TTTTTCAA
3965817 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTA
Found at i:3965801 original size:15 final size:15
Alignment explanation
Indices: 3965781--3965813 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3965771 TAATTTCTGC
*
3965781 TTTTCAATTTCTATT
1 TTTTCAATTTATATT
3965796 TTTTCAATTTATATT
1 TTTTCAATTTATATT
3965811 TTT
1 TTT
3965814 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:3965986 original size:77 final size:75
Alignment explanation
Indices: 3965888--3966138 Score: 353
Period size: 77 Copynumber: 3.3 Consensus size: 75
3965878 AAATCTACTT
* *
3965888 TTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTACTGAGCTATTTTCAATTTCTGCTTTTCAAAAG
1 TTGCGAGAGGTGAGTTGAGCCTTTGCTCACGT-CTGAGCTATTTTCAATTTCTGTTTTTCAAAA-
3965953 AATCAACTCATA
64 AATCAACTCATA
*
3965965 TTGTGAGAGGTGAGTTGAGCCTTTGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAA
1 TTGCGAGAGGTGAGTTGAGCCTTTGCTCACGT-CTGAGCTATTTTCAATTTCTGTTTTTC-AAAA
3966030 AATCAACTCATA
64 AATCAACTCATA
** ** * *
3966042 TTGCGAGAGGTGAGTTGAGCCTCAGGACACG-CTGAGGTATTTTTAAATTTCTGTTTTTC-AAAA
1 TTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTCTGAGCTA-TTTTCAATTTCTGTTTTTCAAAAA
3966105 ATCAACTCATA
65 ATCAACTCATA
*
3966116 TTGCGAGATGTGAGTTGAGCCTT
1 TTGCGAGAGGTGAGTTGAGCCTT
3966139 GGGTTCAAAT
Statistics
Matches: 159, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
74 36 0.23
75 7 0.04
76 18 0.11
77 94 0.59
78 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.35
Consensus pattern (75 bp):
TTGCGAGAGGTGAGTTGAGCCTTTGCTCACGTCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAA
TCAACTCATA
Found at i:3966884 original size:30 final size:30
Alignment explanation
Indices: 3966848--3966962 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
3966838 ACTTTTCTCA
3966848 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
3966878 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
3966908 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
3966938 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
3966963 CTTGTACCTA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 80 1.00
ACGTcount: A:0.26, C:0.50, G:0.03, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:3967492 original size:23 final size:23
Alignment explanation
Indices: 3967455--3967582 Score: 70
Period size: 23 Copynumber: 5.5 Consensus size: 23
3967445 CTTTTTTTGT
3967455 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
3967478 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
3967500 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
3967523 TATTACGTATATA-TATT-ATACTA
1 TATTA--TATATATTCTTAATATTA
* *
3967546 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
3967571 TATTATTTATAT
1 TATTATATATAT
3967583 ATATTTTTTT
Statistics
Matches: 78, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
21 8 0.10
22 15 0.19
23 25 0.32
24 8 0.10
25 22 0.28
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:3967558 original size:25 final size:25
Alignment explanation
Indices: 3967469--3967670 Score: 84
Period size: 25 Copynumber: 8.2 Consensus size: 25
3967459 ATTATATTTC
* * *
3967469 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
3967493 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
3967514 TAAATTCTATATTACGTATATATA-
1 TTAATACTATATTATGTATATATAT
* *
3967538 TT-ATACTATTTTATGTATATATCT
1 TTAATACTATATTATGTATATATAT
* *
3967562 TTAATATTATATTATTTATATATATTTTTT
1 TTAATACTATATTATGTATATATA-----T
** *
3967592 TTACATGTTATCTTATGT-T-TATAT
1 TTA-ATACTATATTATGTATATATAT
* *
3967616 CTT-A-ACTATATTATGTATGTATTT
1 -TTAATACTATATTATGTATATATAT
* * *
3967640 TTAACACTATATTATGTACATATTT
1 TTAATACTATATTATGTATATATAT
3967665 TTAATA
1 TTAATA
3967671 TTATCACGTA
Statistics
Matches: 135, Mismatches: 26, Indels: 33
0.70 0.13 0.17
Matches are distributed among these distances:
21 2 0.01
22 24 0.18
23 35 0.26
24 12 0.09
25 42 0.31
29 4 0.03
30 5 0.04
31 11 0.08
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:3967849 original size:16 final size:15
Alignment explanation
Indices: 3967825--3967872 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3967815 TAATTATTAT
*
3967825 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
3967841 TATTTTAATATTTTA
1 TATTTTAATATTTTA
3967856 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
3967872 T
1 T
3967873 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:3967860 original size:7 final size:8
Alignment explanation
Indices: 3967825--3967876 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3967815 TAATTATTAT
*
3967825 TATTCTAA
1 TATTTTAA
*
3967833 TATTTTGA
1 TATTTTAA
3967841 TATTTTAA
1 TATTTTAA
3967849 TATTTT-A
1 TATTTTAA
3967856 TATTTTATA
1 TATTTTA-A
*
3967865 TATTTTAT
1 TATTTTAA
3967873 TATT
1 TATT
3967877 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:3973148 original size:18 final size:18
Alignment explanation
Indices: 3973106--3973150 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
3973096 GAAAAATGAG
3973106 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
3973123 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
3973140 AATTTTTGAAA
1 AATTTTTGAAA
3973151 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:3975098 original size:27 final size:27
Alignment explanation
Indices: 3975060--3975117 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
3975050 CTTTGTGCAT
3975060 CTGAGGAGTGAGTAGGAACCTCCACGG
1 CTGAGGAGTGAGTAGGAACCTCCACGG
*
3975087 CTGAGGAGTGAGTAGGAACCTCCATGG
1 CTGAGGAGTGAGTAGGAACCTCCACGG
3975114 CTGA
1 CTGA
3975118 TAAAGACTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.36, T:0.17
Consensus pattern (27 bp):
CTGAGGAGTGAGTAGGAACCTCCACGG
Found at i:3977586 original size:15 final size:15
Alignment explanation
Indices: 3977549--3977609 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
3977539 TTTGCCCGGG
3977549 CTAAAAAGCCCAACAT
1 CTAAAAA-CCCAACAT
3977565 CTAAAAAACCCAACAT
1 CT-AAAAACCCAACAT
* *
3977581 CTAAAAACCTAACAG
1 CTAAAAACCCAACAT
**
3977596 CCCAAAACCCAACA
1 CTAAAAACCCAACA
3977610 ACCTCCAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
15 22 0.56
16 12 0.31
17 5 0.13
ACGTcount: A:0.52, C:0.34, G:0.03, T:0.10
Consensus pattern (15 bp):
CTAAAAACCCAACAT
Found at i:3977587 original size:17 final size:16
Alignment explanation
Indices: 3977549--3977587 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
3977539 TTTGCCCGGG
*
3977549 CTAAAAAGCCCAACAT
1 CTAAAAAACCCAACAT
3977565 CTAAAAAACCCAACAT
1 CTAAAAAACCCAACAT
3977581 CTAAAAA
1 CTAAAAA
3977588 CCTAACAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.28, G:0.03, T:0.13
Consensus pattern (16 bp):
CTAAAAAACCCAACAT
Found at i:3977711 original size:13 final size:13
Alignment explanation
Indices: 3977693--3977778 Score: 62
Period size: 13 Copynumber: 7.2 Consensus size: 13
3977683 TCTTCACTCT
3977693 AACCACCCCACTA
1 AACCACCCCACTA
* *
3977706 AACCACTCCATTA
1 AACCACCCCACTA
*
3977719 AACCA-CTC-C--
1 AACCACCCCACTA
*
3977728 AACCACCCTACTA
1 AACCACCCCACTA
3977741 AACCA-CCC-C--
1 AACCACCCCACTA
3977750 AACCACCCCACTA
1 AACCACCCCACTA
* *
3977763 AACCACTCTACTA
1 AACCACCCCACTA
3977776 AAC
1 AAC
3977779 TATCATAATC
Statistics
Matches: 55, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
9 10 0.18
10 4 0.07
11 3 0.05
12 3 0.05
13 35 0.64
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:3977731 original size:22 final size:21
Alignment explanation
Indices: 3977706--3977770 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
3977696 CACCCCACTA
*
3977706 AACCACTCCATTAAACCACTCC
1 AACCAC-CCACTAAACCACTCC
*
3977728 AACCACCCTACTAAACCACCCC
1 AACCACCC-ACTAAACCACTCC
3977750 AACCACCCCACTAAACCACTC
1 AACCA-CCCACTAAACCACTC
3977771 TACTAAACTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.87
23 3 0.08
ACGTcount: A:0.37, C:0.51, G:0.00, T:0.12
Consensus pattern (21 bp):
AACCACCCACTAAACCACTCC
Found at i:3978201 original size:19 final size:18
Alignment explanation
Indices: 3978164--3978205 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
3978154 GGAGAGAGTG
*
3978164 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
3978182 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
3978201 TTATT
1 TTATT
3978206 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:3981338 original size:55 final size:54
Alignment explanation
Indices: 3981250--3981500 Score: 219
Period size: 55 Copynumber: 4.8 Consensus size: 54
3981240 CATTTGGGTT
*
3981250 CAAGGATACCATGTAAGACCATG-CTAAGGCATGGCAATTGGTAAGGTTTCTAAGG
1 CAAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAA-GTTTCTAAGG
* * * *
3981305 CAAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT--TCTAAGG
* * * * *
3981360 CAAAGG-TCCCATGTAAGACCGTGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGG
1 C-AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTC-TAAGG
3981413 CAAGGATACCATGT---A--ATGTCAAGACATGGCAA-TGGTAAGTTTC-AA--
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
* * *
3981458 -AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
3981501 GTACCCATGT
Statistics
Matches: 161, Mismatches: 22, Indels: 32
0.75 0.10 0.15
Matches are distributed among these distances:
44 12 0.07
47 3 0.02
48 18 0.11
49 26 0.16
50 1 0.01
52 5 0.03
53 16 0.10
54 8 0.05
55 67 0.42
56 5 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
Found at i:3984988 original size:25 final size:26
Alignment explanation
Indices: 3984960--3985009 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
3984950 TATAGACTAA
*
3984960 ATATATATA-TTTTTTATTTTTAATC
1 ATATATATATTTTTTTAATTTTAATC
*
3984985 ATATTTATATTTTTTTAATTTTAAT
1 ATATATATATTTTTTTAATTTTAAT
3985010 ATAATCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
ATATATATATTTTTTTAATTTTAATC
Found at i:3987748 original size:25 final size:24
Alignment explanation
Indices: 3987705--3987758 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
3987695 TCAAAAAAAT
*
3987705 AAAA-AAAAAGAGAAAAATTTGAA
1 AAAAGAAAAAGAGAAAAATTCGAA
3987728 AAAAGAAAAAG-GAAAAGAATTCGAA
1 AAAAGAAAAAGAG-AAA-AATTCGAA
3987753 AAAAGA
1 AAAAGA
3987759 TTCTAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 5 0.19
24 9 0.33
25 13 0.48
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (24 bp):
AAAAGAAAAAGAGAAAAATTCGAA
Found at i:3992204 original size:19 final size:19
Alignment explanation
Indices: 3992172--3992209 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3992162 TTTTAGTTCA
*
3992172 AAAAAATATTAATTGTTTGG
1 AAAAAATATGAATT-TTTGG
3992192 AAAAAA-ATGAATTTTTGG
1 AAAAAATATGAATTTTTGG
3992210 TAATTTTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (19 bp):
AAAAAATATGAATTTTTGG
Found at i:3995493 original size:21 final size:23
Alignment explanation
Indices: 3995464--3995518 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
3995454 GTAAAAATGT
*
3995464 ATAAAATAAT-TAA-ATATTAAA
1 ATAATATAATATAATATATTAAA
*
3995485 ATAATATAATATAATATTTTAAA
1 ATAATATAATATAATATATTAAA
*
3995508 AAAAT-TAATAT
1 ATAATATAATAT
3995519 GGGCGGGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.31
22 9 0.31
23 11 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAATATAATATAATATATTAAA
Found at i:4002084 original size:17 final size:17
Alignment explanation
Indices: 4002064--4002154 Score: 76
Period size: 17 Copynumber: 5.1 Consensus size: 17
4002054 AAAAAATGAG
4002064 AATTTTTAAAACACGAA
1 AATTTTTAAAACACGAA
*
4002081 AATTTTGAAAACACGAA
1 AATTTTTAAAACACGAA
*
4002098 AATTTTTGAAAC-CTGAA
1 AATTTTTAAAACAC-GAA
**
4002115 TTTTTTTTAGAAAAACACGAA
1 -AATTTTT---AAAACACGAA
*
4002136 AAATTTTAGAAACACGAA
1 AATTTTTA-AAACACGAA
4002154 A
1 A
4002155 TGTTTACAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
16 1 0.02
17 30 0.52
18 15 0.26
20 4 0.07
21 7 0.12
22 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (17 bp):
AATTTTTAAAACACGAA
Found at i:4002816 original size:3 final size:3
Alignment explanation
Indices: 4002808--4002835 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4002798 ACTAATTTAA
4002808 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4002836 CAAACCAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4004060 original size:27 final size:27
Alignment explanation
Indices: 4004022--4004079 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
4004012 CTTTGTGCAT
4004022 CTGAGGAGTGAGTAGGAACCTCCACGG
1 CTGAGGAGTGAGTAGGAACCTCCACGG
*
4004049 CTGAGGAGTGAGTAGGAACCTCCATGG
1 CTGAGGAGTGAGTAGGAACCTCCACGG
4004076 CTGA
1 CTGA
4004080 TAAAGACTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.36, T:0.17
Consensus pattern (27 bp):
CTGAGGAGTGAGTAGGAACCTCCACGG
Found at i:4006551 original size:15 final size:15
Alignment explanation
Indices: 4006514--4006574 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
4006504 TTTGCCCGGG
4006514 CTAAAAAGCCCAACAT
1 CTAAAAA-CCCAACAT
4006530 CTAAAAAACCCAACAT
1 CT-AAAAACCCAACAT
* *
4006546 CTAAAAACCTAACAG
1 CTAAAAACCCAACAT
**
4006561 CCCAAAACCCAACA
1 CTAAAAACCCAACA
4006575 ACCTCCAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
15 22 0.56
16 12 0.31
17 5 0.13
ACGTcount: A:0.52, C:0.34, G:0.03, T:0.10
Consensus pattern (15 bp):
CTAAAAACCCAACAT
Found at i:4006552 original size:17 final size:16
Alignment explanation
Indices: 4006514--4006552 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
4006504 TTTGCCCGGG
*
4006514 CTAAAAAGCCCAACAT
1 CTAAAAAACCCAACAT
4006530 CTAAAAAACCCAACAT
1 CTAAAAAACCCAACAT
4006546 CTAAAAA
1 CTAAAAA
4006553 CCTAACAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.28, G:0.03, T:0.13
Consensus pattern (16 bp):
CTAAAAAACCCAACAT
Found at i:4006676 original size:13 final size:13
Alignment explanation
Indices: 4006658--4006743 Score: 62
Period size: 13 Copynumber: 7.2 Consensus size: 13
4006648 TCTTCACTCT
4006658 AACCACCCCACTA
1 AACCACCCCACTA
* *
4006671 AACCACTCCATTA
1 AACCACCCCACTA
*
4006684 AACCA-CTC-C--
1 AACCACCCCACTA
*
4006693 AACCACCCTACTA
1 AACCACCCCACTA
4006706 AACCA-CCC-C--
1 AACCACCCCACTA
4006715 AACCACCCCACTA
1 AACCACCCCACTA
* *
4006728 AACCACTCTACTA
1 AACCACCCCACTA
4006741 AAC
1 AAC
4006744 TATCATAATC
Statistics
Matches: 55, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
9 10 0.18
10 4 0.07
11 3 0.05
12 3 0.05
13 35 0.64
ACGTcount: A:0.38, C:0.49, G:0.00, T:0.13
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:4006696 original size:22 final size:21
Alignment explanation
Indices: 4006671--4006735 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
4006661 CACCCCACTA
*
4006671 AACCACTCCATTAAACCACTCC
1 AACCAC-CCACTAAACCACTCC
*
4006693 AACCACCCTACTAAACCACCCC
1 AACCACCC-ACTAAACCACTCC
4006715 AACCACCCCACTAAACCACTC
1 AACCA-CCCACTAAACCACTC
4006736 TACTAAACTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.87
23 3 0.08
ACGTcount: A:0.37, C:0.51, G:0.00, T:0.12
Consensus pattern (21 bp):
AACCACCCACTAAACCACTCC
Found at i:4007167 original size:19 final size:18
Alignment explanation
Indices: 4007130--4007171 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
4007120 GGAGAGAGTG
*
4007130 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
4007148 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
4007167 TTATT
1 TTATT
4007172 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:4010304 original size:55 final size:54
Alignment explanation
Indices: 4010216--4010466 Score: 219
Period size: 55 Copynumber: 4.8 Consensus size: 54
4010206 CATTTGGGTT
*
4010216 CAAGGATACCATGTAAGACCATG-CTAAGGCATGGCAATTGGTAAGGTTTCTAAGG
1 CAAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAA-GTTTCTAAGG
* * * *
4010271 CAAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT--TCTAAGG
* * * * *
4010326 CAAAGG-TCCCATGTAAGACCGTGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGG
1 C-AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTC-TAAGG
4010379 CAAGGATACCATGT---A--ATGTCAAGACATGGCAA-TGGTAAGTTTC-AA--
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
* * *
4010424 -AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
4010467 GTACCCATGT
Statistics
Matches: 161, Mismatches: 22, Indels: 32
0.75 0.10 0.15
Matches are distributed among these distances:
44 12 0.07
47 3 0.02
48 18 0.11
49 26 0.16
50 1 0.01
52 5 0.03
53 16 0.10
54 8 0.05
55 67 0.42
56 5 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
Found at i:4014908 original size:21 final size:21
Alignment explanation
Indices: 4014882--4014924 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
4014872 TATAGACTAA
4014882 ATATATATATTTTTATTTTAATC
1 ATATATATA-TTTT-TTTTAATC
*
4014905 ATATTTATATTTTTTTTAAT
1 ATATATATATTTTTTTTAAT
4014925 TTTAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
ATATATATATTTTTTTTAATC
Found at i:4017660 original size:25 final size:23
Alignment explanation
Indices: 4017617--4017669 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
4017607 TCAAAAAAAT
*
4017617 AAAAAAAAAGAGAAAAATTTGAA
1 AAAAAAAAAGAGAAAAATTCGAA
4017640 AAAAGAAAAAG-GAAAAGAATTCGAA
1 AAAA-AAAAAGAG-AAA-AATTCGAA
4017665 AAAAA
1 AAAAA
4017670 GATTCTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 5 0.19
24 10 0.38
25 11 0.42
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.09
Consensus pattern (23 bp):
AAAAAAAAAGAGAAAAATTCGAA
Found at i:4019234 original size:18 final size:18
Alignment explanation
Indices: 4019213--4019249 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4019203 TATAAAAATT
*
4019213 TTAAAAATTTTAAATATA
1 TTAAAAATTCTAAATATA
*
4019231 TTAATAATTCTAAATATA
1 TTAAAAATTCTAAATATA
4019249 T
1 T
4019250 ATATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAAAAATTCTAAATATA
Found at i:4020263 original size:2 final size:2
Alignment explanation
Indices: 4020256--4020282 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4020246 TTATAAACTA
4020256 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4020283 ATCCACAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4022163 original size:19 final size:19
Alignment explanation
Indices: 4022131--4022168 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4022121 TTGAGTTCAA
*
4022131 AAAAAATATTAATTGTTTGG
1 AAAAAATATGAATT-TTTGG
4022151 AAAAAA-ATGAATTTTTGG
1 AAAAAATATGAATTTTTGG
4022169 TAATTTTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (19 bp):
AAAAAATATGAATTTTTGG
Found at i:4025456 original size:21 final size:23
Alignment explanation
Indices: 4025427--4025481 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
4025417 GTAAAAATGT
*
4025427 ATAAAATAAT-TAA-ATATTAAA
1 ATAATATAATATAATATATTAAA
*
4025448 ATAATATAATATAATATTTTAAA
1 ATAATATAATATAATATATTAAA
*
4025471 AAAAT-TAATAT
1 ATAATATAATAT
4025482 GGGCGGGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.31
22 9 0.31
23 11 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAATATAATATAATATATTAAA
Found at i:4030568 original size:18 final size:18
Alignment explanation
Indices: 4030541--4030580 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
4030531 TGCAACTTCA
4030541 GGGA-GATAAGATTCACC
1 GGGATGATAAGATTCACC
4030558 GGGATGATAAGATTCACC
1 GGGATGATAAGATTCACC
4030576 GGGAT
1 GGGAT
4030581 AACTTCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.20
Consensus pattern (18 bp):
GGGATGATAAGATTCACC
Found at i:4030620 original size:50 final size:49
Alignment explanation
Indices: 4030558--4030818 Score: 158
Period size: 50 Copynumber: 5.3 Consensus size: 49
4030548 AAGATTCACC
* * *
4030558 GGGATGATAAGATTCACCGGGATAACTTCAATCTGCTCCACTACAACTTCT
1 GGGA-GATAAGATTCA-CGCGATAACTTCAATCTGCTCCACTGCAACTTCA
* *** ** *
4030609 GGGAGATAAGATTTGATAAGATTTGTGGCTTCAATCTGCTCCACTACAACTTCA
1 GGGAGATAAGA-TTCACGCGA----TAACTTCAATCTGCTCCACTGCAACTTCA
* * ** * *
4030663 GTGAGAT-AGATT----TG-TGGCTTTAATCTGTTCCA-TCGCAACTTCA
1 GGGAGATAAGATTCACGCGATAACTTCAATCTGCTCCACT-GCAACTTCA
* * *
4030706 GGGAGATAAGATTCACCGCGATAATTTTAATCTGCTCCACCGCAACTTCA
1 GGGAGATAAGATTCA-CGCGATAACTTCAATCTGCTCCACTGCAACTTCA
* * * * * *
4030756 GGGAGATAAGATTCATCACAATGATTTAAATTTGCTCCACTGCAACTTCA
1 GGGAGATAAGATTCA-CGCGATAACTTCAATCTGCTCCACTGCAACTTCA
4030806 GGGAGATAAGATT
1 GGGAGATAAGATT
4030819 AGTGGCTTTA
Statistics
Matches: 170, Mismatches: 26, Indels: 29
0.76 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 30 0.18
44 5 0.03
48 1 0.01
49 1 0.01
50 88 0.52
51 7 0.04
52 2 0.01
53 3 0.02
54 32 0.19
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (49 bp):
GGGAGATAAGATTCACGCGATAACTTCAATCTGCTCCACTGCAACTTCA
Found at i:4030688 original size:43 final size:44
Alignment explanation
Indices: 4030623--4030718 Score: 133
Period size: 43 Copynumber: 2.2 Consensus size: 44
4030613 GATAAGATTT
*
4030623 GATAAGATTTGTGGCTTCAATCTGCTCCA-CTACAACTTCAGTGA
1 GATAAGATTTGTGGCTTCAATCTGCTCCATC-ACAACTTCAGGGA
* * *
4030667 GAT-AGATTTGTGGCTTTAATCTGTTCCATCGCAACTTCAGGGA
1 GATAAGATTTGTGGCTTCAATCTGCTCCATCACAACTTCAGGGA
4030710 GATAAGATT
1 GATAAGATT
4030719 CACCGCGATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 37 0.80
44 9 0.20
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (44 bp):
GATAAGATTTGTGGCTTCAATCTGCTCCATCACAACTTCAGGGA
Found at i:4035646 original size:29 final size:29
Alignment explanation
Indices: 4035609--4035664 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
4035599 TAACTATTTG
*
4035609 AACTAATTAATAATATTATAAAAATATTA
1 AACTAATTAATAACATTATAAAAATATTA
* *
4035638 AACTCATTAATAACATTATAGAAATAT
1 AACTAATTAATAACATTATAAAAATAT
4035665 AGAGACCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (29 bp):
AACTAATTAATAACATTATAAAAATATTA
Found at i:4037011 original size:7 final size:7
Alignment explanation
Indices: 4036999--4037023 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4036989 CTTGAATCCG
4036999 AACCATT
1 AACCATT
4037006 AACCATT
1 AACCATT
4037013 AACCATT
1 AACCATT
4037020 AACC
1 AACC
4037024 TCAAACCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (7 bp):
AACCATT
Found at i:4040243 original size:24 final size:24
Alignment explanation
Indices: 4040216--4040266 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
4040206 AAAACCCACT
*
4040216 AACCCATACCCA-CTAACCTAAACC
1 AACCCA-ACCCACCTAAACTAAACC
* *
4040240 AACCTAACCCACCTAAACTAACCC
1 AACCCAACCCACCTAAACTAAACC
4040264 AAC
1 AAC
4040267 AGAGGCCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.43, C:0.45, G:0.00, T:0.12
Consensus pattern (24 bp):
AACCCAACCCACCTAAACTAAACC
Found at i:4041643 original size:39 final size:37
Alignment explanation
Indices: 4041546--4041643 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 37
4041536 ATATGGTATT
* * * *
4041546 AAAATATATATAT-ATATGTATATATAATAGTATTTA
1 AAAATATATACATAATATATATATATAATAGCATTAA
* * * *
4041582 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATAT-A-TAATAGCATTAA
4041621 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
4041644 AAATACCTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
36 11 0.23
37 7 0.15
38 1 0.02
39 29 0.60
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (37 bp):
AAAATATATACATAATATATATATATAATAGCATTAA
Found at i:4042954 original size:88 final size:83
Alignment explanation
Indices: 4042849--4044426 Score: 333
Period size: 88 Copynumber: 18.8 Consensus size: 83
4042839 AACAGACATT
** * *
4042849 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
4042914 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * * * ** * *
4042937 AAAAGCAGATTTTGAAAACACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCACAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
4043001 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * * * ** *** *
4043020 AAATTAAAAGA--CT-CAACTCAACTCTCGTA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
*
4043081 ATGAGTTAAATTTTTTTGAAAAA---
60 ATGAGTT-GA-TTTTTTGAAAAACTG
** * * *
4043104 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAATGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
4043169 TTGA-TTTTTGAAAACATAATTTG
65 TTGATTTTTTG--AA-A-AA-CTG
* * * * *
4043192 AAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
4043257 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** ** * * *
4043275 --ATA-A-ATTGAAAAAATACCTCAGCGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATAA
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
4043335 GTTGATTTTTT-------TG
64 GTTGATTTTTTGAAAAACTG
* ** * * *
4043348 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
4043413 TTGATTTTTTG-AAAAC--
65 TTGATTTTTTGAAAAACTG
* * * ** ** *
4043429 --AGA-A-A--TTGAAAATACCTC-AACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGTG
1 AAAAACAGATTTTGAAAATACCTCGCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAG
* *
4043486 TTGA-ATTTTGAAAACAGAAATTG
65 TTGATTTTTTG---A-A-AAACTG
** ** ** * **
4043509 AAAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
4043574 TTGA-TTTTTGAAAAA-T-
65 TTGATTTTTTGAAAAACTG
* ** **** **** * *
4043590 ATAAATTGAAGTAAAAAAAAATACCTCAGTGTATGATCTGAA-GCTCAACTCACCTCTCGCAATA
1 AAAAACAG-A-T-TTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATA
*
4043654 TGAGTTGATTTTTTTGAAAGACAGAAATTG
61 TGAGTTGA-TTTTTT----GA-A-AAACTG
* ** ** * **
4043684 AAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
4043749 TTGATTTTTT-------TG
65 TTGATTTTTTGAAAAACTG
* ** * * *
4043761 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTATCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* *
4043826 TCGATTTTTTTTTGAAAGGCAGAAATTG
65 TTGA---TTTTTTG--A---A-AAACTG
** * * * * * *
4043854 AAAAAC-GAAAATTGAAAATACCTCG-GCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACG
1 AAAAACAG-ATTTTGAAAATACCTCGCACGTGAG-CC-AAGGCTCAACTCACCTCTCGCAATATG
4043917 AGTTGACTTTTTTG----AC--
63 AGTTGA-TTTTTTGAAAAACTG
** * * *
4043933 ---AACAGAAATTGAAATTACCT--CAGCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCGCA-CGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGA
* *
4043992 GTTAATTTTTTTTGAAAGGCAGAAATTG
64 GTTGA--TTTTTTG--A---A-AAACTG
* ** * * * * * *
4044020 AAAAACGGAAATTGAAAATACCTCG-GCGTGTGACCTGAGGCTCAACTCACCACTCGTAATACGA
1 AAAAACAGATTTTGAAAATACCTCGCACGTGAG-CC-AAGGCTCAACTCACCTCTCGCAATATGA
4044084 GTTGATTTTTT-------TG
64 GTTGATTTTTTGAAAAACTG
* ** * * *
4044097 -ACAACAGAAATTGAAATTACCT--CAGCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCGCA-CGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGA
*
4044158 GTTGATTTTTTTTGAAAGACAGAAATTG
64 GTTGA--TTTTTT----GA-A-AAACTG
* ** * * * * * *
4044186 AAAAACGGAAATTGAAAATACCTCG-GCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGA
1 AAAAACAGATTTTGAAAATACCTCGCACGTGAG-CC-AAGGCTCAACTCACCTCTCGCAATATGA
* * *
4044250 GTTGATTCTTTCAAAAACATAATAAT
64 GTTGATTTTTTGAAAAAC----T--G
** * *
4044276 AAAAACAGAAATTGAAAATACCTCG-GCGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTCGCACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
4044339 CTGATTCTTTCAAAAACATAAT
65 TTGATTTTTTGAAAAAC-T--G
** * *
4044361 AATGAAGACAGAAATTGAAAATACCTCG-GCGTGA-CCTGAGGCTCAACTCACCTCTCGCAATAT
1 AA--AA-ACAGATTTTGAAAATACCTCGCACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATAT
4044424 GAG
62 GAG
4044427 CTAATTTTGA
Statistics
Matches: 1162, Mismatches: 180, Indels: 296
0.71 0.11 0.18
Matches are distributed among these distances:
72 7 0.01
73 32 0.03
74 65 0.06
75 21 0.02
76 53 0.05
77 121 0.10
78 10 0.01
79 50 0.04
80 15 0.01
81 9 0.01
82 17 0.01
83 43 0.04
84 97 0.08
85 23 0.02
86 21 0.02
87 26 0.02
88 257 0.22
89 4 0.00
90 100 0.09
91 63 0.05
92 72 0.06
93 51 0.04
94 5 0.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:4043054 original size:30 final size:30
Alignment explanation
Indices: 4043018--4043076 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
4043008 TTTGAAAAAC
4043018 AGAAATT-AAAAGACTCAACTCAACTCTCGT
1 AGAAATTAAAAAG-CTCAACTCAACTCTCGT
*
4043048 AGAAATTAAAAAGCTCAACTCACCTCTCG
1 AGAAATTAAAAAGCTCAACTCAACTCTCG
4043077 CAATATGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.22
Consensus pattern (30 bp):
AGAAATTAAAAAGCTCAACTCAACTCTCGT
Found at i:4043395 original size:77 final size:77
Alignment explanation
Indices: 4043229--4043512 Score: 314
Period size: 77 Copynumber: 3.7 Consensus size: 77
4043219 ATGTGACCCG
* * * * *
4043229 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCT
* * *
4043294 CAGCGTGTGATCTGA
63 CAGCGCGTGAGCTCA
*
4043309 A-GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
4043373 GCGCGTGAGC-CA
65 GCGCGTGAGCTCA
4043385 AGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCA-
1 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
* * **
4043448 -ACGTG-TCTTG
66 CGCGTGAGCTCA
** ** *
4043458 AGGCTCAACTCATTTCTCGCAATATGTGTTGA--ATTTTGAAAACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAA
4043513 ATGGAAATTG
Statistics
Matches: 182, Mismatches: 19, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
72 23 0.13
73 32 0.18
75 20 0.11
76 12 0.07
77 48 0.26
78 3 0.02
79 43 0.24
80 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (77 bp):
AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
CGCGTGAGCTCA
Found at i:4043514 original size:73 final size:73
Alignment explanation
Indices: 4043228--4043512 Score: 304
Period size: 79 Copynumber: 3.8 Consensus size: 73
4043218 CATGTGACCC
* * * * *
4043228 GAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTG-AAAACAGAAATTG--AAAATACC
*
4043293 TCAGCGTGTGATCT
62 TCAGCGTGT-CT-T
* *
4043307 GAAGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTC
1 GAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTC
* *
4043372 AGCGCGTGAGC-C
64 A--GCGTG-TCTT
* *
4043384 AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAG
4043449 CGTGTCTT
66 CGTGTCTT
** ** *
4043457 GAGGCTCAACTCATTTCTCGCAATATGTGTTGA-ATTTTGAAAACAGAAATTGAAAA
1 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAA
4043513 ATGGAAATTG
Statistics
Matches: 179, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
72 23 0.13
73 32 0.18
75 20 0.11
76 10 0.06
77 41 0.23
78 3 0.02
79 50 0.28
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAG
CGTGTCTT
Found at i:4043664 original size:84 final size:85
Alignment explanation
Indices: 4043421--4044453 Score: 702
Period size: 88 Copynumber: 12.1 Consensus size: 85
4043411 AGTTGATTTT
** * **
4043421 TTGAAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCGCAATATG
1 TTGAAAA-AGAAA-T-AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
* *
4043484 TGTTGAATTTTG-AAAACAGAAA
63 AGTTGATTTTTGAAAAACAGAAA
4043506 TTGAAAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAA--GAAA-T-AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
* *
4043571 GAGTTGATTTTTGAAAAATATAAA
62 GAGTTGATTTTTGAAAAACAGAAA
* * * * *
4043595 TTGAAGTAA-AAA-AAAATACCTCAGTGTATGATCTGAAGCTCAACTCACCTCTCGCAATATGAG
1 TTGAA-AAAGAAATAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
4043658 TTGATTTTTTTGAAAGACAGAAA
65 TTGA--TTTTTGAAAAACAGAAA
4043681 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAA--GAAA-T-AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
*
4043746 GAGTTGATTTTTTTGAAAGACAGAAA
62 GAGTTGA--TTTTTGAAAAACAGAAA
* * * * ** *
4043772 TT------G----AAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTATCGCAATATGAGT
1 TTGAAAAAGAAATAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* **
4043827 CGATTTTTTTTTGAAAGGCAGAAA
66 TGA----TTTTTGAAAAACAGAAA
* * * *
4043851 TTGAAAAACGAAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATAC
1 TTGAAAAA-G-AAA-T-AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
*
4043916 GAGTTGACTTTTTTG-ACAACAGAAA
62 GAGTTGA--TTTTTGAAAAACAGAAA
* *
4043941 TT------GAAAT----TACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAAAGAAATAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* **
4043994 TAATTTTTTTTGAAAGGCAGAAA
66 TGA---TTTTTGAAAAACAGAAA
* * * *
4044017 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCACTCGTAATAC
1 TTGAAAAA--GAAA-T-AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
*
4044082 GAGTTGATTTTTTTG-ACAACAGAAA
62 GAGTTGA--TTTTTGAAAAACAGAAA
* *
4044107 TT------GAAAT----TACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAAAGAAATAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
4044160 TGATTTTTTTTGAAAGACAGAAA
66 TGA---TTTTTGAAAAACAGAAA
* * * *
4044183 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAA--GAAA-T-AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
* *
4044248 GAGTTGATTCTTTCAAAAACATAATA
62 GAGTTGATT-TTTGAAAAACAGAA-A
* * *
4044274 ATAAAAACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAA-AGAAA-T-AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
4044337 AGCTGATTCTTTCAAAAACATAATA
63 AGTTGATT-TTTGAAAAACAGAA-A
* * *
4044362 ATGAAGACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAA-AAAGAAA-T-AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
4044425 AGCT-AATTTTGAAAAAGTAGAAA
63 AGTTGATTTTTGAAAAA-CAGAAA
4044448 TT-AAAA
1 TTGAAAA
4044454 GGTTCAACCC
Statistics
Matches: 787, Mismatches: 90, Indels: 143
0.77 0.09 0.14
Matches are distributed among these distances:
74 65 0.08
75 15 0.02
76 43 0.05
77 47 0.06
79 20 0.03
81 2 0.00
82 7 0.01
83 2 0.00
84 61 0.08
85 13 0.02
86 52 0.07
87 9 0.01
88 157 0.20
89 16 0.02
90 75 0.10
91 93 0.12
92 66 0.08
93 44 0.06
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (85 bp):
TTGAAAAAGAAATAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAAACAGAAA
Found at i:4043686 original size:14 final size:14
Alignment explanation
Indices: 4043667--4043701 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4043657 GTTGATTTTT
*
4043667 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
4043681 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
4043695 TTGAAAA
1 TTGAAAA
4043702 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:4043728 original size:91 final size:89
Alignment explanation
Indices: 4043424--4043778 Score: 449
Period size: 91 Copynumber: 4.0 Consensus size: 89
4043414 TGATTTTTTG
* * * ** *
4043424 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCGCAATATGTGT
1 AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
4043487 TGAATTTTGAAA-ACAGAAATTGA
66 TGATTTTTGAAAGACAGAAATTGA
* *
4043510 AAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
4043575 TGATTTTTGAAAAATATAAATTGA
66 TGATTTTTGAAAGACAGAAATTGA
* * * *
4043599 AGTAA---AAA---AAAATACCTCAGTGTATGATCTGAAGCTCAACTCACCTCTCGCAATATGAG
1 A-AAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAG
4043658 TTGATTTTTTTGAAAGACAGAAATTGA
65 TTGA--TTTTTGAAAGACAGAAATTGA
*
4043685 AAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
4043750 TGATTTTTTTGAAAGACAGAAATTGA
66 TGA--TTTTTGAAAGACAGAAATTGA
4043776 AAA
1 AAA
4043779 TAGCTCAGCG
Statistics
Matches: 233, Mismatches: 24, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
84 51 0.22
85 2 0.01
86 45 0.19
87 4 0.02
88 42 0.18
89 10 0.04
90 2 0.01
91 77 0.33
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (89 bp):
AAAACGGAAATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAAGACAGAAATTGA
Found at i:4043808 original size:77 final size:78
Alignment explanation
Indices: 4043681--4043857 Score: 239
Period size: 77 Copynumber: 2.3 Consensus size: 78
4043671 AAGACAGAAA
* * * * * ** *
4043681 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTATCGCAATAT
*
4043746 GAGTTGA-TTTTT
66 GAGTCGATTTTTT
*
4043758 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTATCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTATCGCAATAT
4043823 GAGTCGATTTTTTT
66 GAGTCGA-TTTTTT
*
4043837 TTGAAAGGCAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
4043858 ACGAAAATTG
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
77 62 0.71
79 25 0.29
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (78 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTATCGCAATAT
GAGTCGATTTTTT
Found at i:4043985 original size:74 final size:76
Alignment explanation
Indices: 4043862--4044023 Score: 213
Period size: 74 Copynumber: 2.1 Consensus size: 76
4043852 TGAAAAACGA
* * *
4043862 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGA-CTT
1 AAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTAATCTT
4043926 TTTTGACAA-CAG
65 TTTTGA-AAGCAG
* * * *
4043938 AAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
1 AAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTAATCTTT
4044002 TTTGAAAGGCAG
66 TTTGAAA-GCAG
4044014 AAATTGAAAA
1 AAATTGAAAA
4044024 ACGGAAATTG
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
74 34 0.45
75 8 0.11
76 33 0.44
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (76 bp):
AAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTAATCTTT
TTTGAAAGCAG
Found at i:4044017 original size:336 final size:330
Alignment explanation
Indices: 4043345--4044426 Score: 1265
Period size: 336 Copynumber: 3.2 Consensus size: 330
4043335 GTTGATTTTT
* * * * *
4043345 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATA
* * * **
4043409 TAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
65 TGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTC-CGAGGCTCAACTCACCT
*** *
4043473 CTCGCAATAT--GTG-TTGAATTTTGAAA-ACAGAAATTGAAAAATGGAAATTGAAAATACCTCG
129 CTCGCAATATGAGTGATTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCG
* * * * *
4043534 GCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAATT
194 GCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGACTTTTTTG-AAAACAGAAATT
* *
4043597 GAAGTAAAAAAAAATACCTCAGTGTATGAT-CTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
258 ---G------AAAATACCTCAGCG--TG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
4043661 ATTTTTTTGAAAGACAGAAA
311 ATTTTTTTGAAAGACAGAAA
* *
4043681 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* * *
4043746 GAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCAC
66 GAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA--GCGTG-TCCGAGGCTCAACTCAC
* * *
4043811 CTATCGCAATATGAGTCGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTGAAAATACC
127 CTCTCGCAATATGAGT-GATTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACC
* *
4043876 TCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGACTTTTTTGACAACAGAAA
191 TCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGACTTTTTTGAAAACAGAAA
* *
4043941 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTG
256 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG
*
4044006 AAAGGCAGAAA
320 AAAGACAGAAA
* * * *
4044017 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCACTCGTAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
* *
4044082 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
66 GAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTC
4044147 TCGCAATATGAGTTGA-TTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCG
130 TCGCAATATGAG-TGATTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCG
*
4044211 GCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTCTTTCAAAAACATAATAAT
194 GCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA--CTTT--------T--T--T
* * * *
4044276 AAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCT
245 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * *
4044341 GA-TTCTTTCAAAAACATAATA
310 GATTTTTTTGAAAGACAGAA-A
* *
4044362 ATG-AAGACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
4044424 GAG
66 GAG
4044427 CTAATTTTGA
Statistics
Matches: 648, Mismatches: 66, Indels: 58
0.84 0.09 0.08
Matches are distributed among these distances:
332 90 0.14
333 34 0.05
334 6 0.01
335 55 0.08
336 158 0.24
337 22 0.03
338 20 0.03
340 26 0.04
341 1 0.00
342 36 0.06
343 2 0.00
344 47 0.07
345 75 0.12
346 70 0.11
347 6 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (330 bp):
TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCT
CGCAATATGAGTGATTTTTTTTTGAAAGACAGAAATTGAAAAACGGAAATTGAAAATACCTCGGC
GTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGACTTTTTTGAAAACAGAAATTGAA
AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGAC
AGAAA
Found at i:4044056 original size:166 final size:164
Alignment explanation
Indices: 4043345--4044422 Score: 1199
Period size: 166 Copynumber: 6.4 Consensus size: 164
4043335 GTTGATTTTT
* * * * * *
4043345 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATA
** * * **
4043409 TAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
65 CGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
4043474 TCGCAATATGTGTTGAA---TTTTGAAA-ACAGAAA
130 TCGCAATATGAGTT-AATTTTTTTGAAAGACAGAAA
* * *
4043506 TTGAAAAATGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAC
* * * *
4043571 GAGTTGA-TTTTTGAAAAATATAAATTGAAGTAAAAAAAAATACCTCAGTGTATGAT-CTGAAGC
66 GAGTTGATTTTTTG-AAAACAGAAATT---G------AAAATACCTCAGCG--TG-TCCTGAGGC
*
4043634 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAA
118 TCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAGACAGAAA
* *
4043681 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAC
* * *
4043746 GAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCA
66 GAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCA--GCGTG-TCCTGAGGCTCAACTCA
* * * *
4043810 CCTATCGCAATATGAGTCGATTTTTTTTTGAAAGGCAGAAA
126 CCTCTCGCAATATGAGT-TA-ATTTTTTTGAAAGACAGAAA
* * *
4043851 TTGAAAAACGAAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATAC
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAC
* *
4043916 GAGTTGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
66 GAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
4043981 TCGCAATATGAGTTAATTTTTTTTGAAAGGCAGAAA
130 TCGCAATATGAGTTAA-TTTTTTTGAAAGACAGAAA
* *
4044017 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCACTCGTAATAC
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAC
* *
4044082 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
66 GAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
4044147 TCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAA
130 TCGCAATATGAGTT-AATTTTTTTGAAAGACAGAAA
* *
4044183 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAC
* * *
4044248 GAGTTGATTCTTTCAAAAACATAATAATAAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAG
66 GAGTTGA---TTT--------T--T--TGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAG
* * * * * *
4044313 GCTCAACTCACCTCTCGCAATATGAGCTGA-TTCTTTCAAAAACATAATA
116 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAGACAGAA-A
* * *
4044362 ATG-AAGACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
4044423 TGAGCTAATT
Statistics
Matches: 798, Mismatches: 75, Indels: 73
0.84 0.08 0.08
Matches are distributed among these distances:
160 7 0.01
161 71 0.09
164 1 0.00
166 247 0.31
167 34 0.04
168 43 0.05
169 20 0.03
170 108 0.14
171 1 0.00
172 30 0.04
173 1 0.00
174 9 0.01
175 78 0.10
176 34 0.04
177 13 0.02
178 38 0.05
179 3 0.00
180 60 0.08
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (164 bp):
TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATAC
GAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTAATTTTTTTGAAAGACAGAAA
Found at i:4044105 original size:90 final size:89
Alignment explanation
Indices: 4043937--4044112 Score: 248
Period size: 90 Copynumber: 2.0 Consensus size: 89
4043927 TTTGACAACA
* * *
4043937 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTAATTTTT
4044002 TTTGAAAGGCAGAAATTGAAAAACG
66 TTTGAAA-GCAGAAATTGAAAAACG
* * *
4044027 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCACTCGTAATACGAGTTGA-TT
1 GAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCACTCGCAATACGAGTTAATTT
4044091 TTTTTGACAA-CAGAAATTGAAA
64 TTTTTGA-AAGCAGAAATTGAAA
4044113 TTACCTCAGC
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
90 34 0.44
91 9 0.12
92 34 0.44
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (89 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTAATTTTT
TTTGAAAGCAGAAATTGAAAAACG
Found at i:4044160 original size:74 final size:77
Alignment explanation
Indices: 4044017--4044189 Score: 244
Period size: 76 Copynumber: 2.3 Consensus size: 77
4044007 AAGGCAGAAA
* * * *
4044017 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCACTCGTAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATAC
4044082 GAGTTGA-TTTTT
65 GAGTTGATTTTTT
* * * *
4044094 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
4044157 AGTTGATTTTTT
66 AGTTGATTTTTT
4044169 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
4044190 ACGGAAATTG
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
74 33 0.39
75 10 0.12
76 37 0.44
77 5 0.06
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (77 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
AGTTGATTTTTT
Found at i:4044188 original size:14 final size:14
Alignment explanation
Indices: 4044169--4044203 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4044159 TTGATTTTTT
*
4044169 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
4044183 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
4044197 TTGAAAA
1 TTGAAAA
4044204 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:4044331 original size:180 final size:176
Alignment explanation
Indices: 4044099--4044422 Score: 479
Period size: 180 Copynumber: 1.8 Consensus size: 176
4044089 TTTTTTTGAC
* * *
4044099 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-
* * * * *
4044164 TTTTTTTGAAAGACAGAA-ATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCT
65 -TTCTTTCAAAAACAGAATAATG-AAAACAGAAATTGAAAATACCTCGGC--GTGACCTGAGGCT
*
4044228 CAACTCGCCTCTCACAATACGAGTTGATTCTTTCAAAAACATAATAATAAA
126 CAACTCACCTCTCACAATACGAGTTGATTCTTTCAAAAACATAATAATAAA
*
4044279 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
4044344 TCTTTCAAAAACATAATAATGAAGACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
66 TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
*
4044409 CACCTCTCGCAATA
131 CACCTCTCACAATA
4044423 TGAGCTAATT
Statistics
Matches: 130, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
176 30 0.23
178 37 0.28
179 3 0.02
180 60 0.46
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (176 bp):
AACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TCTTTCAAAAACAGAATAATGAAAACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACT
CACCTCTCACAATACGAGTTGATTCTTTCAAAAACATAATAATAAA
Found at i:4044611 original size:72 final size:73
Alignment explanation
Indices: 4044457--4044645 Score: 215
Period size: 72 Copynumber: 2.6 Consensus size: 73
4044447 ATTAAAAGGT
* ** * * * * *
4044457 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACATCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGACAAACAAAAATTGAAAATACATCAGCGTGC
*
4044522 CCTGAGGC
66 CCCGAGGC
*
4044530 TCAACTCACCTCTCGCAATATGAGTTGA-AATT-A-AAACAAAAAAATTGAAAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGACAAAC--AAAAATTGAAAATACATCAGCGT
4044592 GCCCCGAGGC
64 GCCCCGAGGC
* * *
4044602 TCAACTCACCTCTAGCAATATGAGTTGAT-TTTGAAAAACAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGACAAACAAAAA
4044646 GGCTTAACTC
Statistics
Matches: 99, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
70 4 0.04
71 1 0.01
72 62 0.63
73 28 0.28
74 4 0.04
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATAATTGACAAACAAAAATTGAAAATACATCAGCGTGC
CCCGAGGC
Found at i:4044797 original size:71 final size:71
Alignment explanation
Indices: 4044680--4044813 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 71
4044670 GAGTCAATTT
*
4044680 AAAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG
1 AAAATTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG
4044745 AAAACA
66 AAAACA
* **
4044751 AAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AAAATTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
4044814 CCCTTGAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 1 0.02
71 57 0.98
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.28
Consensus pattern (71 bp):
AAAATTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG
AAAACA
Found at i:4053971 original size:18 final size:18
Alignment explanation
Indices: 4053945--4054008 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
4053935 CTAGGGTTTC
*
4053945 TTAGTTTTTTTTTTTTGG
1 TTAGGTTTTTTTTTTTGG
*
4053963 TTAGGTTTTTCTTTTTT-C
1 TTAGGTTTTT-TTTTTTGG
* *
4053981 TT--CTTTTTTTTTTGGG
1 TTAGGTTTTTTTTTTTGG
4053997 TTAGGTTTTTTT
1 TTAGGTTTTTTT
4054009 GGGAGGGGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
15 5 0.14
16 7 0.19
18 18 0.50
19 6 0.17
ACGTcount: A:0.05, C:0.05, G:0.16, T:0.75
Consensus pattern (18 bp):
TTAGGTTTTTTTTTTTGG
Found at i:4054362 original size:16 final size:15
Alignment explanation
Indices: 4054335--4054377 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
4054325 TATTATTAGT
* *
4054335 ATAAACATAAAACAT
1 ATAAATATAAAACAA
*
4054350 ATATATTATAAAACAA
1 ATA-AATATAAAACAA
4054366 ATAAATATAAAA
1 ATAAATATAAAA
4054378 ATAAAACAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAAATATAAAACAA
Found at i:4054447 original size:16 final size:16
Alignment explanation
Indices: 4054426--4054463 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
4054416 GGCCGAAAAT
*
4054426 CCCTCTCTTCTTTCTC
1 CCCTCTCTCCTTTCTC
4054442 CCCTCTCTCCTTTCTC
1 CCCTCTCTCCTTTCTC
4054458 CCCTCT
1 CCCTCT
4054464 TTGTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (16 bp):
CCCTCTCTCCTTTCTC
Found at i:4055103 original size:24 final size:25
Alignment explanation
Indices: 4055045--4055107 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
4055035 TATACTTATG
**
4055045 TATTATATTATATATGTAATTTTTT
1 TATTATATTATATATGTAATTTTAA
*
4055070 TA-TATATTATATATGT-GTTTTAA
1 TATTATATTATATATGTAATTTTAA
*
4055093 TATTATGTTATATAT
1 TATTATATTATATAT
4055108 ATTATATACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 6 0.18
24 25 0.76
25 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (25 bp):
TATTATATTATATATGTAATTTTAA
Found at i:4056409 original size:35 final size:34
Alignment explanation
Indices: 4056362--4056427 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
4056352 CTATGTGTAT
*
4056362 TATATGTATTATTATTT-TTATTATATGTATTACG
1 TATATGTATTATTATTTATTATT-CATGTATTACG
4056396 TATATGTATTTATTATTTATTATTCATGTATT
1 TATATGTA-TTATTATTTATTATTCATGTATT
4056428 TTATTATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 8 0.28
35 16 0.55
36 5 0.17
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (34 bp):
TATATGTATTATTATTTATTATTCATGTATTACG
Found at i:4056432 original size:16 final size:16
Alignment explanation
Indices: 4056411--4056442 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4056401 GTATTTATTA
*
4056411 TTTATTATTCATGTAT
1 TTTATTATACATGTAT
4056427 TTTATTATACATGTAT
1 TTTATTATACATGTAT
4056443 ATATCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTATTATACATGTAT
Found at i:4058928 original size:131 final size:131
Alignment explanation
Indices: 4058735--4059175 Score: 415
Period size: 137 Copynumber: 3.3 Consensus size: 131
4058725 ATGGGAGATT
**
4058735 GCAACCCAGCACGATAGGGCACT-ATTCCCCGAATTGCCAAACATCGAACATT-TTTTCTGTTTT
1 GCAACCCAGCACGATAGGGCA-TGATT-CCCGAATTGCCAAACATCGAACATTGCCTT-TGTTTT
* * *
4058798 AAA-GAGTTTTTAGAATACGTGAGTGAAATTTCGAAGGGATCTTCGA-TCGTTTTAAACAAATGA
63 AAAGGA-TTTTTAGAAAACATGAGTGAAATTTCGAAGGGATCTTCGATTC-TTTTAAACAAACGA
4058861 AAAAGC
126 AAAAGC
*
4058867 GCAACCCAGCACGATAGGGCATGATTCTCGAATTGCCAAACATCGAACATTGCCTTTGTTTTAAA
1 GCAACCCAGCACGATAGGGCATGATTCCCGAATTGCCAAACATCGAACATTGCCTTTGTTTTAAA
* * ** * * * *
4058932 GGGTTTTCTTGAAAAAAAAACATGAGTGAAA-ACCTAAAGGAATGTTCGATTCTTTTGAACAAAC
66 -GGATTT-TT----AGAAAACATGAGTGAAATTTC-GAAGGGATCTTCGATTCTTTTAAACAAAC
* *
4058996 GAGAAATC
124 GAAAAAGC
* * * *
4059004 ACAACCCAGCACGATAGGGCATGATTCCCGAATTGTCAAACACCGAATATTGCCTTTGTTTTAAA
1 GCAACCCAGCACGATAGGGCATGATTCCCGAATTGCCAAACATCGAACATTGCCTTTGTTTTAAA
* * * * * *** * *
4059069 GGATTTTTAGAAGACCTGAGTGAAATTTCGAAGGGATATTTGATTATTTTGGGCAAACGAGAAAT
66 GGATTTTTAGAAAACATGAGTGAAATTTCGAAGGGATCTTCGATTCTTTTAAACAAACGAAAAAG
*
4059134 T
131 C
* * * *
4059135 GTAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAA
1 GCAACCCAGCACGATAGGGCATGATTCC-CGAATTGCCAAA
4059176 TATCAAATCT
Statistics
Matches: 255, Mismatches: 41, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
131 100 0.39
132 41 0.16
133 3 0.01
135 2 0.01
136 6 0.02
137 101 0.40
138 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (131 bp):
GCAACCCAGCACGATAGGGCATGATTCCCGAATTGCCAAACATCGAACATTGCCTTTGTTTTAAA
GGATTTTTAGAAAACATGAGTGAAATTTCGAAGGGATCTTCGATTCTTTTAAACAAACGAAAAAG
C
Found at i:4059021 original size:137 final size:132
Alignment explanation
Indices: 4058707--4059175 Score: 410
Period size: 131 Copynumber: 3.5 Consensus size: 132
4058697 GAAAGAGATA
* * * *
4058707 TTCGATTATTTTGAACAAATGGGAGATTGCAACCCAGCACGATAGGGCACT-ATTCCCCGAATTG
1 TTCGATTCTTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCA-TGATT-CCCGAATTG
** * * * * ** *
4058771 CCAAACATCGAACATT-TTTTCTGTTTTAAAGAG-TTTTTAGAATACGTGAGTGAAATTTCGAAG
64 CCAAACATCGAACATTGCCTT-TGTTTTAAAGGGTTTTTTAAAAAACATGAGTGAAACCTCAAAG
*
4058834 GGATC
128 GAATC
* * * *
4058839 TTCGA-TCGTTTTAAACAAATGAAAAAGCGCAACCCAGCACGATAGGGCATGATTCTCGAATTGC
1 TTCGATTC-TTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCATGATTCCCGAATTGC
4058903 CAAACATCGAACATTGCCTTTGTTTTAAAGGGTTTTCTTGAAAAAAAAACATGAGTGAAAACCT-
65 CAAACATCGAACATTGCCTTTGTTTTAAAGGGTTTT-TT----AAAAAACATGAGTG-AAACCTC
*
4058967 AAAGGAATG
124 AAAGGAATC
* * *
4058976 TTCGATTCTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCCCGAATTGTC
1 TTCGATTCTTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCATGATTCCCGAATTGCC
* * * * * * ** * *
4059041 AAACACCGAATATTGCCTTTGTTTTAAA-GGATTTTTAGAAGACCTGAGTGAAATTTCGAAGGGA
66 AAACATCGAACATTGCCTTTGTTTTAAAGGGTTTTTTAAAAAACATGAGTGAAACCTCAAAGGAA
*
4059105 TA
131 TC
* * ** * * * * * *
4059107 TTTGATTATTTTGGGCAAACGAGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAATTGC
1 TTCGATTCTTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCATGATTCC-CGAATTGC
4059172 CAAA
65 CAAA
4059176 TATCAAATCT
Statistics
Matches: 276, Mismatches: 48, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
130 4 0.01
131 100 0.36
132 59 0.21
133 2 0.01
135 2 0.01
136 5 0.02
137 98 0.36
138 6 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (132 bp):
TTCGATTCTTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCATGATTCCCGAATTGCC
AAACATCGAACATTGCCTTTGTTTTAAAGGGTTTTTTAAAAAACATGAGTGAAACCTCAAAGGAA
TC
Found at i:4062266 original size:44 final size:44
Alignment explanation
Indices: 4062214--4062749 Score: 860
Period size: 44 Copynumber: 12.2 Consensus size: 44
4062204 CTCAGGAACA
4062214 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
4062258 CCCAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * *
4062302 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTATAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * *
4062346 CCAAATCTGTTATCTTCGATCTGCTCTTCGCCACTACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
4062390 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
4062434 CCAAATCTGCTA-CTTTCGATCTGCTCTCCGCCAATACAGAGATG
1 CCAAATCTGCTATC-TTCGATCTGCTCTCCGCCAATACAGAGACG
* * *
4062478 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCACTACAGATATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * * *
4062522 CCAAATCTGTTATCTTTGATCTACTCTCCGCCACTACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
4062566 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * *
4062610 CCAAATCTGCTATCTTTGATCTGCTCTCTGCCAACACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
4062654 CTAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
4062698 CCAAATCTGCTA-CTTTCTATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATC-TTCGATCTGCTCTCCGCCAATACAGAGACG
4062742 CCAAATCT
1 CCAAATCT
4062750 ATCTGTTCTT
Statistics
Matches: 456, Mismatches: 33, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
43 2 0.00
44 453 0.99
45 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
Found at i:4063349 original size:132 final size:132
Alignment explanation
Indices: 4062982--4063471 Score: 581
Period size: 132 Copynumber: 3.8 Consensus size: 132
4062972 GCTATGACTT
* * * * *
4062982 GCTTAAATCTGCTTCTCTGCATCTTCAGGAAGCCAAGATTTATCGTCTTTGAT-T-TTCCTCACT
1 GCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACCGTCTTCGATCTGTT--TCACT
* * * * * *
4063045 GCAACTTTAGGGAGACGAGATCT-ACAATCCTCAGCCTACTCCACTACAACTTTA-GAGAGCCAA
64 GCAACTTCAGGGAAACAAGATCTGA-AAT-TTTAGCCTACTCCACTACAACTTTAGGA-AG-CTA
**
4063108 GACT--T-
125 GGTTGGTG
* * * *** *
4063113 GCTTAAATCTGCTTTACTGCAACATCAGGAAGCCTAGATT--CCGTCTTCGATCTGCCCCACTGT
1 GCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACCGTCTTCGATCTGTTTCACTGC
*
4063176 AA--TCAGGGAAACAAGATCTGAAATTTTAGCCTACTCTACTACAACTTTAGGAAGCTAGGTTGG
66 AACTTCAGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACAACTTTAGGAAGCTAGGTTGG
4063239 TG
131 TG
4063241 GCTTAAATCTGCTTCACTGCAACTTCAGGAAGCTC-AGATTCACCGTCTTCGATCTGTTTCACTG
1 GCTTAAATCTGCTTCACTGCAACTTCAGGAAGC-CAAGATTCACCGTCTTCGATCTGTTTCACTG
*
4063305 CAACTTCAGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTG
65 CAACTTCAGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACAACTTTAGGAAGCTAGGTTG
4063370 GTG
130 GTG
* * ** *
4063373 GCTTAAATCTGCTTTACTACAACTTCAGGAAGCTTAGATTCACCGTCTTCGATCTGTTTCACTAC
1 GCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACCGTCTTCGATCTGTTTCACTGC
*
4063438 AACTTCAGGGAAACAAGATCTAAAATTTTAGCCT
66 AACTTCAGGGAAACAAGATCTGAAATTTTAGCCT
4063472 CATAGACCCA
Statistics
Matches: 313, Mismatches: 33, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
125 4 0.01
126 24 0.08
127 20 0.06
128 37 0.12
129 17 0.05
130 22 0.07
131 35 0.11
132 154 0.49
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
GCTTAAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCACCGTCTTCGATCTGTTTCACTGC
AACTTCAGGGAAACAAGATCTGAAATTTTAGCCTACTCCACTACAACTTTAGGAAGCTAGGTTGG
TG
Found at i:4068206 original size:22 final size:22
Alignment explanation
Indices: 4068154--4068256 Score: 98
Period size: 22 Copynumber: 4.7 Consensus size: 22
4068144 GTGATGTTGT
* * * *
4068154 TTTTTGTGCTGTTTTGTTGTTG
1 TTTTGGTGCTGTTTTGATGGTA
*
4068176 TTTGGGTGCTGTTTTGATGGTA
1 TTTTGGTGCTGTTTTGATGGTA
* *
4068198 TTTTTGTGCTGTTTTGATGGCA
1 TTTTGGTGCTGTTTTGATGGTA
* * *
4068220 TTTTGGTGTTGTTTTGATGCTG
1 TTTTGGTGCTGTTTTGATGGTA
* *
4068242 TTTTAGTGCTATTTT
1 TTTTGGTGCTGTTTT
4068257 ACTGCTACTT
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 65 1.00
ACGTcount: A:0.07, C:0.06, G:0.28, T:0.59
Consensus pattern (22 bp):
TTTTGGTGCTGTTTTGATGGTA
Found at i:4068233 original size:44 final size:43
Alignment explanation
Indices: 4068130--4068256 Score: 119
Period size: 44 Copynumber: 2.8 Consensus size: 43
4068120 TTTTGCAGGT
* * ***
4068130 TTTTGGTGTTGTTGGTGATGTTGTTTTTTGTGCTGTTTTGTTGTTG
1 TTTTGGTGTTGTT-TTGATG--GTTTTTTGTGCTGTTTTGATGGCA
* *
4068176 TTTGGGTGCTGTTTTGATGGTATTTTTGTGCTGTTTTGATGGCA
1 TTTTGGTGTTGTTTTGATGGT-TTTTTGTGCTGTTTTGATGGCA
* * *
4068220 TTTTGGTGTTGTTTTGATGCTGTTTTAGTGCTATTTT
1 TTTTGGTGTTGTTTTGATGGT-TTTTTGTGCTGTTTT
4068257 ACTGCTACTT
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 2 0.03
44 49 0.73
45 5 0.07
46 11 0.16
ACGTcount: A:0.06, C:0.05, G:0.30, T:0.59
Consensus pattern (43 bp):
TTTTGGTGTTGTTTTGATGGTTTTTTGTGCTGTTTTGATGGCA
Found at i:4068243 original size:11 final size:11
Alignment explanation
Indices: 4068155--4068245 Score: 62
Period size: 11 Copynumber: 8.4 Consensus size: 11
4068145 TGATGTTGTT
4068155 TTTTG-TGCTG
1 TTTTGATGCTG
* *
4068165 TTTTGTTGTTG
1 TTTTGATGCTG
* *
4068176 TTTGGGTGCTG
1 TTTTGATGCTG
* *
4068187 TTTTGATGGTAT
1 TTTTGATGCT-G
4068199 TTTTG-TGCTG
1 TTTTGATGCTG
*
4068209 TTTTGATGGC-A
1 TTTTGAT-GCTG
* *
4068220 TTTTGGTGTTG
1 TTTTGATGCTG
4068231 TTTTGATGCTG
1 TTTTGATGCTG
4068242 TTTT
1 TTTT
4068246 AGTGCTATTT
Statistics
Matches: 60, Mismatches: 16, Indels: 9
0.71 0.19 0.11
Matches are distributed among these distances:
10 11 0.18
11 42 0.70
12 7 0.12
ACGTcount: A:0.05, C:0.05, G:0.30, T:0.59
Consensus pattern (11 bp):
TTTTGATGCTG
Found at i:4072481 original size:16 final size:16
Alignment explanation
Indices: 4072460--4072494 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4072450 AGTTTCAGCT
4072460 AAAGCTTAATCCAACC
1 AAAGCTTAATCCAACC
*
4072476 AAAGCTTAATCCAGCC
1 AAAGCTTAATCCAACC
4072492 AAA
1 AAA
4072495 TGTACGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.29, G:0.09, T:0.17
Consensus pattern (16 bp):
AAAGCTTAATCCAACC
Found at i:4073303 original size:36 final size:36
Alignment explanation
Indices: 4073256--4073327 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
4073246 CAGAACAAGA
4073256 ATGTGAGTCATCAAAAGAAAAGTCATGGAAGATGAG
1 ATGTGAGTCATCAAAAGAAAAGTCATGGAAGATGAG
4073292 ATGTGAGTCATCAAAAGAAAAGTCATGGAAGATGAG
1 ATGTGAGTCATCAAAAGAAAAGTCATGGAAGATGAG
4073328 CTTTGATGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.08, G:0.28, T:0.19
Consensus pattern (36 bp):
ATGTGAGTCATCAAAAGAAAAGTCATGGAAGATGAG
Found at i:4076090 original size:16 final size:16
Alignment explanation
Indices: 4076058--4076091 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4076048 CGCTGAGGTA
* *
4076058 TTTTCAATTTCTGTTT
1 TTTTCAATTTATATTT
4076074 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
4076090 TT
1 TT
4076092 AAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:4076180 original size:17 final size:17
Alignment explanation
Indices: 4076147--4076181 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4076137 CGCTGAGGTA
* *
4076147 TTTTCAATTTCTGTTTT
1 TTTTCAATTTATATTTT
4076164 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
4076181 T
1 T
4076182 AAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:4076271 original size:18 final size:18
Alignment explanation
Indices: 4076237--4076272 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4076227 CGCTGAGGTA
* *
4076237 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTATATTTTT
4076255 TTTTCAATTTATATTTTT
1 TTTTCAATTTATATTTTT
4076273 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTCAATTTATATTTTT
Found at i:4076304 original size:91 final size:90
Alignment explanation
Indices: 4075991--4076345 Score: 599
Period size: 90 Copynumber: 3.9 Consensus size: 90
4075981 AGTTGAGCCT
4075991 TTTA-ATTTTTATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 TTTATATTTTTA--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
4076055 GTATTTTCAATTTCTG-TTTTTTTCAA
64 GTATTTTCAATTTCTGTTTTTTTTCAA
*
4076081 TTTATATTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGT
1 TTTATATTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
4076146 ATTTTCAATTTCTGTTTTTTTTCAA
66 ATTTTCAATTTCTGTTTTTTTTCAA
*
4076171 TTTATATTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGCTGAGGT
1 TTTATATTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
4076236 ATTTTCAATTTCTGTTTTTTTTTCAA
66 ATTTTCAATTTCTG-TTTTTTTTCAA
* * * *
4076262 TTTATATTTTTCAAAAATCAACTCATATTGTGAGAGAG-GAGTTGGGCCTCGGGGCACGCTGAGG
1 TTTATATTTTTAAAAAATCAACTCATATTGCGAGAG-GTGAGTTGAGCCTCAGGGCACGCTGAGG
4076326 TATTTTCAATTTCTGTTTTT
65 TATTTTCAATTTCTGTTTTT
4076346 CAAAAATCAA
Statistics
Matches: 253, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
89 66 0.26
90 96 0.38
91 90 0.36
92 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (90 bp):
TTTATATTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
ATTTTCAATTTCTGTTTTTTTTCAA
Found at i:4076377 original size:73 final size:73
Alignment explanation
Indices: 4076254--4076457 Score: 252
Period size: 73 Copynumber: 2.8 Consensus size: 73
4076244 TTTCTGTTTT
* * * *
4076254 TTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGTGAGAGAG-GAGTTGGGCCTCGGGGCA
1 TTTTTCAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAG-GTGAGTTGAGCCTCGGGACA
*
4076318 CGCTGAGGTA
64 CACTGAGGTA
*
4076328 -TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACAC
1 TTTTTCAATTTCT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
4076392 ACTGAGGTA
65 ACTGAGGTA
* * * *
4076401 TTTTTAAATTTC-ATTTTCAAAAAAATCAACTCATATTGCGAGATGTGAGTTTAGCCT
1 TTTTTCAATTTCTTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4076458 TGGCTCATGT
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
72 6 0.05
73 64 0.56
74 44 0.39
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (73 bp):
TTTTTCAATTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACA
CTGAGGTA
Found at i:4077638 original size:27 final size:27
Alignment explanation
Indices: 4077597--4077650 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4077587 GTTCGGGGAT
*
4077597 TTCAAAATCAGAAAATAA-AAAAAACA
1 TTCAAAATCAAAAAATAAGAAAAAACA
*
4077623 TTCAACAATCAAAAAATAAGAAACAACA
1 TTCAA-AATCAAAAAATAAGAAAAAACA
4077651 ACCACCGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 12 0.50
28 7 0.29
ACGTcount: A:0.67, C:0.15, G:0.04, T:0.15
Consensus pattern (27 bp):
TTCAAAATCAAAAAATAAGAAAAAACA
Found at i:4077990 original size:16 final size:16
Alignment explanation
Indices: 4077946--4077992 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
4077936 GGCCAGAAAT
*
4077946 CCCTCTCTTCTTTCTC
1 CCCTCTCTTTTTTCTC
* *
4077962 CCTTCTCTCTTTTCTC
1 CCCTCTCTTTTTTCTC
*
4077978 CCCTCTTTTTTTTCT
1 CCCTCTCTTTTTTCT
4077993 TTTTTTTCTC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (16 bp):
CCCTCTCTTTTTTCTC
Found at i:4079241 original size:16 final size:16
Alignment explanation
Indices: 4079220--4079251 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4079210 TATTTTTTTA
*
4079220 TTTATTATTCATGTAT
1 TTTATTATACATGTAT
4079236 TTTATTATACATGTAT
1 TTTATTATACATGTAT
4079252 ATATCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTATTATACATGTAT
Found at i:4079265 original size:21 final size:22
Alignment explanation
Indices: 4079236--4079283 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
4079226 ATTCATGTAT
* *
4079236 TTTATTATACATGTA-TATATC
1 TTTAATATACATATAGTATATC
*
4079257 TTTAATATATATATAGGTATATC
1 TTTAATATACATATA-GTATATC
4079280 TTTA
1 TTTA
4079284 TATTAGTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 12 0.55
23 10 0.45
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (22 bp):
TTTAATATACATATAGTATATC
Found at i:4082300 original size:15 final size:16
Alignment explanation
Indices: 4082273--4082303 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4082263 ATTTTATTTT
4082273 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
4082289 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
4082304 TATTCTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:4083374 original size:12 final size:13
Alignment explanation
Indices: 4083347--4083375 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4083337 CATGAAGACA
4083347 AAAACAGCATAGC
1 AAAACAGCATAGC
4083360 AAAACAGCA-AGC
1 AAAACAGCATAGC
4083372 AAAA
1 AAAA
4083376 GAAAACGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.62, C:0.21, G:0.14, T:0.03
Consensus pattern (13 bp):
AAAACAGCATAGC
Found at i:4086288 original size:27 final size:27
Alignment explanation
Indices: 4086255--4086384 Score: 170
Period size: 27 Copynumber: 5.1 Consensus size: 27
4086245 AGTAAACGTC
4086255 ATATTCTCCATTAAAGTAAATAGTAAA
1 ATATTCTCCATTAAAGTAAATAGTAAA
*
4086282 ATATTCTCCATTAAAGTAAATAACGT--C
1 ATATTCTCCATTAAAGTAAAT-A-GTAAA
4086309 ATATTCTCCATTAAAGTAAATAGT-AA
1 ATATTCTCCATTAAAGTAAATAGTAAA
4086335 A-A---T--ATTAAAGTAAATAGTAAA
1 ATATTCTCCATTAAAGTAAATAGTAAA
4086356 ATATTCTCCATTAAAGTAAATAGTAAA
1 ATATTCTCCATTAAAGTAAATAGTAAA
4086383 AT
1 AT
4086385 CATCTTTTCT
Statistics
Matches: 91, Mismatches: 2, Indels: 20
0.81 0.02 0.18
Matches are distributed among these distances:
20 15 0.16
21 3 0.03
22 2 0.02
25 4 0.04
26 2 0.02
27 62 0.68
28 1 0.01
29 2 0.02
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (27 bp):
ATATTCTCCATTAAAGTAAATAGTAAA
Found at i:4086342 original size:47 final size:46
Alignment explanation
Indices: 4086291--4086384 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 46
4086281 AATATTCTCC
*
4086291 ATTAAAGTAAATAACGT-CATATTCTCCATTAAAGTAAATAGTAAAAT
1 ATTAAAGTAAAT-A-GTAAATATTCTCCATTAAAGTAAATAGTAAAAT
4086338 ATTAAAGTAAATAGTAAAATATTCTCCATTAAAGTAAATAGTAAAAT
1 ATTAAAGTAAATAGT-AAATATTCTCCATTAAAGTAAATAGTAAAAT
4086385 CATCTTTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
45 2 0.05
46 1 0.02
47 41 0.93
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (46 bp):
ATTAAAGTAAATAGTAAATATTCTCCATTAAAGTAAATAGTAAAAT
Found at i:4086343 original size:20 final size:20
Alignment explanation
Indices: 4086318--4086360 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
4086308 CATATTCTCC
4086318 ATTAAAGTAAATAGTAAAAT
1 ATTAAAGTAAATAGTAAAAT
4086338 ATTAAAGTAAATAGTAAAAT
1 ATTAAAGTAAATAGTAAAAT
4086358 ATT
1 ATT
4086361 CTCCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (20 bp):
ATTAAAGTAAATAGTAAAAT
Done.