Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 17 of 292
Found at i:4632446 original size:3 final size:3
Alignment explanation
Indices: 4632431--4632523 Score: 59
Period size: 3 Copynumber: 30.0 Consensus size: 3
4632421 TTACTAATAC
* * *
4632431 TAT TAT T-T CTAT TAT TAT TAT TGT TAT TAT TAA TAT T-T TGGT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
*
4632476 TAAA TAT TAT TAT T-T TAAT GTAT TAT TAT T-T CTAGT TAT TAT TAT
1 T-AT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT -TA-T TAT TAT TAT
4632521 TAT
1 TAT
4632524 ATATAATATT
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
2 6 0.08
3 54 0.75
4 10 0.14
5 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4632499 original size:16 final size:16
Alignment explanation
Indices: 4632480--4632521 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
4632470 GGTTATTAAA
4632480 TATTATTATTT-TAAT
1 TATTATTATTTCTAAT
*
4632495 GTATTATTATTTCTAGT
1 -TATTATTATTTCTAAT
4632512 TATTATTATT
1 TATTATTATT
4632522 ATATATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 21 0.88
17 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (16 bp):
TATTATTATTTCTAAT
Found at i:4632505 original size:22 final size:21
Alignment explanation
Indices: 4632454--4632505 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
4632444 ATTATTATTG
**
4632454 TTATTATTAATATTTTGGTTA
1 TTATTATTAATATTTTAATTA
* *
4632475 TTAAATATTATTATTTTAATGTA
1 TT-ATTATTAATATTTTAAT-TA
4632498 TTATTATT
1 TTATTATT
4632506 TCTAGTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.08
22 18 0.75
23 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
TTATTATTAATATTTTAATTA
Found at i:4632770 original size:142 final size:133
Alignment explanation
Indices: 4632517--4632770 Score: 291
Period size: 142 Copynumber: 1.8 Consensus size: 133
4632507 CTAGTTATTA
* *
4632517 TTATTATATATAATATTAGTGTATGTTTTATATATGTATGTATATATATATATAGTATTAACTTA
1 TTATTATATATAATATTAGTGTATGTTTTATATATGTATGTATATATATATACAATATTAACTTA
* * **
4632582 ATTACTTTATTTTAATATTACTATTGTATTATATTTATTTTTTATATTTCATCATTATTTCTAAA
66 ATTACTTTATTCTAATAATACTATTGTATTATATTTATTTGATATATTTCATCATTATTTCTAAA
4632647 TGG
131 TGG
*
4632650 TTATTAT-TATTAATCTTAGTGTATGTTTTATTATATATGTATGTATATACATTTTTATATACAA
1 TTATTATATA-TAATATTAGTGTATG--TT-TTATATATGTATGTATAT--A----TATATACAA
*
4632714 TATTATA-TTAATTACTTTATTCTAATAATATTA-T-TATTATATTATATTTAGATATAT
56 TATTA-ACTTAATTACTTTATTCTAATAATACTATTGTATTATATT-TATTT-GATATAT
4632771 ATATGTATAT
Statistics
Matches: 100, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
132 2 0.02
133 21 0.21
135 2 0.02
136 18 0.18
138 1 0.01
140 9 0.09
141 6 0.06
142 40 0.40
143 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (133 bp):
TTATTATATATAATATTAGTGTATGTTTTATATATGTATGTATATATATATACAATATTAACTTA
ATTACTTTATTCTAATAATACTATTGTATTATATTTATTTGATATATTTCATCATTATTTCTAAA
TGG
Found at i:4632840 original size:12 final size:12
Alignment explanation
Indices: 4632823--4632850 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4632813 TGTACATATG
4632823 TATTTATTATTA
1 TATTTATTATTA
4632835 TATTTATTATTA
1 TATTTATTATTA
4632847 TATT
1 TATT
4632851 ATTTACTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTATTATTA
Found at i:4632866 original size:24 final size:22
Alignment explanation
Indices: 4632839--4632893 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
4632829 TTATTATATT
4632839 TATTATTATATTATTTACTTTCA
1 TATTATTATATTATTT-CTTTCA
*
4632862 CTATTATT-T-TTATTTCTTTTA
1 -TATTATTATATTATTTCTTTCA
4632883 TCATTATTATA
1 T-ATTATTATA
4632894 CATATATACG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 1 0.04
21 11 0.41
22 7 0.26
23 1 0.04
24 7 0.26
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTATTATATTATTTCTTTCA
Found at i:4632997 original size:7 final size:7
Alignment explanation
Indices: 4632985--4633019 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
4632975 CATTTCTTTA
4632985 TTATTTT
1 TTATTTT
4632992 TTATTTT
1 TTATTTT
4632999 TTA-TTT
1 TTATTTT
4633005 TTATTTTT
1 TTA-TTTT
4633013 TTATTTT
1 TTATTTT
4633020 AATACTCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 14 0.54
8 6 0.23
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTATTTT
Found at i:4633227 original size:27 final size:25
Alignment explanation
Indices: 4633166--4633258 Score: 73
Period size: 25 Copynumber: 3.7 Consensus size: 25
4633156 CATACTATTC
* * * *
4633166 ATATATTTTAT-TGTTATTTCAAAA
1 ATATATTTTTTATATTATTTCATAT
* *
4633190 ATATA-TATTTATATTATTAGTTATAT
1 ATATATTTTTTATATTATT--TCATAT
* *
4633216 ATATATTTTTTATACTATTTCATGT
1 ATATATTTTTTATATTATTTCATAT
*
4633241 ATGTATTTTTTATATTAT
1 ATATATTTTTTATATTAT
4633259 CCTTATTATT
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
23 3 0.06
24 11 0.21
25 20 0.38
26 8 0.15
27 11 0.21
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.59
Consensus pattern (25 bp):
ATATATTTTTTATATTATTTCATAT
Found at i:4633510 original size:2 final size:2
Alignment explanation
Indices: 4633503--4633531 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4633493 CATATTATCT
4633503 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4633532 TAATAACTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4644745 original size:41 final size:42
Alignment explanation
Indices: 4644683--4644763 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 42
4644673 TATTATGCTT
*
4644683 AAAAAAGGAAATCAAGATGAAAACCTAAAAAGGGCATCTTAA
1 AAAAAAGGAAATCAAGATGAAAACCCAAAAAGGGCATCTTAA
* * *
4644725 AAAAAAGG-GATCAAGGTGAAAACCCAAAAAGGGCGTCTT
1 AAAAAAGGAAATCAAGATGAAAACCCAAAAAGGGCATCTT
4644764 GATTAACACG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 27 0.77
42 8 0.23
ACGTcount: A:0.52, C:0.14, G:0.21, T:0.14
Consensus pattern (42 bp):
AAAAAAGGAAATCAAGATGAAAACCCAAAAAGGGCATCTTAA
Found at i:4645939 original size:137 final size:136
Alignment explanation
Indices: 4645693--4645978 Score: 509
Period size: 137 Copynumber: 2.1 Consensus size: 136
4645683 CATTGGGCCT
**
4645693 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
4645758 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCTATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
4645823 CATATGC
130 CATATGC
* *
4645830 AAGCCCATTTGGGTAATAGTGGTACTGGGCCAGAGCCCTTTTTAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
4645895 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
4645960 ATATGC
131 ATATGC
4645966 AAGCCCATTTGGG
1 AAGCCCATTTGGG
4645979 GAGACTACTC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 22 0.15
137 121 0.85
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:4647799 original size:26 final size:26
Alignment explanation
Indices: 4647763--4647889 Score: 227
Period size: 26 Copynumber: 4.9 Consensus size: 26
4647753 CATGATATTC
4647763 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4647789 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
4647815 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
4647841 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
4647867 TTACCATGGAACATTTACCTAAC
1 TTATCATGAAACATTTACCTAAC
4647890 ATGGATATCA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 97 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4649000 original size:72 final size:72
Alignment explanation
Indices: 4648880--4649087 Score: 265
Period size: 72 Copynumber: 2.8 Consensus size: 72
4648870 AATATCTGTT
* * * *
4648880 TTTTTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCTGGACACG
1 TTTTAAATTTCTA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
4648945 CTGAGGTA
65 CTGAGGTA
* * *
4648953 TTTTAAATTTCTATTTTCAAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGC
1 TTTTAAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
4649018 TGAGGTA
66 TGAGGTA
* * *
4649025 TTTTCAAA-TCCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGAAGTGAGTTGAGCCTCGGG
1 TTTT-AAATTTCTATTTT--CAAAAATCAACTCATATTGCGAGAG--GTGAGTTGAGCCTCGGG
4649088 CAACATGTCG
Statistics
Matches: 119, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
72 65 0.55
73 14 0.12
74 23 0.19
76 17 0.14
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (72 bp):
TTTTAAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
TGAGGTA
Found at i:4649133 original size:13 final size:14
Alignment explanation
Indices: 4649105--4649139 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4649095 TCGAGGTATG
4649105 TTCAAAATCTATTT
1 TTCAAAATCTATTT
*
4649119 TTCAAATTCTATTT
1 TTCAAAATCTATTT
4649133 TTCAAAA
1 TTCAAAA
4649140 AGTCAACTCA
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:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (14 bp):
TTCAAAATCTATTT
Found at i:4649190 original size:90 final size:90
Alignment explanation
Indices: 4649025--4649490 Score: 573
Period size: 90 Copynumber: 5.1 Consensus size: 90
4649015 TGCTGAGGTA
* * ** *
4649025 TTTTCAAATCCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGAAGTGAGTTGAGCCTCGGGCA
1 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGC--GAGAAGTGAGTTGAGCCTCGGGCC
*
4649090 ACATGTCGAGGTATGTTCAAAATCTAT
64 ACATGCCGAGGTATGTTCAAAATCTAT
*
4649117 TTTTCAAATTCTATTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCCAC
1 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCCAC
* *
4649182 ATGCCGAGGTATGTTCAGAATCTGT
66 ATGCCGAGGTATGTTCAAAATCTAT
*
4649207 TTTTCAAATTCTATTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCCAC
1 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCCAC
*
4649272 ATGCCGAGGTATGTTCAAAATCT-G
66 ATGCCGAGGTATGTTCAAAATCTAT
*
4649296 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGG--GC
1 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCCAC
* * *
4649359 ATGCCGAGGTATTTTCAAATTCTGT
66 ATGCCGAGGTATGTTCAAAATCTAT
* * *
4649384 TGTTCAAATTCTGTTTTTAATTTCTGATTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGAG
1 TTTTCAAATTC---TATT--TTTC--A----AAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
* * * * *
4649449 CCTCAGGTCACACGCTGAGGTATTTTC-AAAT-TAT
55 CCTCGGGCCACATGCCGAGGTATGTTCAAAATCTAT
4649483 TTTTCAAA
1 TTTTCAAA
4649491 AATCAACTCA
Statistics
Matches: 334, Mismatches: 26, Indels: 21
0.88 0.07 0.06
Matches are distributed among these distances:
87 22 0.07
88 10 0.03
89 60 0.18
90 134 0.40
91 3 0.01
92 34 0.10
93 4 0.01
95 1 0.00
99 48 0.14
100 3 0.01
101 15 0.04
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (90 bp):
TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCCAC
ATGCCGAGGTATGTTCAAAATCTAT
Found at i:4649391 original size:14 final size:14
Alignment explanation
Indices: 4649372--4649398 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4649362 CCGAGGTATT
4649372 TTCAAATTCTGTTG
1 TTCAAATTCTGTTG
4649386 TTCAAATTCTGTT
1 TTCAAATTCTGTT
4649399 TTTAATTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTG
Found at i:4649489 original size:99 final size:100
Alignment explanation
Indices: 4649283--4649491 Score: 273
Period size: 99 Copynumber: 2.1 Consensus size: 100
4649273 TGCCGAGGTA
4649283 TGTTCAAAATCTGTTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTG
1 TGTTCAAAATCTGTTTTCAAATTCTA-TTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTG
** * *
4649348 AGCCTCGGGGCATGCCGAGGTATTTTCAAATTCTGT
65 AGCCTCGGCACACGCCGAGGTATTTTCAAATTATGT
* * * *
4649384 TGTTCAAATTCTGTTTTTAATTTCTGA-TTTC-AAAAATTAACTCATATTGCGAGAAGTGAGTTG
1 TGTTCAAAATCTGTTTTCAAATTCT-ATTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTG
*
4649447 AGCCTCAGGTCACACGCTGAGGTATTTTCAAATTAT-T
65 AGCCTC-GG-CACACGCCGAGGTATTTTCAAATTATGT
4649484 T-TTCAAAA
1 TGTTCAAAA
4649492 ATCAACTCAT
Statistics
Matches: 95, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
99 43 0.45
100 8 0.08
101 43 0.45
102 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (100 bp):
TGTTCAAAATCTGTTTTCAAATTCTATTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
GCCTCGGCACACGCCGAGGTATTTTCAAATTATGT
Found at i:4649771 original size:73 final size:72
Alignment explanation
Indices: 4649664--4649882 Score: 235
Period size: 73 Copynumber: 3.0 Consensus size: 72
4649654 TTATGTTATT
* * ** * * *
4649664 TAAAAAGTCAATTCATGTTGCGAGAAATGAGTTGAGTCTCGGCTCACATGTTGAGGTATTTTCAG
1 TAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCGCAC--GCTGAGGTATTTTCAG
*
4649729 TTTCTGTTTG
63 TTCCTGTTTG
* * *
4649739 T-TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGTTATTTTCAGTTC
1 TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCGCACGCTGAGGTATTTTCAGTTC
4649803 CTGTTTG
66 CTGTTTG
* * *
4649810 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-GCATGCTGAAGTATTTTCAA
1 T-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGCGCACGCTGAGGTATTTTCAG
*
4649874 TTTCTGTTT
63 TTCCTGTTT
4649883 TTTTATTTTT
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
71 24 0.20
73 69 0.56
74 27 0.22
75 3 0.02
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (72 bp):
TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCGCACGCTGAGGTATTTTCAGTTC
CTGTTTG
Found at i:4649926 original size:8 final size:7
Alignment explanation
Indices: 4649881--4649927 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
4649871 CAATTTCTGT
4649881 TTTTTTA
1 TTTTTTA
4649888 TTTTTTA
1 TTTTTTA
4649895 TTTTTT-
1 TTTTTTA
4649901 TTTTTT-
1 TTTTTTA
*
4649907 TTTTTTT
1 TTTTTTA
4649914 TTTTTTA
1 TTTTTTA
4649921 TATTTTT
1 T-TTTTT
4649928 CAAAAAAGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
6 12 0.32
7 20 0.54
8 5 0.14
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTTA
Found at i:4649927 original size:1 final size:1
Alignment explanation
Indices: 4649880--4649919 Score: 62
Period size: 1 Copynumber: 40.0 Consensus size: 1
4649870 TCAATTTCTG
* *
4649880 TTTTTTTATTTTTTATTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4649920 ATATTTTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.05, C:0.00, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:4651164 original size:16 final size:17
Alignment explanation
Indices: 4651135--4651167 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4651125 AATTCTTTTT
*
4651135 AAAAACTTAGAAAATTA
1 AAAAAATTAGAAAATTA
4651152 AAAAAATTA-AAAATTA
1 AAAAAATTAGAAAATTA
4651168 TATAGAAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAAAATTAGAAAATTA
Found at i:4653237 original size:144 final size:144
Alignment explanation
Indices: 4652632--4653205 Score: 979
Period size: 144 Copynumber: 4.0 Consensus size: 144
4652622 AAACAACTGG
* * * * **
4652632 CTTGTTGGTCCAATCCCATCTTCTGTCAGCAACTTAACCAATCTTGCCTCGTTGTACCTTCAAAG
1 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
* *
4652697 CAACAAACTTGATGGATCCATTCCACAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
66 CAACCAACTTAATGGATCCATTCCACAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
4652762 TATCCTCCAATAAT
131 TATCCTCCAATAAT
4652776 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
1 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
* * *
4652841 CAACGAACTTAATCGATCCATTCCACAAGATATTGGGAGAATAACGAATTTGGTTGAATTGGATC
66 CAACCAACTTAATGGATCCATTCCACAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
4652906 TATCCTCCAATAAT
131 TATCCTCCAATAAT
*
4652920 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGATCCTTCAACT
1 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
* *
4652985 CAACCAAATTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
66 CAACCAACTTAATGGATCCATTCCACAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
*
4653050 TATCCTCCAATAGT
131 TATCCTCCAATAAT
4653064 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
1 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
* *
4653129 CAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGATTAACGAATTTGGTT-AATTTGGAT
66 CAACCAACTTAATGGATCCATTCCACAAGATATTGGGAGACTAACGAATTTGGTTGAA-TTGGAT
4653193 CTATCCTCCAATA
130 CTATCCTCCAATA
4653206 GGCTTTCAGG
Statistics
Matches: 409, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
143 2 0.00
144 407 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (144 bp):
CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
CAACCAACTTAATGGATCCATTCCACAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
TATCCTCCAATAAT
Found at i:4655232 original size:29 final size:29
Alignment explanation
Indices: 4655174--4655232 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
4655164 CAGAATCCAC
**
4655174 ATTTTAATATAATTTTAGAAATAATTTTA
1 ATTTTAATATAATTTTAGAAATAAAATTA
* *
4655203 ATTTTAATTTAATTTTAGAATTAAAATTA
1 ATTTTAATATAATTTTAGAAATAAAATTA
4655232 A
1 A
4655233 AAGTTTGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (29 bp):
ATTTTAATATAATTTTAGAAATAAAATTA
Found at i:4655367 original size:29 final size:30
Alignment explanation
Indices: 4655325--4655382 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
4655315 AAACTGATTT
* **
4655325 TTTTTTTTTTTTTTTGCTTT-CAAATTTGG
1 TTTTTTATTTTTTTTAATTTGCAAATTTGG
4655354 TTTTTTATTTTTTTTAATTTGCAAATTTG
1 TTTTTTATTTTTTTTAATTTGCAAATTTG
4655383 AACACCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.16, C:0.05, G:0.09, T:0.71
Consensus pattern (30 bp):
TTTTTTATTTTTTTTAATTTGCAAATTTGG
Found at i:4668888 original size:14 final size:14
Alignment explanation
Indices: 4668869--4668904 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
4668859 GAGTTGATTT
*
4668869 TTGAAAAGCATAAA
1 TTGAAAAACATAAA
4668883 TTGAAAGAACATAAA
1 TTGAAA-AACATAAA
4668898 TTGAAAA
1 TTGAAAA
4668905 TATGTGACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (14 bp):
TTGAAAAACATAAA
Found at i:4670586 original size:123 final size:123
Alignment explanation
Indices: 4670367--4670707 Score: 585
Period size: 123 Copynumber: 2.8 Consensus size: 123
4670357 GAATTATGTG
4670367 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
*
4670432 GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTCAGTAACGA
4670490 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
4670555 GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTCAGTAACGA
66 GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTCAGTAACGA
* * * *
4670613 AAATGAAATATGGATGTGTAATGATTATTGATGTATATGTGTGCATGAGCAATTGAATGATATCC
1 AAATGAAATATGGATGTGTAATGATTATTGAT-T-TATGTGTGTATGAGTATTTGAATGATACCC
* *
4670678 AGGCTAAGTCCCGAAGAC-ATTTATGCTAGT
64 GGGCTAAGTCCCGAAGGCGA-TTATGCTAGT
4670708 AATTATATCC
Statistics
Matches: 208, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
123 154 0.74
124 2 0.01
125 52 0.25
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTCAGTAACGA
Found at i:4670745 original size:40 final size:40
Alignment explanation
Indices: 4670672--4670879 Score: 177
Period size: 40 Copynumber: 5.2 Consensus size: 40
4670662 CAATTGAATG
* * * * * *
4670672 ATATCCAGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* * * * *
4670712 ATATCCGGGTTAAGACCCAAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* **
4670752 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
* * * **
4670792 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* * **
4670832 CTATCCGGGCTAAGACCCGAAGGC-ATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
4670872 ATATCCGG
1 ATATCCGG
4670880 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
39 5 0.04
40 131 0.95
41 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
Found at i:4670822 original size:80 final size:80
Alignment explanation
Indices: 4670673--4670879 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
4670663 AATTGAATGA
* * * ** * ** * *
4670673 TATCCAGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCAAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCAAAGGCAA
*
4670738 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
4670751 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCAAAGGC
* *
4670816 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
4670833 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
4670880 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
78 1 0.01
80 103 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCAAAGGCAA
TTGTGCAAGTCGTAC
Found at i:4672456 original size:92 final size:93
Alignment explanation
Indices: 4672297--4672469 Score: 251
Period size: 92 Copynumber: 1.9 Consensus size: 93
4672287 TATGAGTTGA
*
4672297 TTTTTGAAAGAAATAAAAATTGAAAAATACCTAAGCATGTCCCAAGGCTCAACTCACCTCTCGCA
1 TTTTTGAAAAAAATAAAAATTG-AAAATACCTAAGCATGTCCCAAGGCTCAACTCACCTCTCGCA
4672362 ATATGAGTTGATTTTTTTCTTTCTTTTCT
65 ATATGAGTTGATTTTTTTCTTTCTTTTCT
* * * * * *
4672391 TTTTTTAAAAAAATAGAAATTG-AAATACCTCAGCGTG-CCCTGAGGCTCAACTTACCTCTCGCA
1 TTTTTGAAAAAAATAAAAATTGAAAATACCTAAGCATGTCCC-AAGGCTCAACTCACCTCTCGCA
4672454 ATATGAGTTGATTTTT
65 ATATGAGTTGATTTTT
4672470 GACAAACAGA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
91 3 0.04
92 49 0.69
94 19 0.27
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (93 bp):
TTTTTGAAAAAAATAAAAATTGAAAATACCTAAGCATGTCCCAAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTTTCTTTCTTTTCT
Found at i:4684154 original size:15 final size:16
Alignment explanation
Indices: 4684134--4684168 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
4684124 ACACATAATA
4684134 ATACT-AAATATATAC
1 ATACTAAAATATATAC
4684149 ATACTAAAAATATATAC
1 ATACT-AAAATATATAC
4684166 ATA
1 ATA
4684169 GTATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
17 13 0.72
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (16 bp):
ATACTAAAATATATAC
Found at i:4684176 original size:17 final size:17
Alignment explanation
Indices: 4684138--4684177 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
4684128 ATAATAATAC
4684138 TAAATATATACATACTA
1 TAAATATATACATACTA
* *
4684155 AAAATATATACATAGTA
1 TAAATATATACATACTA
4684172 TAAATA
1 TAAATA
4684178 AACATATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAATATATACATACTA
Found at i:4685415 original size:2 final size:2
Alignment explanation
Indices: 4685408--4685444 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4685398 TATGTGCAAA
* *
4685408 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4685445 AAATATACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4685631 original size:20 final size:21
Alignment explanation
Indices: 4685602--4685653 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
4685592 AACTAATGGC
*
4685602 ATATATACATAATATATATAT
1 ATATACACATAATATATATAT
4685623 A-ATACACATAATATATATAT
1 ATATACACATAATATATATAT
*
4685643 ATATATACATA
1 ATATACACATA
4685654 TTAGAAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATACACATAATATATATAT
Found at i:4686503 original size:14 final size:15
Alignment explanation
Indices: 4686468--4686503 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
4686458 TTTTTTGGTT
4686468 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
4686483 TTTTTTT-CTGGAAA
1 TTTTTTTGCTGGAAA
4686497 TTTTTTT
1 TTTTTTT
4686504 TTGGTGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:4686504 original size:15 final size:16
Alignment explanation
Indices: 4686467--4686504 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
4686457 TTTTTTTGGT
4686467 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
4686483 -TTTTTTT-CTGGAAA
1 TTTTTTTTGCTGGAAA
4686497 TTTTTTTT
1 TTTTTTTT
4686505 TGGTGCTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:4686518 original size:33 final size:33
Alignment explanation
Indices: 4686466--4686539 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
4686456 TTTTTTTTGG
*
4686466 TTTTTTTT-TGCTGGAAATTTTTTTCTGGAAAT
1 TTTTTTTTGTGCTGGAAATTTTTTGCTGGAAAT
**
4686498 TTTTTTTTGGTGCTGG-AATTTTTTGCTGGATTT
1 TTTTTTTT-GTGCTGGAAATTTTTTGCTGGAAAT
4686531 TTTTTTTTG
1 TTTTTTTTG
4686540 CTTCCCCTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 9 0.24
33 22 0.59
34 6 0.16
ACGTcount: A:0.12, C:0.05, G:0.19, T:0.64
Consensus pattern (33 bp):
TTTTTTTTGTGCTGGAAATTTTTTGCTGGAAAT
Found at i:4686987 original size:35 final size:35
Alignment explanation
Indices: 4686947--4687052 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
4686937 GGGGTGTGTG
*
4686947 ATGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
*
4686982 GTGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
*
4687017 ATGGTGCTGGTGGCTGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
4687052 A
1 A
4687053 GAGGCAAGTG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.22, C:0.12, G:0.49, T:0.17
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
Found at i:4687837 original size:48 final size:50
Alignment explanation
Indices: 4687761--4687907 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 50
4687751 ATATGACCTA
**
4687761 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAA-AA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
* *
4687809 AGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAGACAGAAATTAAC
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-A-A-CAA-TAAC
*
4687863 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
4687908 GGAATTGGAA
Statistics
Matches: 84, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
47 1 0.01
48 36 0.43
49 1 0.01
50 1 0.01
51 3 0.04
52 1 0.01
53 3 0.04
54 37 0.44
55 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (50 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
Found at i:4688143 original size:147 final size:140
Alignment explanation
Indices: 4687964--4688552 Score: 980
Period size: 147 Copynumber: 4.1 Consensus size: 140
4687954 TCAACTCACC
4687964 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* *
4688029 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
65 TCGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGC
4688094 TCAACTCACCTCTCGCAA
123 TCAACTCACCTCTCGCAA
*
4688112 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
4688177 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
66 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
*
4688242 CCTCTCGCCA
131 CCTCTCGCAA
*
4688252 TATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACT
1 TATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
4688317 CACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
59 CACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
*
4688382 TAACTCACCTCTCGCAA
124 CAACTCACCTCTCGCAA
4688399 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
4688464 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
66 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
4688529 CCTCTCGCAA
131 CCTCTCGCAA
*
4688539 TGTGAGTTGATTTT
1 TATGAGTTGATTTT
4688553 CTGTCACTTG
Statistics
Matches: 423, Mismatches: 11, Indels: 22
0.93 0.02 0.05
Matches are distributed among these distances:
140 196 0.46
142 2 0.00
143 2 0.00
144 1 0.00
145 1 0.00
147 211 0.50
148 10 0.02
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (140 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
CCTCTCGCAA
Found at i:4688176 original size:70 final size:70
Alignment explanation
Indices: 4688063--4688552 Score: 863
Period size: 70 Copynumber: 6.9 Consensus size: 70
4688053 CATAAATTGA
*
4688063 AAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
4688128 AACAT
66 AACAT
*
4688133 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
4688198 AACAT
66 AACAT
*
4688203 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
4688268 AACATAAATT
66 AAC----A-T
*
4688278 GAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
4688343 GAAACAT
64 GAAACAT
*
4688350 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
4688415 AACAT
66 AACAT
4688420 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
4688485 AACAT
66 AACAT
*
4688490 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
4688553 CTGTCACTTG
Statistics
Matches: 403, Mismatches: 10, Indels: 14
0.94 0.02 0.03
Matches are distributed among these distances:
70 333 0.83
72 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
77 66 0.16
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (70 bp):
AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
AACAT
Found at i:4688248 original size:217 final size:217
Alignment explanation
Indices: 4687964--4688552 Score: 1093
Period size: 217 Copynumber: 2.7 Consensus size: 217
4687954 TCAACTCACC
4687964 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
4688029 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
65 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
4688094 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
130 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
4688159 GAGGCTTAACTCACCTCTCGCAA
195 GAGGCTTAACTCACCTCTCGCAA
4688182 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
4688247 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
4688312 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
131 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
4688377 AGGCTTAACTCACCTCTCGCAA
196 AGGCTTAACTCACCTCTCGCAA
4688399 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* *
4688464 CGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
*
4688522 CAACTCACCTCTCGCAATGTGAGTTGATTTT
131 CAACTCACCTCTCGCAATATGAGTTGATTTT
4688553 CTGTCACTTG
Statistics
Matches: 368, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
210 61 0.17
212 1 0.00
213 1 0.00
217 295 0.80
218 10 0.03
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (217 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
AGGCTTAACTCACCTCTCGCAA
Found at i:4692455 original size:25 final size:27
Alignment explanation
Indices: 4692418--4692470 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
4692408 TCAAACATGC
4692418 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
4692444 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
4692470 A
1 A
4692471 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:4693983 original size:25 final size:26
Alignment explanation
Indices: 4693949--4694079 Score: 209
Period size: 25 Copynumber: 5.2 Consensus size: 26
4693939 CATGAAATTC
4693949 TTATCATGAAACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCTA
4693974 TTATCATG-AACATTTACCTAACC-A
1 TTATCATGAAACATTTACCTAACCTA
* *
4693998 TTATCATGGAACACTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4694024 TTAT-ATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4694049 TTAT-ATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4694074 TTATCA
1 TTATCA
4694080 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
24 24 0.24
25 70 0.70
26 6 0.06
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:4699555 original size:25 final size:27
Alignment explanation
Indices: 4699518--4699570 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
4699508 TCAAACATGC
4699518 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
4699544 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
4699570 A
1 A
4699571 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:4701089 original size:26 final size:26
Alignment explanation
Indices: 4701051--4701186 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
4701041 CATGAAATTC
4701051 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
4701077 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
4701103 TTATCATGGAACACTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
4701129 TTATTATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
4701155 TTATTATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4701181 TTATCA
1 TTATCA
4701187 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:4701981 original size:2 final size:2
Alignment explanation
Indices: 4701970--4702005 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
4701960 TCATCATTCA
4701970 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4702006 TATGTGTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4711978 original size:22 final size:21
Alignment explanation
Indices: 4711943--4712037 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
4711933 AAAAGGTATC
* *
4711943 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
4711964 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
4711987 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
4712006 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
4712025 TGC-AATCATATCT
1 TACAAATCATATCT
4712038 AAGATTGTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
18 6 0.09
19 30 0.46
20 1 0.02
21 3 0.05
22 15 0.23
23 10 0.15
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:4711986 original size:23 final size:22
Alignment explanation
Indices: 4711943--4712000 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4711933 AAAAGGTATC
* *
4711943 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
4711964 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
4711987 TGCATATCATATCT
1 TACAAATCATATCT
4712001 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:4712003 original size:19 final size:19
Alignment explanation
Indices: 4711979--4712069 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
4711969 AATCATATCT
4711979 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4711998 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
4712017 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
4712035 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
4712052 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
4712070 TGAAGGTTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:4713600 original size:18 final size:18
Alignment explanation
Indices: 4713571--4713695 Score: 191
Period size: 18 Copynumber: 6.9 Consensus size: 18
4713561 ATAATCTTCA
4713571 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
4713590 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
4713608 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
4713625 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
4713643 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
4713660 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
4713678 ATGATATACAATCTTAGA
1 ATGAT-TGCAATCTTAGA
4713696 AGATATGATT
Statistics
Matches: 98, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
17 32 0.33
18 50 0.51
19 16 0.16
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:4713602 original size:35 final size:35
Alignment explanation
Indices: 4713579--4713695 Score: 216
Period size: 35 Copynumber: 3.3 Consensus size: 35
4713569 CAATGATATG
4713579 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
4713614 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
4713649 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
4713686 CAATCTTAGA
1 CAATCTTAGA
4713696 AGATATGATT
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
35 67 0.84
37 13 0.16
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.37
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:4714026 original size:23 final size:26
Alignment explanation
Indices: 4713988--4714034 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
4713978 TATCTCCTTG
4713988 ATTTTTTAATTCAATTTTA-TATTTT
1 ATTTTTTAATTCAATTTTAGTATTTT
4714013 ATTTTTTAA-T-AATTTTAGTATT
1 ATTTTTTAATTCAATTTTAGTATT
4714035 ATATCAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 5 0.24
25 9 0.43
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
ATTTTTTAATTCAATTTTAGTATTTT
Found at i:4721141 original size:10 final size:9
Alignment explanation
Indices: 4721118--4721185 Score: 65
Period size: 8 Copynumber: 8.1 Consensus size: 9
4721108 CTTTTATTTC
4721118 AAAGAAAAA
1 AAAGAAAAA
*
4721127 AAA-AAGAA
1 AAAGAAAAA
*
4721135 GAA-AAAAA
1 AAAGAAAAA
4721143 AAAGAAAAA
1 AAAGAAAAA
*
4721152 AGA-AAAAA
1 AAAGAAAAA
4721160 AAAG-AAAA
1 AAAGAAAAA
*
4721168 AGAG-AAAA
1 AAAGAAAAA
4721176 AAAGAAAAA
1 AAAGAAAAA
4721185 A
1 A
4721186 GAAAAAGGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
8 33 0.69
9 15 0.31
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:4721143 original size:16 final size:16
Alignment explanation
Indices: 4721118--4721191 Score: 91
Period size: 16 Copynumber: 4.6 Consensus size: 16
4721108 CTTTTATTTC
4721118 AAAGAAAAAAAA-AAGA
1 AAAGAAAAAAAAGAA-A
4721134 AGAA-AAAAAAAAGAAA
1 A-AAGAAAAAAAAGAAA
4721150 AAAGAAAAAAAA-AGAA
1 AAAGAAAAAAAAGA-AA
4721166 AAAGAGAAAAAAAGAAA
1 AAAGA-AAAAAAAGAAA
4721183 AAAGAAAAA
1 AAAGAAAAA
4721192 GGAAAAATGG
Statistics
Matches: 52, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.06
16 30 0.58
17 18 0.35
18 1 0.02
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAAGAAA
Found at i:4721145 original size:18 final size:18
Alignment explanation
Indices: 4721122--4721188 Score: 93
Period size: 18 Copynumber: 3.7 Consensus size: 18
4721112 TATTTCAAAG
4721122 AAAAAAAAAAGAAGAAAA
1 AAAAAAAAAAGAAGAAAA
4721140 AAAAAAGAAAA-AAGAAAA
1 AAAAAA-AAAAGAAGAAAA
4721158 AAAAAGAAAAAG-AGAAAA
1 AAAAA-AAAAAGAAGAAAA
*
4721176 AAAGAAAAAAGAA
1 AAAAAAAAAAGAA
4721189 AAAGGAAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
17 6 0.14
18 33 0.75
19 5 0.11
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAGAAGAAAA
Found at i:4721152 original size:7 final size:7
Alignment explanation
Indices: 4721118--4721198 Score: 78
Period size: 7 Copynumber: 11.3 Consensus size: 7
4721108 CTTTTATTTC
4721118 AAAGAAA
1 AAAGAAA
4721125 AAA-AAA
1 AAAGAAA
4721131 AGAAGAAA
1 A-AAGAAA
4721139 AAA-AAA
1 AAAGAAA
4721145 AGAA-AAA
1 A-AAGAAA
*
4721152 AGAAAAAA
1 A-AAGAAA
4721160 AAAGAAA
1 AAAGAAA
4721167 AAGAGAAAA
1 AA-AG-AAA
4721176 AAAGAAA
1 AAAGAAA
4721183 AAAGAAA
1 AAAGAAA
*
4721190 AAGGAAA
1 AAAGAAA
4721197 AA
1 AA
4721199 TGGAGAGGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
6 8 0.12
7 41 0.62
8 12 0.18
9 5 0.08
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:4721176 original size:33 final size:31
Alignment explanation
Indices: 4721118--4721191 Score: 112
Period size: 33 Copynumber: 2.3 Consensus size: 31
4721108 CTTTTATTTC
*
4721118 AAAGAAAAAAAAAAGAAGAAAAAAAAAAGAAA
1 AAAG-AAAAAAAAAGAAAAAAAAAAAAAGAAA
4721150 AAAGAAAAAAAAAGAAAAAGAGAAAAAAAGAAA
1 AAAGAAAAAAAAAGAAAAA-A-AAAAAAAGAAA
4721183 AAAGAAAAA
1 AAAGAAAAA
4721192 GGAAAAATGG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
31 14 0.36
32 5 0.13
33 20 0.51
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (31 bp):
AAAGAAAAAAAAAGAAAAAAAAAAAAAGAAA
Found at i:4721198 original size:1 final size:1
Alignment explanation
Indices: 4721122--4721191 Score: 59
Period size: 1 Copynumber: 70.0 Consensus size: 1
4721112 TATTTCAAAG
* * * * * * * * *
4721122 AAAAAAAAAAGAAGAAAAAAAAAAGAAAAAAGAAAAAAAAAGAAAAAGAGAAAAAAAGAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4721187 AAAAA
1 AAAAA
4721192 GGAAAAATGG
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:4722298 original size:87 final size:85
Alignment explanation
Indices: 4722148--4722353 Score: 222
Period size: 87 Copynumber: 2.4 Consensus size: 85
4722138 AAATTCAACG
* *
4722148 CCTTAAACCCCTAAATAGTAGGATAACAGG-CTAAAATTACAGATCTTATCTCCCTAAGAAGTAG
1 CCTTAAACCCCTAAACAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGAAGTAG
* *
4722212 CGGAATAGATC-AATGACGACT
66 CGGAACAGATCGAA-GACG-CA
* * *** *
4722233 CGTCTTAATCCCCTAAGCAGTAGGGTAACAGGTC-AAAATTGTGGATCTTATCTCCCTAAGCAGT
1 C--CTTAAACCCCTAAACAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGAAGT
* * *
4722297 AGTGGAGCAGATCGAAGATGCA
64 AGCGGAACAGATCGAAGACGCA
*
4722319 CCTTAACCCCCTAAACAGTAGGGTAACAGGT-TAAA
1 CCTTAAACCCCTAAACAGTAGGGTAACAGGTCTAAA
4722354 GTATAGCAGA
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
84 31 0.31
85 1 0.01
86 2 0.02
87 64 0.63
88 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (85 bp):
CCTTAAACCCCTAAACAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGAAGTAG
CGGAACAGATCGAAGACGCA
Found at i:4722837 original size:207 final size:207
Alignment explanation
Indices: 4722478--4724014 Score: 2556
Period size: 207 Copynumber: 7.4 Consensus size: 207
4722468 CGGAGAGCAG
* * * * *
4722478 ATCGAAGACATAGCTAATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
4722543 TCTCTGTATTGTCAGAGAACAAATCGACA-TTTGGCATCTCCATATTCGATGGAGGGTAGACACA
66 TCTCTGTATTGTCAGAGAACAAATCGA-AGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACA
* *
4722607 TAGCAGATATGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGC
130 TAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGC
4722672 TTACAAGGAACAA
195 TTACAAGGAACAA
* *
4722685 ATCAAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * * * *
4722750 TCTCCGTATTGTCAGAAAACAAATCAAAGTTTGGCATCTCCATATTCGACGGAAGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
4722815 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
4722880 TACAAGGAACAA
196 TACAAGGAACAA
* * *
4722892 ATCGAAGACATAACTAATTTGTCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
4722957 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
* *
4723022 AGCAGATCTGGCCTTCAGATATTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTATGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
4723087 TACAAGGAACAA
196 TACAAGGAACAA
* *
4723099 ATTGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
*
4723164 TCTCTGTATTGTCAGAGAATAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
4723229 AGCAAATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
4723294 TACAAGGAATAA
196 TACAAGGAACAA
4723306 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
4723371 TCTCTGTCTTGTCAGAGAATAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACATAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
4723436 AGCAGATCTGGCCTTCAGATATTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
4723501 TACAAGGAACAA
196 TACAAGGAACAA
* * *
4723513 ATCAAAGACATAGTTGATTTGGCTTTCACATGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * * * *
4723578 TCTCTGTATTGTCAAAGAACAAATCAAAGTTTGGCGTCTCCATATTCAACGGAGGGTAGATACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
*
4723643 AGCAGATCTGGCCTTCAGATGTTTATATTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
4723708 TACAAGGAAAAA
196 TACAAGGAACAA
*
4723720 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACTTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
* * *
4723785 TCTCTGTATTGTCAGAGAAAAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGACAGACATAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
** * * *
4723850 AGCAGATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCT
131 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
4723914 TACAAGGAGCAA
196 TACAAGGAACAA
* * *
4723926 ATCGAAGACATAGCTGATTTGGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
*
4723991 TCTCTGTATTGTCAGGGAACAAAT
66 TCTCTGTATTGTCAGAGAACAAAT
4724015 TGAAAAATCA
Statistics
Matches: 1249, Mismatches: 80, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
206 123 0.10
207 1126 0.90
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:4723807 original size:88 final size:87
Alignment explanation
Indices: 4723639--4723813 Score: 198
Period size: 88 Copynumber: 2.0 Consensus size: 87
4723629 GAGGGTAGAT
*
4723639 ACATAGCAGATCTGGCCTTCAGATGTTTATATTGAAGCAAGATCCAAGATGGTTTGGCATCCTTG
1 ACATAGCAGATCTGGCCTTCAGATGTTTATATTGAAGCAAGATCCAAGATGATTTGGCATCCTTG
*
4723704 TGCTTACAAGGAAAAAATCGAAG
66 TGATTACAA-GAAAAAATCGAAG
* * * *
4723727 ACATAGCTGATTTGGCTTTCACG-TGTTTACT-TTGAAGCAAG-TCTAAGATGATTTGGCAT-CT
1 ACATAGCAGATCTGGCCTTCA-GATGTTTA-TATTGAAGCAAGATCCAAGATGATTTGGCATCCT
*
4723788 CTGT-ATTGTCAGAGAAAAAATCGAAG
64 -TGTGATT-ACA-AGAAAAAATCGAAG
4723814 TTTGGCGTCT
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
86 4 0.05
87 34 0.45
88 35 0.47
89 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (87 bp):
ACATAGCAGATCTGGCCTTCAGATGTTTATATTGAAGCAAGATCCAAGATGATTTGGCATCCTTG
TGATTACAAGAAAAAATCGAAG
Found at i:4724443 original size:18 final size:18
Alignment explanation
Indices: 4724414--4724503 Score: 137
Period size: 18 Copynumber: 4.9 Consensus size: 18
4724404 ATAATATTCA
4724414 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
4724433 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
4724451 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
4724468 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
4724486 ATGATATACAATCTTAGA
1 ATGAT-TGCAATCTTAGA
4724504 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
17 16 0.24
18 34 0.52
19 16 0.24
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:4724462 original size:35 final size:36
Alignment explanation
Indices: 4724422--4724503 Score: 148
Period size: 35 Copynumber: 2.3 Consensus size: 36
4724412 CAATGATATG
4724422 CAATCTTAGATATGATTGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGAATA
4724457 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGA-ATA
4724494 CAATCTTAGA
1 CAATCTTAGA
4724504 AGATATGATT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
35 32 0.71
37 13 0.29
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGAATA
Found at i:4724841 original size:24 final size:25
Alignment explanation
Indices: 4724795--4724841 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4724785 TATCTCCTTG
*
4724795 ATTTTTTAATTCACTTTTATATTTT
1 ATTTTTTAATTCAATTTTATATTTT
4724820 ATTTTTTAA-T-AATTTTAGTATT
1 ATTTTTTAATTCAATTTTA-TATT
4724842 ATATCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (25 bp):
ATTTTTTAATTCAATTTTATATTTT
Found at i:4726274 original size:13 final size:13
Alignment explanation
Indices: 4726253--4726291 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4726243 ATGAGATATA
4726253 ATATACAAAATAG
1 ATATACAAAATAG
* *
4726266 ATTTACAAAATAT
1 ATATACAAAATAG
4726279 ATATACATAAATA
1 ATATACA-AAATA
4726292 ACTTTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (13 bp):
ATATACAAAATAG
Found at i:4726411 original size:2 final size:2
Alignment explanation
Indices: 4726406--4726450 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4726396 ACACACACAC
4726406 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4726448 AT A
1 AT A
4726451 AAGAAAACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4733356 original size:40 final size:41
Alignment explanation
Indices: 4733306--4733440 Score: 191
Period size: 41 Copynumber: 3.3 Consensus size: 41
4733296 TATGGTCTGG
* *
4733306 CACACGCCCGTGTGCCCACTCGTGTGTCTCACACGGCCTGA
1 CACACACCCGTGTGCCCACCCGTGTGTCTCACACGGCCTGA
*
4733347 CACAC-CCCGTGTGCCCACCCGTGTGTCTTACACGGCCTGA
1 CACACACCCGTGTGCCCACCCGTGTGTCTCACACGGCCTGA
* * * * *
4733387 CACATATCCGTGTACCCACCCATGTGTCTCACACGGCCTAA
1 CACACACCCGTGTGCCCACCCGTGTGTCTCACACGGCCTGA
4733428 CACACACCCGTGT
1 CACACACCCGTGT
4733441 TGTCTATTTA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 37 0.45
41 46 0.55
ACGTcount: A:0.19, C:0.41, G:0.20, T:0.20
Consensus pattern (41 bp):
CACACACCCGTGTGCCCACCCGTGTGTCTCACACGGCCTGA
Found at i:4734218 original size:19 final size:20
Alignment explanation
Indices: 4734170--4734222 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
4734160 CAATTGGATG
* *
4734170 AAGAAAGAAGGAAAAAGAAT
1 AAGAAAGAAGAAAAAACAAT
4734190 AA-AAAGGAAGAAAAAACAA-
1 AAGAAA-GAAGAAAAAACAAT
4734209 AAGAAAGAAGAAAA
1 AAGAAAGAAGAAAA
4734223 GGAAAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (20 bp):
AAGAAAGAAGAAAAAACAAT
Found at i:4734229 original size:19 final size:18
Alignment explanation
Indices: 4734170--4734229 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 18
4734160 CAATTGGATG
4734170 AAGAAAGAAGGAAAAAGAATA
1 AAGAAAGAA-G-AAAAGAA-A
* *
4734191 AA-AAGGAAGAAAAAACAA
1 AAGAAAGAAGAAAAGA-AA
4734209 AAGAAAGAAGAAAAGGAAA
1 AAGAAAGAAGAAAA-GAAA
4734228 AA
1 AA
4734230 ATGGACATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 8 0.25
19 16 0.50
20 6 0.19
21 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (18 bp):
AAGAAAGAAGAAAAGAAA
Found at i:4735233 original size:23 final size:23
Alignment explanation
Indices: 4735190--4735233 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
4735180 CAATTTATAG
**
4735190 GTTTTAAATTTTTATTTTTCTAC
1 GTTTTAAATTTTTATAGTTCTAC
4735213 GTTTTAGAATTTTTA-AGTTCT
1 GTTTTA-AATTTTTATAGTTCT
4735234 TAATGTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.23, C:0.07, G:0.09, T:0.61
Consensus pattern (23 bp):
GTTTTAAATTTTTATAGTTCTAC
Found at i:4742873 original size:16 final size:16
Alignment explanation
Indices: 4742815--4742881 Score: 52
Period size: 16 Copynumber: 4.3 Consensus size: 16
4742805 TTAATAATGT
4742815 TATTAAAATATATATTA
1 TATTAAAATATA-ATTA
* *
4742832 T-TT-TATTA-AATTA
1 TATTAAAATATAATTA
*
4742845 TATT-TAATAATAATTA
1 TATTAAAAT-ATAATTA
4742861 TATTAAAATATAATTA
1 TATTAAAATATAATTA
*
4742877 AATTA
1 TATTA
4742882 TTTATTTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 5 0.12
14 6 0.15
15 4 0.10
16 22 0.54
17 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAAAATATAATTA
Found at i:4742908 original size:61 final size:56
Alignment explanation
Indices: 4742794--4742935 Score: 142
Period size: 61 Copynumber: 2.4 Consensus size: 56
4742784 TAAATATTAT
* * * *
4742794 TAATAATTATATTAATAATGTTATTAAAATATATATTATTTTATTAAATTATATTTAA
1 TAATAATTATATTAA-AATATAATTAAAATATATATTATTTTATTAAAATATATGT-A
* *
4742852 TAATAATTATATTAAAATATAATTAAATTATTTATTTTTATTTTTATTAAAATATATGTA
1 TAATAATTATATTAAAATATAATTAAA--ATATA-TATTA-TTTTATTAAAATATATGTA
*
4742912 TCAATAATCT-TATTAAAATTTAAT
1 T-AATAAT-TATATTAAAATATAAT
4742936 AACAATAATC
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
57 10 0.14
58 15 0.21
59 4 0.06
60 6 0.08
61 35 0.49
62 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (56 bp):
TAATAATTATATTAAAATATAATTAAAATATATATTATTTTATTAAAATATATGTA
Found at i:4743068 original size:16 final size:16
Alignment explanation
Indices: 4743047--4743117 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
4743037 TGAATTACTG
*
4743047 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
4743063 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
4743079 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
4743095 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
4743111 ATTACAG
1 ATTACAG
4743118 TGAACCAAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:4747276 original size:2 final size:2
Alignment explanation
Indices: 4747269--4747321 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
4747259 TACACAATTC
*
4747269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4747311 TA TA CA TA TA T
1 TA TA TA TA TA T
4747322 GCAGGAAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4754335 original size:28 final size:28
Alignment explanation
Indices: 4754295--4754373 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
4754285 GCAATCAAAT
* * *
4754295 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
4754323 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
4754351 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
4754374 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:4756109 original size:3 final size:3
Alignment explanation
Indices: 4756101--4756177 Score: 95
Period size: 3 Copynumber: 25.0 Consensus size: 3
4756091 AATAAGGGTG
4756101 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
*
4756149 ACA ATA ATA CAT- ATA TATA TATA ATA ATA
1 ATA ATA ATA -ATA ATA -ATA -ATA ATA ATA
4756178 GTAGTCAGAA
Statistics
Matches: 68, Mismatches: 1, Indels: 10
0.86 0.01 0.13
Matches are distributed among these distances:
2 3 0.04
3 55 0.81
4 10 0.15
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4756214 original size:15 final size:15
Alignment explanation
Indices: 4756194--4756227 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4756184 AGAAATAAAA
4756194 AATAATAGA-AGTAAC
1 AATAAT-GATAGTAAC
4756209 AATAATGATAGTAAC
1 AATAATGATAGTAAC
4756224 AATA
1 AATA
4756228 TAAATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (15 bp):
AATAATGATAGTAAC
Found at i:4756276 original size:12 final size:12
Alignment explanation
Indices: 4756252--4756323 Score: 60
Period size: 12 Copynumber: 6.1 Consensus size: 12
4756242 GAGAGTACAT
4756252 ATAATAT-AATA
1 ATAATATAAATA
4756263 ATAATATAAATA
1 ATAATATAAATA
* *
4756275 ATAATATATACGTG
1 ATAATATA-A-ATA
*
4756289 AGAA-AT-AATA
1 ATAATATAAATA
4756299 ATAATATAAATA
1 ATAATATAAATA
* *
4756311 ATAGTAAAAATA
1 ATAATATAAATA
4756323 A
1 A
4756324 CAAAATAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
10 4 0.08
11 10 0.21
12 27 0.56
13 3 0.06
14 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:4756863 original size:30 final size:30
Alignment explanation
Indices: 4756829--4756914 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
4756819 ATTTGATGGT
*
4756829 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
*
4756859 GTAGGTGCAAGTGGGAGGCAAGATGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
4756889 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
4756915 CTAGGGTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.26, C:0.07, G:0.51, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:4757536 original size:43 final size:42
Alignment explanation
Indices: 4757474--4758624 Score: 234
Period size: 44 Copynumber: 26.6 Consensus size: 42
4757464 CATCTTCGAT
*
4757474 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGC
* * * ** * *
4757517 CTGTTACCCTACTGTTTAGGGGTTAAG-GCTTGTCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTAAGATC-TGTAAATTTAG-C
*
4757560 CTGTTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGC
1 CTGTTACCCTACTGCTTA-GGGG-TTAAGATCTGTAAAT-TT-AGC
* * ** ** * * *
4757606 TTATTACCCTACTGCTTAGGGGTTTAAGGCCCAT-CATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGATCTGTAAAT-TTAG-C
* * * ** **** * *
4757650 CTATTTCCCTACTGCTTAGGGGGTTAAG-GCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAG-C
* *
4757693 CTGCT-CCACTACTGCTTAGGGGGATAAGATCTGTAAATTTAGC
1 CTGTTACC-CTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
* ** * *
4757736 CTGTTACCCTACTGCTTAGGGGTTTAAGAACCT-T-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAG-ATCTGTAAAT-TTAG-C
* * * * *
4757780 CTGCT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTTGGT
1 CTGTTACC-CTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGC
* * * ** * *
4757822 CTGTCACCTTACTGCTTAGGGGTTTAAGACCCT-T-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGA-TCTGTAAAT-TTAG-C
* * * *
4757866 CTGTTTCCCTACTGCTTAGGAGGTTAAAATCTGGAAATTTAAC
1 CTGTTACCCTACTGCTTAGG-GGTTAAGATCTGTAAATTTAGC
* * ** * *
4757909 CTGTTACCCTACTGCTTAGGGTTTTAAGACCCT-T-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGG-GTTAAGA-TCTGTAAAT-TTAG-C
* * * * * *
4757953 CTGCT-CCACTACTGCTTAAGGAGATAAGATCTG-CAATTTGGT
1 CTGTTACC-CTACTGCTT-AGGGGTTAAGATCTGTAAATTTAGC
* * ** * *
4757995 CTTTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGA-TCTGTAAAT-TTAG-C
* * *
4758039 CTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
* ** * *
4758082 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-TGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGA-TCTGTAAAT-TTAG-C
** * * *
4758126 CTACT-CCACTACTGCTTAGGGAGATAAGATCTGT-AATTTGGT
1 CTGTTACC-CTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGC
* * ** * *
4758168 CTGTTACCCTACTGCTCAGGGGTTTAAGACCCT-T-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGA-TCTGTAAAT-TTAG-C
* * * *
4758212 CTGTTTCCCTACTGCTTAGTGGGTTAAGATCTGGAAATTCAAC
1 CTGTTACCCTACTGCTTAG-GGGTTAAGATCTGTAAATTTAGC
** * *
4758255 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGT--CTTT-GAT
1 CTGTTACCCTACTGCTTAGGGG-TTAA-GATC-T-GTAAATTTAG-C
* * * * *
4758299 CTGCTT-CACTACTGCTTAGGGAGATAAGATCTG-CAATTTGGT
1 CTG-TTACCCTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGC
* ** * *
4758341 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGA-TCTGTAAAT-TTAG-C
* * * *
4758385 CTGTTTCCCTACTACTTAGGGGGTTAAGATCTGGAAATTCAGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCTGTAAATTTAGC
* ** * **
4758428 TTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGT--CTTTAAT
1 CTGTTACCCTACTGCTTAGGGG-TTAA-GATC-T-GTAAATTTAGC
* * * *
4758472 CTGCT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTTGGC
1 CTGTTACC-CTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGC
* * * * **
4758514 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGT--CTTCAAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAGA-TC-T-GTAAATTTAGC
* *
4758558 ATGTTTCCCTACTGCTTAGGGGGTTAAGATCTAG-AAATTCT-GC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGATCT-GTAAATT-TAGC
4758601 CTGTTACCCTACTGCTTAGGGGTT
1 CTGTTACCCTACTGCTTAGGGGTT
4758625 TAAGGCCCTT
Statistics
Matches: 798, Mismatches: 211, Indels: 199
0.66 0.17 0.16
Matches are distributed among these distances:
41 13 0.02
42 159 0.20
43 267 0.33
44 280 0.35
45 58 0.07
46 20 0.03
47 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGC
Found at i:4757580 original size:86 final size:89
Alignment explanation
Indices: 4757434--4757677 Score: 377
Period size: 86 Copynumber: 2.8 Consensus size: 89
4757424 TTCAGCTTGG
*
4757434 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
4757499 AAGATCTGTAAAT-TT-AGCCTGT
66 AAGATCTGTAAATCTTCAGCCTAT
* *** *
4757521 TACCCTACTGTTTAGGGG-TTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGG-T
*
4757585 TAAGATCTGTAAATCTTCAGCTTAT
65 TAAGATCTGTAAATCTTCAGCCTAT
*
4757610 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
4757675 AAG
66 AAG
4757678 GCCATCGCCT
Statistics
Matches: 139, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
86 39 0.28
87 32 0.23
88 2 0.01
89 27 0.19
90 39 0.28
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (89 bp):
TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGTAAATCTTCAGCCTAT
Found at i:4757618 original size:46 final size:43
Alignment explanation
Indices: 4757480--4757629 Score: 139
Period size: 43 Copynumber: 3.4 Consensus size: 43
4757470 CGATCTGTTT
*
4757480 CCCTACTGCTTAGGGTGTTAAGATCTGTAAAT-TT-AGCCTGTTA
1 CCCTACTGCTTAGGG-GTTAAGATCTGTAAATCTTCAG-CTTTTA
* * * * *
4757523 CCCTACTGTTTAGGGGTTAAG-GCTTGT-CACCTTCGATCTGTTT-
1 CCCTACTGCTTAGGGGTTAAGATC-TGTAAATCTTC-AGCT-TTTA
4757566 CCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGCTTATTA
1 CCCTACTGCTTA-GGGG-TTAAGATCTGTAAATCTTCAGCTT-TTA
4757612 CCCTACTGCTTAGGGGTT
1 CCCTACTGCTTAGGGGTT
4757630 TAAGGCCCAT
Statistics
Matches: 85, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
41 2 0.02
42 11 0.13
43 27 0.32
44 10 0.12
45 17 0.20
46 18 0.21
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.37
Consensus pattern (43 bp):
CCCTACTGCTTAGGGGTTAAGATCTGTAAATCTTCAGCTTTTA
Found at i:4757748 original size:176 final size:175
Alignment explanation
Indices: 4757424--4757764 Score: 402
Period size: 176 Copynumber: 1.9 Consensus size: 175
4757414 AGTTGTAATT
* *
4757424 TTCAGCTTGGTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGC
1 TTCAGCTTAGTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCTACTGC
* * ** * * * * * *
4757489 TTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGTTTAGGGGTTAAGGCTTGTCACC
66 TTAGGGGGTTAAGAGCCATAAACTTAGCCTGCTACCCTACTGCTTAGGGGATAAGGCTTGTAAAC
* * *
4757554 TTCGATCTGTTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATC
131 TTAGACCTGTTACCCTACTGCTTA-GGGGTTTAAGATCTGTAAATC
*
4757600 TTCAGCTTATTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCTACTGC
1 TTCAGCTTAGTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCTACTGC
*** * * *
4757665 TTAGGGGGTTAAG-GCCATCGCCTTCGATCTGCT-CCACTACTGCTTAGGGGGATAA-GATCTGT
66 TTAGGGGGTTAAGAGCCATAAACTTAG-CCTGCTACC-CTACTGCTTA-GGGGATAAGGCT-TGT
*
4757727 AAATTTAG-CCTGTTACCCTACTGCTTAGGGGTTTAAGA
127 AAACTTAGACCTGTTACCCTACTGCTTAGGGGTTTAAGA
4757765 ACCTTCGTCT
Statistics
Matches: 138, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
175 18 0.13
176 106 0.77
177 14 0.10
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (175 bp):
TTCAGCTTAGTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCTACTGC
TTAGGGGGTTAAGAGCCATAAACTTAGCCTGCTACCCTACTGCTTAGGGGATAAGGCTTGTAAAC
TTAGACCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATC
Found at i:4757906 original size:173 final size:173
Alignment explanation
Indices: 4757656--4758748 Score: 1751
Period size: 173 Copynumber: 6.3 Consensus size: 173
4757646 CGATCTATTT
* * * * * *
4757656 CCCTACTGCTTAGGGGGTTAAG-GCCATCGCCTTCGATCTG-CTCCACTACTGCTTAGGGGGATA
1 CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGGGTTA
* * *
4757719 AGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGAACCTTCGTCTTCGATCTGC
65 AGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGC
*
4757784 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTCA
130 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
* *
4757828 CCTTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGAGGTTAA
1 CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA
* * * *
4757893 AATCTGGAAATTTAACCTGTTACCCTACTGCTTAGGGTTTTAAGACCCTTCGTCTTCGATCTGCT
66 GATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGCT
* *
4757958 CCACTACTGCTTAAGGAGATAAGATCTGCAATTTGGTCTTTTA
131 CCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
*
4758001 CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTATTGCTTAGGGGGTTAA
1 CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA
* * *
4758066 GATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTTGTCTTCGATCTACT
66 GATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGCT
*
4758131 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTGGTCTGTTA
131 CCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
* *
4758174 CCCTACTGCTCAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGTGGGTTAA
1 CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA
* * *
4758239 GATCTGGAAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTTGATCTGCT
66 GATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGCT
*
4758304 TCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
131 CCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
*
4758347 CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAA
1 CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA
* * **
4758412 GATCTGGAAATTCAGCTTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTTAATCTGCT
66 GATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGCT
*
4758477 CCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGCCTGTTA
131 CCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
* * *
4758520 CCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCAATATGTTTCCCTACTGCTTAGGGGGTTAA
1 CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA
* * * *
4758585 GATCTAGAAATTCTGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTTGATCTGCT
66 GATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGCT
*
4758650 CCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCAGTTA
131 CCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
*
4758693 CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTGCTTA
1 CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTA
4758749 AAGAGATAAG
Statistics
Matches: 856, Mismatches: 62, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
172 23 0.03
173 830 0.97
174 3 0.00
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (173 bp):
CCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAA
GATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGCT
CCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTA
Found at i:4759226 original size:44 final size:44
Alignment explanation
Indices: 4759087--4759236 Score: 148
Period size: 44 Copynumber: 3.5 Consensus size: 44
4759077 CTTGTTACTA
* * *
4759087 TACTGCTTAGAGGGTTAAAG-CTCATCATCTTCGATCTATTTCTC
1 TACTGCTTAG-GGGTTTAAGACTCTTCATCTTCGATCTATTTCCC
* * * *
4759131 TACTGCTTA-GGGTGATAAGA-TCTGCGA--TTCGGTCTATTACCC
1 TACTGCTTAGGGGT-TTAAGACTCTTC-ATCTTCGATCTATTTCCC
* *
4759173 TACTGCTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGACTCTTCATCTTCGATCTATTTCCC
*
4759217 TACTGCTTAGGGGATTAAGA
1 TACTGCTTAGGGGTTTAAGA
4759237 TCTGTAAATT
Statistics
Matches: 85, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
42 31 0.36
43 13 0.15
44 41 0.48
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (44 bp):
TACTGCTTAGGGGTTTAAGACTCTTCATCTTCGATCTATTTCCC
Found at i:4774467 original size:5 final size:5
Alignment explanation
Indices: 4774457--4774497 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
4774447 TAATGCAAAT
*
4774457 AATGC AATGC AATGC AATGC AAATGC -ATGA AATG- AATGC AA
1 AATGC AATGC AATGC AATGC -AATGC AATGC AATGC AATGC AA
4774498 AAGAAAGGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
4 7 0.22
5 20 0.62
6 5 0.16
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (5 bp):
AATGC
Found at i:4774480 original size:24 final size:24
Alignment explanation
Indices: 4774448--4774497 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4774438 GGGAAAGCCT
*
4774448 AATGCAAAT-AATGCAATGCAATGC
1 AATGCAAATGAATGAAATG-AATGC
*
4774472 AATGCAAATGCATGAAATGAATGC
1 AATGCAAATGAATGAAATGAATGC
4774496 AA
1 AA
4774498 AAGAAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (24 bp):
AATGCAAATGAATGAAATGAATGC
Found at i:4776406 original size:2 final size:2
Alignment explanation
Indices: 4776399--4776428 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4776389 ATAATAATAC
*
4776399 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4776429 ATAGAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4776455 original size:3 final size:3
Alignment explanation
Indices: 4776449--4776473 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4776439 ACACTACTAT
4776449 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4776474 ATATAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4776529 original size:39 final size:40
Alignment explanation
Indices: 4776458--4776552 Score: 97
Period size: 39 Copynumber: 2.4 Consensus size: 40
4776448 TATAATAATA
* * *
4776458 ATAATAATAATAATAAATATAGAAATACAAAAAGCAA-A-T
1 ATAATAAAAATATTAAATAAAGAAATACAAAAA-CAATACT
*
4776497 ATAATAAAAATATTAAATTAAAGTAATA-AAAAACAATACT
1 ATAATAAAAATATTAAA-TAAAGAAATACAAAAACAATACT
*
4776537 ATATATAAATATATTA
1 ATA-ATAAAAATATTA
4776553 TATATATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
38 3 0.06
39 21 0.45
40 12 0.26
41 11 0.23
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.28
Consensus pattern (40 bp):
ATAATAAAAATATTAAATAAAGAAATACAAAAACAATACT
Found at i:4776541 original size:2 final size:2
Alignment explanation
Indices: 4776536--4776568 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
4776526 AAAACAATAC
*
4776536 TA TA TA TA AA TA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4776569 CATAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4776643 original size:141 final size:135
Alignment explanation
Indices: 4776360--4776616 Score: 338
Period size: 141 Copynumber: 1.9 Consensus size: 135
4776350 GGAAATAATG
* * * *
4776360 ATAATAATAATAATATTAAAGTAAAGTAAATAATAATACTATATATATATATATATATATATGTA
1 ATAATAATAAAAATATTAAAGTAAAGTAAAAAACAATACTATATATATATATATATATATATATA
* * *
4776425 TATAATAGAAATACACACTACTATATAATAATAATAATAATAATAATAAATATAGAAATACAAAA
66 TATAATAAAAATACACACTAATATATAATAATAATAATAATAACAATAAATATAGAAATACAAAA
4776490 AGCAA
131 AGCAA
*
4776495 AT-ATAATAAAAATATTAAATTAAAGTAATAAAAAACAATACTATATATAAATATATTATATATA
1 ATAATAATAAAAATATTAAAGTAAAG---TAAAAAACAATACTATATAT--ATATA-TATATATA
* * *
4776559 TATATATATACATAAAAATATACACTAATATATAATAATAATAGTAATAGCAA-AAATA
60 TATATATATA-ATAAAAATACACACTAATATATAATAATAATAATAATAACAATAAATA
4776617 ATGAAAATAT
Statistics
Matches: 104, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
134 21 0.20
135 2 0.02
137 18 0.17
139 5 0.05
140 22 0.21
141 36 0.35
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (135 bp):
ATAATAATAAAAATATTAAAGTAAAGTAAAAAACAATACTATATATATATATATATATATATATA
TATAATAAAAATACACACTAATATATAATAATAATAATAATAACAATAAATATAGAAATACAAAA
AGCAA
Found at i:4776690 original size:3 final size:3
Alignment explanation
Indices: 4776682--4776743 Score: 54
Period size: 3 Copynumber: 19.0 Consensus size: 3
4776672 AATAGGGGTG
*
4776682 ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CATA TATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA
4776730 TATA TATA ATA ATA
1 -ATA -ATA ATA ATA
4776744 GTAGTCAGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 1 0.02
3 34 0.63
4 19 0.35
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4776697 original size:12 final size:13
Alignment explanation
Indices: 4776682--4776743 Score: 65
Period size: 12 Copynumber: 4.7 Consensus size: 13
4776672 AATAGGGGTG
4776682 ATAATAATAATA-
1 ATAATAATAATAC
4776694 ATAATAATAATAC
1 ATAATAATAATAC
*
4776707 A-AACAATAATAC
1 ATAATAATAATAC
*
4776719 ATATATATATATATAT
1 ATA-ATA-ATA-ATAC
4776735 ATAATAATA
1 ATAATAATA
4776744 GTAGTCAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
12 23 0.55
13 2 0.05
14 5 0.12
15 6 0.14
16 6 0.14
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAATAATAATAC
Found at i:4776833 original size:3 final size:3
Alignment explanation
Indices: 4776825--4776914 Score: 71
Period size: 3 Copynumber: 29.7 Consensus size: 3
4776815 TATATAATAC
* *
4776825 AAT AAT AAT -AT AAAT AAT AAT ATAT ATGT AAGA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT A-AT A-AT AA-T AAT AAT AAT AAT AAT
* *
4776873 AAT AAT AAT -AT AAAT AAT AGT AAA AAT AAT AA- AAT AA- AAT AA
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4776915 AACAAAGCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
2 8 0.11
3 51 0.72
4 12 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4776842 original size:12 final size:12
Alignment explanation
Indices: 4776825--4776910 Score: 79
Period size: 12 Copynumber: 7.2 Consensus size: 12
4776815 TATATAATAC
4776825 AATAATAATATA
1 AATAATAATATA
4776837 AATAATAATATA
1 AATAATAATATA
* *
4776849 TATGTAAGAA-AT-
1 -A-ATAATAATATA
4776861 AATAATAATA-A
1 AATAATAATATA
4776872 TAATAATAATATA
1 -AATAATAATATA
* *
4776885 AATAATAGTAAA
1 AATAATAATATA
*
4776897 AATAATAAAATA
1 AATAATAATATA
4776909 AA
1 AA
4776911 ATAAAACAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
10 5 0.08
11 2 0.03
12 43 0.73
13 4 0.07
14 5 0.08
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
AATAATAATATA
Found at i:4776848 original size:30 final size:28
Alignment explanation
Indices: 4776814--4776915 Score: 82
Period size: 30 Copynumber: 3.4 Consensus size: 28
4776804 TGGAGAGGGT
4776814 ATATATAATACAATAATAATATAAATAATA
1 ATATATAATA-AATAATAATA-AAATAATA
*
4776844 ATATATATGTAAGA-AATAATAATAATAATA
1 ATATATA-ATAA-ATAATAATAA-AATAATA
*
4776874 ATA-ATAATATAAATAATAGTAAAAATAATA
1 ATATAT-A-ATAAATAATAAT-AAAATAATA
* *
4776904 AAATAAAATAAA
1 ATATATAATAAA
4776916 ACAAAGCTCT
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
29 9 0.15
30 45 0.75
31 6 0.10
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (28 bp):
ATATATAATAAATAATAATAAAATAATA
Found at i:4777458 original size:30 final size:30
Alignment explanation
Indices: 4777409--4777489 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
4777399 GATGGTGTAG
*
4777409 GTGCAAGTGGG-GACAAGGTGGTGGAGTAA
1 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAA
*
4777438 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAG
1 GTGCAAGTGGGAGGCAAGGTGGTGGAGTAA
4777468 GTGCAAGTGGGAGGCAAGGTGG
1 GTGCAAGTGGGAGGCAAGGTGG
4777490 CTAGGGTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 11 0.22
30 38 0.78
ACGTcount: A:0.25, C:0.07, G:0.52, T:0.16
Consensus pattern (30 bp):
GTGCAAGTGGGAGGCAAGGTGGTGGAGTAA
Found at i:4777487 original size:18 final size:18
Alignment explanation
Indices: 4777438--4777488 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
4777428 GGTGGAGTAA
4777438 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
*
4777456 GTG---GT-GGA-G-TAG
1 GTGCAAGTGGGAGGCAAG
4777468 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
4777486 GTG
1 GTG
4777489 GCTAGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 12
0.64 0.05 0.31
Matches are distributed among these distances:
12 5 0.20
13 1 0.04
14 3 0.12
15 4 0.16
16 3 0.12
17 1 0.04
18 8 0.32
ACGTcount: A:0.24, C:0.08, G:0.53, T:0.16
Consensus pattern (18 bp):
GTGCAAGTGGGAGGCAAG
Found at i:4778669 original size:6 final size:6
Alignment explanation
Indices: 4778658--4778691 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
4778648 TGGGCAGAAC
4778658 AGGAAG AGGAAG AGGAAG AGGAAG AGGAAG AGGA
1 AGGAAG AGGAAG AGGAAG AGGAAG AGGAAG AGGA
4778692 GTAGGAGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
AGGAAG
Found at i:4779745 original size:61 final size:61
Alignment explanation
Indices: 4779617--4779753 Score: 153
Period size: 61 Copynumber: 2.3 Consensus size: 61
4779607 GACTAAACAC
* *
4779617 TTTATTTTTTA--GTTACTTAATTATAAAAAATTATAAAATAGTAATTCAATTATTAGTAAA
1 TTTATTTTTTATGGTTACCTAATTATAAAAAATTATAAAATAGTAATTCAACTATTA-TAAA
* *
4779677 TTT-TTTTTTATGGTTACCTAATTATAAAAAGTTATAAAAT-GATCAATT-AACTATT-TAAT
1 TTTATTTTTTATGGTTACCTAATTATAAAAAATTATAAAATAG-T-AATTCAACTATTATAAA
*
4779736 TTTACTTTTT-TGGTTACC
1 TTTATTTTTTATGGTTACC
4779754 AACCGGTTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
59 21 0.31
60 9 0.13
61 33 0.49
62 4 0.06
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (61 bp):
TTTATTTTTTATGGTTACCTAATTATAAAAAATTATAAAATAGTAATTCAACTATTATAAA
Found at i:4789520 original size:24 final size:24
Alignment explanation
Indices: 4789475--4789520 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
4789465 TTGAATTGTA
**
4789475 TTTTATAATTATTAATGTTTTTAT
1 TTTTATAATTATTAATAATTTTAT
* *
4789499 TTTTATGATTTTTAATAATTTT
1 TTTTATAATTATTAATAATTTT
4789521 CTTTATTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTTATAATTATTAATAATTTTAT
Found at i:4802230 original size:20 final size:20
Alignment explanation
Indices: 4802205--4802245 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4802195 ATGTGTACTT
4802205 CTGGAATTAAAATGAAGTAA
1 CTGGAATTAAAATGAAGTAA
4802225 CTGGAATTAAAATGAAGTAA
1 CTGGAATTAAAATGAAGTAA
4802245 C
1 C
4802246 CGAGTAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.07, G:0.20, T:0.24
Consensus pattern (20 bp):
CTGGAATTAAAATGAAGTAA
Found at i:4804588 original size:3 final size:3
Alignment explanation
Indices: 4804582--4804621 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
4804572 ATAATAATTA
4804582 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4804622 GTTTAGAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4807372 original size:29 final size:29
Alignment explanation
Indices: 4807331--4807388 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
4807321 TTATACAGAT
* * * *
4807331 TGGATTAAATTAATTTTTCTATTATTAAA
1 TGGAGTAAATTAATCTCTATATTATTAAA
*
4807360 TGGAGTAATTTAATCTCTATATTATTAAA
1 TGGAGTAAATTAATCTCTATATTATTAAA
4807389 AAGAATCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (29 bp):
TGGAGTAAATTAATCTCTATATTATTAAA
Found at i:4808708 original size:1 final size:1
Alignment explanation
Indices: 4808697--4808727 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
4808687 GCAATCCGTT
*
4808697 AAAAAACAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4808728 CCTTAGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4809097 original size:18 final size:18
Alignment explanation
Indices: 4809074--4809116 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
4809064 TGATATGTGG
4809074 TAAAAAAT-AATAAAAAA
1 TAAAAAATCAATAAAAAA
*
4809091 -ATAAAAATCAATAAAAGA
1 TA-AAAAATCAATAAAAAA
4809109 TAAAAAAT
1 TAAAAAAT
4809117 TATTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 1 0.05
17 6 0.27
18 14 0.64
19 1 0.05
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (18 bp):
TAAAAAATCAATAAAAAA
Found at i:4809123 original size:18 final size:18
Alignment explanation
Indices: 4809074--4809124 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
4809064 TGATATGTGG
*
4809074 TAAAAAATAATAAAAAAA
1 TAAAAAATAATTAAAAAA
*
4809092 T-AAAAATCAA-TAAAAGA
1 TAAAAAAT-AATTAAAAAA
*
4809109 TAAAAAATTATTAAAA
1 TAAAAAATAATTAAAA
4809125 TTTAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
TAAAAAATAATTAAAAAA
Found at i:4809136 original size:20 final size:20
Alignment explanation
Indices: 4809111--4809196 Score: 54
Period size: 20 Copynumber: 4.3 Consensus size: 20
4809101 ATAAAAGATA
4809111 AAAAATTATTAAAATTTAAT
1 AAAAATTATTAAAATTTAAT
* * *
4809131 AAAAA-TATTTAGAAGTTATT
1 AAAAATTA-TTAAAATTTAAT
**
4809151 AAAAATTAGAAAAAAATTGT-A-
1 AAAAATT--ATTAAAATT-TAAT
*
4809172 AAAAATTA-TAAAATTTTAT
1 AAAAATTATTAAAATTTAAT
4809191 AAAAAT
1 AAAAAT
4809197 CATAAAAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
17 1 0.02
18 7 0.14
19 9 0.18
20 19 0.38
21 8 0.16
22 4 0.08
23 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
AAAAATTATTAAAATTTAAT
Found at i:4809152 original size:30 final size:32
Alignment explanation
Indices: 4809109--4809196 Score: 96
Period size: 30 Copynumber: 2.9 Consensus size: 32
4809099 CAATAAAAGA
4809109 TAAAAAATTATTAAAATTTAATAAAAATATT-
1 TAAAAAATTATTAAAATTTAATAAAAATATTG
* * *
4809140 T-AGAAGTTATTAAAAATTAGA-AAAAA-ATTG
1 TAAAAAATTATTAAAATTTA-ATAAAAATATTG
*
4809170 TAAAAAATTA-TAAAATTTTATAAAAAT
1 TAAAAAATTATTAAAATTTAATAAAAAT
4809197 CATAAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
29 4 0.09
30 33 0.73
31 8 0.18
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (32 bp):
TAAAAAATTATTAAAATTTAATAAAAATATTG
Found at i:4809184 original size:19 final size:20
Alignment explanation
Indices: 4809162--4809204 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
4809152 AAAATTAGAA
*
4809162 AAAAATTGTA-AAAAATTAT
1 AAAAATTGTATAAAAATCAT
*
4809181 -AAAATTTTATAAAAATCAT
1 AAAAATTGTATAAAAATCAT
4809200 AAAAA
1 AAAAA
4809205 ATAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAATTGTATAAAAATCAT
Found at i:4811346 original size:28 final size:28
Alignment explanation
Indices: 4811313--4811370 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
4811303 CTATGAAAAG
* *
4811313 TTACAAAATGGTTATTGAACTATTTAAT
1 TTACAAAACGGTTATCGAACTATTTAAT
4811341 TTACAAAACGGTTATCGAACTATTTAAT
1 TTACAAAACGGTTATCGAACTATTTAAT
4811369 TT
1 TT
4811371 TATCTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (28 bp):
TTACAAAACGGTTATCGAACTATTTAAT
Found at i:4813046 original size:30 final size:30
Alignment explanation
Indices: 4812991--4813065 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
4812981 TTTATTTCTA
*
4812991 ATAT-TTATGTATTATGTAAATA-TTTTAAT
1 ATATATTATGTA-TATCTAAATATTTTTAAT
* **
4813020 ATTATATTATGTATATCTATATATTTTTCGT
1 A-TATATTATGTATATCTAAATATTTTTAAT
4813051 ATATATTATGTATAT
1 ATATATTATGTATAT
4813066 ATGTTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.64
31 13 0.33
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATATATTATGTATATCTAAATATTTTTAAT
Found at i:4813078 original size:24 final size:25
Alignment explanation
Indices: 4813037--4813092 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
4813027 TATGTATATC
*
4813037 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
4813061 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
4813086 TATATAT
1 TATATAT
4813093 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:4813172 original size:19 final size:19
Alignment explanation
Indices: 4813148--4813184 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4813138 CTATTTTATA
*
4813148 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
4813167 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
4813185 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:4813996 original size:25 final size:26
Alignment explanation
Indices: 4813959--4814016 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
4813949 AGTATTTCTA
4813959 ATATA-TATGGTATATGT-TCATTTTT
1 ATATATTATGGTATATGTATC-TTTTT
4813984 ATATATTAT-GTATATGTATCTTTTT
1 ATATATTATGGTATATGTATCTTTTT
4814009 A-ATATTAT
1 ATATATTAT
4814017 ATCTTTATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.23
25 19 0.61
26 5 0.16
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (26 bp):
ATATATTATGGTATATGTATCTTTTT
Found at i:4816025 original size:118 final size:118
Alignment explanation
Indices: 4815865--4816095 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
4815855 TATTTCCGGT
4815865 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
4815930 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
4815983 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
4816048 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
4816096 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:4817066 original size:1 final size:1
Alignment explanation
Indices: 4817050--4817107 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
4817040 ATATTTAACT
* * * * * * *
4817050 AAAATAAAATAAAAAAAAAAAAAAAAATAATAAAAAAAAAAATAAATAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4817108 GAAAGATTGG
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (1 bp):
A
Found at i:4817070 original size:12 final size:12
Alignment explanation
Indices: 4817050--4817101 Score: 68
Period size: 13 Copynumber: 4.1 Consensus size: 12
4817040 ATATTTAACT
4817050 AAAATAAAATAAA
1 AAAATAAAA-AAA
*
4817063 AAAAAAAAAAAA
1 AAAATAAAAAAA
4817075 AATAATAAAAAAA
1 AA-AATAAAAAAA
4817088 AAAATAAATAAAA
1 AAAATAAA-AAAA
4817101 A
1 A
4817102 TAAAAAGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 11 0.31
13 24 0.69
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAATAAAAAAA
Found at i:4817074 original size:16 final size:16
Alignment explanation
Indices: 4817049--4817107 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
4817039 AATATTTAAC
* *
4817049 TAAAATAAAATAAAAA
1 TAAAAAAAAAAAAAAA
*
4817065 -AAAAAAAAAAAATAA
1 TAAAAAAAAAAAAAAA
*
4817080 TAAAAAAAAAAATAAA
1 TAAAAAAAAAAAAAAA
4817096 TAAAAATAAAAA
1 TAAAAA-AAAAA
4817108 GAAAGATTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 12 0.33
16 19 0.53
17 5 0.14
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (16 bp):
TAAAAAAAAAAAAAAA
Done.