Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 56 of 109
Found at i:18415735 original size:3 final size:3
Alignment explanation
Indices: 18415727--18415762 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
18415717 ATTAATATTG
18415727 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18415763 CGCCATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18426762 original size:23 final size:23
Alignment explanation
Indices: 18426732--18426779 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
18426722 AGACAGAATC
* *
18426732 AAGTCGATCCTATCTTTTAACCG
1 AAGTCGATCATATCTTTCAACCG
18426755 AAGTCGATCATATCTTTCAACCG
1 AAGTCGATCATATCTTTCAACCG
18426778 AA
1 AA
18426780 CAAGCTTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (23 bp):
AAGTCGATCATATCTTTCAACCG
Found at i:18427348 original size:17 final size:17
Alignment explanation
Indices: 18427326--18427359 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18427316 TTTAATTAAC
18427326 TAAATAAATTTCCTAAT
1 TAAATAAATTTCCTAAT
* *
18427343 TAAATAATTTTCTTAAT
1 TAAATAAATTTCCTAAT
18427360 CTAATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAATAAATTTCCTAAT
Found at i:18427486 original size:14 final size:15
Alignment explanation
Indices: 18427463--18427500 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
18427453 TTAACTAATT
18427463 AAATTAAATT-TTTA
1 AAATTAAATTATTTA
*
18427477 AAATTCAATTATTTA
1 AAATTAAATTATTTA
*
18427492 TAATTAAAT
1 AAATTAAAT
18427501 AATAAGTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTAAATTATTTA
Found at i:18427597 original size:17 final size:17
Alignment explanation
Indices: 18427575--18427608 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18427565 TTTAATTAAC
18427575 TAAATAAATTTCCTAAT
1 TAAATAAATTTCCTAAT
* *
18427592 TAAATAATTTTCTTAAT
1 TAAATAAATTTCCTAAT
18427609 CTAATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAATAAATTTCCTAAT
Found at i:18427710 original size:119 final size:119
Alignment explanation
Indices: 18427338--18427715 Score: 340
Period size: 122 Copynumber: 3.1 Consensus size: 119
18427328 AATAAATTTC
18427338 CTAATTAAATAATTTTCTTAATCTAATTTTAATTATGTTAAAGTCATGACAACTTTACTATAAAA
1 CTAATTAAATAATTTTCTTAATCTAATTTTAATTATGTTAAAGTCATGACAACTTTACTATAAAA
18427403 AATATACAAGGAAATATATTTAATTTCCTTATTCAACATATTCATAATGATTAA
66 AATATACAAGGAAATATATTTAATTTCCTTATTCAACATATTCATAATGATTAA
* * ** * ** *
18427457 CTAATTAAATTAAATTTT-TAAAATTCAATTATTTATAATTAAATAATAAGTCAAAAAAAC----
1 CTAATTAAA-T-AATTTTCT-TAA-TC--TAATTT-TAATTATGTTA-AAGTCATGACAACTTTA
* * * * * * ** * *
18427517 CT-TAAATTAATTTTCAAGTCAAA-A-AATAAATATTTTTTATTCAATTTATTTAATTAACTAAA
58 CTATAAA-AAATATACAAG-GAAATATATTTAAT-TTCCTTATTCAA--CA--T-ATTCA-T-AA
* **
18427579 TAAATTTC
113 T-GATTAA
18427587 CTAATTAAATAATTTTCTTAATCTAATTTTAATTATGTTAAAGTCATGACAACTTTACTATAAAA
1 CTAATTAAATAATTTTCTTAATCTAATTTTAATTATGTTAAAGTCATGACAACTTTACTATAAAA
18427652 AATATACAAGGAAATATATTTAATTTCCTTATTCAACATATTCATAATGATTAA
66 AATATACAAGGAAATATATTTAATTTCCTTATTCAACATATTCATAATGATTAA
18427706 CTAATTAAAT
1 CTAATTAAAT
18427716 TAAATTTTTA
Statistics
Matches: 190, Mismatches: 42, Indels: 54
0.66 0.15 0.19
Matches are distributed among these distances:
119 22 0.12
120 5 0.03
121 18 0.09
122 27 0.14
123 14 0.07
124 14 0.07
125 14 0.07
126 14 0.07
127 27 0.14
128 18 0.09
129 5 0.03
130 12 0.06
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.42
Consensus pattern (119 bp):
CTAATTAAATAATTTTCTTAATCTAATTTTAATTATGTTAAAGTCATGACAACTTTACTATAAAA
AATATACAAGGAAATATATTTAATTTCCTTATTCAACATATTCATAATGATTAA
Found at i:18427728 original size:249 final size:249
Alignment explanation
Indices: 18427290--18427787 Score: 996
Period size: 249 Copynumber: 2.0 Consensus size: 249
18427280 TTCTATTTCT
18427290 AAAATAAATATTTTTTATTCAATTTATTTAATTAACTAAATAAATTTCCTAATTAAATAATTTTC
1 AAAATAAATATTTTTTATTCAATTTATTTAATTAACTAAATAAATTTCCTAATTAAATAATTTTC
18427355 TTAATCTAATTTTAATTATGTTAAAGTCATGACAACTTTACTATAAAAAATATACAAGGAAATAT
66 TTAATCTAATTTTAATTATGTTAAAGTCATGACAACTTTACTATAAAAAATATACAAGGAAATAT
18427420 ATTTAATTTCCTTATTCAACATATTCATAATGATTAACTAATTAAATTAAATTTTTAAAATTCAA
131 ATTTAATTTCCTTATTCAACATATTCATAATGATTAACTAATTAAATTAAATTTTTAAAATTCAA
18427485 TTATTTATAATTAAATAATAAGTCAAAAAAACCTTAAATTAATTTTCAAGTCAA
196 TTATTTATAATTAAATAATAAGTCAAAAAAACCTTAAATTAATTTTCAAGTCAA
18427539 AAAATAAATATTTTTTATTCAATTTATTTAATTAACTAAATAAATTTCCTAATTAAATAATTTTC
1 AAAATAAATATTTTTTATTCAATTTATTTAATTAACTAAATAAATTTCCTAATTAAATAATTTTC
18427604 TTAATCTAATTTTAATTATGTTAAAGTCATGACAACTTTACTATAAAAAATATACAAGGAAATAT
66 TTAATCTAATTTTAATTATGTTAAAGTCATGACAACTTTACTATAAAAAATATACAAGGAAATAT
18427669 ATTTAATTTCCTTATTCAACATATTCATAATGATTAACTAATTAAATTAAATTTTTAAAATTCAA
131 ATTTAATTTCCTTATTCAACATATTCATAATGATTAACTAATTAAATTAAATTTTTAAAATTCAA
18427734 TTATTTATAATTAAATAATAAGTCAAAAAAACCTTAAATTAATTTTCAAGTCAA
196 TTATTTATAATTAAATAATAAGTCAAAAAAACCTTAAATTAATTTTCAAGTCAA
18427788 TTTTATACTT
Statistics
Matches: 249, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
249 249 1.00
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (249 bp):
AAAATAAATATTTTTTATTCAATTTATTTAATTAACTAAATAAATTTCCTAATTAAATAATTTTC
TTAATCTAATTTTAATTATGTTAAAGTCATGACAACTTTACTATAAAAAATATACAAGGAAATAT
ATTTAATTTCCTTATTCAACATATTCATAATGATTAACTAATTAAATTAAATTTTTAAAATTCAA
TTATTTATAATTAAATAATAAGTCAAAAAAACCTTAAATTAATTTTCAAGTCAA
Found at i:18427735 original size:14 final size:15
Alignment explanation
Indices: 18427712--18427749 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
18427702 TTAACTAATT
18427712 AAATTAAATT-TTTA
1 AAATTAAATTATTTA
*
18427726 AAATTCAATTATTTA
1 AAATTAAATTATTTA
*
18427741 TAATTAAAT
1 AAATTAAAT
18427750 AATAAGTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTAAATTATTTA
Found at i:18435189 original size:26 final size:26
Alignment explanation
Indices: 18435146--18435197 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
18435136 AATAATAATG
*
18435146 ACGCAGCAAAGCTGCCAGTAACAGTA
1 ACGCAGCAAAGCTACCAGTAACAGTA
*
18435172 ACGCAGCAAGGCTACCAGTAACAGTA
1 ACGCAGCAAAGCTACCAGTAACAGTA
18435198 TATGTGGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.27, G:0.23, T:0.12
Consensus pattern (26 bp):
ACGCAGCAAAGCTACCAGTAACAGTA
Found at i:18435405 original size:27 final size:27
Alignment explanation
Indices: 18435375--18435785 Score: 334
Period size: 27 Copynumber: 15.3 Consensus size: 27
18435365 TATAACAATC
*
18435375 ATTTTACCCTTTGGGGGTATTTTGATA
1 ATTTTACCCTTCGGGGGTATTTTGATA
* * *
18435402 ATTTTACCCTTCGGAGGTATTTCGCTA
1 ATTTTACCCTTCGGGGGTATTTTGATA
*
18435429 ATTTTACCCTTCGAGGGG-ATTTCGATA
1 ATTTTACCCTTCG-GGGGTATTTTGATA
* ** *
18435456 ATTTTA-CCTTCCGAGGGTATAAT-AGTC
1 ATTTTACCCTT-CGGGGGTATTTTGA-TA
* * * *
18435483 ATTTTACTCTTCGAGGGTATTTCGTTA
1 ATTTTACCCTTCGGGGGTATTTTGATA
* *
18435510 ATTTTACCCTTTGGGGGTATTTCGATA
1 ATTTTACCCTTCGGGGGTATTTTGATA
* * * *
18435537 ATTTTACCTTTCGGAGGTATTTGGGTA
1 ATTTTACCCTTCGGGGGTATTTTGATA
* * * * * *
18435564 GTTTTACCCTTCGAGAGCATTTCGGTA
1 ATTTTACCCTTCGGGGGTATTTTGATA
* * * * *
18435591 ATTTTACCTTTTGAGGGCA-TTTCAGTA
1 ATTTTACCCTTCGGGGGTATTTTGA-TA
* *
18435618 ATTTTACCCTTCAGGGGTATTTTGGTA
1 ATTTTACCCTTCGGGGGTATTTTGATA
* *
18435645 ATTTTACCCTTCAGAGGTATTTT-AGTA
1 ATTTTACCCTTCGGGGGTATTTTGA-TA
* *
18435672 ATTTTACCCTTCGAGGATATTTTGATA
1 ATTTTACCCTTCGGGGGTATTTTGATA
* *
18435699 ATTTTACCCTTTGAGGGTATTTTCG-TA
1 ATTTTACCCTTCGGGGGTATTTT-GATA
*
18435726 ATTTTACCCTT--TGGGTATTTTGATA
1 ATTTTACCCTTCGGGGGTATTTTGATA
* * *
18435751 ATTTTACCCTTCAGGGGTATTTCGGTA
1 ATTTTACCCTTCGGGGGTATTTTGATA
18435778 ATTTTACC
1 ATTTTACC
18435786 ACGAATCGCA
Statistics
Matches: 311, Mismatches: 59, Indels: 28
0.78 0.15 0.07
Matches are distributed among these distances:
24 1 0.00
25 22 0.07
26 10 0.03
27 267 0.86
28 11 0.04
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTATTTTGATA
Found at i:18435512 original size:81 final size:79
Alignment explanation
Indices: 18435388--18435785 Score: 380
Period size: 81 Copynumber: 4.9 Consensus size: 79
18435378 TTACCCTTTG
*
18435388 GGGGTATTTTGATAATTTTACCCTTCG-GAGGTATTTCGCTAATTTTACCCTTCGAGGGGATTTC
1 GGGGTATTTTGGTAATTTTACCCTTCGAG-GGTATTTCG-TAATTTTACCCTTCGAGGGGATTTC
18435452 GATAATTTTACCTTCC
64 GATAATTTTACCTTCC
** * * * *
18435468 GAGGGTATAATAGTCATTTTACTCTTCGAGGGTATTTCGTTAATTTTACCCTTTG-GGGGTATTT
1 G-GGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCG-TAATTTTACCCTTCGAGGGG-ATTT
*
18435532 CGATAATTTTACCTTTC
63 CGATAATTTTACCTTCC
* * * * * * *
18435549 GGAGGTATTTGGGTAGTTTTACCCTTCGAGAGCATTTCGGTAATTTTACCTTTTGAGGGCATTTC
1 GG-GGTATTTTGGTAATTTTACCCTTCGAGGGTATTTC-GTAATTTTACCCTTCGAGGGGATTTC
*
18435614 -AGTAATTTTACCCTTCA
64 GA-TAATTTTA-CCTTCC
* ** *
18435631 GGGGTATTTTGGTAATTTTACCCTTC-AGAGGTATTTTAGTAATTTTACCCTTCGAGGATATTTT
1 GGGGTATTTTGGTAATTTTACCCTTCGAG-GGTA-TTTCGTAATTTTACCCTTCGAGGGGATTTC
*
18435695 GATAATTTTACCCTT-T
64 GATAATTTTA-CCTTCC
* * *
18435711 GAGGGTATTTTCGTAATTTTACCCTT--TGGGTATTTTGATAATTTTACCCTTC-AGGGGTATTT
1 G-GGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCG-TAATTTTACCCTTCGAGGGG-ATTT
*
18435773 CGGTAATTTTACC
63 CGATAATTTTACC
18435786 ACGAATCGCA
Statistics
Matches: 264, Mismatches: 40, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
78 9 0.03
79 31 0.12
80 11 0.04
81 198 0.75
82 15 0.06
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (79 bp):
GGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCGTAATTTTACCCTTCGAGGGGATTTCGA
TAATTTTACCTTCC
Found at i:18439850 original size:3 final size:3
Alignment explanation
Indices: 18439842--18439867 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18439832 TACTAACATA
18439842 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
18439868 GAAGAAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18440007 original size:12 final size:13
Alignment explanation
Indices: 18439961--18440001 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
18439951 TAAATAGATG
*
18439961 AATAGATGATAAT
1 AATAGATAATAAT
18439974 AA-AG-TAATAAT
1 AATAGATAATAAT
18439985 AATAGATAATAA-
1 AATAGATAATAAT
18439997 AATAG
1 AATAG
18440002 TAAATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.32
12 9 0.36
13 8 0.32
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (13 bp):
AATAGATAATAAT
Found at i:18440011 original size:24 final size:24
Alignment explanation
Indices: 18439944--18440004 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
18439934 TAAAAAAGGG
*
18439944 TAATAAA-TAAATAGATGAATAGATGA
1 TAATAAAGT-AATA-AT-AATAGATAA
18439970 TAATAAAGTAATAATAATAGATAA
1 TAATAAAGTAATAATAATAGATAA
18439994 TAA-AATAGTAA
1 TAATAA-AGTAA
18440005 ATATAATGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 2 0.06
24 16 0.50
25 2 0.06
26 11 0.34
27 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (24 bp):
TAATAAAGTAATAATAATAGATAA
Found at i:18440161 original size:20 final size:19
Alignment explanation
Indices: 18440138--18440205 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
18440128 AATAGATAAC
18440138 TAAATGAGCAAGAAAATGAA
1 TAAATGA-CAAGAAAATGAA
*
18440158 TAAAAT-AAAAGGAATAATGAA
1 T-AAATGACAA-GAA-AATGAA
* *
18440179 TAAATAAACAAGTAAATGAA
1 TAAAT-GACAAGAAAATGAA
18440199 TAAATGA
1 TAAATGA
18440206 ATAAATAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
19 3 0.08
20 20 0.51
21 13 0.33
22 3 0.08
ACGTcount: A:0.63, C:0.03, G:0.15, T:0.19
Consensus pattern (19 bp):
TAAATGACAAGAAAATGAA
Found at i:18440324 original size:4 final size:4
Alignment explanation
Indices: 18440315--18440343 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
18440305 ATAATGATAA
18440315 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
18440344 TAATAATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:18446904 original size:14 final size:14
Alignment explanation
Indices: 18446885--18446912 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18446875 CTTTTACAGA
18446885 AAAAATATAAAAAG
1 AAAAATATAAAAAG
18446899 AAAAATATAAAAAG
1 AAAAATATAAAAAG
18446913 GAAGAAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAATATAAAAAG
Found at i:18448038 original size:18 final size:16
Alignment explanation
Indices: 18448012--18448054 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
18448002 TTTATTTTAT
*
18448012 TATTGTTATTTCTATTG
1 TATTATTATTTC-ATTG
18448029 CTATTATTA-TTCATTG
1 -TATTATTATTTCATTG
18448045 TATTATTATT
1 TATTATTATT
18448055 GATTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 8 0.35
16 5 0.22
17 3 0.13
18 7 0.30
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (16 bp):
TATTATTATTTCATTG
Found at i:18448048 original size:15 final size:16
Alignment explanation
Indices: 18448025--18448054 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18448015 TGTTATTTCT
18448025 ATTGCTATTATTATTC
1 ATTGCTATTATTATTC
18448041 ATTG-TATTATTATT
1 ATTGCTATTATTATT
18448055 GATTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (16 bp):
ATTGCTATTATTATTC
Found at i:18452984 original size:7 final size:6
Alignment explanation
Indices: 18452967--18453021 Score: 60
Period size: 6 Copynumber: 9.0 Consensus size: 6
18452957 TTTCATAAAT
*
18452967 AAAAA- AAAAAGG AAAAAG TAAAAGG AAAAAG AAAGAAG -AAAAG AAAAAG
1 AAAAAG AAAAA-G AAAAAG -AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG
18453016 AAAAAG
1 AAAAAG
18453022 GAGAGGCCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
5 8 0.19
6 22 0.51
7 13 0.30
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:18452989 original size:13 final size:13
Alignment explanation
Indices: 18452973--18452997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18452963 AAATAAAAAA
18452973 AAAAGGAAAAAGT
1 AAAAGGAAAAAGT
18452986 AAAAGGAAAAAG
1 AAAAGGAAAAAG
18452998 AAAGAAGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (13 bp):
AAAAGGAAAAAGT
Found at i:18453983 original size:44 final size:43
Alignment explanation
Indices: 18453893--18454994 Score: 196
Period size: 44 Copynumber: 24.5 Consensus size: 43
18453883 ATGGCGAATA
* **
18453893 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAATC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAATC
* *
18453937 TTATCCCTCTGAAGTTGCAGTGGGGCAGATTGAAGATGC-AAGTC
1 TTATCCC-CTGAAGTTGCAGTGGAGCAGATTGAAGATACTAA-TC
* * * *
18453981 TTACTTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATATCAAATC
1 TTA-TCCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CTAATC
* * ** * * *
18454026 TCATTTCTTTAAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATC
1 TTA-TCCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--ACT--A-ATC
* * * * * * * *
18454077 TTATCTCTCTAAAGTTGCAGTAGAGTA-AAT-CATAT-CAAATC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAATC
* * ** * * *
18454118 TTATCCCTCCTGAAGTTGCGGAGGAGCAGATTGAAGCCACCAGTA
1 TTAT-CC-CCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAATC
* * * *
18454163 TTATCTCCCTGAAGTTGCAGCGGAACAGACTGAAGATAGTGAATC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT-AATC
* * * * * *
18454208 TTATTTCTCTGGCA-TTGCAGTGGAACAGATTGAAAATATAAAGTGCAGATC
1 TTA-TCCCCT-GAAGTTGCAGTGGAGCAGATTG--AAGAT--ACT--A-ATC
* ** * * * *
18454259 TTATCTCTCTGAAGTTGCAGTAAAGCAGA-T-CATAT-CAAACC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAATC
* * * * * * *
18454300 TTATCTCTCTGAAGTTACCA-TGGAGCAGGTTAAAAATGAACCAACC
1 TTATC-CCCTGAAGTT-GCAGTGGAGCAGATTGAAGAT--ACTAATC
* * * * *
18454346 TTATCTCCCTAAAGCTGCAATGGAGCAGGTTGAAGCTACTAATC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAATC
* *
18454390 CTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AA-A-ACGATGAATC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATAC--T-AATC
* * ** * * * **
18454434 CTATACCTCTGAAGTTATAGTAGG-TCGGATTAAATCTACCATAACAACTC
1 TTAT-CCCCTGAAGTTGCAGT-GGAGCAGATTGAAGATA-C-T---AA-TC
* * * *
18454484 TTATCTCCCTGAAATTGCAGTGGAGGAGACT-AAAAT-CGTAAGTC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATAC-TAA-TC
* *
18454528 TTATCTCCCTGAAGTTTCAGTGGAGCAGACTGAAGATAGC-AGAT-
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CTA-ATC
* ** * *
18454572 TTATTTCCCTGAAGTTGCAGTGGAATAGATT-AAAATTAC-AGATA
1 TTA-TCCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACTA-ATC
* * * * * *
18454616 TTATCTCTCTGAAGTTACAGTAGAGCA-AAT-CATAT-C-AAGTC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAA-TC
* *
18454657 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGC-AGATC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CTA-ATC
* * * *
18454702 TTATCCCCCTGAAGTTGTAGTGGGGTAGATTGAAGCTAC-AAGTC
1 TTAT-CCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAA-TC
* * * *
18454746 TTATCTCCCTGAGGTTGCAGTGGAGTAGACTGAAGATAGCAAATC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CTAATC
* * * ** *
18454791 TCATTTCCCTGAAGTTGAAGTGGAATAGATTGAAGCTATAAATTACAAATC
1 TTA-TCCCCTGAAGTTGCAGTGGAGCAGATTGAAG------A-TACTAATC
* * * * *
18454842 TTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAACC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CTAATC
* * * * * *
18454883 CTATCTCTCTGAAGTTACAGTGGAGTC-GATTAAAGCA-ACAAACC
1 TTATC-CCCTGAAGTTGCAGTGGAG-CAGATTGAAG-ATACTAATC
* * *
18454927 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGGTAGTGAATC
1 TTATC-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT-AATC
* *
18454972 TTATCTCCCCGAAGCTGCAGTGG
1 TTATC-CCCTGAAGTTGCAGTGG
18454995 GGTAGAAAGA
Statistics
Matches: 790, Mismatches: 179, Indels: 177
0.69 0.16 0.15
Matches are distributed among these distances:
40 3 0.00
41 92 0.12
42 25 0.03
43 30 0.04
44 293 0.37
45 168 0.21
46 44 0.06
47 18 0.02
48 1 0.00
49 13 0.02
50 30 0.04
51 71 0.09
52 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
TTATCCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAATC
Found at i:18454060 original size:45 final size:45
Alignment explanation
Indices: 18453948--18454068 Score: 113
Period size: 45 Copynumber: 2.7 Consensus size: 45
18453938 TATCCCTCTG
** * * * *
18453948 AAGTTGCAGTGGGGCAGATTGAAGAT-GCAAGTCTTACTTCCCTG
1 AAGTTGCAGTGGAACAGATTGAAGATATCAAATCTCACTTCCCTA
* * **
18453992 AAGTTGCAGT-GAAGCAGACTGAAGATATCAAATCTCATTTCTTTA
1 AAGTTGCAGTGGAA-CAGATTGAAGATATCAAATCTCACTTCCCTA
*
18454037 AAGTTGCAGTGGAACAGATTGAAGCTAT-AAAT
1 AAGTTGCAGTGGAACAGATTGAAGATATCAAAT
18454069 TACAGATCTT
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
43 1 0.02
44 25 0.40
45 33 0.53
46 3 0.05
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (45 bp):
AAGTTGCAGTGGAACAGATTGAAGATATCAAATCTCACTTCCCTA
Found at i:18454174 original size:182 final size:181
Alignment explanation
Indices: 18453933--18454315 Score: 477
Period size: 182 Copynumber: 2.1 Consensus size: 181
18453923 TAAAGCCACT
* * ** *
18453933 AATCTTATCCCTCTGAAGTTGCAGTGGGGCAGATTGAAGATGCAAGTCTTACTTCCCTGAAGTTG
1 AATCTTATCCCTCTGAAGTTGCAGAGGAGCAGATTGAAGACACAAGTATTACTTCCCTGAAGTTG
* *
18453998 CAG-TGAAGCAGACTGAAGATA-TCAAATCTCATTTCT-TTAAAGTTGCAGTGGAACAGATTGAA
66 CAGCGGAA-CAGACTGAAGATAGT-AAATCTCATTTCTCTGAAA-TTGCAGTGGAACAGATTGAA
** * * *
18454060 GCTATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAAATCATATCA
128 AATATAAAGTACAGATCTTATCTCTCTAAAGTTGCAGTAAAGCAAATCATATCA
* * *
18454114 AATCTTATCCCTCCTGAAGTTGCGGAGGAGCAGATTGAAGCCACCAGTATTA-TCTCCCTGAAGT
1 AATCTTATCCCT-CTGAAGTTGCAGAGGAGCAGATTGAAGACACAAGTATTACT-TCCCTGAAGT
* * **
18454178 TGCAGCGGAACAGACTGAAGATAGTGAATCTTATTTCTCTGGCATTGCAGTGGAACAGATTGAAA
64 TGCAGCGGAACAGACTGAAGATAGTAAATCTCATTTCTCTGAAATTGCAGTGGAACAGATTGAAA
* * *
18454243 ATATAAAGTGCAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCATATCA
129 ATATAAAGTACAGATCTTATCTCTCTAAAGTTGCAGTAAAGCAAATCATATCA
* *
18454296 AACCTTATCTCTCTGAAGTT
1 AATCTTATCCCTCTGAAGTT
18454316 ACCATGGAGC
Statistics
Matches: 173, Mismatches: 24, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
181 21 0.12
182 146 0.84
183 6 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (181 bp):
AATCTTATCCCTCTGAAGTTGCAGAGGAGCAGATTGAAGACACAAGTATTACTTCCCTGAAGTTG
CAGCGGAACAGACTGAAGATAGTAAATCTCATTTCTCTGAAATTGCAGTGGAACAGATTGAAAAT
ATAAAGTACAGATCTTATCTCTCTAAAGTTGCAGTAAAGCAAATCATATCA
Found at i:18454410 original size:182 final size:183
Alignment explanation
Indices: 18454037--18454413 Score: 397
Period size: 182 Copynumber: 2.1 Consensus size: 183
18454027 CATTTCTTTA
** * *
18454037 AAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAG
1 AAGTTGCAGTGGAACAGATTGAAAATATAAAGTACAGATCTTATCTCTCTAAAGTTGCAGTAAAG
* * * * * * **
18454102 TAAATCATATCAAATCTTATCCCTCCTGAAGTTGCGGAGGAGCAGATTGAAGCCACCAGTATTAT
66 CAAATCATATCAAACCTTATCCCTCCTGAAGTTACGCAGGAGCAGATTAAAGCAACCAACATTAT
* * * * * * *
18454167 CTCCCTGAAGTTGCAGCGGAACAGACTGAAGATAGTGAATCTTATTTCTCTGG
131 CTCCCTAAAGCTGCAACGGAACAGACTGAAGATACTGAATCCTATCTCCCTGG
* * *
18454220 CA-TTGCAGTGGAACAGATTGAAAATATAAAGTGCAGATCTTATCTCTCTGAAGTTGCAGTAAAG
1 AAGTTGCAGTGGAACAGATTGAAAATATAAAGTACAGATCTTATCTCTCTAAAGTTGCAGTAAAG
* * * *
18454284 CAGATCATATCAAACCTTATCTCT-CTGAAGTTAC-CATGGAGCAGGTTAAAAATG-AACCAACC
66 CAAATCATATCAAACCTTATCCCTCCTGAAGTTACGCA-GGAGCAGATT--AAA-GCAACCAACA
* * ** *
18454346 TTATCTCCCTAAAGCTGCAATGGAGCAGGTTGAAGCTACT-AATCCTATCTCCCT-G
127 TTATCTCCCTAAAGCTGCAACGGAACAGACTGAAGATACTGAATCCTATCTCCCTGG
18454401 AAGTTGCAGTGGA
1 AAGTTGCAGTGGA
18454414 GCGGATTAAA
Statistics
Matches: 157, Mismatches: 32, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
180 1 0.01
181 20 0.13
182 97 0.62
183 38 0.24
184 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (183 bp):
AAGTTGCAGTGGAACAGATTGAAAATATAAAGTACAGATCTTATCTCTCTAAAGTTGCAGTAAAG
CAAATCATATCAAACCTTATCCCTCCTGAAGTTACGCAGGAGCAGATTAAAGCAACCAACATTAT
CTCCCTAAAGCTGCAACGGAACAGACTGAAGATACTGAATCCTATCTCCCTGG
Found at i:18454757 original size:89 final size:89
Alignment explanation
Indices: 18454651--18454828 Score: 266
Period size: 89 Copynumber: 2.0 Consensus size: 89
18454641 CAAATCATAT
* *
18454651 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAGATCTTATCCCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAAATCTCATCCCCCTGAAG
* **
18454716 TTGTAGTGGGGTAGATTGAAGCTA
66 TTGAAGTGGAATAGATTGAAGCTA
* * * **
18454740 CAAGTCTTATCTCCCTGAGGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTCATTTCCCTGAAG
1 CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAAATCTCATCCCCCTGAAG
18454805 TTGAAGTGGAATAGATTGAAGCTA
66 TTGAAGTGGAATAGATTGAAGCTA
18454829 TAAATTACAA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (89 bp):
CAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAAATCTCATCCCCCTGAAG
TTGAAGTGGAATAGATTGAAGCTA
Found at i:18454792 original size:129 final size:128
Alignment explanation
Indices: 18454530--18454766 Score: 287
Period size: 130 Copynumber: 1.8 Consensus size: 128
18454520 CGTAAGTCTT
* **
18454530 ATCTCCCTGAAGTTTCAGTGGAGCAGACTGAAGATAGCAGATTTATTTCCCTGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAGATTTATCCCCCTGAAGTTGCAGTGG
* * * * **
18454595 AATAGATTAAAATTACAGATATTATCTCTCTGAAGTTACAGTAGAGCAAATCATATCAAGTCTT
66 AATAGATTAAAACTACAGATATTATCTCCCTGAAGTTACAGTAGAGCAAATAAGAT-AAGTCAA
*
18454659 ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAGATCTTATCCCCCTGAAGTTGTAGTG
1 ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAGAT-TTATCCCCCTGAAGTTGCAGTG
** * * * * *
18454724 GGGTAGATTGAAGCTACA-AGTCTTATCTCCCTGAGGTTGCAGT
65 GAATAGATTAAAACTACAGA-TATTATCTCCCTGAAGTTACAGT
18454767 GGAGTAGACT
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
129 42 0.45
130 51 0.55
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (128 bp):
ATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCAGATTTATCCCCCTGAAGTTGCAGTGG
AATAGATTAAAACTACAGATATTATCTCCCTGAAGTTACAGTAGAGCAAATAAGATAAGTCAA
Found at i:18454825 original size:45 final size:45
Alignment explanation
Indices: 18454482--18455000 Score: 266
Period size: 44 Copynumber: 11.7 Consensus size: 45
18454472 CCATAACAAC
* * * * * * *
18454482 TCTTATCTCCCTGAAATTGCAGTGGAGGAGACT-AAAATCGTAAG
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGATAGCAAA
** * *
18454526 TCTTATCTCCCTGAAGTTTCAGTGGAGCAGACTGAAGATAGCAGA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGATAGCAAA
* * * * * *
18454571 T-TTATTTCCCTGAAGTTGCAGTGGAATAGA-TTAAAATTA-CAGA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGA-TAGCAAA
* * * * * *
18454614 TATTATCTCTCTGAAGTT-ACAGT--AG-AG-C-AAATCATATCAAG
1 TCTTATCTCCCTGAAGTTGA-AGTGGAGTAGACTGAA-GATAGCAAA
* *
18454655 TCTTATCTCCCTGAAGTT-ACAGTGGAGCAGACTGAAGATAGCAGA
1 TCTTATCTCCCTGAAGTTGA-AGTGGAGTAGACTGAAGATAGCAAA
* * * * * *
18454700 TCTTATCCCCCTGAAGTTGTAGTGGGGTAGATTGAAGCTA-CAAG
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGATAGCAAA
* *
18454744 TCTTATCTCCCTGAGGTTGCAGTGGAGTAGACTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGATAGCAAA
* * * * *
18454789 TCTCATTTCCCTGAAGTTGAAGTGGAATAGATTGAAGCTATAAATTACAAA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAG--AT--A--GCAAA
* * * **
18454840 TCTTATCTCTCTGAAGTTGCAGT--AG-AG-CAGATCATAGCAAA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGATAGCAAA
* * * * * *
18454881 CCCTATCTCTCTGAAGTT-ACAGTGGAGTCGATTAAAGCA-A-CAAA
1 TCTTATCTCCCTGAAGTTGA-AGTGGAGTAGACTGAAG-ATAGCAAA
* * * * **
18454925 CCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGGTAGTGAA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGATAGCAAA
* * * *
18454970 TCTTATCTCCCCGAAGCTGCAGTGGGGTAGA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGA
18455001 AAGAGACTAC
Statistics
Matches: 364, Mismatches: 82, Indels: 57
0.72 0.16 0.11
Matches are distributed among these distances:
40 4 0.01
41 49 0.13
42 1 0.00
43 14 0.04
44 149 0.41
45 113 0.31
46 3 0.01
47 4 0.01
48 2 0.01
49 2 0.01
51 23 0.06
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGATAGCAAA
Found at i:18455593 original size:10 final size:9
Alignment explanation
Indices: 18455576--18455600 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18455566 GGTAGCTTCC
18455576 TATTTTTTT
1 TATTTTTTT
18455585 TATTTTTTT
1 TATTTTTTT
18455594 TATTTTT
1 TATTTTT
18455601 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TATTTTTTT
Found at i:18455642 original size:16 final size:16
Alignment explanation
Indices: 18455621--18455653 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18455611 GATTTCTTTT
18455621 AAAGAAAGAATA-AAAA
1 AAAGAAA-AATATAAAA
18455637 AAAGAAAAATATAAAA
1 AAAGAAAAATATAAAA
18455653 A
1 A
18455654 GGAAGAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAGAAAAATATAAAA
Found at i:18455652 original size:15 final size:16
Alignment explanation
Indices: 18455621--18455653 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
18455611 GATTTCTTTT
18455621 AAAGAAAGAATAAAAA
1 AAAGAAAGAATAAAAA
*
18455637 AAAGAAA-AATATAAA
1 AAAGAAAGAATAAAAA
18455652 AA
1 AA
18455654 GGAAGAAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAGAAAGAATAAAAA
Found at i:18456817 original size:15 final size:15
Alignment explanation
Indices: 18456783--18456817 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18456773 ATTGCTATTA
18456783 TTATTATTATTCATT
1 TTATTATTATTCATT
* *
18456798 GTATTATTATTGATT
1 TTATTATTATTCATT
18456813 TTATT
1 TTATT
18456818 TTTCTTTGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATTATTATTCATT
Found at i:18460234 original size:45 final size:45
Alignment explanation
Indices: 18460184--18460571 Score: 322
Period size: 45 Copynumber: 8.5 Consensus size: 45
18460174 GTAAAGTCAC
* *
18460184 AAATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAATATAGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGA
* * *
18460229 AAATCTTATCTCCTTGAAGTTGTAGTGGGGCAGATTGAAGATA-A
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGA
* * * *
18460273 CAAATCTTATCTCCCTGAAGTTACAGTGGAACAAATTGAAGATAGC
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGA
* * * * *
18460319 AAATCTTATTTCCCTGAAGTTGCAATGGAACATATT-AACGCTACAAGTTA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-G--A-TAG--A
* * *
18460369 CAAATCTTATCTCCCTGAAGTTGTAGTGTAGCAGATT-AA-A-A-C
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGA
* *
18460411 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGA
* * * *
18460456 AAATCTTATTTCCCTGAATTTGCAGTGGAACAGATTGAAGCTACAAGTTA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG--A
* * * * *
18460506 CAAATATTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGAT-GC
1 -AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGA
* * *
18460551 CAATCTTATTTCTCTGAAGTT
1 AAATCTTATCTCCCTGAAGTT
18460572 ATAGTGGAAC
Statistics
Matches: 277, Mismatches: 47, Indels: 39
0.76 0.13 0.11
Matches are distributed among these distances:
41 33 0.12
42 2 0.01
43 1 0.00
44 21 0.08
45 146 0.53
47 4 0.01
48 4 0.01
49 1 0.00
51 65 0.23
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (45 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGA
Found at i:18460407 original size:51 final size:48
Alignment explanation
Indices: 18460173--18460633 Score: 274
Period size: 45 Copynumber: 9.9 Consensus size: 48
18460163 GTAACAAATC
* *
18460173 AGTAAAGTCACAAATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGA
1 AGTAAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-A
* * * *
18460222 A-TATAG--A-AAATCTTATCTCCTTGAAGTTGTAGTGGGGCAGATT-
1 AGTAAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* * * *
18460265 -G--AAGATAACAAATCTTATCTCCCTGAAGTTACAGTGGAACAAATT-
1 AGTAAAG-TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* * * * *
18460310 -G--AAGATAGCAAATCTTATTTCCCTGAAGTTGCAATGGAACATATTA
1 AGTAAAGTTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* *
18460356 ACGCTACAAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGTAGCAGA-T-
1 A-G-TA-AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
*
18460405 --TAAA---ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-
1 AGTAAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* * * *
18460447 -G--AAGATAGCAAATCTTATTTCCCTGAATTTGCAGTGGAACAGATTGA
1 AGTAAAGTTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-A
* *
18460494 AGCTACAAGTTACAAATATTATCTCCCTGAAGTTGTAGTGGAGC--A--A
1 AG-TA-AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* * * * * * ** * *
18460540 ATTAAAGATGCCAATCTTATTTCTCTGAAGTTATAGTGGAACATATTAA
1 AGTAAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-A
* ** *
18460589 AGCTACAAGTTACAAATTTTATCTCATTGAAGTTACAGTGGAGCA
1 AG-TA-AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
18460634 AATTGAAGCG
Statistics
Matches: 322, Mismatches: 57, Indels: 64
0.73 0.13 0.14
Matches are distributed among these distances:
41 37 0.11
42 1 0.00
44 35 0.11
45 136 0.42
46 4 0.01
48 6 0.02
49 4 0.01
50 3 0.01
51 86 0.27
52 10 0.03
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (48 bp):
AGTAAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
Found at i:18460437 original size:137 final size:137
Alignment explanation
Indices: 18460183--18460582 Score: 490
Period size: 137 Copynumber: 2.9 Consensus size: 137
18460173 AGTAAAGTCA
** * * *
18460183 CAAATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAA--TA-TAG--A-AAATCTTATCTCC
1 CAAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTACAAGTTACAAATCTTATCTCC
* *
18460242 TTGAAGTTGTAGTGGGGCAGATTGAAGATAACAAATCTTATCTCCCTGAAGTTACAGTGGAACAA
66 CTGAAGTTGTAGTGGAGCAGATT--A-A-AACAAATCTTATCTCCCTGAAGTTACAGTGGAACAA
18460307 ATTGAAGATAG
127 ATTGAAGATAG
*
18460318 CAAATCTTATTTCCCTGAAGTTGCAATGGAACATATT-AACGCTACAAGTTACAAATCTTATCTC
1 CAAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTGAA-GCTACAAGTTACAAATCTTATCTC
* * ** *
18460382 CCTGAAGTTGTAGTGTAGCAGATTAAAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
65 CCTGAAGTTGTAGTGGAGCAGATTAAAACAAATCTTATCTCCCTGAAGTTACAGTGGAACAAATT
18460447 GAAGATAG
130 GAAGATAG
* * *
18460455 CAAATCTTATTTCCCTGAATTTGCAGTGGAACAGATTGAAGCTACAAGTTACAAATATTATCTCC
1 CAAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTACAAGTTACAAATCTTATCTCC
* * * * *
18460520 CTGAAGTTGTAGTGGAGCAAATTAAAGATGCCAATCTTATTTCTCTGAAGTTATAGTGGAACA
66 CTGAAGTTGTAGTGGAGCAGATTAAA-A--CAAATCTTATCTCCCTGAAGTTACAGTGGAACA
18460583 TATTAAAGCT
Statistics
Matches: 228, Mismatches: 26, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
134 2 0.01
135 32 0.14
137 127 0.56
138 6 0.03
139 1 0.00
140 27 0.12
141 33 0.14
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (137 bp):
CAAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTGAAGCTACAAGTTACAAATCTTATCTCC
CTGAAGTTGTAGTGGAGCAGATTAAAACAAATCTTATCTCCCTGAAGTTACAGTGGAACAAATTG
AAGATAG
Found at i:18460597 original size:95 final size:96
Alignment explanation
Indices: 18460409--18460637 Score: 307
Period size: 95 Copynumber: 2.4 Consensus size: 96
18460399 GCAGATTAAA
* * * *
18460409 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAATCTTATTTCCCTGAA
1 ACAAATATTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGATAGCAAATCTTATTTCCCTGAA
* * *
18460474 TTTGCAGTGGAACAGATTGAAGCTACAAGTT
66 GTTACAGTGGAACAGATTAAAGCTACAAGTT
* * *
18460505 ACAAATATTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAGAT-GCCAATCTTATTTCTCTGAA
1 ACAAATATTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGATAGCAAATCTTATTTCCCTGAA
* *
18460569 GTTATAGTGGAACATATTAAAGCTACAAGTT
66 GTTACAGTGGAACAGATTAAAGCTACAAGTT
* ** *
18460600 ACAAATTTTATCTCATTGAAGTTACAGTGGAGCAAATT
1 ACAAATATTATCTCCCTGAAGTTGCAGTGGAGCAAATT
18460638 GAAGCGACAA
Statistics
Matches: 116, Mismatches: 17, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
95 77 0.66
96 39 0.34
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (96 bp):
ACAAATATTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGATAGCAAATCTTATTTCCCTGAA
GTTACAGTGGAACAGATTAAAGCTACAAGTT
Found at i:18460663 original size:95 final size:95
Alignment explanation
Indices: 18460479--18460673 Score: 248
Period size: 95 Copynumber: 2.1 Consensus size: 95
18460469 CTGAATTTGC
* * **
18460479 AGTGGAACAGATTGAAGCTACAAGTTACAAATATTATCTCCCTGAAGTTGTAGTGGAGCAAATTA
1 AGTGGAACAGATTAAAGCTACAAGTTACAAATATTATCTCACTGAAGTTACAGTGGAGCAAATTA
* * * ** *
18460544 AAGATGCCAATCTTATTTCTCTGAAGTTAT
66 AAGACGACAATCCTATACCCCTGAAGTTAT
* * * *
18460574 AGTGGAACATATTAAAGCTACAAGTTACAAATTTTATCTCATTGAAGTTACAGTGGAGCAAATTG
1 AGTGGAACAGATTAAAGCTACAAGTTACAAATATTATCTCACTGAAGTTACAGTGGAGCAAATTA
18460639 AAG-CGACAATTCCTATACCCCTGAAGTTAT
66 AAGACGACAA-TCCTATACCCCTGAAGTTAT
18460669 AGTGG
1 AGTGG
18460674 GTTAGAACGA
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
94 4 0.05
95 81 0.95
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (95 bp):
AGTGGAACAGATTAAAGCTACAAGTTACAAATATTATCTCACTGAAGTTACAGTGGAGCAAATTA
AAGACGACAATCCTATACCCCTGAAGTTAT
Found at i:18460864 original size:21 final size:21
Alignment explanation
Indices: 18460838--18460878 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18460828 CCCAAATAAG
18460838 AAACCAAAAA-AATAAATAAAT
1 AAACCAAAAATAAT-AATAAAT
18460859 AAACCAAAAATAATAATAAA
1 AAACCAAAAATAATAATAAA
18460879 GTCCAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.15
Consensus pattern (21 bp):
AAACCAAAAATAATAATAAAT
Found at i:18462678 original size:73 final size:72
Alignment explanation
Indices: 18462507--18462858 Score: 484
Period size: 73 Copynumber: 4.9 Consensus size: 72
18462497 ATTTCATCCT
* *
18462507 TTTATATTTG-T-T-TTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACCTAAACTT
1 TTTATATTTGTTATATTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTT
*
18462569 AATATGA
66 AATATTA
*
18462576 TTTATATTTG-T-T-TTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACCTAAATTT
1 TTTATATTTGTTATATTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTT
18462638 AATATTA
66 AATATTA
*
18462645 TTTATATTTGTTATATCTATTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATT
1 TTTATATTTGTTATAT-TATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATT
18462710 TAATATTA
65 TAATATTA
* * * * *
18462718 TTCATATTTGTTTTATTGATTTATTTACTTATTTATTATTCTTTTACTTCTTAAATACTTAAATT
1 TTTATATTTGTTATATT-ATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATT
18462783 TAATATTA
65 TAATATTA
** *
18462791 AGTATATGTT-TTATCTATCTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAA
1 TTTATAT-TTGTTA--TAT-TATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAA
18462855 ATTT
62 ATTT
18462859 GATAATACTT
Statistics
Matches: 258, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
69 77 0.30
70 1 0.00
71 1 0.00
72 2 0.01
73 127 0.49
74 2 0.01
75 47 0.18
76 1 0.00
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (72 bp):
TTTATATTTGTTATATTATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTT
AATATTA
Found at i:18462690 original size:23 final size:23
Alignment explanation
Indices: 18462642--18462690 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
18462632 AAATTTAATA
*
18462642 TTATTTATATTTGTTATATCTAT
1 TTATTTATATTTATTATATCTAT
18462665 TTATTTATTTATTTATTAT-TCT-T
1 TTATTTA--TATTTATTATATCTAT
18462688 TTA
1 TTA
18462691 CTTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 11 0.48
24 3 0.13
25 9 0.39
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
TTATTTATATTTATTATATCTAT
Found at i:18462713 original size:142 final size:145
Alignment explanation
Indices: 18462520--18462858 Score: 508
Period size: 142 Copynumber: 2.3 Consensus size: 145
18462510 ATATTTGTTT
* * *
18462520 TATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACCTAAACTTAATATGATTTATATTT
1 TATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATGATTCATATTT
* **
18462585 GTTTTATCT-ATTTA-T-TTATTTATTATTCTTTTACTTTTTAAATACCTAAATTTAATATTATT
66 GTTTTAT-TGATTTATTATTATTTATTATTCTTTTACTTCTTAAATACCTAAATTTAATATTAAG
18462647 TATAT-TTGTTA-TATC
130 TATATGTT-TTACTATC
* *
18462662 TATTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTCATATTT
1 TATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATGATTCATATTT
*
18462727 GTTTTATTGATTTATTTACTTATTTATTATTCTTTTACTTCTTAAATACTTAAATTTAATATTAA
66 GTTTTATTGATTTA-TTA-TTATTTATTATTCTTTTACTTCTTAAATACCTAAATTTAATATTAA
18462792 GTATATGTTTTATCTATC
129 GTATATGTTTTA-CTATC
*
18462810 TATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTT
1 TATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTT
18462859 GATAATACTT
Statistics
Matches: 178, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
141 1 0.01
142 72 0.40
144 1 0.01
146 51 0.29
147 2 0.01
148 51 0.29
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (145 bp):
TATCTATTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATGATTCATATTT
GTTTTATTGATTTATTATTATTTATTATTCTTTTACTTCTTAAATACCTAAATTTAATATTAAGT
ATATGTTTTACTATC
Found at i:18462983 original size:17 final size:18
Alignment explanation
Indices: 18462961--18462994 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18462951 TAAAAATCTT
*
18462961 ATTATTGTTAT-ATTTAC
1 ATTATTATTATGATTTAC
18462978 ATTATTATTATGATTTA
1 ATTATTATTATGATTTA
18462995 TACCTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (18 bp):
ATTATTATTATGATTTAC
Found at i:18463071 original size:4 final size:4
Alignment explanation
Indices: 18463062--18463095 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
18463052 TTATATTTGT
18463062 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
18463096 ACCCTTTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:18469008 original size:13 final size:13
Alignment explanation
Indices: 18468990--18469014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18468980 AGATGAACTA
18468990 AACTAAACTAATG
1 AACTAAACTAATG
18469003 AACTAAACTAAT
1 AACTAAACTAAT
18469015 CTTAAATGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.04, T:0.24
Consensus pattern (13 bp):
AACTAAACTAATG
Found at i:18470325 original size:5 final size:5
Alignment explanation
Indices: 18470317--18470341 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18470307 TGGCCGAATC
18470317 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
18470342 AATCAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:18471057 original size:44 final size:44
Alignment explanation
Indices: 18471009--18471128 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 44
18470999 TTGACTTCAA
* * *
18471009 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTCT-TCGG
1 TCTGCTCCACTGCAACATCAGGGAGATAAGACTTG-TTCTCTCAG
* * * *
18471053 TCTGCCCCACTGTAACTTCAGAGG-GATAAGACTTGTTTTCTCAG
1 TCTGCTCCACTGCAACATCAG-GGAGATAAGACTTGTTCTCTCAG
*
18471097 TCTGCTCCGCTGCAACATCAGGGAGATAAGAC
1 TCTGCTCCACTGCAACATCAGGGAGATAAGAC
18471129 CTAATGCGAT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
43 5 0.08
44 56 0.89
45 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACATCAGGGAGATAAGACTTGTTCTCTCAG
Found at i:18471343 original size:44 final size:44
Alignment explanation
Indices: 18471295--18471628 Score: 190
Period size: 44 Copynumber: 7.1 Consensus size: 44
18471285 CTACTTCAAA
18471295 GAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAACTTCAGG
1 GAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAACTTCAGG
* * ** * * * *
18471339 GAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTTAGG
1 GAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAACTTCAGG
* * * *
18471383 GAGATAAGAT--TTCTAGCTTCAATCGGATGCTATCTACTCTACTGTAACTTCAGA
1 GAGATAAGATCATT-T-GTTTTAATC-----C--GCT-C-C-ACTGTAACTTCAGG
* *
18471437 GAAATAAGATCCTTTGTTTTAATCCGCTCCACTGTAACTTCAGG
1 GAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAACTTCAGG
* * ** * * *
18471481 GAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGG
1 GAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAACTTCAGG
** * **
18471525 GAGATAAGAT--TTCTGGCTTCAATCGGATGCAATCTACTCTACTGTAACTTCAAA
1 GAGATAAGATCATT-T-G-TT---T----T--AATCCGCTCCACTGTAACTTCAGG
18471579 GAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAACTTCAGG
1 GAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAACTTCAGG
18471623 GAGATA
1 GAGATA
18471629 GGATTATCAG
Statistics
Matches: 219, Mismatches: 43, Indels: 56
0.69 0.14 0.18
Matches are distributed among these distances:
42 2 0.01
44 137 0.63
45 2 0.01
46 2 0.01
47 2 0.01
48 1 0.00
49 1 0.00
50 1 0.00
51 2 0.01
52 1 0.00
53 3 0.01
54 59 0.27
55 2 0.01
56 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
GAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAACTTCAGG
Found at i:18471472 original size:142 final size:141
Alignment explanation
Indices: 18471132--18471650 Score: 716
Period size: 142 Copynumber: 3.7 Consensus size: 141
18471122 ATAAGACCTA
* ** * **
18471132 ATGCGATCCACTCTACTACAACTTCAGAGAGATAAGATC-TATTACTTTAATCCGCTCCACTGTA
1 ATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCAT-TTGTTTTAATCCGCTCCACTGTA
* * * * * ** *
18471196 ACTTTAGGGAGATAGGA-TAGT-GTCTTCGATCTACTTCGTTGTAA-TCTCAGGGAGATAAGATC
65 ACTTCAGGGAGATAGGATTA-TCGGCTTCAATCTGCTCCACTGTAACT-TCAGGGAGATAAGATT
*
18471258 TCTGTCTTCAATCGA
128 TCTG-CTTCAATCGG
18471273 ATGCGATCTA-T-T-C--T-ACTTCAAAGAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAA
*
18471332 CTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTCT
66 CTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTCT
18471397 AGCTTCAATCGG
131 -GCTTCAATCGG
* * * *
18471409 ATGCTATCTACTCTACTGTAACTTCAGAGAAATAAGATCCTTTGTTTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAA
18471474 CTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTCT
66 CTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTCT
18471539 GGCTTCAATCGG
131 -GCTTCAATCGG
*
18471551 ATGCAATCTACTCTACTGTAACTTCAAAGAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAA
*
18471616 CTTCAGGGAGATAGGATTATCAGCTTCAATCTGCT
66 CTTCAGGGAGATAGGATTATCGGCTTCAATCTGCT
18471651 TCCTTACACT
Statistics
Matches: 341, Mismatches: 26, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
135 56 0.16
136 55 0.16
137 3 0.01
138 2 0.01
139 2 0.01
140 1 0.00
141 10 0.03
142 212 0.62
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (141 bp):
ATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAA
CTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTCT
GCTTCAATCGG
Found at i:18471569 original size:98 final size:98
Alignment explanation
Indices: 18471467--18471646 Score: 245
Period size: 98 Copynumber: 1.8 Consensus size: 98
18471457 AATCCGCTCC
** * * *
18471467 ACTGTAACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAA
1 ACTGTAACTTCAAAGAGATAAGATCATCGGCTTCAATCCGCTCCACTGTAACTTCAGGGAGATAA
*
18471532 GATT-TCTGGCTTCAATCGGATGCAATCTACTCT
66 GATTATC-AGCTTCAATCGGATGCAATCTACTCT
** * * *
18471565 ACTGTAACTTCAAAGAGATAAGATCATTTGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAG
1 ACTGTAACTTCAAAGAGATAAGATCATCGGCTTCAATCCGCTCCACTGTAACTTCAGGGAGATAA
18471630 GATTATCAGCTTCAATC
66 GATTATCAGCTTCAATC
18471647 TGCTTCCTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
98 68 0.97
99 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (98 bp):
ACTGTAACTTCAAAGAGATAAGATCATCGGCTTCAATCCGCTCCACTGTAACTTCAGGGAGATAA
GATTATCAGCTTCAATCGGATGCAATCTACTCT
Found at i:18471826 original size:43 final size:43
Alignment explanation
Indices: 18471766--18472040 Score: 338
Period size: 43 Copynumber: 6.4 Consensus size: 43
18471756 AGGACTTGTG
* * * *
18471766 GCTTAAATTTGTTTCCCTACTCCT-GGGAAAATAAGATTCGCC
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
* * *
18471808 GTCTTCGATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCGCC
1 G-CTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
* *
18471852 GCTTAGATCTATTTCCCTACTCCTGGGGAAGATAAGATTCG-T
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
* * *
18471894 GCTTAGATCTGTTTCTCTACTCCTAGGGAAGATAAGATTCGTA
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
* *
18471937 GCTTGGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGTA
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
* * * * *
18471980 GCTTGGATTTGTTTCCCTACTCTTGCGGAAGATAAGATTCGTA
1 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
* *
18472023 TCTTGGATCTGTTTCCCT
1 GCTTAGATCTGTTTCCCT
18472041 GGTGAACACG
Statistics
Matches: 209, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
42 39 0.19
43 152 0.73
44 18 0.09
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (43 bp):
GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCA
Found at i:18471925 original size:85 final size:85
Alignment explanation
Indices: 18471777--18472040 Score: 325
Period size: 85 Copynumber: 3.1 Consensus size: 85
18471767 CTTAAATTTG
* * * * *
18471777 TTTCCCTACTCCT-GGGAAAATAAGATTCGCCGTCTTCGATCTGCTTCCCTACTCCTGGGGAAGA
1 TTTCCCTACTCCTGGGGAAGATAAGATTCG-TG-CTTAGATCTGTTTCCCTACTCCTAGGGAAGA
*
18471841 TAAGATTCGCCGCTTAGATCTA
64 TAAGATTCGCAGCTTAGATCTA
*
18471863 TTTCCCTACTCCTGGGGAAGATAAGATTCGTGCTTAGATCTGTTTCTCTACTCCTAGGGAAGATA
1 TTTCCCTACTCCTGGGGAAGATAAGATTCGTGCTTAGATCTGTTTCCCTACTCCTAGGGAAGATA
* * *
18471928 AGATTCGTAGCTTGGATCTG
66 AGATTCGCAGCTTAGATCTA
* * *
18471948 TTTCCCTACTCCTGGGGAAGATAAGATTCGTAGCTTGGATTTGTTTCCCTACT-CTTGCGGAAGA
1 TTTCCCTACTCCTGGGGAAGATAAGATTCGT-GCTTAGATCTGTTTCCCTACTCCTAG-GGAAGA
* * * *
18472012 TAAGATTCGTATCTTGGATCTG
64 TAAGATTCGCAGCTTAGATCTA
18472034 TTTCCCT
1 TTTCCCT
18472041 GGTGAACACG
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
85 79 0.49
86 66 0.41
87 15 0.09
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (85 bp):
TTTCCCTACTCCTGGGGAAGATAAGATTCGTGCTTAGATCTGTTTCCCTACTCCTAGGGAAGATA
AGATTCGCAGCTTAGATCTA
Found at i:18471960 original size:128 final size:129
Alignment explanation
Indices: 18471766--18472040 Score: 374
Period size: 128 Copynumber: 2.1 Consensus size: 129
18471756 AGGACTTGTG
* * *
18471766 GCTTAAATTTGTTTCCCTACTCCTGGGAAAATAAGATTCGCCGTCTTCGATCTGCTTCCCTACTC
1 GCTTAGATCTGTTTCCCTACTCCTGGGAAAATAAGATTCGCAGTCTTCGATCTGCTTCCCTACTC
* *
18471831 CTGGGGAAGATAAGATTCGCCGCTTAGATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGT-
66 CTGGGGAAGATAAGATTCGCAGCTTAGATCTATTTCCCTACTCCTGCGGAAGATAAGATTCGTA
* * * * *
18471894 GCTTAGATCTGTTTCTCTACTCCTAGGGAAGATAAGATTCGTAG-CTTGGATCTGTTTCCCTACT
1 GCTTAGATCTGTTTCCCTACTCCT-GGGAAAATAAGATTCGCAGTCTTCGATCTGCTTCCCTACT
* * * * *
18471958 CCTGGGGAAGATAAGATTCGTAGCTTGGATTTGTTTCCCTACTCTTGCGGAAGATAAGATTCGTA
65 CCTGGGGAAGATAAGATTCGCAGCTTAGATCTATTTCCCTACTCCTGCGGAAGATAAGATTCGTA
* *
18472023 TCTTGGATCTGTTTCCCT
1 GCTTAGATCTGTTTCCCT
18472041 GGTGAACACG
Statistics
Matches: 127, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
128 96 0.76
129 31 0.24
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (129 bp):
GCTTAGATCTGTTTCCCTACTCCTGGGAAAATAAGATTCGCAGTCTTCGATCTGCTTCCCTACTC
CTGGGGAAGATAAGATTCGCAGCTTAGATCTATTTCCCTACTCCTGCGGAAGATAAGATTCGTA
Found at i:18474140 original size:5 final size:6
Alignment explanation
Indices: 18474123--18474148 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18474113 CTTTGGCCTC
18474123 TCTTTT TCTTTT TCTTTT TCTTTT TC
1 TCTTTT TCTTTT TCTTTT TCTTTT TC
18474149 ATTCTGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TCTTTT
Found at i:18474268 original size:21 final size:21
Alignment explanation
Indices: 18474221--18474289 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
18474211 TTGATCTTGA
* *
18474221 TTTTGATTTTTTCTTCTTTCTTCT
1 TTTTG-TTTTTT-TTATTT-TTAT
18474245 TTTTGTTTTTTTTATTTTTAT
1 TTTTGTTTTTTTTATTTTTAT
* *
18474266 TTTT-TATTTTTTCATTTTCAT
1 TTTTGT-TTTTTTTATTTTTAT
18474287 TTT
1 TTT
18474290 GACTTTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 23 0.57
22 5 0.12
23 6 0.15
24 5 0.12
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTGTTTTTTTTATTTTTAT
Found at i:18474270 original size:13 final size:13
Alignment explanation
Indices: 18474252--18474276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18474242 TCTTTTTGTT
18474252 TTTTTTATTTTTA
1 TTTTTTATTTTTA
18474265 TTTTTTATTTTT
1 TTTTTTATTTTT
18474277 TCATTTTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:18479588 original size:5 final size:5
Alignment explanation
Indices: 18479580--18479604 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18479570 TGGCCGAATC
18479580 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
18479605 AAATCAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:18481287 original size:31 final size:31
Alignment explanation
Indices: 18481251--18481319 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
18481241 TCATGTATAC
* *
18481251 AATTGAATCAAAATTAAATTTTTATATACAT
1 AATTGAATCAAAATCAAACTTTTATATACAT
* * *
18481282 AATTGATTCAAAATCAAACTTTTATGTATAT
1 AATTGAATCAAAATCAAACTTTTATATACAT
18481313 AATTGAA
1 AATTGAA
18481320 CCAAGCCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (31 bp):
AATTGAATCAAAATCAAACTTTTATATACAT
Found at i:18488365 original size:4 final size:4
Alignment explanation
Indices: 18488358--18488384 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18488348 CATATATATA
18488358 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
18488385 ACACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:18488981 original size:14 final size:15
Alignment explanation
Indices: 18488962--18488991 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18488952 TAATATTTGT
18488962 TGTATATAT-GTATA
1 TGTATATATGGTATA
18488976 TGTATATATGGTATA
1 TGTATATATGGTATA
18488991 T
1 T
18488992 AACTATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (15 bp):
TGTATATATGGTATA
Found at i:18489276 original size:10 final size:10
Alignment explanation
Indices: 18489263--18489296 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18489253 TGGTTCCATT
18489263 AAAAAATTCA
1 AAAAAATTCA
* *
18489273 AAAAAACTAA
1 AAAAAATTCA
18489283 AAAAAATTCA
1 AAAAAATTCA
18489293 AAAA
1 AAAA
18489297 CCCCTTTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATTCA
Found at i:18490945 original size:16 final size:16
Alignment explanation
Indices: 18490924--18490955 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18490914 TTTTTTCCGG
18490924 ACCCGGCCCGACCCGA
1 ACCCGGCCCGACCCGA
18490940 ACCCGGCCCGACCCGA
1 ACCCGGCCCGACCCGA
18490956 CCCATGGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.56, G:0.25, T:0.00
Consensus pattern (16 bp):
ACCCGGCCCGACCCGA
Found at i:18491374 original size:24 final size:24
Alignment explanation
Indices: 18491339--18491384 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
18491329 TCCCCTTAGC
*
18491339 AAAT-AAACCCAATTTTATAAATAA
1 AAATAAAACCAAATTTTA-AAATAA
18491363 AAATAAAACCAAATTTTAAAAT
1 AAATAAAACCAAATTTTAAAAT
18491385 GTCCACAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAAACCAAATTTTAAAATAA
Found at i:18498253 original size:16 final size:17
Alignment explanation
Indices: 18498234--18498266 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18498224 AAAATGGAAA
*
18498234 ATGAAAATG-AAAAATG
1 ATGAAAAAGTAAAAATG
18498250 ATGAAAAAGTAAAAATG
1 ATGAAAAAGTAAAAATG
18498267 GAGAGGCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (17 bp):
ATGAAAAAGTAAAAATG
Found at i:18499693 original size:128 final size:128
Alignment explanation
Indices: 18499460--18500203 Score: 1184
Period size: 128 Copynumber: 5.8 Consensus size: 128
18499450 ATCAGTGAAT
* *
18499460 ATTGTAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGACGAATCTTATCTTCAAG
*
18499525 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTAGAATAGGTTGGAA
66 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
* *
18499588 ATTACAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGGCGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGACGAATCTTATCTTCAAG
*
18499653 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGTAGTGGAATAGGTTGGAA
66 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
* *
18499716 ATTGCAGATCTTGTCCCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGACGAATCTTATCTTCAAG
* * * * *
18499781 TGTAAAGAAGAAGATTTAAGCCACAAGTCCAATGACCCTGACCAGTAGTGGAATAGGTTGGAA
66 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
* * * **
18499844 ATTACAGATTTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGTGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGACGAATCTTATCTTCAAG
* * *
18499909 TGTAAGGAAGCAGATTTAAGCCACAGGTACTATGTCCCTGACCAGCAATGGAATAGGTTGGAA
66 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
* *
18499972 ATTGCAGATCTTGTCTCCTTAAGAAGTAGCAGAGCAGATCGAAGACGACGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGACGAATCTTATCTTCAAG
* *
18500037 TGTAAGGATGCAAATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
66 TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
* * *
18500100 ATTGCAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCGAAGATGACGAATCTTATCTTCAAG
1 ATTGCAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGACGAATCTTATCTTCAAG
* * * *
18500165 TGTAAGGAAGCAAATTGAAGCCGATAA-TCCTATCTCCCT
66 TGTAAGGAAGCAGATTTAAGCC-ACAAGTCCTATGTCCCT
18500204 AAAGTTGTAG
Statistics
Matches: 569, Mismatches: 46, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
128 566 0.99
129 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (128 bp):
ATTGCAGATCTTGTCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGACGAATCTTATCTTCAAG
TGTAAGGAAGCAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAA
Found at i:18500322 original size:44 final size:44
Alignment explanation
Indices: 18500270--18500551 Score: 199
Period size: 44 Copynumber: 6.5 Consensus size: 44
18500260 GGATCGCGTC
*
18500270 AGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGTAAGT
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAGT
* * ** * *
18500314 AGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCAAAG-ATGGC
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAGTA-AGT
** * * *
18500359 AAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTGA-T
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG-AG-TAAGT
* * * * *
18500404 A-ATCCTATCTCCCTGAAGTTGTAGTGGAGC-G---GATTAAAT
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAGT
* * * * ** * *
18500443 AGATCTTATCTCTCTGAAGTTACAGTAGAGTGGA-TCGCGT---C
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAGTAAGT
*
18500484 AGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGTAAGT
1 AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAGT
*
18500528 AGGTCTTATCCCCCTGAAGTTGCA
1 AGGTCTTATCTCCCTGAAGTTGCA
18500552 ATAGGGCAGA
Statistics
Matches: 181, Mismatches: 42, Indels: 30
0.72 0.17 0.12
Matches are distributed among these distances:
38 2 0.01
39 3 0.02
40 24 0.13
41 31 0.17
42 1 0.01
43 1 0.01
44 83 0.46
45 36 0.20
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (44 bp):
AGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAGT
Found at i:18500547 original size:214 final size:213
Alignment explanation
Indices: 18500173--18500605 Score: 758
Period size: 214 Copynumber: 2.0 Consensus size: 213
18500163 AGTGTAAGGA
*
18500173 AGCAAATTGAAGCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAATAGATCTTAT
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAATAGATCTTAT
18500238 CTCTCTGAAGTTACAGTAGAGTGGATCGCGTCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAG
66 CTCTCTGAAGTTACAGTAGAGTGGATCGCGTCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAG
* * *
18500303 ACTGAGTAAGTAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGATCAAAGATGGCAAATCTTAT
131 ACTGAGTAAGTAGGTCTTATCCCCCTGAAGTTGCAATAGGGCAGATCAAAGATGACAAATCTTA-
* *
18500368 CTCCCTGAAGTTACAGTGG
195 CCCCCTGAAGTCACAGTGG
* *
18500387 AGCAGATTGAAGCTGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAATAGATCTTAT
1 AGCAGATTGAAGCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAATAGATCTTAT
18500452 CTCTCTGAAGTTACAGTAGAGTGGATCGCGTCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAG
66 CTCTCTGAAGTTACAGTAGAGTGGATCGCGTCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAG
* *
18500517 ACTGAGTAAGTAGGTCTTATCCCCCTGAAGTTGCAATAGGGCAGATCGAAGATGACAATTCTTAC
131 ACTGAGTAAGTAGGTCTTATCCCCCTGAAGTTGCAATAGGGCAGATCAAAGATGACAAATCTTAC
18500582 CCCCTGAAGTCACAGTGG
196 CCCCTGAAGTCACAGTGG
*
18500600 GGCAGA
1 AGCAGA
18500606 CTGAGGAAGC
Statistics
Matches: 208, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
213 22 0.11
214 186 0.89
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (213 bp):
AGCAGATTGAAGCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAATAGATCTTAT
CTCTCTGAAGTTACAGTAGAGTGGATCGCGTCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAG
ACTGAGTAAGTAGGTCTTATCCCCCTGAAGTTGCAATAGGGCAGATCAAAGATGACAAATCTTAC
CCCCTGAAGTCACAGTGG
Found at i:18501466 original size:16 final size:18
Alignment explanation
Indices: 18501441--18501477 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
18501431 TAGCAAATAG
*
18501441 AAAAAGAAAA-AG-AGAA
1 AAAAACAAAATAGCAGAA
18501457 AAAAACAAAATAGCAGAA
1 AAAAACAAAATAGCAGAA
18501475 AAA
1 AAA
18501478 GAAAAGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.78, C:0.05, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAAACAAAATAGCAGAA
Found at i:18501485 original size:29 final size:31
Alignment explanation
Indices: 18501439--18501503 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 31
18501429 AGTAGCAAAT
18501439 AGAAAAAGAAAAAGAGAAAAAAACA-AAATAGC
1 AGAAAAAG-AAAAGAG-AAAAAACAGAAATAGC
*
18501471 AGAAAAAG-AAA-AGAAATAACAGAAATAGC
1 AGAAAAAGAAAAGAGAAAAAACAGAAATAGC
18501500 AGAA
1 AGAA
18501504 GAGATTTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 7 0.23
29 13 0.42
30 3 0.10
32 8 0.26
ACGTcount: A:0.72, C:0.06, G:0.17, T:0.05
Consensus pattern (31 bp):
AGAAAAAGAAAAGAGAAAAAACAGAAATAGC
Found at i:18501493 original size:20 final size:19
Alignment explanation
Indices: 18501441--18501495 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
18501431 TAGCAAATAG
*
18501441 AAAAAGAAA-AAGAGAAAA
1 AAAAAGAAATAACAGAAAA
* *
18501459 AAACA-AAATAGCAGAAAA
1 AAAAAGAAATAACAGAAAA
18501477 AGAAAAGAAATAACAGAAA
1 A-AAAAGAAATAACAGAAA
18501496 TAGCAGAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 3 0.10
18 12 0.41
19 3 0.10
20 11 0.38
ACGTcount: A:0.76, C:0.05, G:0.15, T:0.04
Consensus pattern (19 bp):
AAAAAGAAATAACAGAAAA
Found at i:18504796 original size:17 final size:18
Alignment explanation
Indices: 18504774--18504815 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
18504764 CAAGAATTAC
18504774 TTATCGATGT-TCAAGAT
1 TTATCGATGTATCAAGAT
*
18504791 TTATCGAATTTATCAAGAT
1 TTATCG-ATGTATCAAGAT
18504810 TT-TCGA
1 TTATCGA
18504816 GAAAGCTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 6 0.27
19 9 0.41
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (18 bp):
TTATCGATGTATCAAGAT
Found at i:18506490 original size:3 final size:3
Alignment explanation
Indices: 18506482--18506518 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
18506472 CCTCATCTCA
18506482 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18506519 GATGCCTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18507430 original size:6 final size:6
Alignment explanation
Indices: 18507419--18507452 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
18507409 CAGTGGAGGC
18507419 AATACT AATACT AATACT AATACT AATACT AATA
1 AATACT AATACT AATACT AATACT AATACT AATA
18507453 ATGGTACTAC
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:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (6 bp):
AATACT
Found at i:18510151 original size:2 final size:2
Alignment explanation
Indices: 18510107--18510137 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18510097 TATAAATACG
18510107 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18510138 CCTATTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18512296 original size:8 final size:8
Alignment explanation
Indices: 18512283--18512308 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18512273 TCATCTCTTC
18512283 TTACAATT
1 TTACAATT
18512291 TTACAATT
1 TTACAATT
18512299 TTACAATT
1 TTACAATT
18512307 TT
1 TT
18512309 TTTATTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.54
Consensus pattern (8 bp):
TTACAATT
Found at i:18512342 original size:20 final size:20
Alignment explanation
Indices: 18512324--18512360 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
18512314 TGTGCTTTAA
18512324 ATTTTATA-TT-TTAATTTT
1 ATTTTATAGTTATTAATTTT
18512342 ATTTTATAGTTATTAATTT
1 ATTTTATAGTTATTAATTT
18512361 CTTTATCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTTATAGTTATTAATTTT
Found at i:18515163 original size:44 final size:43
Alignment explanation
Indices: 18515103--18515229 Score: 143
Period size: 44 Copynumber: 2.9 Consensus size: 43
18515093 AGGATTCTGT
18515103 TATGTG-TTATCGTGTAAGACCACGTCTGGGACATTGGCATCGA
1 TATGTGATTA-CGTGTAAGACCACGTCTGGGACATTGGCATCGA
* * *
18515146 CT-TGTGACTTACGTGTAAAACC-CTGTCTAGGACAGTGGCATCGA
1 -TATGTGA-TTACGTGTAAGACCAC-GTCTGGGACATTGGCATCGA
* * *
18515190 TATGTGATTACATATAAGACCACGTCTGGGACGTTGGCAT
1 TATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCAT
18515230 TGTACGAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
43 31 0.45
44 35 0.51
45 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
TATGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCGA
Found at i:18524417 original size:20 final size:19
Alignment explanation
Indices: 18524386--18524430 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
18524376 ATATATTTTT
18524386 AAAA-ATTTTAAATTATTA
1 AAAATATTTTAAATTATTA
*
18524404 AAAATATTTATAAATTTTTA
1 AAAATATTT-TAAATTATTA
*
18524424 CAAATAT
1 AAAATAT
18524431 AATGATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATATTTTAAATTATTA
Found at i:18531748 original size:31 final size:31
Alignment explanation
Indices: 18531712--18531772 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
18531702 TAATTTTACA
*
18531712 TAAAAATAAAAAAAATATATTTAGTGTATTT
1 TAAAAATAAAAAAAATATATGTAGTGTATTT
*
18531743 TAAAAATAAAAAATATATATGTAGTGTATT
1 TAAAAATAAAAAAAATATATGTAGTGTATT
18531773 CAGTTTATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (31 bp):
TAAAAATAAAAAAAATATATGTAGTGTATTT
Found at i:18532549 original size:21 final size:21
Alignment explanation
Indices: 18532525--18532577 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
18532515 CATTGTTTCT
* *
18532525 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
18532546 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
18532567 AATCTCACCGC
1 AATCTCACCGC
18532578 CACCACTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:18533061 original size:34 final size:35
Alignment explanation
Indices: 18533003--18533068 Score: 125
Period size: 34 Copynumber: 1.9 Consensus size: 35
18532993 GGTGTACCGT
18533003 TAAACTATTGAAAAGGGATACAACAAATGATGCTG
1 TAAACTATTGAAAAGGGATACAACAAATGATGCTG
18533038 TAAACTATTGAAAA-GGATACAACAAATGATG
1 TAAACTATTGAAAAGGGATACAACAAATGATG
18533069 TTGATTTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (35 bp):
TAAACTATTGAAAAGGGATACAACAAATGATGCTG
Found at i:18542832 original size:30 final size:30
Alignment explanation
Indices: 18542798--18542860 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
18542788 ACTTATTTTA
*
18542798 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGATATTATTTTAAAGGCAT
*
18542828 TTGTTAATTTTGATATTATTTTAGAGGCAT
1 TTGTTAATTTTGATATTATTTTAAAGGCAT
18542858 TTG
1 TTG
18542861 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGATATTATTTTAAAGGCAT
Found at i:18543159 original size:16 final size:15
Alignment explanation
Indices: 18543138--18543167 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18543128 TTTTAGTTTA
18543138 GCCTGGCCCGAACCCG
1 GCCTGGCCC-AACCCG
18543154 GCCTGGCCCAACCC
1 GCCTGGCCCAACCC
18543168 ATGAGCACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.53, G:0.27, T:0.07
Consensus pattern (15 bp):
GCCTGGCCCAACCCG
Found at i:18552289 original size:9 final size:9
Alignment explanation
Indices: 18552275--18552302 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
18552265 TATAGTTTGA
18552275 TATTCGAAT
1 TATTCGAAT
18552284 TATTCGAAT
1 TATTCGAAT
18552293 TATTCGAAT
1 TATTCGAAT
18552302 T
1 T
18552303 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:18553750 original size:16 final size:16
Alignment explanation
Indices: 18553729--18553781 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
18553719 TTGATTCGCT
*
18553729 GTAATGGAATAGAGGA
1 GTAATGGAATAGAGGC
*
18553745 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
*
18553761 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
18553777 GTAAT
1 GTAAT
18553782 AGGTAATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.42, C:0.04, G:0.32, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:18553844 original size:44 final size:46
Alignment explanation
Indices: 18553767--18553855 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 46
18553757 ATGCGTAATA
* * *
18553767 GAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGGAATG
1 GAATACAGACGTAATAGGTAATTCTTGTGTTTGGTTGAATGGAATG
18553813 GAATACAGACGTAATA-GT-ATTCTTGTGTTTGGTTGAATGGAAT
1 GAATACAGACGTAATAGGTAATTCTTGTGTTTGGTTGAATGGAAT
18553856 AGAGGTGTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 24 0.60
45 2 0.05
46 14 0.35
ACGTcount: A:0.29, C:0.06, G:0.28, T:0.37
Consensus pattern (46 bp):
GAATACAGACGTAATAGGTAATTCTTGTGTTTGGTTGAATGGAATG
Found at i:18553866 original size:39 final size:43
Alignment explanation
Indices: 18553767--18553868 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 43
18553757 ATGCGTAATA
*
18553767 GAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGGAATG
1 GAATAGAGGCGTAATA-GTAATTCTTGTGTTTGGTT--ATGGAATG
* *
18553813 GAATACAGACGTAATAGT-ATTCTTGTGTTTGG-T-T-GAATG
1 GAATAGAGGCGTAATAGTAATTCTTGTGTTTGGTTATGGAATG
*
18553852 GAATAGAGGTGTAATAG
1 GAATAGAGGCGTAATAG
18553869 CATAAAGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 19 0.38
40 1 0.02
43 1 0.02
44 13 0.26
45 2 0.04
46 14 0.28
ACGTcount: A:0.30, C:0.05, G:0.29, T:0.35
Consensus pattern (43 bp):
GAATAGAGGCGTAATAGTAATTCTTGTGTTTGGTTATGGAATG
Found at i:18553966 original size:21 final size:22
Alignment explanation
Indices: 18553926--18553983 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
18553916 TTTTATTTAC
*
18553926 TAAAATTATAATATATAATACT
1 TAAAATTATAATATAAAATACT
* *
18553948 TAAAA-TATAATTTAAAATAAT
1 TAAAATTATAATATAAAATACT
**
18553969 TATTATTA-AATATAA
1 TAAAATTATAATATAA
18553984 TTTAATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 22 0.76
22 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAAATTATAATATAAAATACT
Found at i:18555474 original size:31 final size:31
Alignment explanation
Indices: 18555431--18555545 Score: 203
Period size: 31 Copynumber: 3.7 Consensus size: 31
18555421 AACGGAAAAG
18555431 CTTTAGAATAGGCAACTTGTTTGCTAAAATCA
1 CTTT-GAATAGGCAACTTGTTTGCTAAAATCA
18555463 CTTTGAATAGGCAACTTGTTTGCTAAAATCA
1 CTTTGAATAGGCAACTTGTTTGCTAAAATCA
*
18555494 CTTTGAATAGGTAACTTGTTTGCTAAAATCA
1 CTTTGAATAGGCAACTTGTTTGCTAAAATCA
*
18555525 CTTTGAATAGGCAACATGTTT
1 CTTTGAATAGGCAACTTGTTT
18555546 CAACCCTAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
31 76 0.95
32 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (31 bp):
CTTTGAATAGGCAACTTGTTTGCTAAAATCA
Found at i:18557559 original size:24 final size:26
Alignment explanation
Indices: 18557514--18557564 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
18557504 CAAACTTTAT
* * *
18557514 TTAATAATAAGTTTTGATATAATAAA
1 TTAATAATAAGTTTTAAAATAAAAAA
18557540 TTAA-AATAA-TTTTAAAATAAAAAA
1 TTAATAATAAGTTTTAAAATAAAAAA
18557564 T
1 T
18557565 AAAGTTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 13 0.59
25 5 0.23
26 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (26 bp):
TTAATAATAAGTTTTAAAATAAAAAA
Found at i:18557711 original size:20 final size:19
Alignment explanation
Indices: 18557668--18557718 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
18557658 TCAACTTTTA
18557668 AATCAAGTTAAAATGATTTC
1 AATCAAGTTAAAAT-ATTTC
18557688 AATCAAGTTAAAAT-TTTCC
1 AATCAAGTTAAAATATTT-C
18557707 TAATC-AGTTAAA
1 -AATCAAGTTAAA
18557719 CTGTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.10
19 8 0.28
20 18 0.62
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (19 bp):
AATCAAGTTAAAATATTTC
Found at i:18559036 original size:25 final size:25
Alignment explanation
Indices: 18559002--18559051 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
18558992 AAAAAAAAAA
18559002 GTATATGGATAAAATGCAATTTTAT
1 GTATATGGATAAAATGCAATTTTAT
*
18559027 GTATATGGATAACATGCAATTTTAT
1 GTATATGGATAAAATGCAATTTTAT
18559052 TGTCTCTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (25 bp):
GTATATGGATAAAATGCAATTTTAT
Found at i:18568075 original size:20 final size:20
Alignment explanation
Indices: 18568046--18568083 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18568036 ACATATAGCT
*
18568046 ATATCTTAAAAGTAAAATGC
1 ATATCCTAAAAGTAAAATGC
*
18568066 ATATCCTAAAATTAAAAT
1 ATATCCTAAAAGTAAAAT
18568084 ATTATTGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (20 bp):
ATATCCTAAAAGTAAAATGC
Found at i:18569535 original size:22 final size:22
Alignment explanation
Indices: 18569509--18569552 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18569499 TAAATTATTA
18569509 ATATTATTAGTTA-TATTAAAAT
1 ATATTATTA-TTATTATTAAAAT
*
18569531 ATATTATTATTATTATTCAAAT
1 ATATTATTATTATTATTAAAAT
18569553 CATGATGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATTATTATTATTATTAAAAT
Found at i:18570836 original size:13 final size:13
Alignment explanation
Indices: 18570818--18570859 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
18570808 GAAAAGTGAG
*
18570818 AAGTGTTTTTAAA
1 AAGTGTTATTAAA
*
18570831 AAGTGTTATGAAA
1 AAGTGTTATTAAA
18570844 AAGTGCTTATTAAA
1 AAGTG-TTATTAAA
18570858 AA
1 AA
18570860 AATAAATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (13 bp):
AAGTGTTATTAAA
Found at i:18571070 original size:166 final size:167
Alignment explanation
Indices: 18570877--18571210 Score: 661
Period size: 166 Copynumber: 2.0 Consensus size: 167
18570867 TTGAAAGGTT
18570877 TGATTTAAGATATAAGTGTTTAGTATTGTTGTGAAAAAGAACTTTTAAAAATATAAAACGTCTAT
1 TGATTTAAGATATAAGTGTTTAGTATTGTTGTGAAAAAGAACTTTTAAAAATATAAAACGTCTAT
18570942 TTTAGACCTAATGATGTTAAGGAAGAAAAGATATATTTAAATGATATTAAAATTCGTTAATGTTA
66 TTTAGACCTAATGATGTTAAGGAAGAAAAGATATATTTAAATGATATTAAAATTCGTTAATGTTA
18571007 TTATATACGAAATACATCAAATTAGA-TAAAATAAAA
131 TTATATACGAAATACATCAAATTAGATTAAAATAAAA
18571043 TGATTTAAGATATAAGTGTTTAGTATTGTTGTGAAAAAGAACTTTTAAAAATATAAAACGTCTAT
1 TGATTTAAGATATAAGTGTTTAGTATTGTTGTGAAAAAGAACTTTTAAAAATATAAAACGTCTAT
18571108 TTTAGACCTAATGATGTTAAGGAAGAAAAGATATATTTAAATGATATTAAAATTCGTTAATGTTA
66 TTTAGACCTAATGATGTTAAGGAAGAAAAGATATATTTAAATGATATTAAAATTCGTTAATGTTA
18571173 TTATATACGAAATACATCAAATTAGATTAAAATAAAA
131 TTATATACGAAATACATCAAATTAGATTAAAATAAAA
18571210 T
1 T
18571211 ATAAAAAATT
Statistics
Matches: 167, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
166 156 0.93
167 11 0.07
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (167 bp):
TGATTTAAGATATAAGTGTTTAGTATTGTTGTGAAAAAGAACTTTTAAAAATATAAAACGTCTAT
TTTAGACCTAATGATGTTAAGGAAGAAAAGATATATTTAAATGATATTAAAATTCGTTAATGTTA
TTATATACGAAATACATCAAATTAGATTAAAATAAAA
Found at i:18575067 original size:50 final size:49
Alignment explanation
Indices: 18574992--18575199 Score: 185
Period size: 50 Copynumber: 4.3 Consensus size: 49
18574982 GTGAAGTTGC
** * *
18574992 TAGGTCATGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAAAATGA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGA
* ** *
18575042 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCATACCGAATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT-G-A
* * ** *
18575093 TCGATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCG---GA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGA
* *
18575139 T--GAC-CATTGTATAGTACTATGTGCAGGCTACTACGTGTACCGGAATGA
1 TAGGTCACA-TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGA
*
18575187 TAGGTCGCATGTG
1 TAGGTCACATGTG
18575200 AAGAGAGGTC
Statistics
Matches: 123, Mismatches: 25, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
44 33 0.27
45 1 0.01
46 1 0.01
47 1 0.01
48 3 0.02
49 3 0.02
50 43 0.35
51 38 0.31
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGA
Found at i:18579920 original size:57 final size:59
Alignment explanation
Indices: 18579856--18579979 Score: 164
Period size: 57 Copynumber: 2.2 Consensus size: 59
18579846 GACTTCTATT
* * *
18579856 CAAAGAAAATG-AAAGAAGGGAAAATAGTTTAAAGAACTGCTACAAAAGTTG-AAGAAC
1 CAAAGAAAAGGAAAAGAAGGGAAAATAGTTCAAAGAACTACTACAAAAGTTGAAAGAAC
** *
18579913 CAAAG-AAAGGAAAAGTTGGGAAAGTAGTTCAAAGAACTACTACAAAAGTTGAAAGAAC
1 CAAAGAAAAGGAAAAGAAGGGAAAATAGTTCAAAGAACTACTACAAAAGTTGAAAGAAC
*
18579971 CAGAGAAAA
1 CAAAGAAAA
18579980 AGTTGTTTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 4 0.07
57 40 0.70
58 10 0.18
59 3 0.05
ACGTcount: A:0.54, C:0.10, G:0.22, T:0.15
Consensus pattern (59 bp):
CAAAGAAAAGGAAAAGAAGGGAAAATAGTTCAAAGAACTACTACAAAAGTTGAAAGAAC
Found at i:18580827 original size:18 final size:19
Alignment explanation
Indices: 18580788--18580828 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
18580778 TAACAATAAT
*
18580788 TTTTACAATTGTTAGCAAA
1 TTTTACAATTGTTACCAAA
18580807 TTTTACAA-TGTT-CCAATA
1 TTTTACAATTGTTACCAA-A
18580825 TTTT
1 TTTT
18580829 TTTTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 9 0.45
19 8 0.40
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (19 bp):
TTTTACAATTGTTACCAAA
Found at i:18580829 original size:19 final size:21
Alignment explanation
Indices: 18580773--18580829 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 21
18580763 AATTATTATA
*
18580773 AATT-TTAACAATAATTTTTAC
1 AATTGTTACCAAT-ATTTTTAC
*
18580794 AATTGTTAGCAA-A-TTTTAC
1 AATTGTTACCAATATTTTTAC
18580813 AA-TGTT-CCAATATTTTT
1 AATTGTTACCAATATTTTT
18580830 TTTATAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 3 0.10
18 5 0.16
19 12 0.39
20 1 0.03
21 4 0.13
22 6 0.19
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (21 bp):
AATTGTTACCAATATTTTTAC
Found at i:18580954 original size:10 final size:10
Alignment explanation
Indices: 18580941--18580970 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
18580931 TTTTCATAAA
18580941 TTTTAATATT
1 TTTTAATATT
18580951 TTTTAAATATT
1 TTTT-AATATT
18580962 TTTTAATAT
1 TTTTAATAT
18580971 ATGTTGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTAATATT
Found at i:18584605 original size:20 final size:22
Alignment explanation
Indices: 18584561--18584609 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
18584551 TACCTCTAGT
* *
18584561 GAAGTACAAGTACTTCTTAGGA
1 GAAGTACAACTACATCTTAGGA
18584583 GAAGTACAACTACAT-TT-GGA
1 GAAGTACAACTACATCTTAGGA
18584603 GAAGTAC
1 GAAGTAC
18584610 TAATACAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.40
21 2 0.08
22 13 0.52
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (22 bp):
GAAGTACAACTACATCTTAGGA
Found at i:18584902 original size:23 final size:22
Alignment explanation
Indices: 18584828--18584902 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 22
18584818 CCAAACATAA
*
18584828 CAATCATAAAACATGCTTACAAA-A
1 CAATCATAAAACAT-C-T-CAAACT
*
18584852 CGATCAT-AAACATC-CAAAGCT
1 CAATCATAAAACATCTCAAA-CT
*
18584873 CATTCATAAAACATACTCAAACT
1 CAATCATAAAACAT-CTCAAACT
18584896 CAATCAT
1 CAATCAT
18584903 CATCCATCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
19 4 0.10
21 5 0.12
22 7 0.17
23 15 0.37
24 10 0.24
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.23
Consensus pattern (22 bp):
CAATCATAAAACATCTCAAACT
Found at i:18589259 original size:23 final size:23
Alignment explanation
Indices: 18589229--18589281 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
18589219 GTCACATAGT
18589229 TAAATTAATTTCCATATCTAGGA
1 TAAATTAATTTCCATATCTAGGA
18589252 TAAATTAATTTCCATATCTAGGA
1 TAAATTAATTTCCATATCTAGGA
*
18589275 TGAATTA
1 TAAATTA
18589282 TAACACACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
TAAATTAATTTCCATATCTAGGA
Found at i:18594894 original size:26 final size:26
Alignment explanation
Indices: 18594864--18594920 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
18594854 CCCCAACAAC
*
18594864 ATTTTAACGATTTTACCCTTAGTAAA
1 ATTTTAACGATTTTACCCCTAGTAAA
* *
18594890 GTTTTAACGATTTTGCCCCTAGTAAA
1 ATTTTAACGATTTTACCCCTAGTAAA
18594916 ATTTT
1 ATTTT
18594921 GAGAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.44
Consensus pattern (26 bp):
ATTTTAACGATTTTACCCCTAGTAAA
Found at i:18596700 original size:2 final size:2
Alignment explanation
Indices: 18596695--18596723 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18596685 ATCTGTATTC
18596695 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
18596724 GTTTGGAGTG
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:18596941 original size:13 final size:14
Alignment explanation
Indices: 18596919--18596957 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
18596909 TGGAGGTAGG
*
18596919 ATTCTCTATATCT-
1 ATTCTGTATATCTA
18596932 ATTCTGTATATCTA
1 ATTCTGTATATCTA
18596946 ATTCTGT-TATCT
1 ATTCTGTATATCT
18596958 GTATATGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 17 0.71
14 7 0.29
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.54
Consensus pattern (14 bp):
ATTCTGTATATCTA
Found at i:18601823 original size:24 final size:23
Alignment explanation
Indices: 18601792--18601838 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
18601782 TATTCACACA
18601792 TATTCTTA-CTTAATTTCAAATGT
1 TATTCTTACCTTAATTT-AAATGT
*
18601815 TATTACTTACCTTACTTTAAATGT
1 TATT-CTTACCTTAATTTAAATGT
18601839 CCCATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 10 0.48
25 7 0.33
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTCTTACCTTAATTTAAATGT
Found at i:18602456 original size:3 final size:3
Alignment explanation
Indices: 18602448--18602497 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
18602438 TTTCTTTCCA
* *
18602448 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAA AATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
18602494 AAT A
1 AAT A
18602498 TACTATTACT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:18605386 original size:25 final size:25
Alignment explanation
Indices: 18605352--18605413 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
18605342 ACAGATGTAC
*
18605352 TAATCGGAGAGCACTAACAAGCTAA
1 TAATCAGAGAGCACTAACAAGCTAA
* ***
18605377 TAATCAGAGAGCACTGATGTGCTAA
1 TAATCAGAGAGCACTAACAAGCTAA
18605402 TAATCAGAGAGC
1 TAATCAGAGAGC
18605414 GCGCTAAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACAAGCTAA
Found at i:18608796 original size:47 final size:47
Alignment explanation
Indices: 18608745--18608838 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
18608735 TAAAAGACGG
18608745 TAATATAATGGTGTGAGTGTAGCCGTGTAGGCCACACGGGCTAGGGC
1 TAATATAATGGTGTGAGTGTAGCCGTGTAGGCCACACGGGCTAGGGC
18608792 TAATATAATGGTGTGAGTGTAGCCGTGTAGGCCACACGGGCTAGGGC
1 TAATATAATGGTGTGAGTGTAGCCGTGTAGGCCACACGGGCTAGGGC
18608839 AAGTTGGGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.23
Consensus pattern (47 bp):
TAATATAATGGTGTGAGTGTAGCCGTGTAGGCCACACGGGCTAGGGC
Found at i:18609998 original size:42 final size:42
Alignment explanation
Indices: 18609897--18609998 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
18609887 TATGGGTACC
* * *
18609897 CTGACATGGACGCGATTTCCTGACGTATACCCTGACTTCGCG
1 CTGACGTGGAAGCGATTTCCTGACGTATACCCTGACATCGCG
* * *
18609939 CTGACGTGGATGGGATTTCCTGACGTGTACCCTGACATCGCG
1 CTGACGTGGAAGCGATTTCCTGACGTATACCCTGACATCGCG
18609981 CTGACGTGGAAGCGATTT
1 CTGACGTGGAAGCGATTT
18609999 TGCCGTTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (42 bp):
CTGACGTGGAAGCGATTTCCTGACGTATACCCTGACATCGCG
Found at i:18610428 original size:126 final size:126
Alignment explanation
Indices: 18610204--18610583 Score: 554
Period size: 126 Copynumber: 3.0 Consensus size: 126
18610194 TTAGGGTTTT
*** **
18610204 TAGGTC-CGGGAAGAAATAATT-TTGAGTTGACGTTTCTGCTCAAATAGTATAAAATCGCTTCTA
1 TAGGTCAC-GGAAGAAATAATTATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA
* *
18610267 GCAAGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
65 GTAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
18610329 TAGGTCACGGAAGAAATAATTATTTTTTTGACGTTTCTGAGCAAATAGAATAAAATCGCTGCTAG
1 TAGGTCACGGAAGAAATAATTATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAG
* * *
18610394 TAGGGTGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTCGTGGACGCGCTTTTGCTACAA
66 TAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * *
18610455 TAGGTCATGTAAGAAAT-A--ATTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAG
1 TAGGTCACGGAAGAAATAATTATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAG
18610517 TAGCAAGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 TAG---GATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
18610581 TAG
1 TAG
18610584 CATGTTTGGG
Statistics
Matches: 230, Mismatches: 20, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
123 44 0.19
125 20 0.09
126 166 0.72
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (126 bp):
TAGGTCACGGAAGAAATAATTATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAG
TAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:18615133 original size:18 final size:18
Alignment explanation
Indices: 18615110--18615144 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18615100 NGGAAAAGGA
*
18615110 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
18615128 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
18615145 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:18617018 original size:22 final size:21
Alignment explanation
Indices: 18616990--18617065 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 21
18616980 AAATATGGAT
18616990 TTGAGAGAATTTTGAATGGAAA
1 TTGAGAGAATTTTGAA-GGAAA
*
18617012 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTT-GAAGGAAA
*
18617034 TTGAGAGGAA-ATTGAGAGGAAA
1 TTGAGA-GAATTTTGA-AGGAAA
18617056 TATGAGAGAA
1 T-TGAGAGAA
18617066 GATTTGTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 2 0.04
22 34 0.72
23 11 0.23
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAGGAAA
Found at i:18617063 original size:12 final size:11
Alignment explanation
Indices: 18617030--18617063 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
18617020 ATTTTGGAAA
18617030 GAAATTGAGAG
1 GAAATTGAGAG
18617041 GAAATTGAGAG
1 GAAATTGAGAG
18617052 GAAATATGAGAG
1 GAAAT-TGAGAG
18617064 AAGATTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.35, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:18619139 original size:5 final size:6
Alignment explanation
Indices: 18619113--18619138 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18619103 CTTAAAATTA
18619113 TTTAAT TTTAAT TTTAAT TTTAAT TT
1 TTTAAT TTTAAT TTTAAT TTTAAT TT
18619139 AAGTACAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTAAT
Found at i:18620210 original size:15 final size:15
Alignment explanation
Indices: 18620190--18620246 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
18620180 ATTCAATATT
18620190 AATATTTTAATAATA
1 AATATTTTAATAATA
*
18620205 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
18620224 AATATATTAATAATA
1 AATATTTTAATAATA
*
18620239 AATGTTTT
1 AATATTTT
18620247 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:18621155 original size:16 final size:16
Alignment explanation
Indices: 18621134--18621184 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
18621124 GGTTGGGAGG
*
18621134 AATGGAATAGGGCTAT
1 AATGGAATAGAGCTAT
* *
18621150 AATGGAATACAGTTAT
1 AATGGAATAGAGCTAT
18621166 AATGGAATAGAGCTAT
1 AATGGAATAGAGCTAT
18621182 AAT
1 AAT
18621185 CAATAATTCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.43, C:0.06, G:0.24, T:0.27
Consensus pattern (16 bp):
AATGGAATAGAGCTAT
Found at i:18622737 original size:24 final size:26
Alignment explanation
Indices: 18622688--18622736 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
18622678 ATTAGAGCTT
*
18622688 TCTAGAGATTTTATCTCTTTCTTTTC
1 TCTAGAGATTTTATCTATTTCTTTTC
18622714 TCTAGAG-TTTTATCTATTTCTTT
1 TCTAGAGATTTTATCTATTTCTTT
18622737 CTTTTTCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.59
Consensus pattern (26 bp):
TCTAGAGATTTTATCTATTTCTTTTC
Found at i:18624678 original size:15 final size:17
Alignment explanation
Indices: 18624643--18624679 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
18624633 TTTATTAATA
*
18624643 TATTTTGCTTATATTTT
1 TATTTTGCTTATATTTG
18624660 TATTTTG-TT-TATTTG
1 TATTTTGCTTATATTTG
18624675 TATTT
1 TATTT
18624680 ATTTCTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 10 0.53
16 2 0.11
17 7 0.37
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.73
Consensus pattern (17 bp):
TATTTTGCTTATATTTG
Done.