Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 276 of 320
Found at i:89059329 original size:21 final size:21
Alignment explanation
Indices: 89059269--89059329 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
89059259 CAGCTCTTTT
* * *
89059269 GAGCTTCAGTTTAA-CCTTAG
1 GAGCTTCCGTTCAACCCTTAC
* * *
89059289 GAGTTTCCGTTCAGCTCTTAC
1 GAGCTTCCGTTCAACCCTTAC
89059310 GAGCTTCCGTTCAACCCTTA
1 GAGCTTCCGTTCAACCCTTA
89059330 TGGGTTTCCA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
20 10 0.32
21 21 0.68
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (21 bp):
GAGCTTCCGTTCAACCCTTAC
Found at i:89074705 original size:17 final size:16
Alignment explanation
Indices: 89074679--89074711 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
89074669 TTGTTATATT
89074679 ATATATATATGATTAG
1 ATATATATATGATTAG
89074695 ATATGATATATGATTAG
1 ATAT-ATATATGATTAG
89074712 GGTTAGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (16 bp):
ATATATATATGATTAG
Found at i:89074719 original size:6 final size:6
Alignment explanation
Indices: 89074708--89074732 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
89074698 TGATATATGA
89074708 TTAGGG TTAGGG TTAGGG TTAGGG T
1 TTAGGG TTAGGG TTAGGG TTAGGG T
89074733 GTAAATGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (6 bp):
TTAGGG
Found at i:89075663 original size:11 final size:11
Alignment explanation
Indices: 89075622--89075673 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
89075612 TATTGTCAAT
89075622 TTTTTA-AATA
1 TTTTTATAATA
*
89075632 ATTTTATAATTTTA
1 TTTTTATAA---TA
89075646 TTATTTATAATA
1 TT-TTTATAATA
89075658 TTTTTATAATA
1 TTTTTATAATA
89075669 TTTTT
1 TTTTT
89075674 TTCATAATCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 5 0.14
11 16 0.46
12 4 0.11
14 3 0.09
15 7 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTTATAATA
Found at i:89075718 original size:20 final size:20
Alignment explanation
Indices: 89075695--89075736 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
89075685 TAATAATTAA
89075695 TTACAAAATTTAAATAATTT
1 TTACAAAATTTAAATAATTT
** *
89075715 TTACAACTTTTTAATAATTT
1 TTACAAAATTTAAATAATTT
89075735 TT
1 TT
89075737 GTAATATCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
TTACAAAATTTAAATAATTT
Found at i:89076372 original size:4 final size:4
Alignment explanation
Indices: 89076363--89076438 Score: 61
Period size: 4 Copynumber: 19.0 Consensus size: 4
89076353 TAAGTAATAA
* *
89076363 AAAG AAAG AAAG AAAG AAAG ATAG AAACG AAACAG AACG -AAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G -AA-AG AAAG AAAG AAAG AAAG
*
89076413 -AA- AAAG AAA- AAGGG AAAG AAAG AAAG
1 AAAG AAAG AAAG AA-AG AAAG AAAG AAAG
89076439 GAGAAAGATA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
3 8 0.14
4 41 0.71
5 5 0.09
6 3 0.05
7 1 0.02
ACGTcount: A:0.70, C:0.04, G:0.25, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:89076410 original size:22 final size:21
Alignment explanation
Indices: 89076363--89076437 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 21
89076353 TAAGTAATAA
*
89076363 AAAGAAAG--AAAGAAAGAAAG
1 AAAGAAAGAAAAAGAACG-AAG
* *
89076383 ATAGAAACGAAACAGAACGAAG
1 AAAGAAA-GAAAAAGAACGAAG
*
89076405 AAAGAAAGAAAAAGAA-AAAGGG
1 AAAGAAAGAAAAAGAACGAA--G
89076427 AAAGAAAGAAA
1 AAAGAAAGAAA
89076438 GGAGAAAGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
20 8 0.18
21 9 0.20
22 21 0.48
23 6 0.14
ACGTcount: A:0.71, C:0.04, G:0.24, T:0.01
Consensus pattern (21 bp):
AAAGAAAGAAAAAGAACGAAG
Found at i:89077347 original size:41 final size:40
Alignment explanation
Indices: 89077302--89077388 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
89077292 GATGAGACAT
* * * *
89077302 TGGGTGTCAATTTATTACTTTAGATTTATTCGATAAGGCAC
1 TGGGTGTCAATTTACTAC-TTAGAATTATCCAATAAGGCAC
* *
89077343 TGGGTGTCAATTTACTACTTCGAATTATCCAATGAGGCAC
1 TGGGTGTCAATTTACTACTTAGAATTATCCAATAAGGCAC
89077383 TGGGTG
1 TGGGTG
89077389 CCAAACTGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 23 0.57
41 17 0.43
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (40 bp):
TGGGTGTCAATTTACTACTTAGAATTATCCAATAAGGCAC
Found at i:89079649 original size:48 final size:48
Alignment explanation
Indices: 89079584--89079904 Score: 229
Period size: 48 Copynumber: 6.7 Consensus size: 48
89079574 TGATATGTGT
* * *
89079584 GCTAGTGTAAGATCATGTTTGGAACATAGCGTCAGCCACAATATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCACAATATGAGA
* * * * ***
89079632 G-TCAGTGTAAGACCATGTTTAGAACATGACATCGGCAATGTTATGAGA
1 GCT-AGTGTAAGACCATGTTTGGAACATGGCATCAGCCACAATATGAGA
* * * **** *
89079680 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTA-C
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCACAATATG-AGA
* * *
89079728 GCTAGTGTAAGACCATGTCTAGG-ACATGGCATCAGTCACATTATGAGA
1 GCTAGTGTAAGACCATGT-TTGGAACATGGCATCAGCCACAATATGAGA
* * * ** * *
89079776 GCTAGTGTAAGACCATGTCTGGCACATGGCATC-GGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCA-CAATATGAGA
* * * * * * *
89079824 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCACAATATGAGA
* *
89079872 GCCAGTGTAAGACCATGTCTAGG-ACATGGCATC
1 GCTAGTGTAAGACCATGT-TTGGAACATGGCATC
89079905 GGTAATTTAC
Statistics
Matches: 216, Mismatches: 48, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
47 7 0.03
48 202 0.94
49 7 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCACAATATGAGA
Found at i:89079724 original size:96 final size:96
Alignment explanation
Indices: 89079624--89079904 Score: 329
Period size: 96 Copynumber: 2.9 Consensus size: 96
89079614 GTCAGCCACA
* * *
89079624 ATATGAGAG-TCAGTGTAAGACCATGTTTAGAACATGACATCGGCAATGTTATGAGAGCCAGTGT
1 ATATGAGAGCT-AGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGTTATGAGAGCCAGTGT
*
89079688 AAGACCATGTCTGGGACATGGCATCAGCGTTG
65 AAGACCATGTCTGGGACATGGCATCAGCATTG
* * *
89079720 ATATGTA-CGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGTCACA--TTATGAGAGCTAGT
1 ATATG-AGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC-GGCA-ATGTTATGAGAGCCAGT
* *
89079782 GTAAGACCATGTCTGGCACATGGCATCGGCATTG
63 GTAAGACCATGTCTGGGACATGGCATCAGCATTG
* * * * ** *
89079816 AGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGACATGTGAGCCAGTGT
1 ATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCAAT-GTTATGAGAGCCAGTGT
*
89079880 AAGACCATGTCTAGGACATGGCATC
65 AAGACCATGTCTGGGACATGGCATC
89079905 GGTAATTTAC
Statistics
Matches: 156, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
95 3 0.02
96 147 0.94
97 5 0.03
98 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (96 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGTTATGAGAGCCAGTGTA
AGACCATGTCTGGGACATGGCATCAGCATTG
Found at i:89079834 original size:144 final size:143
Alignment explanation
Indices: 89079574--89079904 Score: 414
Period size: 144 Copynumber: 2.3 Consensus size: 143
89079564 GACATTTGGG
* * * * *
89079574 TGATATGTGTGCTAGTGTAAGATCATGT-TTGGAACATAGCGTCAGCCACAATATGAGAGTCAGT
1 TGATATGT-AGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCAGCCACAATATGAGAGTCAGT
* ** *
89079638 GTAAGACCATGTTTAGAACATGACATCGGCAATGTTATGAGAGCCAGTGTAAGACCATGTCTGGG
64 GTAAGACCATGTCTAGAACATGACATCGGCAATGAGACGAGAGCCAGTGTAAGACCATGTCTGGG
*
89079703 ACATGGCATCAGCGT
129 ACATGGCATCAGCCT
* *
89079718 TGATATGTACGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGTCACATTATGAGAG-CTAGT
1 TGATATGTA-GCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACAATATGAGAGTC-AGT
* * * * *
89079782 GTAAGACCATGTCTGGCACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTCTGGG
64 GTAAGACCATGTCTAGAACATGACATCGGCAATGAGACGAGAGCCAGTGTAAGACCATGTCTGGG
*
89079847 ACATGGCATCGGCCT
129 ACATGGCATCAGCCT
* * *
89079862 CGACATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 TGATATGT-AGCTAGTGTAAGACCATGTCTAGGACATGGCATC
89079905 GGTAATTTAC
Statistics
Matches: 162, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
143 1 0.01
144 157 0.97
145 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (143 bp):
TGATATGTAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACAATATGAGAGTCAGTGT
AAGACCATGTCTAGAACATGACATCGGCAATGAGACGAGAGCCAGTGTAAGACCATGTCTGGGAC
ATGGCATCAGCCT
Found at i:89079905 original size:48 final size:48
Alignment explanation
Indices: 89079624--89079906 Score: 297
Period size: 48 Copynumber: 5.9 Consensus size: 48
89079614 GTCAGCCACA
* * * *
89079624 ATATGAGAGTCAGTGTAAGACCATGTTTAGAACATGACATCGGCAAT-G
1 ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATCG
* * * * *
89079672 TTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTG
1 ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCG
* * *
89079720 ATATGTA-CGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGTCA-C-
1 ATATG-AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GGCATCG
* *
89079767 ATTATGAGAGCTAGTGTAAGACCATGTCT-GGCACATGGCATCGGCATTG
1 A-TATGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCATCG
* * * * *
89079816 AGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
1 ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCG
* *
89079864 ACATGTGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG
1 ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG
89079907 TAATTTACCC
Statistics
Matches: 198, Mismatches: 28, Indels: 18
0.81 0.11 0.07
Matches are distributed among these distances:
47 8 0.04
48 185 0.93
49 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCG
Found at i:89087385 original size:48 final size:48
Alignment explanation
Indices: 89087333--89087556 Score: 211
Period size: 48 Copynumber: 4.7 Consensus size: 48
89087323 TATGTTTGCT
* * *
89087333 AGTGTAAGACCATGAT-TGGAACATGACGTCGGCCACAATATGAGAGCC
1 AGTGTAAGACCATG-TCTGGAACATGGCATCGGCCACGATATGAGAGCC
* *** * * *
89087381 AGTGTAAGACCATGTTTGGAACATGGCATCGGCGTTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACGATATGAGAGCC
* * * * * *
89087429 AGTGTAAGACCATGTGTGGGACATGGCATCGG-CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCA-CGATATGAGAGCC
* * * *
89087477 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACGATATGAGAGCC
*
89087525 AGTGTAAGACCATGTTTAGG-ACATGGCATCGG
1 AGTGTAAGACCATGTCT-GGAACATGGCATCGG
89087557 TAATTTACCC
Statistics
Matches: 147, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.01
48 143 0.97
49 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACGATATGAGAGCC
Found at i:89087484 original size:96 final size:96
Alignment explanation
Indices: 89087374--89087556 Score: 276
Period size: 96 Copynumber: 1.9 Consensus size: 96
89087364 GCCACAATAT
* * * * * *
89087374 GAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCGTTGATATGTGCGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGAC
*
89087439 CATGTGTGGGACATGGCATCGGCATTGAGAC
66 CATGTGTAGGACATGGCATCGGCATTGAGAC
* *
89087470 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGAC
*
89087535 CATGTTTAGGACATGGCATCGG
66 CATGTGTAGGACATGGCATCGG
89087557 TAATTTACCC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (96 bp):
GAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGAC
CATGTGTAGGACATGGCATCGGCATTGAGAC
Found at i:89090443 original size:7 final size:7
Alignment explanation
Indices: 89090433--89090502 Score: 76
Period size: 7 Copynumber: 10.4 Consensus size: 7
89090423 ACTTTATGTT
89090433 TTATATA
1 TTATATA
89090440 TTATATA
1 TTATATA
89090447 -TA-ATA
1 TTATATA
*
89090452 TAATATA
1 TTATATA
*
89090459 ATA-ATA
1 TTATATA
89090465 TTATATA
1 TTATATA
89090472 TTATATA
1 TTATATA
89090479 TTATATA
1 TTATATA
89090486 TTA-ATA
1 TTATATA
*
89090492 CTTAAATA
1 -TTATATA
89090500 TTA
1 TTA
89090503 AGTTAATATA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
5 3 0.06
6 11 0.20
7 37 0.69
8 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (7 bp):
TTATATA
Found at i:89090470 original size:32 final size:31
Alignment explanation
Indices: 89090433--89090534 Score: 110
Period size: 32 Copynumber: 3.4 Consensus size: 31
89090423 ACTTTATGTT
89090433 TTATATATTATATATAATATAATATAATAATA
1 TTATATATTATATATAATATAATAT-ATAATA
89090465 TTATATATTATATAT--TAT-ATAT-TAATA
1 TTATATATTATATATAATATAATATATAATA
*
89090492 CTTAAATATTA-AGT-TAATATAATATATAATA
1 -TTATATATTATA-TATAATATAATATATAATA
*
89090523 TT-TATTTTATAT
1 TTATATATTATAT
89090535 CAAAAATATC
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
27 7 0.12
28 10 0.17
29 13 0.22
30 10 0.17
31 5 0.08
32 15 0.25
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
TTATATATTATATATAATATAATATATAATA
Found at i:89094748 original size:17 final size:17
Alignment explanation
Indices: 89094708--89094741 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
89094698 TATATTAAAA
* *
89094708 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
89094725 TTATAATTATTATGATT
1 TTATAATTATTATGATT
89094742 ATTTAATGAA
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:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:89095740 original size:39 final size:38
Alignment explanation
Indices: 89095633--89095767 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 38
89095623 GACCTCGAGT
* * *
89095633 CGATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGCTAG--C
** **
89095674 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTACGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTA-GC
* *
89095712 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGC
*
89095751 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
89095768 CCATATTGGT
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
38 19 0.25
39 35 0.46
40 4 0.05
41 15 0.20
42 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGC
Found at i:89095894 original size:18 final size:18
Alignment explanation
Indices: 89095871--89095910 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
89095861 AATGAGAAAA
89095871 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
89095889 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
89095907 AGAA
1 AGAA
89095911 GTAGAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:89096416 original size:20 final size:20
Alignment explanation
Indices: 89096393--89096430 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
89096383 GTTATTAAGT
89096393 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
89096413 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
89096431 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:89099175 original size:22 final size:21
Alignment explanation
Indices: 89099145--89099187 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
89099135 AATAGTCTAG
89099145 GTACCAAAATGAGACAAAAAAA
1 GTACCAAAATGAGA-AAAAAAA
*
89099167 GTACTAAAATGAGAAAAAAAA
1 GTACCAAAATGAGAAAAAAAA
89099188 TTAGTTGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.65, C:0.09, G:0.14, T:0.12
Consensus pattern (21 bp):
GTACCAAAATGAGAAAAAAAA
Found at i:89103627 original size:3 final size:3
Alignment explanation
Indices: 89103619--89103653 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
89103609 GTAGATCATT
89103619 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
89103654 GCAGATGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:89110965 original size:29 final size:29
Alignment explanation
Indices: 89110932--89111005 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
89110922 GAAAGTATTA
* *
89110932 ATATTTTTAAATATTTTTTACACTTTTCT
1 ATATTTTTAAATATTTTTAACAATTTTCT
*
89110961 ATATTTTTAAATATTTTTAATAATTTTCT
1 ATATTTTTAAATATTTTTAACAATTTTCT
* *
89110990 GTA-TTTTAAAAATTTT
1 ATATTTTTAAATATTTT
89111006 GTATATTGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 12 0.30
29 28 0.70
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (29 bp):
ATATTTTTAAATATTTTTAACAATTTTCT
Found at i:89111614 original size:17 final size:17
Alignment explanation
Indices: 89111588--89111620 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
89111578 AAAAATACTT
89111588 ATTTATATTT-ATATTA
1 ATTTATATTTAATATTA
89111604 ATTTAATATTTAATATT
1 ATTT-ATATTTAATATT
89111621 TAATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTATATTTAATATTA
Found at i:89112267 original size:22 final size:22
Alignment explanation
Indices: 89112231--89112272 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
89112221 AAAATGTTTA
89112231 TTTTATAGTAGTATAGAATTAAT
1 TTTTATAGTAGTATA-AATTAAT
*
89112254 TTTTAT-GTATTATAAATTA
1 TTTTATAGTAGTATAAATTA
89112273 CATTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (22 bp):
TTTTATAGTAGTATAAATTAAT
Found at i:89121892 original size:17 final size:17
Alignment explanation
Indices: 89121866--89121900 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
89121856 TTGCTTTCTC
89121866 AAAAGAAAAAAAAAAGA
1 AAAAGAAAAAAAAAAGA
* *
89121883 AAAAGGAAAAAAGAAGA
1 AAAAGAAAAAAAAAAGA
89121900 A
1 A
89121901 TCATCGATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAAAAGA
Found at i:89124437 original size:25 final size:25
Alignment explanation
Indices: 89124409--89124457 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
89124399 TACTTTTTAT
89124409 AATTA-TAAATATAATCAATTAATTA
1 AATTATTAAATATAATCAA-TAATTA
* *
89124434 AATTATTAAATTTAATTAATAATT
1 AATTATTAAATATAATCAATAATT
89124458 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTATTAAATATAATCAATAATTA
Found at i:89132880 original size:115 final size:115
Alignment explanation
Indices: 89132656--89132880 Score: 279
Period size: 115 Copynumber: 2.0 Consensus size: 115
89132646 AGAATCATGT
* * *
89132656 AATAAGATATAAGAATAAATTTAAAACGAATTGTATGTGTAAAAATAATATGAAATTATTAGTAT
1 AATAAGATATAAGAATAAATTTAAAACGAATTATATGTGTAAAAATAATATGAAATTAATAATAT
* ** * *** *
89132721 ACATGAAATAAAACTAACTTTGTTATAAAATATGTATATTTATGTGTATA
66 ACATAAAATAAAACTAACTTTAATACAAAATACACATATATATGTGTATA
* * * **
89132771 AATAATATATAAGAATAAATTTAAAAGGAATTATATGTGTGAAAATAATATGAGGTTAATAATAT
1 AATAAGATATAAGAATAAATTTAAAACGAATTATATGTGTAAAAATAATATGAAATTAATAATAT
* * *
89132836 ATATAAAATAAAATTAACTTTAATACAAAGTACACATATATATGT
66 ACATAAAATAAAACTAACTTTAATACAAAATACACATATATATGT
89132881 ATAATAGTGT
Statistics
Matches: 91, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
115 91 1.00
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.35
Consensus pattern (115 bp):
AATAAGATATAAGAATAAATTTAAAACGAATTATATGTGTAAAAATAATATGAAATTAATAATAT
ACATAAAATAAAACTAACTTTAATACAAAATACACATATATATGTGTATA
Found at i:89134392 original size:35 final size:35
Alignment explanation
Indices: 89134346--89134414 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
89134336 AACAACTTTC
89134346 GCGCATACTTCGACTAAGACACATGAAGACATGCT
1 GCGCATACTTCGACTAAGACACATGAAGACATGCT
89134381 GCGCATACTTCGACTAAGACACATGAAGACATGC
1 GCGCATACTTCGACTAAGACACATGAAGACATGC
89134415 AGCATGTCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (35 bp):
GCGCATACTTCGACTAAGACACATGAAGACATGCT
Found at i:89137795 original size:20 final size:20
Alignment explanation
Indices: 89137772--89137823 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
89137762 GACGCAATGC
* *
89137772 CAAAATTTGTATCCAAATAT
1 CAAAATTTCTAACCAAATAT
89137792 CAAAATTTCTAACCAAATA-
1 CAAAATTTCTAACCAAATAT
*
89137811 CTAACATTTCTAA
1 C-AAAATTTCTAA
89137824 TGGATACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (20 bp):
CAAAATTTCTAACCAAATAT
Found at i:89138288 original size:17 final size:18
Alignment explanation
Indices: 89138268--89138313 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
89138258 TCTTTTCAAC
89138268 TTTTTATAATTTT-GAAT
1 TTTTTATAATTTTGGAAT
*
89138285 TTTTT-TATTTTTGGAAT
1 TTTTTATAATTTTGGAAT
* *
89138302 ATTTTATTATTT
1 TTTTTATAATTT
89138314 ATTAATGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 6 0.26
17 13 0.57
18 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
TTTTTATAATTTTGGAAT
Found at i:89142388 original size:4 final size:4
Alignment explanation
Indices: 89142369--89142440 Score: 50
Period size: 4 Copynumber: 18.8 Consensus size: 4
89142359 CATCCACCGG
*
89142369 AAGA GAGA AAGAA AAGA AAGA AATGA GAAG- AAGA AA-A GAAG- AAG-
1 AAGA AAGA AAG-A AAGA AAGA AA-GA -AAGA AAGA AAGA -AAGA AAGA
89142413 AAG- AAG- AAGA AAGA AAGA AAGA AA-A AAG
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG
89142441 GTAATGTATT
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
3 19 0.33
4 30 0.52
5 7 0.12
6 2 0.03
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (4 bp):
AAGA
Found at i:89142402 original size:3 final size:3
Alignment explanation
Indices: 89142394--89142423 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
89142384 GAAAGAAATG
89142394 AGA AGA AGA A-A AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
89142424 AGAAAGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:89142402 original size:17 final size:16
Alignment explanation
Indices: 89142378--89142440 Score: 58
Period size: 20 Copynumber: 3.8 Consensus size: 16
89142368 GAAGAGAGAA
89142378 AGAA-AAGAAAGAAATG
1 AGAAGAAGAAAGAAA-G
89142394 AGAAGAAGAAAAGAAGAAG
1 AGAAGAAG-AAAG-A-AAG
89142413 AAGAAGAAGAAAGAAAG
1 -AGAAGAAGAAAGAAAG
*
89142430 A-AAGAAAAAAG
1 AGAAGAAGAAAG
89142441 GTAATGTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
15 9 0.22
16 5 0.12
17 6 0.15
18 5 0.12
19 6 0.15
20 10 0.24
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (16 bp):
AGAAGAAGAAAGAAAG
Found at i:89142411 original size:14 final size:15
Alignment explanation
Indices: 89142376--89142437 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 15
89142366 CGGAAGAGAG
89142376 AAAGAA-AAGAAAGA
1 AAAGAAGAAGAAAGA
*
89142390 AATG-AGAAG-AAGA
1 AAAGAAGAAGAAAGA
89142403 AAAGAAGAAG-AAGA
1 AAAGAAGAAGAAAGA
89142417 AGAAGAAAGAAAGAAAGA
1 A-AAG-AAG-AAGAAAGA
89142435 AAA
1 AAA
89142438 AAGGTAATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 8 0.20
14 16 0.40
15 3 0.08
16 3 0.08
17 5 0.12
18 5 0.12
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.02
Consensus pattern (15 bp):
AAAGAAGAAGAAAGA
Found at i:89142433 original size:27 final size:27
Alignment explanation
Indices: 89142368--89142437 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
89142358 CCATCCACCG
* *
89142368 GAAGAGAGAAAGAAAAGAAAGAAATGA
1 GAAGAAAGAAAGAAAAGAAAGAAAAGA
89142395 GAAG-AAGAAAAGAAGAAG-AAGAAGAAGA
1 GAAGAAAG-AAAGAA-AAGAAAGAA-AAGA
89142423 -AAGAAAGAAAGAAAA
1 GAAGAAAGAAAGAAAA
89142438 AAGGTAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 4 0.11
27 24 0.65
28 9 0.24
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (27 bp):
GAAGAAAGAAAGAAAAGAAAGAAAAGA
Found at i:89143286 original size:131 final size:131
Alignment explanation
Indices: 89143122--89143379 Score: 428
Period size: 131 Copynumber: 2.0 Consensus size: 131
89143112 AATTTAGAGA
* *
89143122 ACATAAGTGAAATTCTAAAGAGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
1 ACATAAGTGAAATTCAAAAGAGATATTCGATTATTTTGAACAAACGGGAAATTGCAACACAGCAC
* *
89143187 GATAGGGCATGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTAAA
66 GATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAATTTTTAAA
89143252 G
131 G
* *
89143253 ACATGAGTGAAATTCCAAAAGA-ATATTCGATTATTTTGAACAAACGGGAAATTGCAACATAGCA
1 ACATAAGTGAAATT-CAAAAGAGATATTCGATTATTTTGAACAAACGGGAAATTGCAACACAGCA
* *
89143317 CGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCGTTCGTTTTAAAGAATTTTT
65 CGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAATTTTT
89143380 GAATGAATAG
Statistics
Matches: 118, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
131 112 0.95
132 6 0.05
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (131 bp):
ACATAAGTGAAATTCAAAAGAGATATTCGATTATTTTGAACAAACGGGAAATTGCAACACAGCAC
GATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAATTTTTAAA
G
Found at i:89144713 original size:39 final size:39
Alignment explanation
Indices: 89144670--89144808 Score: 185
Period size: 39 Copynumber: 3.6 Consensus size: 39
89144660 ATAAAGTATG
*
89144670 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGTATGAGGAAGTA
*
89144709 GTTTTAATTAACAATAAAACAAAATAGTATG-GGAAAATA
1 GTTTTAATTAACAATAAAACAAAATAGTATGAGG-AAGTA
* *
89144748 GTTTTAATTAACAATAAAACAAAATAGCAT-AGGGAGT-
1 GTTTTAATTAACAATAAAACAAAATAGTATGAGGAAGTA
* *
89144785 GTTTTTGATTAATAATAAAACAAA
1 G-TTTTAATTAACAATAAAACAAA
89144809 GTAGCATGGG
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
37 1 0.01
38 24 0.27
39 65 0.72
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (39 bp):
GTTTTAATTAACAATAAAACAAAATAGTATGAGGAAGTA
Found at i:89144773 original size:78 final size:77
Alignment explanation
Indices: 89144670--89144818 Score: 210
Period size: 77 Copynumber: 1.9 Consensus size: 77
89144660 ATAAAGTATG
* *
89144670 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTAG-TTTTAATTAACAATAAAACAAAAT
1 GTTTTAATTAACAATAAAACAAAATAGCAT-AGGAAGT-GTTTTTAATTAACAATAAAACAAAAT
*
89144734 AGTATGGGAAAATA
64 AGCATGGGAAAATA
* * * *
89144748 GTTTTAATTAACAATAAAACAAAATAGCATAGGGAGTGTTTTTGATTAATAATAAAACAAAGTAG
1 GTTTTAATTAACAATAAAACAAAATAGCATAGGAAGTGTTTTTAATTAACAATAAAACAAAATAG
89144813 CATGGG
66 CATGGG
89144819 GGAAGTGGAA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
76 1 0.02
77 34 0.54
78 28 0.44
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (77 bp):
GTTTTAATTAACAATAAAACAAAATAGCATAGGAAGTGTTTTTAATTAACAATAAAACAAAATAG
CATGGGAAAATA
Found at i:89145350 original size:24 final size:25
Alignment explanation
Indices: 89145323--89145371 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
89145313 TTATTATGTA
89145323 TATACCATGTAAATATTTTA-ATAT
1 TATACCATGTAAATATTTTATATAT
** *
89145347 TATATTATGTATATATTTTATATAT
1 TATACCATGTAAATATTTTATATAT
89145372 ATATCTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (25 bp):
TATACCATGTAAATATTTTATATAT
Found at i:89145351 original size:13 final size:13
Alignment explanation
Indices: 89145335--89145393 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
89145325 TACCATGTAA
89145335 ATATTTTAATATT
1 ATATTTTAATATT
* *
89145348 ATATTAT-GTA-T
1 ATATTTTAATATT
89145359 ATATTTTATATATAT
1 ATATTTTA-ATAT-T
*
89145374 ATCTTTTAATATT
1 ATATTTTAATATT
*
89145387 GTATTTT
1 ATATTTT
89145394 TATTGTTTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
11 7 0.20
12 2 0.06
13 14 0.40
14 4 0.11
15 8 0.23
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (13 bp):
ATATTTTAATATT
Found at i:89145374 original size:24 final size:24
Alignment explanation
Indices: 89145329--89145375 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
89145319 TGTATATACC
89145329 ATGTAAATATTTTAATATTATATT
1 ATGTAAATATTTTAATATTATATT
*
89145353 ATGTATATATTTT-ATATATATAT
1 ATGTAAATATTTTAATAT-TATAT
89145376 CTTTTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
ATGTAAATATTTTAATATTATATT
Found at i:89153291 original size:210 final size:210
Alignment explanation
Indices: 89152745--89154013 Score: 1977
Period size: 210 Copynumber: 6.1 Consensus size: 210
89152735 CTTCATCGGG
* * * *
89152745 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCATATCGAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
89152810 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * *
89152875 GAACGAATCGAAGTTTGGCATCTT-CACTTTGATGG-AGAGTAGACACATAGCAGATCTGACCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
*
89152938 CAGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
* ** * * * *
89152955 GCAGATCCAAGATG---G-T-TTGGCATC-CT-TGTGTT-TACAAGGAACAAATCGAAGACATAG
1 GCAGATCCAAGATGACAGATCTT---ATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAG
* * *
89153012 CTGATTTGGCTTTCACGTGTTTACGTTAAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTC
63 CTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTC
89153077 AGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCT
128 AGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCT
89153142 TCAGATGTTTACGCTGAA
193 TCAGATGTTTACGCTGAA
* *
89153160 GCAGATCCAAGATGATAGATATTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* *
89153225 ATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAAATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
89153290 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAAACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
89153355 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
89153370 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
*
89153435 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTATCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
89153500 GAACAAATTGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
89153565 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * * * *
89153580 GTAGATCCAAGATGATAGATCTTATTTCTCTATATTCGGCAGGGAGCAGATTGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* *
89153645 ATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATTATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
89153710 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCCTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
*
89153775 TATGTTTACGCTGAA
196 GATGTTTACGCTGAA
*
89153790 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* *
89153855 ATTTGGCTTTCACGTGTTTTCGATAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * * **
89153920 GAACGAATCAAAGTTTGGCATCTT-CACTTTGATGGAAAGCAGACACATAGCAGATCTCGCCTTC
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTC
* *
89153984 GGATGTTTATGCTGAA
195 AGATGTTTACGCTGAA
89154000 GC-GAATCCAAGATG
1 GCAG-ATCCAAGATG
89154014 TTTGGCATCC
Statistics
Matches: 977, Mismatches: 67, Indels: 30
0.91 0.06 0.03
Matches are distributed among these distances:
204 2 0.00
205 167 0.17
206 8 0.01
207 6 0.01
208 6 0.01
209 7 0.01
210 779 0.80
211 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
GATGTTTACGCTGAA
Found at i:89154279 original size:45 final size:45
Alignment explanation
Indices: 89154228--89154313 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
89154218 TGAAAAGTAA
* *
89154228 ATTTGGCGTCTCTGTATTAGA-CGGGAAGCAGATCGAAGATAATAG
1 ATTTGGCGTCTCTGTAGTAGACCGGG-AGCAGATCAAAGATAATAG
*
89154273 ATTTGGCGTCTCTGTAGTAGACCGGGGGCAGATCAAAGATA
1 ATTTGGCGTCTCTGTAGTAGACCGGGAGCAGATCAAAGATA
89154314 GCAGATATCG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 33 0.89
46 4 0.11
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (45 bp):
ATTTGGCGTCTCTGTAGTAGACCGGGAGCAGATCAAAGATAATAG
Found at i:89155596 original size:2 final size:2
Alignment explanation
Indices: 89155591--89155628 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
89155581 TATAAATATA
89155591 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
89155629 AATGAGATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:89156221 original size:23 final size:23
Alignment explanation
Indices: 89156195--89156269 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
89156185 AGGCACTTTA
89156195 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
*
89156218 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
* **
89156239 TGTGTCG--TTTTAGGCACTTTA
1 TGTGTCGTATTTTAGGCACCTCG
89156260 TGTGTCGTAT
1 TGTGTCGTAT
89156270 ACTGATCAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 33 0.77
23 10 0.23
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (23 bp):
TGTGTCGTATTTTAGGCACCTCG
Found at i:89156452 original size:18 final size:19
Alignment explanation
Indices: 89156431--89156471 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
89156421 AATGAAATGA
89156431 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
89156449 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
89156468 GAAA
1 GAAA
89156472 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:89159541 original size:53 final size:53
Alignment explanation
Indices: 89159480--89159625 Score: 195
Period size: 53 Copynumber: 2.7 Consensus size: 53
89159470 TGCGCCTGTT
89159480 TAAGACCATATCTGGGCTATGGCATCGGTGA-AATGTGATAATATGACTCCGTA
1 TAAGACCATATCTGGGCTATGGCATCGGT-ATAATGTGATAATATGACTCCGTA
* * * *
89159533 TAAGACCATAGCTGGGCTATCGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATATCTGGGCTATGGCATCGGTATAATGTGATAATATGACTCCGTA
* * *
89159586 TAAGACCATGTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATATCTGGGCTATGGCATCGGTAT-A-ATGTGA
89159626 ACCGTGTAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 73 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (53 bp):
TAAGACCATATCTGGGCTATGGCATCGGTATAATGTGATAATATGACTCCGTA
Found at i:89161568 original size:38 final size:38
Alignment explanation
Indices: 89161433--89161582 Score: 185
Period size: 39 Copynumber: 3.9 Consensus size: 38
89161423 ATAAAGTATG
* * *
89161433 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGCATG-GGGAGTA
* *
89161472 GTTTTAATTAACAATAAAACAAAATAGTATGGGGAAATA
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGG-AGTA
*
89161511 GTTTTAATTAACAATAAAACAAAATAACATGGGGAGT-
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTA
* * *
89161548 GTTTTTGATTAATAATAAAACAAAGTAGCATGGGG
1 G-TTTTAATTAACAATAAAACAAAATAGCATGGGG
89161583 GAGTGGAATC
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 33 0.33
39 65 0.66
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.29
Consensus pattern (38 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTA
Found at i:89161584 original size:78 final size:78
Alignment explanation
Indices: 89161433--89161582 Score: 205
Period size: 77 Copynumber: 1.9 Consensus size: 78
89161423 ATAAAGTATG
* **
89161433 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
1 GTTTTAATTAACAATAAAACAAAATAACATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
*
89161498 GTATGGGGAAATA
66 GCATGGGGAAATA
* * * *
89161511 GTTTTAATTAACAATAAAACAAAATAACATG-GGGAGT-GTTTTTGATTAATAATAAAACAAAGT
1 GTTTTAATTAACAATAAAACAAAATAACATGAGGAAGTAG-TTTTAATTAACAATAAAACAAAAT
89161574 AGCATGGGG
65 AGCATGGGG
89161583 GAGTGGAATC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
76 1 0.02
77 34 0.54
78 28 0.44
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.29
Consensus pattern (78 bp):
GTTTTAATTAACAATAAAACAAAATAACATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
GCATGGGGAAATA
Found at i:89162114 original size:35 final size:35
Alignment explanation
Indices: 89162074--89162146 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
89162064 TTTTTTACAT
*
89162074 TATTATGTATATACCATGTCAATATTTTAATATTA
1 TATTATGTATATACCATGTAAATATTTTAATATTA
*
89162109 TATTATGTATATACCATGTAAATATTTTAATCTTA
1 TATTATGTATATACCATGTAAATATTTTAATATTA
89162144 TAT
1 TAT
89162147 ACATTTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (35 bp):
TATTATGTATATACCATGTAAATATTTTAATATTA
Found at i:89162541 original size:16 final size:17
Alignment explanation
Indices: 89162507--89162547 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
89162497 CCTACTCCCT
89162507 CCCAATTTAAAACCCAG
1 CCCAATTTAAAACCCAG
*
89162524 CCCAATTT-AAATCCAG
1 CCCAATTTAAAACCCAG
89162540 CCCAATTT
1 CCCAATTT
89162548 TCTCTTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.37, C:0.34, G:0.05, T:0.24
Consensus pattern (17 bp):
CCCAATTTAAAACCCAG
Found at i:89163469 original size:16 final size:16
Alignment explanation
Indices: 89163448--89163481 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
89163438 AATTATTGAA
*
89163448 TATATTGTAATTAATG
1 TATATTATAATTAATG
89163464 TATATTATAATTAATG
1 TATATTATAATTAATG
89163480 TA
1 TA
89163482 AGAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (16 bp):
TATATTATAATTAATG
Found at i:89166605 original size:24 final size:24
Alignment explanation
Indices: 89166548--89166606 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
89166538 GGTTTAATGC
* *
89166548 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
*
89166572 AAATGAATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
89166596 AAATGGATATA
1 AAATGGATATA
89166607 AATGGAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:89166698 original size:20 final size:19
Alignment explanation
Indices: 89166672--89166736 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
89166662 AATATTTTTA
89166672 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* ***
89166691 ACTTATGTAAT-ATTTTTA-
1 A-TTATGTAGTGATTCAAAG
89166709 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
89166728 ATTTATGTA
1 A-TTATGTA
89166737 ATGTTTTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 15 0.44
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (19 bp):
ATTATGTAGTGATTCAAAG
Found at i:89166701 original size:37 final size:37
Alignment explanation
Indices: 89166647--89166759 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
89166637 TTATGTTTTA
*
89166647 ATTC-AAGACTTGTGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
89166683 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
* *
89166720 ATTCAAAGATTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
89166757 ATT
1 ATT
89166760 TAATTCGGGT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 4 0.05
37 69 0.95
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:89166715 original size:17 final size:17
Alignment explanation
Indices: 89166659--89166753 Score: 55
Period size: 17 Copynumber: 5.2 Consensus size: 17
89166649 TCAAGACTTG
89166659 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
* ***
89166676 TGTAGTGATTCAAAGACTTA
1 TGTAAT-ATTTTTA-A-TTA
89166696 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
* ***
89166713 TGTAGTGATTCAAAGATTTA
1 TGTAAT-ATTTTTA-A-TTA
*
89166733 TGTAATGTTTTTAATTA
1 TGTAATATTTTTAATTA
89166750 TGTA
1 TGTA
89166754 GTGATTTAAT
Statistics
Matches: 55, Mismatches: 17, Indels: 12
0.65 0.20 0.14
Matches are distributed among these distances:
17 20 0.36
18 10 0.18
19 9 0.16
20 16 0.29
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (17 bp):
TGTAATATTTTTAATTA
Found at i:89166774 original size:9 final size:9
Alignment explanation
Indices: 89166760--89166885 Score: 198
Period size: 9 Copynumber: 13.6 Consensus size: 9
89166750 TGTAGTGATT
89166760 TAATTCGGG
1 TAATTCGGG
89166769 TAATTCGGG
1 TAATTCGGG
89166778 TAATTTTCGGG
1 TAA--TTCGGG
89166789 TAATTCGGG
1 TAATTCGGG
*
89166798 TAATTTGGG
1 TAATTCGGG
89166807 TAATTTTCGGG
1 TAA--TTCGGG
89166818 TAATTCGGG
1 TAATTCGGG
89166827 TAATTCGGG
1 TAATTCGGG
89166836 TAATTCGGG
1 TAATTCGGG
*
89166845 TAAGTCGGG
1 TAATTCGGG
89166854 TAATTCGGG
1 TAATTCGGG
89166863 TAATTCGGG
1 TAATTCGGG
89166872 TAATTCGGG
1 TAATTCGGG
89166881 TAATT
1 TAATT
89166886 TTTAACCAAA
Statistics
Matches: 109, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
9 92 0.84
11 17 0.16
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (9 bp):
TAATTCGGG
Found at i:89166802 original size:29 final size:27
Alignment explanation
Indices: 89166760--89166885 Score: 198
Period size: 29 Copynumber: 4.5 Consensus size: 27
89166750 TGTAGTGATT
89166760 TAATTCGGGTAATTCGGGTAATTTTCGGG
1 TAATTCGGGTAATTCGGGTAA--TTCGGG
*
89166789 TAATTCGGGTAATTTGGGTAATTTTCGGG
1 TAATTCGGGTAATTCGGGTAA--TTCGGG
89166818 TAATTCGGGTAATTCGGGTAATTCGGG
1 TAATTCGGGTAATTCGGGTAATTCGGG
*
89166845 TAAGTCGGGTAATTCGGGTAATTCGGG
1 TAATTCGGGTAATTCGGGTAATTCGGG
89166872 TAATTCGGGTAATT
1 TAATTCGGGTAATT
89166886 TTTAACCAAA
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 45 0.48
29 48 0.52
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (27 bp):
TAATTCGGGTAATTCGGGTAATTCGGG
Found at i:89167023 original size:28 final size:27
Alignment explanation
Indices: 89166991--89167056 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
89166981 AAAATTCGGT
89166991 TCGGTTAACGGTTA-AAAAATTTGAGAGG
1 TCGGTTAACGGTTACAAAAATTT-AG-GG
* *
89167019 TCGGTTAATTCGGTTACAAGAATTTCGGG
1 TCGGTTAA--CGGTTACAAAAATTTAGGG
89167048 TCGGTTAAC
1 TCGGTTAAC
89167057 CGACTGAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 1 0.03
28 8 0.24
29 10 0.30
30 7 0.21
31 7 0.21
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (27 bp):
TCGGTTAACGGTTACAAAAATTTAGGG
Found at i:89169056 original size:14 final size:14
Alignment explanation
Indices: 89169037--89169063 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89169027 AATGTAAAAT
89169037 AAAATAATGATTTC
1 AAAATAATGATTTC
89169051 AAAATAATGATTT
1 AAAATAATGATTT
89169064 ATTTAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (14 bp):
AAAATAATGATTTC
Found at i:89174379 original size:18 final size:18
Alignment explanation
Indices: 89174356--89174421 Score: 87
Period size: 18 Copynumber: 3.6 Consensus size: 18
89174346 AAAAATACAT
89174356 TTTCTTTCTTCTCTTTTC
1 TTTCTTTCTTCTCTTTTC
*
89174374 TTTCTTTCTTCTCTCTTC
1 TTTCTTTCTTCTCTTTTC
* *
89174392 TTCCTTTCTTCTCTTCTC
1 TTTCTTTCTTCTCTTTTC
*
89174410 CTTCTTTTCTTC
1 TTTC-TTTCTTC
89174422 CTTATGTTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
18 34 0.83
19 7 0.17
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTCTTCTCTTTTC
Found at i:89174398 original size:22 final size:21
Alignment explanation
Indices: 89174356--89174415 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
89174346 AAAAATACAT
89174356 TTTCTTTC-T-TCTCTT-TTC
1 TTTCTTTCTTCTCTCTTCTTC
89174374 TTTCTTTCTTCTCTCTTCTTCC
1 TTTCTTTCTTCTCTCTTCTT-C
89174396 TTTCTTCTCTTCTC-CTTCTT
1 TTTCTT-TCTTCTCTCTTCTT
89174416 TTCTTCCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.22
19 1 0.03
20 6 0.16
21 2 0.05
22 13 0.35
23 7 0.19
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTCTTTCTTCTCTCTTCTTC
Found at i:89190774 original size:42 final size:42
Alignment explanation
Indices: 89190715--89190794 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
89190705 AGCATGAGAA
*
89190715 AGGTTAATTAAAGGAATTTATTAGTAATTAAGCCATCTCTAC
1 AGGTTAATTAAAGGAATTTATTAGCAATTAAGCCATCTCTAC
*
89190757 AGGTTAATTAAAGGAATTTATTAGCAATTAAGTCATCT
1 AGGTTAATTAAAGGAATTTATTAGCAATTAAGCCATCT
89190795 TTACTTATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (42 bp):
AGGTTAATTAAAGGAATTTATTAGCAATTAAGCCATCTCTAC
Found at i:89195027 original size:10 final size:10
Alignment explanation
Indices: 89194998--89195054 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
89194988 AAATTAAACT
*
89194998 TATAAATAAA
1 TATATATAAA
* *
89195008 AATACATAAA
1 TATATATAAA
* *
89195018 TATTTTTAAA
1 TATATATAAA
89195028 TATATATAAA
1 TATATATAAA
89195038 TATAAATATAAA
1 TAT--ATATAAA
89195050 TATAT
1 TATAT
89195055 TAATAAAATG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 27 0.73
12 10 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (10 bp):
TATATATAAA
Found at i:89195052 original size:20 final size:19
Alignment explanation
Indices: 89194998--89195063 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 19
89194988 AAATTAAACT
*
89194998 TATAAATAAAAATACATAAA
1 TATAAAT-AAAATATATAAA
***
89195018 TATTTTTAAATATATATAAA
1 TATAAATAAA-ATATATAAA
*
89195038 TATAAATATAAATATATTAA
1 TATAAATA-AAATATATAAA
89195058 TA-AAAT
1 TATAAAT
89195064 GCCGAGGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
19 7 0.19
20 27 0.75
21 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TATAAATAAAATATATAAA
Found at i:89195737 original size:28 final size:25
Alignment explanation
Indices: 89195675--89195746 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 25
89195665 AGGATGGATT
* *
89195675 TTTAATTTTATTTAACATTAATAAA
1 TTTAAATTTATTTAATATTAATAAA
*
89195700 TTTATATTTATTTAATATTAATATAAAA
1 TTTAAATTTATTTAATATT-A-AT-AAA
*
89195728 TTTAAATTTATATAATATT
1 TTTAAATTTATTTAATATT
89195747 TGTAATTTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 16 0.41
26 1 0.03
27 2 0.05
28 20 0.51
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTAAATTTATTTAATATTAATAAA
Found at i:89195740 original size:17 final size:17
Alignment explanation
Indices: 89195696--89195747 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
89195686 TTAACATTAA
*
89195696 TAAATTTATAT-TTATT
1 TAAATTTATATAATATT
* *
89195712 TAATATTAATATAAAATT
1 TAA-ATTTATATAATATT
89195730 TAAATTTATATAATATT
1 TAAATTTATATAATATT
89195747 T
1 T
89195748 GTAATTTGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 3 0.10
17 20 0.69
18 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTTATATAATATT
Found at i:89198549 original size:24 final size:24
Alignment explanation
Indices: 89198522--89198576 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
89198512 CTATTTATAG
*
89198522 GCTAAATAAACTATGCTAATAAAT
1 GCTAAATAAACTATACTAATAAAT
* * *
89198546 GCTAAATATATTATACTAATATAT
1 GCTAAATAAACTATACTAATAAAT
*
89198570 ACTAAAT
1 GCTAAAT
89198577 CTTTTAGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (24 bp):
GCTAAATAAACTATACTAATAAAT
Found at i:89201716 original size:12 final size:12
Alignment explanation
Indices: 89201699--89201723 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89201689 AAAACAGGGC
89201699 TTTAGCAGCATT
1 TTTAGCAGCATT
89201711 TTTAGCAGCATT
1 TTTAGCAGCATT
89201723 T
1 T
89201724 GAACAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TTTAGCAGCATT
Found at i:89202059 original size:41 final size:41
Alignment explanation
Indices: 89201770--89202049 Score: 398
Period size: 41 Copynumber: 6.8 Consensus size: 41
89201760 GTTTAAAATA
* *
89201770 AAACGCCACTAAAAACCGAGCAATAGTGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * * *
89201811 AAACGCCACTAAAAACTGAGAAATAGCAGCGTTTCAGGTTC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
*
89201852 AACCGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * *
89201893 AAACGCCACTAAAAATCAAGCAATAGCGGCGTTTCAAGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* *
89201934 AAATGCCACTAAAAACCGAGCAATAGCGGCGTTTTAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * *
89201975 AAACGCCACTAAAAACCGAGCAATAGCGGCTTTTCTGGTCA
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* **
89202016 AAACGCCACTAAAAATCGAGCAATAATGGCGTTT
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTT
89202050 TTGGTCAAAA
Statistics
Matches: 210, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 210 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (41 bp):
AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
Found at i:89202223 original size:18 final size:17
Alignment explanation
Indices: 89202191--89202225 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
89202181 ATTTTCTTAT
*
89202191 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
89202208 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
89202226 AATTGACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TTTTATTTTGAATTTGA
Found at i:89202988 original size:21 final size:21
Alignment explanation
Indices: 89202939--89202989 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
89202929 AGTTTATGGT
89202939 TTAAGGTTTGTTATTTTGGGC
1 TTAAGGTTTGTTATTTTGGGC
**
89202960 TTGGGGTTTGTTATTTTGGGC
1 TTAAGGTTTGTTATTTTGGGC
89202981 TTAAGGTTT
1 TTAAGGTTT
89202990 AGGGTATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.04, G:0.31, T:0.53
Consensus pattern (21 bp):
TTAAGGTTTGTTATTTTGGGC
Found at i:89203402 original size:21 final size:21
Alignment explanation
Indices: 89203358--89203402 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
89203348 AATTAATTTT
*
89203358 ATTTTATTTAAAAGTTTAATA
1 ATTTTATTTAAAAGTTTAAAA
89203379 ATTTTA-TTAAAAGTTTATAAA
1 ATTTTATTTAAAAGTTTA-AAA
89203400 ATT
1 ATT
89203403 ATACTAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTTATTTAAAAGTTTAAAA
Found at i:89203495 original size:147 final size:147
Alignment explanation
Indices: 89203333--89203673 Score: 603
Period size: 147 Copynumber: 2.3 Consensus size: 147
89203323 TCGTCCACAA
*
89203333 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATA
1 TTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATA
* *
89203398 AAATTATACTAATTCATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAA
66 AAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAA
89203463 TAAAATTATTTAAAAGT
131 TAAAATTATTTAAAAGT
*
89203480 TTATATAATTATACAAATTAATTTTATTTTATTTAAAAG-TAAATTAATTTTATTAAAAGTTTAT
1 TTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAA-TAATTTTATTAAAAGTTTAT
* *
89203544 AAAATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAAATTAATTTACTTTTAATTAAA
65 AAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAA
89203609 ATAAAATTATTTAAAAGT
130 ATAAAATTATTTAAAAGT
*
89203627 TTAAATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAA
1 TTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAA
89203674 AATTATTTTA
Statistics
Matches: 184, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
146 3 0.02
147 178 0.97
148 3 0.02
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (147 bp):
TTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATA
AAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAA
TAAAATTATTTAAAAGT
Found at i:89203499 original size:55 final size:58
Alignment explanation
Indices: 89203439--89203570 Score: 164
Period size: 60 Copynumber: 2.3 Consensus size: 58
89203429 AAGATTAATA
*
89203439 AAATTAATTTACTTTTAAATAAAA-T-AA-AATTAT-TTAAAAGTTTATATAATTATAC
1 AAATTAATTTA-TTTTAAATAAAAGTAAATAATTATATTAAAAGTTTATAAAATTATAC
** *
89203494 AAATTAATTTTATTTTATTTAAAAGTAAATTAATTTTATTAAAAGTTTATAAAATTATAC
1 AAATTAA-TTTATTTTAAATAAAAGTAAA-TAATTATATTAAAAGTTTATAAAATTATAC
89203554 AAATTAATTTTATTTTA
1 AAATTAA-TTTATTTTA
89203571 TTTAAAATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
55 17 0.25
56 5 0.07
57 2 0.03
59 5 0.07
60 38 0.57
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (58 bp):
AAATTAATTTATTTTAAATAAAAGTAAATAATTATATTAAAAGTTTATAAAATTATAC
Found at i:89203595 original size:32 final size:31
Alignment explanation
Indices: 89203486--89203688 Score: 102
Period size: 32 Copynumber: 6.8 Consensus size: 31
89203476 AAGTTTATAT
89203486 AATT-ATACAAATTAATTTTATTTTATTT--A
1 AATTAATA-AAATTAATTTTATTTTATTTAAA
* **
89203515 AA--AGT-AAATTAATTTTATTAAAAGTTTATAA
1 AATTAATAAAATTAATTTTATT-TTA-TTTA-AA
89203546 AATT-ATACAAATTAATTTTATTTTATTTAAA
1 AATTAATA-AAATTAATTTTATTTTATTTAAA
*
89203577 ATATTAATAAAATTAA-TTTACTTTTAATT---
1 A-ATTAATAAAATTAATTTTA-TTTTATTTAAA
**
89203606 AA--AATAAAATT-A-TTTA--AAAGTTTAAA
1 AATTAATAAAATTAATTTTATTTTA-TTTAAA
89203632 TAATT-ATACAAATTAATTTTATTTTATTTAAA
1 -AATTAATA-AAATTAATTTTATTTTATTTAAA
* *
89203664 AGTTTAATAAAATT-ATTTTACTTTA
1 A-ATTAATAAAATTAATTTTATTTTA
89203689 GGCTAAACAT
Statistics
Matches: 133, Mismatches: 14, Indels: 52
0.67 0.07 0.26
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
25 5 0.04
26 23 0.17
27 3 0.02
28 8 0.06
29 8 0.06
30 1 0.01
31 25 0.19
32 35 0.26
33 8 0.06
34 14 0.11
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (31 bp):
AATTAATAAAATTAATTTTATTTTATTTAAA
Found at i:89203647 original size:40 final size:41
Alignment explanation
Indices: 89203532--89203679 Score: 104
Period size: 40 Copynumber: 3.5 Consensus size: 41
89203522 ATTAATTTTA
** * **
89203532 TTAAAAGTTT-ATAAAATTATACAAATTAATTTTATTTTAT
1 TTAAAAGTTTAATAAAATTATACAAATTAAAATAAAATTAT
*
89203572 TTAAAA-TATTAATAAAATTAATTTACTTTTAATTAAAATAAAATTAT
1 TTAAAAGT-TTAATAAAATT-A--TAC---AAATTAAAATAAAATTAT
* ** * **
89203619 TTAAAAGTTTAA-ATAATTATACAAATTAATTTTATTTTAT
1 TTAAAAGTTTAATAAAATTATACAAATTAAAATAAAATTAT
89203659 TTAAAAGTTTAATAAAATTAT
1 TTAAAAGTTTAATAAAATTAT
89203680 TTTACTTTAG
Statistics
Matches: 84, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
39 1 0.01
40 32 0.38
41 15 0.18
42 1 0.01
43 3 0.04
44 3 0.04
45 1 0.01
46 5 0.06
47 22 0.26
48 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (41 bp):
TTAAAAGTTTAATAAAATTATACAAATTAAAATAAAATTAT
Found at i:89206594 original size:21 final size:20
Alignment explanation
Indices: 89206565--89206610 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
89206555 CACCAAATCA
89206565 AACACAAAATCAGAGAAACAAAG
1 AACA-AAAAT-AGA-AAACAAAG
*
89206588 AACAAAAATAGAAATCAAAG
1 AACAAAAATAGAAAACAAAG
89206608 AAC
1 AAC
89206611 GAAGGTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 3 0.14
22 5 0.23
23 4 0.18
ACGTcount: A:0.67, C:0.15, G:0.11, T:0.07
Consensus pattern (20 bp):
AACAAAAATAGAAAACAAAG
Found at i:89206696 original size:8 final size:8
Alignment explanation
Indices: 89206677--89206714 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
89206667 TTATATATTT
89206677 TAAAACATA
1 TAAAA-ATA
89206686 TAAAAATA
1 TAAAAATA
*
89206694 TAATAATA
1 TAAAAATA
89206702 -AAAAATA
1 TAAAAATA
89206709 TAAAAA
1 TAAAAA
89206715 AATTTACCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 15 0.58
9 5 0.19
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (8 bp):
TAAAAATA
Found at i:89207695 original size:27 final size:27
Alignment explanation
Indices: 89207665--89207987 Score: 311
Period size: 27 Copynumber: 12.0 Consensus size: 27
89207655 GTACTCTCGA
*
89207665 TTTACAGAATTACTGTTTTACCTTCAG
1 TTTACAGAATTACTGTTTTACCCTCAG
*
89207692 TTTACAGAATTACTATTTTACCCTC-G
1 TTTACAGAATTACTGTTTTACCCTCAG
* *
89207718 ATTTATAGAATTA-TCGTTTTACCCTTAG
1 -TTTACAGAATTACT-GTTTTACCCTCAG
* * *
89207746 TTTATAAAATTACCGTTTTACCCTC-G
1 TTTACAGAATTACTGTTTTACCCTCAG
* **
89207772 ATTTATAGAATTACCATTTTACCCTCAG
1 -TTTACAGAATTACTGTTTTACCCTCAG
*
89207800 TTTACAGAATTACTATTTTACCCTC-G
1 TTTACAGAATTACTGTTTTACCCTCAG
* *
89207826 ATTTACAGAATTACCGTTTTACCCTCAA
1 -TTTACAGAATTACTGTTTTACCCTCAG
** * *
89207854 TTTGTAAAATTACTGTTTTACCCTCGAT
1 TTTACAGAATTACTGTTTTACCCTC-AG
*
89207882 TTGTA-A-AATTATTGTTTTACCCTCAG
1 TT-TACAGAATTACTGTTTTACCCTCAG
* * *
89207908 TTTATAGAATTACTGGTTTACCCTCGG
1 TTTACAGAATTACTGTTTTACCCTCAG
*
89207935 TTTACAAAATTA-TCGTTTTACCCTC-G
1 TTTACAGAATTACT-GTTTTACCCTCAG
*
89207961 ATTTACAGAATTACTATTTTACCCTCA
1 -TTTACAGAATTACTGTTTTACCCTCA
89207988 ATTGTGAAAT
Statistics
Matches: 249, Mismatches: 31, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.01
26 10 0.04
27 229 0.92
28 7 0.03
29 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (27 bp):
TTTACAGAATTACTGTTTTACCCTCAG
Found at i:89207807 original size:108 final size:108
Alignment explanation
Indices: 89207660--89207986 Score: 447
Period size: 108 Copynumber: 3.0 Consensus size: 108
89207650 CCAAAGTACT
* * *
89207660 CTCGATTTACAGAATTACTGTTTTACCTTCAGTTTACAGAATTACTATTTTACCCTCGATTTATA
1 CTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACA
* *
89207725 GAATTATCGTTTTACCCTTAGTTTATAAAATTACCGTTTTACC
66 GAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTACC
**
89207768 CTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACA
1 CTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACA
* * *
89207833 GAATTACCGTTTTACCCTCAATTTGTAAAATTACTGTTTTACC
66 GAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTACC
* * * * ** *
89207876 CTCGATTTGTAAAATTATTGTTTTACCCTCAGTTTATAGAATTACTGGTTTACCCTCGGTTTACA
1 CTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACA
* * * * **
89207941 AAATTATCGTTTTACCCTCGATTTACAGAATTACTATTTTACC
66 GAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTACC
89207984 CTC
1 CTC
89207987 AATTGTGAAA
Statistics
Matches: 193, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 193 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (108 bp):
CTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACA
GAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTACC
Found at i:89208033 original size:27 final size:27
Alignment explanation
Indices: 89208003--89208189 Score: 203
Period size: 27 Copynumber: 6.9 Consensus size: 27
89207993 GAAATTACTA
89208003 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * **
89208030 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
89208057 AAATACCCTTATAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCG
** *
89208084 AAATACCCCCGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCG
** * **
89208111 AAATACTTTTGTAGGGTAGAAATATTG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
89208138 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * * *
89208165 AGATACCTTTGTGGGGTAAAATTAC
1 AAATACCCTTGTAGGGTAGAATTAC
89208190 TATTTTGCCC
Statistics
Matches: 132, Mismatches: 28, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:89208064 original size:54 final size:54
Alignment explanation
Indices: 89207995--89208189 Score: 230
Period size: 54 Copynumber: 3.6 Consensus size: 54
89207985 TCAATTGTGA
*
89207995 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
89208049 AATTACTAAAATACCCTTATAGGGTAGAATTATCGAAATACCCCCGTAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* ** * **
89208103 AATTA-TCGAAATACTTTTGTAGGGTAGAAATATTGAAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
** * * * *
89208157 AATTACCGAGATACCTTTGTGGGGTAAAATTAC
1 AATTACTAAAATACCCTTGTAGGGTAGAATTAC
89208190 TATTTTGCCC
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 120 0.99
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:89208669 original size:22 final size:21
Alignment explanation
Indices: 89208617--89208681 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
89208607 TTAAAGCCTT
* *
89208617 CTGATTATGGCTTTGTGTCAA
1 CTGATTATGGCTCTGTGCCAA
* *
89208638 CTTACATATGGCTCTGTGCCAA
1 CTGA-TTATGGCTCTGTGCCAA
*
89208660 CCTGATTATGGCTGTGTGCCAA
1 -CTGATTATGGCTCTGTGCCAA
89208682 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 3 0.09
22 29 0.83
23 3 0.09
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (21 bp):
CTGATTATGGCTCTGTGCCAA
Found at i:89208870 original size:27 final size:27
Alignment explanation
Indices: 89208840--89208941 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
89208830 ATTCTGTTAA
* *
89208840 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
89208867 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
89208894 GTGGCTCTGCCACAATATCTGTATCTA
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
89208921 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
89208942 ATAACTGAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 51 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:89208898 original size:54 final size:53
Alignment explanation
Indices: 89208840--89208941 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
89208830 ATTCTGTTAA
* * * * *
89208840 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCAC-AATATCTGTTCTG
* *
89208894 GTGGCTCTGCCACAATATCTGTATCTAGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTG
89208942 ATAACTGAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTGTTCTG
Found at i:89209131 original size:19 final size:19
Alignment explanation
Indices: 89209090--89209133 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
89209080 CTGATTTTTG
* * *
89209090 ATTCTGTTACCTGATACTG
1 ATTCTGTCACCTAATACTA
*
89209109 ATTCTGTCACCTAATTCTA
1 ATTCTGTCACCTAATACTA
89209128 ATTCTG
1 ATTCTG
89209134 ATTCTGATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (19 bp):
ATTCTGTCACCTAATACTA
Found at i:89211388 original size:13 final size:14
Alignment explanation
Indices: 89211370--89211401 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
89211360 GTATTATAAA
89211370 TAATTATAAT-GTT
1 TAATTATAATGGTT
89211383 TAATTATAATGGTT
1 TAATTATAATGGTT
89211397 TAATT
1 TAATT
89211402 TGTCGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TAATTATAATGGTT
Found at i:89211843 original size:21 final size:21
Alignment explanation
Indices: 89211814--89211865 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
89211804 TAGAGCGGAT
*
89211814 GCAGCAGCGACGGAGGCAGCG
1 GCAGCAGCGACGGAGGCAGAG
* * *
89211835 GCAGTAGCGAGGGAGGTAGAG
1 GCAGCAGCGACGGAGGCAGAG
89211856 GCAGCAGCGA
1 GCAGCAGCGA
89211866 TCGCAGCAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.48, T:0.04
Consensus pattern (21 bp):
GCAGCAGCGACGGAGGCAGAG
Found at i:89212141 original size:31 final size:31
Alignment explanation
Indices: 89212106--89212195 Score: 153
Period size: 31 Copynumber: 2.9 Consensus size: 31
89212096 TTTATGCTAC
*
89212106 ATTTGCTATTTTTGGTTGGATTTCATGTTAT
1 ATTTGCTGTTTTTGGTTGGATTTCATGTTAT
89212137 ATTTGCTGTTTTTGGTTGGATTTCATGTTAT
1 ATTTGCTGTTTTTGGTTGGATTTCATGTTAT
* *
89212168 ATTTGCTGTTTTTGGTTGAATTTAATGT
1 ATTTGCTGTTTTTGGTTGGATTTCATGT
89212196 AGGAAGGGTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.16, C:0.06, G:0.21, T:0.58
Consensus pattern (31 bp):
ATTTGCTGTTTTTGGTTGGATTTCATGTTAT
Found at i:89217105 original size:22 final size:20
Alignment explanation
Indices: 89217077--89217129 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 20
89217067 GTTCGTGTAA
89217077 TTAAATTGTACATTTATATGTT
1 TTAAATTGTACA--TATATGTT
*
89217099 TTAAATTG-A-ATATTTGTT
1 TTAAATTGTACATATATGTT
89217117 TGTAAATTGTACA
1 T-TAAATTGTACA
89217130 ATTGCCATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 2 0.07
21 2 0.07
22 8 0.30
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (20 bp):
TTAAATTGTACATATATGTT
Found at i:89217298 original size:25 final size:24
Alignment explanation
Indices: 89217270--89217328 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
89217260 TAGCTCAAAT
*
89217270 GAGCTTACCGTTACTCAACTAAGAG
1 GAGCTTACC-TTACTCAACTAAGAA
* * *
89217295 GAGCTTACTCTTATTCAGCTTAGAA
1 GAGCTTAC-CTTACTCAACTAAGAA
89217320 GAGCTTACC
1 GAGCTTACC
89217329 ATTTACAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 1 0.03
25 27 0.93
26 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (24 bp):
GAGCTTACCTTACTCAACTAAGAA
Found at i:89220857 original size:21 final size:21
Alignment explanation
Indices: 89220832--89220901 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
89220822 TATTATAATG
89220832 ATTATTATTGTTTTATATTAA
1 ATTATTATTGTTTTATATTAA
**
89220853 ATTATTATAATTATTA-ATT-A
1 ATTATTATTGTT-TTATATTAA
* * *
89220873 A-CATTATGGTTTTATATTAG
1 ATTATTATTGTTTTATATTAA
89220893 ATTATTATT
1 ATTATTATT
89220902 ATTAGCATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (21 bp):
ATTATTATTGTTTTATATTAA
Found at i:89220913 original size:15 final size:14
Alignment explanation
Indices: 89220887--89220917 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
89220877 TATGGTTTTA
89220887 TATTAGATTATTAT
1 TATTAGATTATTAT
89220901 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
89220916 TA
1 TA
89220918 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:89233065 original size:42 final size:42
Alignment explanation
Indices: 89233018--89233107 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
89233008 ATTTTGTTGA
* * *
89233018 AAAAACGCCGCTAAAGGCCAGGACTTTTAGCGGCGCTTATAT
1 AAAAACGCCGCTAAAGACCAGGACTTATAGCAGCGCTTATAT
* * *
89233060 AAAAACGCCGTTAAAGACCAGGACTTATAGCAGCGCTTTTTT
1 AAAAACGCCGCTAAAGACCAGGACTTATAGCAGCGCTTATAT
89233102 AAAAAC
1 AAAAAC
89233108 TAAAAGTCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCAGGACTTATAGCAGCGCTTATAT
Found at i:89233237 original size:43 final size:42
Alignment explanation
Indices: 89233107--89233239 Score: 185
Period size: 42 Copynumber: 3.1 Consensus size: 42
89233097 TTTTTAAAAA
* *
89233107 CTAAAAGTCTTGTTCTATAATGGCGTTTTATATAAAAAGCGCCG
1 CTAAAAGTCTTGTTCTTTAGTGGCGTTTT-T-TAAAAAGCGCCG
*
89233151 CTAAAAGTCTTGTTCTTTAGTGGCGTTTTTTAAAAAGTGCCG
1 CTAAAAGTCTTGTTCTTTAGTGGCGTTTTTTAAAAAGCGCCG
* * *
89233193 CTAAAAGTCTTGGTCTTTAGCGGCGCTTTTTTAAAAAACGCCG
1 CTAAAAGTCTTGTTCTTTAGTGGCG-TTTTTTAAAAAGCGCCG
89233236 CTAA
1 CTAA
89233240 TTTCCCAGTT
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
42 34 0.42
43 20 0.25
44 27 0.33
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (42 bp):
CTAAAAGTCTTGTTCTTTAGTGGCGTTTTTTAAAAAGCGCCG
Found at i:89238927 original size:62 final size:61
Alignment explanation
Indices: 89238785--89238929 Score: 170
Period size: 61 Copynumber: 2.4 Consensus size: 61
89238775 ATATCTCGAC
* * *
89238785 TTGTAATAGGGC-TACGGCCCAGACTGATACTGATATGGGCTAGGCCCAGTATGCTTTGATA
1 TTGTAATAGGGCTTA-GGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACTCTGATA
* * *
89238846 TTGTAATAGGGTTTTGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGT-TAACTCTGAT-
1 TTGTAATAGGGCTTAGGCCCAGACTAATACTGATATGGGCT-AGGCCCAGTAT-ACTCTGATA
*
89238907 TTCTGAATAGGGCTTAGGCCCAG
1 TTGT-AATAGGGCTTAGGCCCAG
89238930 TAAAGCTTGA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
61 39 0.55
62 32 0.45
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (61 bp):
TTGTAATAGGGCTTAGGCCCAGACTAATACTGATATGGGCTAGGCCCAGTATACTCTGATA
Found at i:89242063 original size:37 final size:38
Alignment explanation
Indices: 89241983--89242096 Score: 117
Period size: 37 Copynumber: 3.0 Consensus size: 38
89241973 CTATGCAGCA
* * *
89241983 GATGCACGGGG-CGAAGGAGATGGAGGCCGAGATGGGTTAC
1 GATGAACGGGGACGAAGGCGATGGAGG--G-GATGGGTTGC
* *
89242023 GATGAAC-GGTACGAAGGCGATGGAGGGGATGGTTTGC
1 GATGAACGGGGACGAAGGCGATGGAGGGGATGGGTTGC
* *
89242060 GATGTACGGGGA-GAAGGCGATGGAGGAGATGGGTTGC
1 GATGAACGGGGACGAAGGCGATGGAGGGGATGGGTTGC
89242097 AATGCACAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
37 37 0.59
38 4 0.06
39 2 0.03
40 20 0.32
ACGTcount: A:0.25, C:0.11, G:0.48, T:0.16
Consensus pattern (38 bp):
GATGAACGGGGACGAAGGCGATGGAGGGGATGGGTTGC
Found at i:89242109 original size:37 final size:37
Alignment explanation
Indices: 89242035--89242110 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
89242025 TGAACGGTAC
* * * * *
89242035 GAAGGCGATGGAGGGGATGGTTTGCGATGTACGGGGA
1 GAAGGCGATGGAGGAGATGGGTTGCAATGCACAGGGA
89242072 GAAGGCGATGGAGGAGATGGGTTGCAATGCACAGGGA
1 GAAGGCGATGGAGGAGATGGGTTGCAATGCACAGGGA
89242109 GA
1 GA
89242111 TTTGGGGGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.09, G:0.49, T:0.16
Consensus pattern (37 bp):
GAAGGCGATGGAGGAGATGGGTTGCAATGCACAGGGA
Found at i:89242955 original size:15 final size:15
Alignment explanation
Indices: 89242932--89242963 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
89242922 AAATAATAAT
89242932 TTATATATATTTATC
1 TTATATATATTTATC
*
89242947 TTATTTATATTTATC
1 TTATATATATTTATC
89242962 TT
1 TT
89242964 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:89243124 original size:18 final size:17
Alignment explanation
Indices: 89243098--89243131 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
89243088 CACTGTAACC
89243098 CCTAAACCAACCATAAAT
1 CCTAAACC-ACCATAAAT
*
89243116 CCTAGACCACCATAAA
1 CCTAAACCACCATAAA
89243132 GCCCAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.35, G:0.03, T:0.15
Consensus pattern (17 bp):
CCTAAACCACCATAAAT
Found at i:89243993 original size:40 final size:38
Alignment explanation
Indices: 89243902--89243993 Score: 87
Period size: 39 Copynumber: 2.3 Consensus size: 38
89243892 TCTGTTTGCT
* * *
89243902 TTTGCAGCGTTTTTATAAAAGCGCCGCTAATTCTGATA
1 TTTGCGGCGTTTTAATAAAAGCGCCACTAATTCTGATA
* * *
89243940 TATGGCGGTGTTTTAAGTAAAA-CGCCACTAATGTTTGATTA
1 T-TTGCGGCGTTTTAA-TAAAAGCGCCACTAAT-TCTGA-TA
89243981 TTTGCGGCGTTTT
1 TTTGCGGCGTTTT
89243994 TTCATAAGCG
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
38 1 0.02
39 19 0.45
40 19 0.45
41 3 0.07
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (38 bp):
TTTGCGGCGTTTTAATAAAAGCGCCACTAATTCTGATA
Found at i:89254578 original size:9 final size:9
Alignment explanation
Indices: 89254546--89254651 Score: 60
Period size: 10 Copynumber: 11.6 Consensus size: 9
89254536 TATTATTATT
89254546 ATTTTGTTAA
1 ATTTT-TTAA
*
89254556 ATTTTTATAT
1 ATTTTT-TAA
89254566 ATTTTTTAGA
1 ATTTTTTA-A
*
89254576 TTTTTTTAA
1 ATTTTTTAA
*
89254585 A-TTTAT-A
1 ATTTTTTAA
89254592 ATTTTTTAA
1 ATTTTTTAA
** *
89254601 A--AATAAA
1 ATTTTTTAA
89254608 ATTTTTTAA
1 ATTTTTTAA
89254617 A-TTTTTAA
1 ATTTTTTAA
89254625 ATTTTTTATAA
1 A-TTTTT-TAA
89254636 ATTATTTTCAA
1 ATT-TTTT-AA
89254647 ATTTT
1 ATTTT
89254652 GAAAATTACT
Statistics
Matches: 73, Mismatches: 12, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
7 6 0.08
8 16 0.22
9 10 0.14
10 29 0.40
11 12 0.16
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:89254578 original size:19 final size:19
Alignment explanation
Indices: 89254541--89254580 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
89254531 GATTTTATTA
89254541 TTATTATTTTGTTAAATTT
1 TTATTATTTTGTTAAATTT
*
89254560 TTATATATTTT-TTAGATTT
1 TTAT-TATTTTGTTAAATTT
89254579 TT
1 TT
89254581 TTAAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTATTATTTTGTTAAATTT
Found at i:89254578 original size:29 final size:26
Alignment explanation
Indices: 89254546--89254599 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 26
89254536 TATTATTATT
89254546 ATTTTGTTAAATTTTTATATATTTTTTAG
1 ATTTTGTTAAA--TTTATA-ATTTTTTAG
*
89254575 ATTTTTTTAAATTTATAATTTTTTA
1 ATTTTGTTAAATTTATAATTTTTTA
89254600 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
27 6 0.25
29 10 0.42
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (26 bp):
ATTTTGTTAAATTTATAATTTTTTAG
Found at i:89254588 original size:19 final size:20
Alignment explanation
Indices: 89254546--89254588 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
89254536 TATTATTATT
*
89254546 ATTTTGTTAAATTTTTATAT
1 ATTTTGTTAAATTTTTATAA
* *
89254566 ATTTT-TTAGATTTTTTTAA
1 ATTTTGTTAAATTTTTATAA
89254585 ATTT
1 ATTT
89254589 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
ATTTTGTTAAATTTTTATAA
Found at i:89254596 original size:16 final size:16
Alignment explanation
Indices: 89254577--89254632 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
89254567 TTTTTTAGAT
89254577 TTTTTTAAATTTATAA
1 TTTTTTAAATTTATAA
** *
89254593 TTTTTTAAAAATAAAA
1 TTTTTTAAATTTATAA
*
89254609 TTTTTTAAATTTTTAAA
1 TTTTTTAAATTTAT-AA
89254626 TTTTTTA
1 TTTTTTA
89254633 TAAATTATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 23 0.72
17 9 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTTAAATTTATAA
Found at i:89265999 original size:53 final size:53
Alignment explanation
Indices: 89265918--89266068 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
89265908 CTTACACGGT
* *
89265918 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
89265973 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
89266026 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
89266069 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:89273027 original size:53 final size:53
Alignment explanation
Indices: 89272969--89273102 Score: 198
Period size: 53 Copynumber: 2.5 Consensus size: 53
89272959 TCATACCAAA
* *
89272969 GCCATATCCCAGAC-ATAGTCTTATACGGAATCACATTATCACATTGTACCGAT
1 GCCATAGCCCAG-CTATAGTCTTATACGGAATCACATTATCACATTGCACCGAT
* *
89273022 GCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGCACCGAT
1 GCCATAGCCCAGCTATAGTCTTATACGGAATCACATTATCACATTGCACCGAT
* *
89273075 GCCATAGCCCAGCTATGGTCTTAAACGG
1 GCCATAGCCCAGCTATAGTCTTATACGG
89273103 GCACACTTAT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
52 1 0.01
53 74 0.99
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (53 bp):
GCCATAGCCCAGCTATAGTCTTATACGGAATCACATTATCACATTGCACCGAT
Found at i:89274135 original size:8 final size:8
Alignment explanation
Indices: 89274119--89274150 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
89274109 CTAGATCGGT
89274119 AAAAGCCG
1 AAAAGCCG
*
89274127 AAAAACCG
1 AAAAGCCG
89274135 AAAAGCCG
1 AAAAGCCG
89274143 AAAAGCCG
1 AAAAGCCG
89274151 GCATGTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.25, G:0.22, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:89274428 original size:27 final size:27
Alignment explanation
Indices: 89274397--89274459 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
89274387 TTTATTAAAC
* *
89274397 TACCCCTAAGTATG-AAAATTACCGTTT
1 TACCCCTAAG-ATGCAAAATGACCGTTA
*
89274424 TACCCCT-AGGTGCAAAATGACCGTTA
1 TACCCCTAAGATGCAAAATGACCGTTA
89274450 TACCCCTAAG
1 TACCCCTAAG
89274460 GTTAATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 2 0.06
26 20 0.65
27 9 0.29
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
TACCCCTAAGATGCAAAATGACCGTTA
Found at i:89277269 original size:46 final size:46
Alignment explanation
Indices: 89277173--89277429 Score: 311
Period size: 46 Copynumber: 5.6 Consensus size: 46
89277163 TGCCATAATG
* ** * *
89277173 TCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGCTGCCATGGTA
* *
89277220 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCAGGCTGCCATGGTA
* * ** * *
89277266 TCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCAGGCTGCCATGGTA
* *
89277312 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCAGGCTGCCATGGTA
* * * * *
89277358 TATTTCAACCATGGTCTTACACGTTTCATATCAGGCCGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCAGGCTGCCATGGTA
89277404 TCTTTCAACCATGGTCTTA-TC-TTTCA
1 TCTTTCAACCATGGTCTTACTCATTTCA
89277430 ACCATGGTCT
Statistics
Matches: 186, Mismatches: 24, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
44 5 0.03
45 1 0.01
46 159 0.85
47 21 0.11
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCAGGCTGCCATGGTA
Found at i:89277399 original size:138 final size:139
Alignment explanation
Indices: 89277173--89277423 Score: 369
Period size: 138 Copynumber: 1.8 Consensus size: 139
89277163 TGCCATAATG
* * ** * * * *
89277173 TCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAGGCTGCCATGGTATATTTCAACCATGGTCTT
** * *
89277238 ATTCATTTCATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTT
66 ACACATTTCATATCACGCCGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTT
89277303 GCCATGGTA
131 GCCATGGTA
89277312 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTATATTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTTACACATTTTCATATCAGGCTGCCATGGTATATTTCAACCATGGTCTT
* *
89277376 ACACGTTTCATATCAGGCCGCCATGGTATCTTTCAACCATGGTCTTAT
66 ACACATTTCATATCACGCCGCCATGGTATCTTTCAACCATGGTCTTAT
89277424 CTTTCAACCA
Statistics
Matches: 98, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
138 77 0.79
139 21 0.21
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.40
Consensus pattern (139 bp):
TCTTTCAACCATGGTCTTACACATTTTCATATCAGGCTGCCATGGTATATTTCAACCATGGTCTT
ACACATTTCATATCACGCCGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTT
GCCATGGTA
Found at i:89277415 original size:16 final size:16
Alignment explanation
Indices: 89277396--89277437 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 16
89277386 TATCAGGCCG
89277396 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
89277412 CCATGGTCTTATCTTTCAA
1 CCATGG---TATCTTTCAA
89277431 CCATGGT
1 CCATGGT
89277438 CTTACACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.30
19 16 0.70
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.38
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:89277426 original size:19 final size:19
Alignment explanation
Indices: 89277402--89277441 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
89277392 GCCGCCATGG
89277402 TATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCT
89277421 TATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCT
89277440 TA
1 TA
89277442 CACATTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (19 bp):
TATCTTTCAACCATGGTCT
Found at i:89277434 original size:65 final size:65
Alignment explanation
Indices: 89277360--89277487 Score: 229
Period size: 65 Copynumber: 2.0 Consensus size: 65
89277350 CCATGGTATA
*
89277360 TTTCAACCATGGTCTTACACGTTTCATATCAGGCCGCCATGGTATCTTTCAACCATGGTCTTATC
1 TTTCAACCATGGTCTTACACATTTCATATCAGGCCGCCATGGTATCTTTCAACCATGGTCTTATC
**
89277425 TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TTTCAACCATGGTCTTACACATTTCATATCAGGCCGCCATGGTATCTTTCAACCATGGTCTTA
89277488 CACATTTCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.37
Consensus pattern (65 bp):
TTTCAACCATGGTCTTACACATTTCATATCAGGCCGCCATGGTATCTTTCAACCATGGTCTTATC
Found at i:89279622 original size:20 final size:19
Alignment explanation
Indices: 89279583--89279633 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
89279573 TTATACTAAA
89279583 TAATTAATAATAA-AATATC
1 TAATTAA-AATAATAATATC
*
89279602 TCATTAAAATAATATATATC
1 TAATTAAAATAATA-ATATC
89279622 TAATT-AAATAAT
1 TAATTAAAATAAT
89279634 CATAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.18
19 14 0.50
20 9 0.32
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATTAAAATAATAATATC
Found at i:89280794 original size:17 final size:18
Alignment explanation
Indices: 89280755--89280801 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
89280745 TGCTGTTATA
* *
89280755 TTTTCTTTTATTTATTTAT
1 TTTTCTTCT-TTTATTTAC
89280774 TTTTCTTCTTTT-TTTAC
1 TTTTCTTCTTTTATTTAC
89280791 TTTTCTTCTTT
1 TTTTCTTCTTT
89280802 CCAAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 3 0.12
19 8 0.31
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTTCTTTTATTTAC
Found at i:89281760 original size:18 final size:18
Alignment explanation
Indices: 89281739--89281820 Score: 53
Period size: 18 Copynumber: 4.3 Consensus size: 18
89281729 AAATCCTTTT
89281739 ATTATTGTAAATCTTTGG
1 ATTATTGTAAATCTTTGG
* *
89281757 ATTATTATATAT-TTTAAGG
1 ATTATTGTAAATCTTT--GG
*
89281776 -TTAATTGTTTTAAATCCTTT-T
1 ATT-ATTG---TAAAT-CTTTGG
89281797 ATTATTGTAAATCTTTGG
1 ATTATTGTAAATCTTTGG
89281815 ATTATT
1 ATTATT
89281821 ATATATTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 20
0.65 0.08 0.27
Matches are distributed among these distances:
17 7 0.15
18 23 0.48
19 5 0.10
21 4 0.08
22 6 0.12
24 3 0.06
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (18 bp):
ATTATTGTAAATCTTTGG
Done.