Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 171 of 210
Found at i:56848701 original size:22 final size:19
Alignment explanation
Indices: 56848676--56848717 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
56848666 TTATAATCAT
56848676 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
56848698 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
56848717 T
1 T
56848718 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:56849256 original size:21 final size:20
Alignment explanation
Indices: 56849232--56849273 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
56849222 TCACACCGCG
56849232 CCTTG-CTACTCGCACCAACAC
1 CCTTGTCTA-TCGCACC-ACAC
56849253 CCTTGTCTATCGCACCACAC
1 CCTTGTCTATCGCACCACAC
56849273 C
1 C
56849274 ATCAAGACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 12 0.60
22 3 0.15
ACGTcount: A:0.21, C:0.48, G:0.10, T:0.21
Consensus pattern (20 bp):
CCTTGTCTATCGCACCACAC
Found at i:56852333 original size:22 final size:22
Alignment explanation
Indices: 56852308--56852356 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
56852298 AATTATGAAC
*
56852308 ATATTGAATTTTAATTAATTTT
1 ATATTAAATTTTAATTAATTTT
* *
56852330 ATATCAAATTTTGATTAATTTT
1 ATATTAAATTTTAATTAATTTT
56852352 -TATTA
1 ATATTA
56852357 TTTTCGACAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
ATATTAAATTTTAATTAATTTT
Found at i:56853219 original size:18 final size:19
Alignment explanation
Indices: 56853196--56853234 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
56853186 ATTTGTGATG
*
56853196 TTAATATG-TTTAATTTAA
1 TTAATATGCTTAAATTTAA
56853214 TTAATATGCTTAAATTTAA
1 TTAATATGCTTAAATTTAA
56853233 TT
1 TT
56853235 CGTGTTACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (19 bp):
TTAATATGCTTAAATTTAA
Found at i:56861303 original size:34 final size:34
Alignment explanation
Indices: 56861232--56861303 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
56861222 AGCATATATT
* * *
56861232 TATACTTATAAACTACAAGTGCCGAATGCACATA
1 TATACTTATAAACCACAAGTGCCGAATACACAGA
* *
56861266 TATACTTATAATCCACATA-TGCCGAATACATAGA
1 TATACTTATAAACCACA-AGTGCCGAATACACAGA
56861300 TATA
1 TATA
56861304 TATATCCAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (34 bp):
TATACTTATAAACCACAAGTGCCGAATACACAGA
Found at i:56861544 original size:41 final size:41
Alignment explanation
Indices: 56861482--56861723 Score: 385
Period size: 41 Copynumber: 5.9 Consensus size: 41
56861472 TTTAAATAAA
*
56861482 TTCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
* * *
56861523 TTCACCGTCACTTAGCTTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
* * *
56861564 ATCACCGACACTTAGCCTGCTAGGCTTATAACCCGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
56861605 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
* * *
56861646 ATCACCGGCACTTAGCCTGCTAAGCTTATAACCCGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
*
56861687 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGAT
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGAT
56861724 AATCTCAGAT
Statistics
Matches: 182, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 182 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAG
Found at i:56861957 original size:64 final size:63
Alignment explanation
Indices: 56861839--56862037 Score: 257
Period size: 64 Copynumber: 3.2 Consensus size: 63
56861829 GCAAACAAAC
*
56861839 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTCAAA-AACTTTGTAACCTA
56861900 T
63 T
56861901 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
* * * *
56861965 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTTATATA--TAT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTA-ACCTAT
56862028 ATTCGAACCA
1 ATTCGAACCA
56862038 TATGTGCATA
Statistics
Matches: 124, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
62 17 0.14
63 15 0.12
64 81 0.65
65 11 0.09
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
Found at i:56866281 original size:15 final size:15
Alignment explanation
Indices: 56866261--56866294 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
56866251 AAAAAATGCC
56866261 ACATATACTTG-TCAT
1 ACATATA-TTGATCAT
56866276 ACATATATTGATCAT
1 ACATATATTGATCAT
56866291 ACAT
1 ACAT
56866295 GATTGAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (15 bp):
ACATATATTGATCAT
Found at i:56866893 original size:20 final size:20
Alignment explanation
Indices: 56866856--56866902 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
56866846 AGCTCGTTTC
*
56866856 CAGCTCACTTGAGCTCAAGTT
1 CAGCTCACTTGAGATCAA-TT
56866877 -AGCTCA-TTCGAGATCAATT
1 CAGCTCACTT-GAGATCAATT
56866896 CAGCTCA
1 CAGCTCA
56866903 ATTTTAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (20 bp):
CAGCTCACTTGAGATCAATT
Found at i:56868460 original size:14 final size:14
Alignment explanation
Indices: 56868442--56868511 Score: 72
Period size: 13 Copynumber: 5.1 Consensus size: 14
56868432 AAAAAATTTC
56868442 GAAAAAAAAAA-AA
1 GAAAAAAAAAAGAA
* *
56868455 GAAAAAAAGAAGTGA
1 GAAAAAAAAAAG-AA
* *
56868470 GCAAAAAAAAAGAG
1 GAAAAAAAAAAGAA
56868484 GAAAAAAAAAAG-A
1 GAAAAAAAAAAGAA
*
56868497 GGAAAAAAAAAGAA
1 GAAAAAAAAAAGAA
56868511 G
1 G
56868512 TGAAAAGTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
13 21 0.47
14 13 0.29
15 11 0.24
ACGTcount: A:0.77, C:0.01, G:0.20, T:0.01
Consensus pattern (14 bp):
GAAAAAAAAAAGAA
Found at i:56868475 original size:27 final size:27
Alignment explanation
Indices: 56868443--56868509 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 27
56868433 AAAAATTTCG
* * *
56868443 AAAAAAAAAAAAGAAAAAAAGAAGTGAGC
1 AAAAAAAAAGAGGAAAAAAA-AA-AGAGC
*
56868472 AAAAAAAAAGAGGAAAAAAAAAAGAGG
1 AAAAAAAAAGAGGAAAAAAAAAAGAGC
56868499 AAAAAAAAAGA
1 AAAAAAAAAGA
56868510 AGTGAAAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 14 0.41
28 2 0.06
29 18 0.53
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (27 bp):
AAAAAAAAAGAGGAAAAAAAAAAGAGC
Found at i:56868517 original size:15 final size:14
Alignment explanation
Indices: 56868442--56868507 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
56868432 AAAAAATTTC
*
56868442 GAAAAAAAAAA-AA
1 GAAAAAAAAAAGAG
* *
56868455 GAAAAAAAGAAGTG
1 GAAAAAAAAAAGAG
*
56868469 AGCAAAAAAAAAGAG
1 -GAAAAAAAAAAGAG
56868484 GAAAAAAAAAAGAG
1 GAAAAAAAAAAGAG
56868498 GAAAAAAAAA
1 GAAAAAAAAA
56868508 GAAGTGAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
13 10 0.23
14 23 0.52
15 11 0.25
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (14 bp):
GAAAAAAAAAAGAG
Found at i:56875406 original size:6 final size:6
Alignment explanation
Indices: 56875395--56875422 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
56875385 AAAGAAAACA
56875395 AACCCT AACCCT AACCCT AACCCT AACC
1 AACCCT AACCCT AACCCT AACCCT AACC
56875423 TAAAACTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (6 bp):
AACCCT
Found at i:56885653 original size:10 final size:10
Alignment explanation
Indices: 56885638--56885664 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
56885628 ATTTATTAAC
56885638 AAACACATTT
1 AAACACATTT
56885648 AAACACATTT
1 AAACACATTT
56885658 AAACACA
1 AAACACA
56885665 CTAAACTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (10 bp):
AAACACATTT
Found at i:56885746 original size:20 final size:20
Alignment explanation
Indices: 56885712--56885753 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
56885702 ATTTATTAAC
*
56885712 AAACACATTAAAACACATTA
1 AAACACATTAAAACACACTA
**
56885732 AAACACATTTTAACACACTA
1 AAACACATTAAAACACACTA
56885752 AA
1 AA
56885754 CTTAATAAGC
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:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (20 bp):
AAACACATTAAAACACACTA
Found at i:56885748 original size:10 final size:10
Alignment explanation
Indices: 56885712--56885740 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
56885702 ATTTATTAAC
56885712 AAACACATTA
1 AAACACATTA
56885722 AAACACATTA
1 AAACACATTA
56885732 AAACACATT
1 AAACACATT
56885741 TTAACACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (10 bp):
AAACACATTA
Found at i:56885882 original size:34 final size:34
Alignment explanation
Indices: 56885840--56885913 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
56885830 GTTGTTCTAG
*
56885840 CAATTAAATAAACT-AAGATAAGCATTTATTCCAA
1 CAATTAAATAAA-TAAAGATAAGAATTTATTCCAA
56885874 CAATTAAATAAATAAAGATAAGAATTTATTCCAA
1 CAATTAAATAAATAAAGATAAGAATTTATTCCAA
*
56885908 AAATTA
1 CAATTA
56885914 TTAACTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 1 0.03
34 36 0.97
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (34 bp):
CAATTAAATAAATAAAGATAAGAATTTATTCCAA
Found at i:56887362 original size:21 final size:22
Alignment explanation
Indices: 56887338--56887391 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
56887328 CCGTTGATTG
56887338 GTTTATCCACA-AATTTGAGCA
1 GTTTATCCACATAATTTGAGCA
** **
56887359 GTTTATCTGCATCGTTTGAGCA
1 GTTTATCCACATAATTTGAGCA
56887381 GTTTATCCACA
1 GTTTATCCACA
56887392 CTGTTGAGTG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (22 bp):
GTTTATCCACATAATTTGAGCA
Found at i:56887469 original size:62 final size:62
Alignment explanation
Indices: 56887397--56887541 Score: 173
Period size: 62 Copynumber: 2.3 Consensus size: 62
56887387 CCACACTGTT
* * *
56887397 GAGTGATTTATCCACACCATATTAACAAATTTTATCTGCAAACTCGTTGTGCATTCACAACC
1 GAGTGGTTTATCCACACCATATTAACAAATTTTATCTGCAAACCCGTTATGCATTCACAACC
* * *** * ** *
56887459 GAGTGGTTTATCTATATTGTATTAGCAGCTTTTATCTGCAAACCCGTTATGCATTCATAACC
1 GAGTGGTTTATCCACACCATATTAACAAATTTTATCTGCAAACCCGTTATGCATTCACAACC
*
56887521 TAGTGGTTTATCCACACCATA
1 GAGTGGTTTATCCACACCATA
56887542 CAAGTAGCTT
Statistics
Matches: 65, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (62 bp):
GAGTGGTTTATCCACACCATATTAACAAATTTTATCTGCAAACCCGTTATGCATTCACAACC
Found at i:56889466 original size:11 final size:11
Alignment explanation
Indices: 56889450--56889499 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
56889440 TCAATTATTT
56889450 TCTCAATTTCC
1 TCTCAATTTCC
*
56889461 TCTCAATTTGC
1 TCTCAATTTCC
56889472 TCTCAATTTCC
1 TCTCAATTTCC
*
56889483 TTCTAAATTT-C
1 -TCTCAATTTCC
56889494 TCTCAA
1 TCTCAA
56889500 ATCCATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 5 0.15
11 21 0.62
12 8 0.24
ACGTcount: A:0.22, C:0.30, G:0.02, T:0.46
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:56889478 original size:22 final size:22
Alignment explanation
Indices: 56889446--56889499 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
56889436 TCTCTCAATT
*
56889446 ATTT-TCTCAATTTCC-TCTCA
1 ATTTCTCTCAATTTCCTTCTAA
56889466 ATTTGCTCTCAATTTCCTTCTAA
1 ATTT-CTCTCAATTTCCTTCTAA
56889489 ATTTCTCTCAA
1 ATTTCTCTCAA
56889500 ATCCATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 4 0.13
22 18 0.60
23 8 0.27
ACGTcount: A:0.22, C:0.28, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTTCTAA
Found at i:56890718 original size:7 final size:7
Alignment explanation
Indices: 56890706--56890738 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
56890696 TAGTCGATTG
56890706 GTATTTA
1 GTATTTA
56890713 GTATTTA
1 GTATTTA
56890720 GTATTTA
1 GTATTTA
56890727 GTATTTA
1 GTATTTA
56890734 GTATT
1 GTATT
56890739 ATGTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:56891959 original size:12 final size:12
Alignment explanation
Indices: 56891938--56891968 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
56891928 TATAAATTTA
*
56891938 TAATTTATAATT
1 TAATTGATAATT
56891950 TAATTGATAATT
1 TAATTGATAATT
56891962 TAATTGA
1 TAATTGA
56891969 CAAACCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (12 bp):
TAATTGATAATT
Found at i:56892016 original size:70 final size:71
Alignment explanation
Indices: 56891924--56892066 Score: 234
Period size: 70 Copynumber: 2.0 Consensus size: 71
56891914 ATTTATTAAA
* *
56891924 AATTTATAAATTTATAATTTATAATTTAATTGATAATTTAATTGACAAACCCTAACAAAAACCCT
1 AATTTATAAATTTATAATTTATAATTAAATTGATAATTTAATTGACAAAACCTAACAAAAACCCT
56891989 AACCCT
66 AACCCT
* * *
56891995 AATTTATAAA-TTATAATTTATAATTAAATTTATAATTTGATTGACAAAACCTAACAAAAACTCT
1 AATTTATAAATTTATAATTTATAATTAAATTGATAATTTAATTGACAAAACCTAACAAAAACCCT
56892059 AACCCT
66 AACCCT
56892065 AA
1 AA
56892067 CCTTTAACTT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
70 57 0.85
71 10 0.15
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (71 bp):
AATTTATAAATTTATAATTTATAATTAAATTGATAATTTAATTGACAAAACCTAACAAAAACCCT
AACCCT
Found at i:56892026 original size:12 final size:13
Alignment explanation
Indices: 56891994--56892031 Score: 60
Period size: 12 Copynumber: 2.9 Consensus size: 13
56891984 ACCCTAACCC
56891994 TAATTTATAAATTA
1 TAATTTAT-AATTA
56892008 TAATTTATAATTA
1 TAATTTATAATTA
56892021 -AATTTATAATT
1 TAATTTATAATT
56892032 TGATTGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.46
13 5 0.21
14 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TAATTTATAATTA
Found at i:56892031 original size:7 final size:7
Alignment explanation
Indices: 56891994--56892032 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
56891984 ACCCTAACCC
56891994 TAATTTA
1 TAATTTA
*
56892001 TAAATTA
1 TAATTTA
56892008 TAATTTA
1 TAATTTA
56892015 TAA-TTA
1 TAATTTA
56892021 -AATTTA
1 TAATTTA
56892027 TAATTT
1 TAATTT
56892033 GATTGACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 2 0.07
6 6 0.21
7 20 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TAATTTA
Found at i:56892085 original size:21 final size:21
Alignment explanation
Indices: 56892059--56892320 Score: 331
Period size: 21 Copynumber: 12.5 Consensus size: 21
56892049 CAAAAACTCT
*
56892059 AACCCTAACCTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
56892080 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
56892102 AACCCTAA-CCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
56892122 AA-CTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
56892143 AACCCTAACCCTTAACTT-AA
1 AACCCTAACCCTTAACTTAAA
**
56892163 AACCC--ACAATTAATACCTTAAA
1 AACCCTAACCCTT-A-A-CTTAAA
*
56892185 AAACCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
56892206 AACCCTAACCCCTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
56892227 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
56892249 AACCCTAA-CCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
56892269 AA-CTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
56892290 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
56892311 AACCCTAACC
1 AACCCTAACC
56892321 GTAACCCTTA
Statistics
Matches: 210, Mismatches: 17, Indels: 28
0.82 0.07 0.11
Matches are distributed among these distances:
18 4 0.02
19 5 0.02
20 38 0.18
21 107 0.51
22 51 0.24
23 1 0.00
24 4 0.02
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:56892292 original size:15 final size:15
Alignment explanation
Indices: 56892274--56892355 Score: 64
Period size: 15 Copynumber: 5.3 Consensus size: 15
56892264 TTTAAAACTT
56892274 AAACCCTTAACTTAA
1 AAACCCTTAACTTAA
56892289 AAACCCTAACCCTTAACTTAA
1 AAACCCT------TAACTTAA
*
56892310 AAACCC-TAACCGT--
1 AAACCCTTAA-CTTAA
56892323 AA-CCCTTAACTTAA
1 AAACCCTTAACTTAA
56892337 AAACCCTTAACTTAA
1 AAACCCTTAACTTAA
56892352 AAAC
1 AAAC
56892356 ACTAAAACCC
Statistics
Matches: 54, Mismatches: 2, Indels: 22
0.69 0.03 0.28
Matches are distributed among these distances:
12 5 0.09
13 5 0.09
14 5 0.09
15 25 0.46
21 14 0.26
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.23
Consensus pattern (15 bp):
AAACCCTTAACTTAA
Found at i:56892325 original size:27 final size:27
Alignment explanation
Indices: 56892290--56892343 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
56892280 TTAACTTAAA
56892290 AACCCTAACCCTTAACTTAAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCT
*
56892317 AACCGTAACCCTTAACTTAAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCT
56892344 TAACTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (27 bp):
AACCCTAACCCTTAACTTAAAAACCCT
Found at i:56892341 original size:63 final size:61
Alignment explanation
Indices: 56892085--56892360 Score: 212
Period size: 63 Copynumber: 4.4 Consensus size: 61
56892075 TTAAAAACCC
* * *
56892085 TAAACCCTTAACTTAAAAACCCTAA-CCTTAACTTTAAAA-CTTAAACCCTTAA-CTTAAAAACC
1 TAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AA-CCGTAACCTT--AAA-C
*
56892147 C
61 T
** * *
56892148 T-AACCCTTAACTT-AAAACCC--ACAATTAATACCTTAAAAAACCTAACCCTTAA-CTTAAAAA
1 TAAACCCTTAACTTAAAAACCCTAACCCTT-A-A-CTTAAAAACCCTAA-CCGTAACCTT--AAA
*
56892208 CCC
60 -CT
* * *
56892211 T-AACCCCTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTTAACTTTAAAACT
1 TAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACCGTAACCTT-AAACT
56892273 TAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCGTAACCCTT-AACT
1 TAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCGTAA-CCTTAAACT
*
56892334 TAAAAACCCTTAACTTAAAAACACTAA
1 T--AAACCCTTAACTTAAAAACCCTAA
56892361 AACCCTAATT
Statistics
Matches: 185, Mismatches: 14, Indels: 28
0.81 0.06 0.12
Matches are distributed among these distances:
59 1 0.01
60 2 0.01
61 13 0.07
62 43 0.23
63 96 0.52
64 24 0.13
65 1 0.01
66 1 0.01
67 4 0.02
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (61 bp):
TAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCGTAACCTTAAACT
Found at i:56892345 original size:84 final size:81
Alignment explanation
Indices: 56892059--56892355 Score: 268
Period size: 84 Copynumber: 3.5 Consensus size: 81
56892049 CAAAAACTCT
* * *
56892059 AACCCT-AACCTTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AA-CCTTAACTTTA
1 AACCCTAAACCCTTAACTTAAAAA-CC---A-CCTTAACTTAAAAA-CTTAAACCCTTAACTTAA
* *
56892121 AAA-CTTAAACCCTTAACTTAAA
60 AAACCCT-AACCCCTAACTTAAA
* * *
56892143 AACCCT-AACCCTTAACTTAAAACCCACAATTAATACCTTAAAAAACCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCAC-CTT-A-A-CTT-AAAAACTTAAACCCTTAACTTAAA
56892206 AACCCTAACCCCTAACTTAAA
61 AACCCTAACCCCTAACTTAAA
*
56892227 AACCCTAAACCCTTAACTTAAAAACCCTAACCTTAACTTTAAAACTTAAACCCTTAACTTAAAAA
1 AACCCTAAACCCTTAACTTAAAAA-CC--ACCTTAACTTAAAAACTTAAACCCTTAACTTAAAAA
*
56892292 CCCTAACCCTTAACTTAAA
63 CCCTAACCCCTAACTTAAA
56892311 AACCCTAACCGTAACCCTTAACTTAAAAA-C-CCTTAACTTAAAAAC
1 AACCCT-A----AACCCTTAACTTAAAAACCACCTTAACTTAAAAAC
56892356 ACTAAAACCC
Statistics
Matches: 184, Mismatches: 12, Indels: 34
0.80 0.05 0.15
Matches are distributed among these distances:
79 1 0.01
80 3 0.02
81 1 0.01
82 1 0.01
83 16 0.09
84 117 0.64
85 20 0.11
86 3 0.02
87 3 0.02
88 2 0.01
89 17 0.09
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.25
Consensus pattern (81 bp):
AACCCTAAACCCTTAACTTAAAAACCACCTTAACTTAAAAACTTAAACCCTTAACTTAAAAACCC
TAACCCCTAACTTAAA
Found at i:56892577 original size:35 final size:35
Alignment explanation
Indices: 56892419--56892581 Score: 107
Period size: 35 Copynumber: 4.5 Consensus size: 35
56892409 ATATAATTTG
*
56892419 ATAAATTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAATTAATACAATTAACAATTA
* * ** * * *
56892454 ATAATTTGACTAACAAAATGTTAGATTTTACAA--A
1 ATAATTTTACTAAC-AATTAATACAATTAACAATTA
* * * *
56892488 ATATTTTGACTGGTACTAACAATTAATA-ATTTGATATAATTTG
1 ATA-ATT---T--TACTAACAATTAATACAATT-A-ACAA-TTA
56892531 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAATTAATACAATTAACAATTA
56892566 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
56892582 AATGTTAGAT
Statistics
Matches: 95, Mismatches: 20, Indels: 26
0.67 0.14 0.18
Matches are distributed among these distances:
34 4 0.04
35 32 0.34
36 15 0.16
37 16 0.17
38 8 0.08
39 6 0.06
40 9 0.09
42 2 0.02
43 3 0.03
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (35 bp):
ATAATTTTACTAACAATTAATACAATTAACAATTA
Found at i:56892604 original size:112 final size:112
Alignment explanation
Indices: 56892402--56892615 Score: 383
Period size: 112 Copynumber: 1.9 Consensus size: 112
56892392 AACCTAACCC
56892402 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
1 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
56892467 CAAAATGTTAGATTTTACAAAATATTTTGACTGGTACTAACAATTAA
66 CAAAATGTTAGATTTTACAAAATATTTTGACTGGTACTAACAATTAA
* * *
56892514 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAA
1 TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
* *
56892579 CAAAATGTTAGATTTTCCAAAATATTTTGATTGGTAC
66 CAAAATGTTAGATTTTACAAAATATTTTGACTGGTAC
56892616 AAAAAAATAT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 97 1.00
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (112 bp):
TAATATGATATAATTTGATAAATTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
CAAAATGTTAGATTTTACAAAATATTTTGACTGGTACTAACAATTAA
Found at i:56896001 original size:125 final size:125
Alignment explanation
Indices: 56895614--56896054 Score: 710
Period size: 125 Copynumber: 3.5 Consensus size: 125
56895604 CCCAAACATG
* *
56895614 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
56895679 TTGAAGCGTTTTTTATACTATTTACTCAGAAACGTCAACTCTCAAAATTA--TTTTCAGGAC
66 TTGAAGCATTTTTTATACTATTTTCTCAGAAACGTCAA--CTCAAAATTATTTTTTCAGGAC
* *
56895739 CTACTGTAGCAAAAGTGCATCCACGTGGGCGCAATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
56895804 TTGAAGCA-CTTTTATACTATTTGT-TCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCATTTTTTATACTATTT-TCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
*
56895863 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCAAAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
56895928 CTGAAGCATTTTTTATACTATTTTCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAGCATTTTTTATACTATTTTCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
* * *
56895988 CTACTGTAGCAAAAGCGCGTCCACATGGGCGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCAGAAATTCTTCTGATAAAGCATCCTGC
56896053 TT
66 TT
56896055 TGATTTTATA
Statistics
Matches: 292, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
122 9 0.03
124 106 0.36
125 177 0.61
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCAATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCATTTTTTATACTATTTTCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
Found at i:56897300 original size:9 final size:9
Alignment explanation
Indices: 56897286--56897330 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
56897276 TTACAATTAC
56897286 AATTATAAT
1 AATTATAAT
*
56897295 AATTATCAT
1 AATTATAAT
56897304 AATTA-ATAT
1 AATTATA-AT
*
56897313 AATTAGAAT
1 AATTATAAT
56897322 AATTATAAT
1 AATTATAAT
56897331 TTGAACAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 30 0.97
10 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (9 bp):
AATTATAAT
Found at i:56897528 original size:23 final size:25
Alignment explanation
Indices: 56897492--56897539 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
56897482 GTGAGAAGTG
56897492 AAATGATAGAATTTAATT-TTTAAAA
1 AAATGATAGAATTT-ATTATTTAAAA
56897517 AAATG-TA-AATTTATTATTTAAAA
1 AAATGATAGAATTTATTATTTAAAA
56897540 GTAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 3 0.14
23 12 0.55
24 2 0.09
25 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (25 bp):
AAATGATAGAATTTATTATTTAAAA
Found at i:56898196 original size:20 final size:20
Alignment explanation
Indices: 56898173--56898211 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56898163 AGTTAATAAG
56898173 TGATATACTTTCATAATTTA
1 TGATATACTTTCATAATTTA
*
56898193 TGATATATTTTCATAATTT
1 TGATATACTTTCATAATTT
56898212 TTTGCATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (20 bp):
TGATATACTTTCATAATTTA
Found at i:56898544 original size:21 final size:19
Alignment explanation
Indices: 56898514--56898762 Score: 146
Period size: 20 Copynumber: 12.6 Consensus size: 19
56898504 TTCTTTACTT
*
56898514 CCTCAAATTTTTTGATATTC
1 CCTCATATTTTTTG-TATTC
56898534 CCTCATCATTTTTTGATATTC
1 CCTCAT-ATTTTTTG-TATTC
56898555 CCTCATAATTTTTTGTATTC
1 CCTCAT-ATTTTTTGTATTC
* * *
56898575 TCTCATAATTTTTAGTATTT
1 CCTCAT-ATTTTTTGTATTC
* * * *
56898595 TCTCATATTTCTGGTATTA
1 CCTCATATTTTTTGTATTC
**
56898614 CAACATATTTTTTGTACTT-
1 CCTCATATTTTTTGTA-TTC
*
56898633 CCTCATATTTTTTTATATTC
1 CCTCATA-TTTTTTGTATTC
* *
56898653 CTTCATGATTTTTTTTTACTT-
1 CCTCAT-A-TTTTTTGTA-TTC
* *
56898674 TCTCATAAATTTTTGTATTC
1 CCTCAT-ATTTTTTGTATTC
* * *
56898694 TCTCATAATTTTGGTATTC
1 CCTCATATTTTTTGTATTC
* * * *
56898713 TCT-AAATTTTTGGTATTTT
1 CCTCATATTTTTTGTA-TTC
56898732 CC-CATAATTTTTTGTATTC
1 CCTCAT-ATTTTTTGTATTC
*
56898751 TCTCATATTTTT
1 CCTCATATTTTT
56898763 ATATTTTTTT
Statistics
Matches: 186, Mismatches: 32, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
18 10 0.05
19 58 0.31
20 73 0.39
21 43 0.23
22 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.06, T:0.57
Consensus pattern (19 bp):
CCTCATATTTTTTGTATTC
Found at i:56898646 original size:99 final size:100
Alignment explanation
Indices: 56898520--56898711 Score: 245
Period size: 99 Copynumber: 1.9 Consensus size: 100
56898510 ACTTCCTCAA
56898520 ATTTTTTGATATTCCCTCATCATTTTTTGATATTCCCTCAT-AATTTTTTGTA-TTCTCTCAT-A
1 ATTTTTTGATATTCCCTCATCATTTTTT-ATATTCCCTCATGAATTTTTTGTACTT-TCTCATAA
*
56898582 ATTTTTAGTATTTTCTCAT-ATTTCTGGTATTACAACAT
64 ATTTTT-GTATTCTCTCATAATTT-TGGTATTACAACAT
* * *
56898620 ATTTTTTG-TACTT-CCTCAT-ATTTTTTTATATTCCTTCATGATTTTTTTTTACTTTCTCATAA
1 ATTTTTTGATA-TTCCCTCATCA-TTTTTTATATTCCCTCATGAATTTTTTGTACTTTCTCATAA
56898682 ATTTTTGTATTCTCTCATAATTTTGGTATT
64 ATTTTTGTATTCTCTCATAATTTTGGTATT
56898712 CTCTAAATTT
Statistics
Matches: 82, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
98 12 0.15
99 47 0.57
100 23 0.28
ACGTcount: A:0.21, C:0.16, G:0.06, T:0.57
Consensus pattern (100 bp):
ATTTTTTGATATTCCCTCATCATTTTTTATATTCCCTCATGAATTTTTTGTACTTTCTCATAAAT
TTTTGTATTCTCTCATAATTTTGGTATTACAACAT
Found at i:56898653 original size:119 final size:118
Alignment explanation
Indices: 56898509--56898762 Score: 309
Period size: 119 Copynumber: 2.1 Consensus size: 118
56898499 CTTTTTTCTT
* *
56898509 TACTTCCTCAAATTTTTTGATATTCCCTCATCATTTTTTGATA-TTCCCTCATAATTTTTTGTAT
1 TACTTCCTCATATTTTTTGATATTCCCTCATCATTTTTTGATACTT-CCTCATAAATTTTTGTAT
* *
56898573 TCTCTCATAATTTTTAGTATTTTCTCATATTTCTGGTA-TTACAACAT-ATTTTTTG
65 TCTCTCATAA-TTTTAGTATTCTCT-AAATTTCTGGTATTTAC-ACATAATTTTTTG
* * * ** *
56898628 TACTTCCTCATATTTTTTTATATTCCTTCATGATTTTTTTTTACTTTCTCATAAATTTTTGTATT
1 TACTTCCTCATATTTTTTGATATTCCCTCATCATTTTTTGATACTTCCTCATAAATTTTTGTATT
* * * *
56898693 CTCTCATAATTTTGGTATTCTCTAAATTTTTGGTATTTTCCCATAATTTTTTG
66 CTCTCATAATTTTAGTATTCTCTAAATTTCTGGTATTTACACATAATTTTTTG
56898746 TA-TTCTCTCATATTTTT
1 TACTTC-CTCATATTTTT
56898763 ATATTTTTTT
Statistics
Matches: 117, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
117 16 0.14
118 36 0.31
119 63 0.54
120 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.06, T:0.57
Consensus pattern (118 bp):
TACTTCCTCATATTTTTTGATATTCCCTCATCATTTTTTGATACTTCCTCATAAATTTTTGTATT
CTCTCATAATTTTAGTATTCTCTAAATTTCTGGTATTTACACATAATTTTTTG
Found at i:56898705 original size:41 final size:40
Alignment explanation
Indices: 56898500--56898705 Score: 147
Period size: 41 Copynumber: 5.1 Consensus size: 40
56898490 CTTTTTTTTC
* *
56898500 TTTTTTCTTTACTTCCTCA-AATTTTTTGATATTCCCTCATCA
1 TTTTTT-TGTACTTCCTCATAATTTTTTG-TATT-CCTCATAA
56898542 -TTTTTTGATA-TTCCCTCATAATTTTTTGTATTCTCTCATAA
1 TTTTTTTG-TACTT-CCTCATAATTTTTTGTATTC-CTCATAA
* * * * * **
56898583 -TTTTTAGTATTTTCTCAT-ATTTCTGGTATTACAACAT-A
1 TTTTTTTGTACTTCCTCATAATTTTTTGTATT-CCTCATAA
* * *
56898621 -TTTTTTGTACTTCCTCATATTTTTTTATATTCCTTCATGA
1 TTTTTTTGTACTTCCTCATAATTTTTTGTATTCC-TCATAA
* * *
56898661 TTTTTTTTTACTTTCTCATAAATTTTTGTATTCTCTCATAA
1 TTTTTTTGTACTTCCTCATAATTTTTTGTATTC-CTCATAA
56898702 TTTT
1 TTTT
56898706 GGTATTCTCT
Statistics
Matches: 130, Mismatches: 23, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
38 17 0.13
39 24 0.18
40 13 0.10
41 66 0.51
42 10 0.08
ACGTcount: A:0.21, C:0.17, G:0.04, T:0.58
Consensus pattern (40 bp):
TTTTTTTGTACTTCCTCATAATTTTTTGTATTCCTCATAA
Found at i:56898729 original size:37 final size:37
Alignment explanation
Indices: 56898673--56898767 Score: 111
Period size: 37 Copynumber: 2.5 Consensus size: 37
56898663 TTTTTTTACT
*
56898673 TTCTCATAAATTTTTGTATTCTCTCATAA-TTTTGGTA
1 TTCTC-TAAATTTTTGTATTCTCCCATAATTTTTGGTA
* *
56898710 TTCTCTAAATTTTTGGTATTTTCCCATAATTTTTTGTA
1 TTCTCTAAATTTTT-GTATTCTCCCATAATTTTTGGTA
* *
56898748 TTCTCTCATATTTTTATATT
1 TTCTCT-AAATTTTTGTATT
56898768 TTTTTGTACT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
36 9 0.18
37 17 0.34
38 17 0.34
39 7 0.14
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (37 bp):
TTCTCTAAATTTTTGTATTCTCCCATAATTTTTGGTA
Found at i:56898742 original size:99 final size:98
Alignment explanation
Indices: 56898517--56898762 Score: 240
Period size: 99 Copynumber: 2.5 Consensus size: 98
56898507 TTTACTTCCT
*
56898517 CAAATTTTTTGATA-TTCCCTCATCATTTTTTGATATTCCCTCATAATTTTTTGTATTCTCTCAT
1 CAAA-TTTTTGGTACTT-CCTCAT-ATTTTTTGATATTCCCTCATAATTTTTTGTATTCTCTCAT
*
56898581 AATTTTTAGTATTTTCTCATATTTCTGGTATTACAA
63 AATTTTTAGTATTCTCTCATATTTCTGGTATTACAA
* * * * * *
56898617 CATATTTTTTGTACTTCCTCATATTTTTTTATATTCCTTCATGATTTTTTTTTACTT-TCTCATA
1 CAAATTTTTGGTACTTCCTCATATTTTTTGATATTCCCTCAT-AATTTTTTGTA-TTCTCTCAT-
*
56898681 AATTTTT-GTATTCTCTCATAATTT-TGGTATT-C-T
63 AATTTTTAGTATTCTCTCAT-ATTTCTGGTATTACAA
* *
56898714 CTAAATTTTTGGTATTTTCC-CATAATTTTTTG-TATTCTCTCAT-ATTTTT
1 C-AAATTTTTGGTA-CTTCCTCAT-ATTTTTTGATATTCCCTCATAATTTTT
56898763 ATATTTTTTT
Statistics
Matches: 122, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
96 5 0.04
97 1 0.01
98 41 0.34
99 57 0.47
100 18 0.15
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.57
Consensus pattern (98 bp):
CAAATTTTTGGTACTTCCTCATATTTTTTGATATTCCCTCATAATTTTTTGTATTCTCTCATAAT
TTTTAGTATTCTCTCATATTTCTGGTATTACAA
Found at i:56899049 original size:19 final size:18
Alignment explanation
Indices: 56899027--56899068 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
56899017 ATATTTCATG
*
56899027 AAAATTTTAATAAAATGTAA
1 AAAATTTAAAT-AAATG-AA
56899047 AAAA-TTAAATAAATGAA
1 AAAATTTAAATAAATGAA
56899064 AAAAT
1 AAAAT
56899069 CTTTTTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 6 0.30
18 5 0.25
19 5 0.25
20 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
AAAATTTAAATAAATGAA
Found at i:56899520 original size:20 final size:21
Alignment explanation
Indices: 56899497--56899549 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
56899487 TTAGTTCTCT
56899497 CTCATAATTTTTGGCACT-TC-
1 CTCATAATTTTTGGCA-TATCA
* *
56899517 CTCATATTTTTTGGTATATCA
1 CTCATAATTTTTGGCATATCA
56899538 CTCATAATTTTT
1 CTCATAATTTTT
56899550 AAACATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 16 0.57
21 11 0.39
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.51
Consensus pattern (21 bp):
CTCATAATTTTTGGCATATCA
Found at i:56899757 original size:19 final size:20
Alignment explanation
Indices: 56899715--56899757 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
56899705 GAAAGACTGT
* *
56899715 AAAATATTGGTTTATCTTAT
1 AAAATATTGCTTTATCTTAA
*
56899735 AAAAT-TTGCTTTATTTTAA
1 AAAATATTGCTTTATCTTAA
56899754 AAAA
1 AAAA
56899758 ATCAATTTAT
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:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
AAAATATTGCTTTATCTTAA
Found at i:56902562 original size:16 final size:15
Alignment explanation
Indices: 56902543--56902588 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
56902533 CTATAATCTA
*
56902543 AACAGAATTTAATAGT
1 AACA-AATTTAATAAT
56902559 AACACAATTTAATAAT
1 AACA-AATTTAATAAT
56902575 AACAAATTTTAATA
1 AACAAA-TTTAATA
56902589 CTTGAGTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 2 0.07
16 25 0.93
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (15 bp):
AACAAATTTAATAAT
Found at i:56905213 original size:17 final size:17
Alignment explanation
Indices: 56905187--56905219 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56905177 TGGTCCGATT
*
56905187 AAAAATATTAAAAATTA
1 AAAAAAATTAAAAATTA
56905204 AAAAAAATTAAAAATT
1 AAAAAAATTAAAAATT
56905220 CGATTCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAAATTAAAAATTA
Found at i:56907879 original size:25 final size:26
Alignment explanation
Indices: 56907844--56907892 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
56907834 TCGAAAGCTC
56907844 ATATTACTTTTA-TAATAATTTTAAA
1 ATATTACTTTTATTAATAATTTTAAA
* *
56907869 ATATTATTTTTATTAATATTTTTA
1 ATATTACTTTTATTAATAATTTTA
56907893 TATATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
ATATTACTTTTATTAATAATTTTAAA
Found at i:56908988 original size:112 final size:111
Alignment explanation
Indices: 56908872--56909074 Score: 239
Period size: 112 Copynumber: 1.8 Consensus size: 111
56908862 ATTTTTATAA
* * * *
56908872 TATATTTAAGTTATTAATTGAGTT-ATTATTACGAGTTAATTCAATATTAATTTAGCTTAAAAAA
1 TATATTTAAGTTACTAATTGAATTGA-TATTACGAGTAAATTCAATATCAATTTAGC-TAAAAAA
*
56908936 TAACTAAAATA-TTATTTTATATACAAAGTAAATTATATTAATGTGTAT
64 TAACTAAAATACAT-TTTTATATACAAAGTAAATTATATTAATGTGTAT
* * * *** * *
56908984 TATATTTACGTTGCTAATTGAATTGATGTTACGAGTAAATTGTGTATCAATTTAGCTGAGAAATA
1 TATATTTAAGTTACTAATTGAATTGATATTACGAGTAAATTCAATATCAATTTAGCTAAAAAATA
*
56909049 ATTAAAATACATTTTTATATACAAAG
66 ACTAAAATACATTTTTATATACAAAG
56909075 CGAGTTATAT
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
111 29 0.39
112 45 0.60
113 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.42
Consensus pattern (111 bp):
TATATTTAAGTTACTAATTGAATTGATATTACGAGTAAATTCAATATCAATTTAGCTAAAAAATA
ACTAAAATACATTTTTATATACAAAGTAAATTATATTAATGTGTAT
Found at i:56910042 original size:41 final size:41
Alignment explanation
Indices: 56909977--56910163 Score: 304
Period size: 41 Copynumber: 4.6 Consensus size: 41
56909967 CCTTTTGGGG
**
56909977 CTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
*
56910018 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
* * *
56910059 CTTTAGCGGCGTTTCT-GAGAAAGCGCCGCTAAAGCTCAGGT
1 CTTTAGCGGCGTTTTTGGA-AAAGCGCCGCTAATGCTCTGGT
56910100 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
56910141 CTTTAGCGGCGTTTTTGGAAAAG
1 CTTTAGCGGCGTTTTTGGAAAAG
56910164 TGTCGCAAAA
Statistics
Matches: 134, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
40 2 0.01
41 130 0.97
42 2 0.01
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGT
Found at i:56910535 original size:14 final size:15
Alignment explanation
Indices: 56910509--56910541 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
56910499 AAGGTTTATA
56910509 GATTATGGAATTAGG
1 GATTATGGAATTAGG
*
56910524 GATTAT-GAATTATG
1 GATTATGGAATTAGG
56910538 GATT
1 GATT
56910542 GTGGTTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.39
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:56910693 original size:7 final size:7
Alignment explanation
Indices: 56910678--56910715 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
56910668 TAAATAAAGT
56910678 TTAGGGG
1 TTAGGGG
*
56910685 TTAGTGG
1 TTAGGGG
56910692 TTAGGGG
1 TTAGGGG
56910699 TTAGGGG
1 TTAGGGG
*
56910706 TTAGAGG
1 TTAGGGG
56910713 TTA
1 TTA
56910716 AGAGTTAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:56910696 original size:131 final size:132
Alignment explanation
Indices: 56910561--56910802 Score: 337
Period size: 131 Copynumber: 1.8 Consensus size: 132
56910551 GGGTTGTGAT
* * * *
56910561 TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAATG-TTTATAGATT-TAGTGT-TAGT
1 TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTT-AGGATTTAGAGATTCGAG-GTCGAGT
** *
56910623 TAGGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATCTATATATTAAATAAAGTTTAGGGGTTA
64 TAGGGTTTAAAGTTTAAATTAATTAGTATTTTTTAATCTATATATTAAATAAAGTTTAGGGGTTA
56910688 GTGG
129 GTGG
* * *
56910692 TTAGGGGTTAGGGGTTAGAGGTTAAGAGTTAGTGATTTAGGATTTAGAGATTCGAGGTCGGGTTA
1 TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAGGATTTAGAGATTCGAGGTCGAGTTA
* *
56910757 GGGTTTAAAGTTTAAATTAATTAGTATTTTTTAATTTATGTATTAA
66 GGGTTTAAAGTTTAAATTAATTAGTATTTTTTAATCTATATATTAA
56910803 TTAAGTTCTT
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
130 2 0.02
131 47 0.49
132 47 0.49
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.42
Consensus pattern (132 bp):
TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGGGATTTAGGATTTAGAGATTCGAGGTCGAGTTA
GGGTTTAAAGTTTAAATTAATTAGTATTTTTTAATCTATATATTAAATAAAGTTTAGGGGTTAGT
GG
Found at i:56910722 original size:21 final size:21
Alignment explanation
Indices: 56910678--56910723 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
56910668 TAAATAAAGT
* * *
56910678 TTAGGGGTTAGTGGTTAGGGG
1 TTAGGGGTTAGAGGTTAAGAG
56910699 TTAGGGGTTAGAGGTTAAGAG
1 TTAGGGGTTAGAGGTTAAGAG
56910720 TTAG
1 TTAG
56910724 TGATTTAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.33
Consensus pattern (21 bp):
TTAGGGGTTAGAGGTTAAGAG
Found at i:56910840 original size:7 final size:7
Alignment explanation
Indices: 56910828--56910869 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
56910818 ATTGTAAAAG
56910828 AGGGGTT
1 AGGGGTT
56910835 AGGGGTT
1 AGGGGTT
*
56910842 AAGGGTT
1 AGGGGTT
56910849 AGGGGTT
1 AGGGGTT
*
56910856 AGTGGTT
1 AGGGGTT
*
56910863 ATGGGTT
1 AGGGGTT
56910870 TACGGTTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (7 bp):
AGGGGTT
Found at i:56910854 original size:21 final size:21
Alignment explanation
Indices: 56910828--56910869 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
56910818 ATTGTAAAAG
56910828 AGGGGTTAGGGGTTAAGGGTT
1 AGGGGTTAGGGGTTAAGGGTT
* *
56910849 AGGGGTTAGTGGTTATGGGTT
1 AGGGGTTAGGGGTTAAGGGTT
56910870 TACGGTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (21 bp):
AGGGGTTAGGGGTTAAGGGTT
Found at i:56911004 original size:27 final size:29
Alignment explanation
Indices: 56910959--56911013 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
56910949 TTTATATATT
56910959 AAATAATTTATTATATAAT-TG-TAAAAG
1 AAATAATTTATTATATAATATGTTAAAAG
*
56910986 AAATAATATTATT-TTTAATATGTTAAAA
1 AAATAAT-TTATTATATAATATGTTAAAA
56911014 TTATGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 12 0.50
28 7 0.29
29 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (29 bp):
AAATAATTTATTATATAATATGTTAAAAG
Found at i:56911275 original size:22 final size:23
Alignment explanation
Indices: 56911236--56911281 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
56911226 ACTAATAATT
56911236 TTTAACAAATAAAATAAAAAAAA
1 TTTAACAAATAAAATAAAAAAAA
*
56911259 TTTAACAAAT-AAATAAATAAAA
1 TTTAACAAATAAAATAAAAAAAA
56911281 T
1 T
56911282 CACTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAACAAATAAAATAAAAAAAA
Found at i:56911368 original size:39 final size:39
Alignment explanation
Indices: 56911286--56911368 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
56911276 TAAAATCACT
*
56911286 AAAAATAAGCATTAGCGGCGCTTTTCAGAAAACGCCGCT
1 AAAAATAAGCATTAGCGGCGCTTTTCAGAAAACGCCGCA
* * * *
56911325 AAAAATGAGCATTAGTGGCG-TTTTTAGAAAAGTGCCGCA
1 AAAAATAAGCATTAGCGGCGCTTTTCAGAAAA-CGCCGCA
56911364 AAAAA
1 AAAAA
56911369 ACTAGGCCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 10 0.26
39 28 0.74
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.22
Consensus pattern (39 bp):
AAAAATAAGCATTAGCGGCGCTTTTCAGAAAACGCCGCA
Found at i:56912243 original size:38 final size:38
Alignment explanation
Indices: 56912163--56912244 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
56912153 GGTTACAAAC
* * * *
56912163 TTTATCTGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
56912201 TTTATCTGCTTTTTACATGTTTATCTCACAAA-GTTCGG
1 TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTC-G
56912239 TTTATC
1 TTTATC
56912245 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 3 0.08
38 36 0.92
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.55
Consensus pattern (38 bp):
TTTATCTGCTTTTTACATGTTTATCTCACAAATGTTCG
Found at i:56916189 original size:43 final size:43
Alignment explanation
Indices: 56916142--56916283 Score: 173
Period size: 43 Copynumber: 3.3 Consensus size: 43
56916132 TTTGTTGTTT
* *
56916142 AAGCGTCGCTAAAGGTTGTGGTCTTTAGCGGCGTTTTTGGGAA
1 AAGCGTCGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGGGAA
* * *
56916185 AAGCGTCGCTAAAGGTCAG-GGTCTTTAGCAGCGTTTGTCGAAA
1 AAGCGTCGCTAAAGGT-AGTGGTCTTTAGCGGCGTTTGTGGGAA
* *
56916228 AAGCGTCGCTAAAAGTCA-TCGTCTTTAGCGGCGTTTGTGGG-A
1 AAGCGTCGCTAAAGGT-AGTGGTCTTTAGCGGCGTTTGTGGGAA
*
56916270 AAGCGCCGCTAAAG
1 AAGCGTCGCTAAAG
56916284 TTAGCGACGC
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
42 13 0.15
43 71 0.84
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (43 bp):
AAGCGTCGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGGGAA
Found at i:56918284 original size:112 final size:112
Alignment explanation
Indices: 56918097--56918320 Score: 448
Period size: 112 Copynumber: 2.0 Consensus size: 112
56918087 CCAAAACGCC
56918097 TTGCCCCACACCGCACGAAATCCCGCACGAAGCGTTGAGCACAATACAAAGCAACCACCGCGACC
1 TTGCCCCACACCGCACGAAATCCCGCACGAAGCGTTGAGCACAATACAAAGCAACCACCGCGACC
56918162 GACCGTGATAGATAGAAAGAAGCAACCACCATGACTGGTTGTGATTT
66 GACCGTGATAGATAGAAAGAAGCAACCACCATGACTGGTTGTGATTT
56918209 TTGCCCCACACCGCACGAAATCCCGCACGAAGCGTTGAGCACAATACAAAGCAACCACCGCGACC
1 TTGCCCCACACCGCACGAAATCCCGCACGAAGCGTTGAGCACAATACAAAGCAACCACCGCGACC
56918274 GACCGTGATAGATAGAAAGAAGCAACCACCATGACTGGTTGTGATTT
66 GACCGTGATAGATAGAAAGAAGCAACCACCATGACTGGTTGTGATTT
56918321 CAATAGAAGA
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 112 1.00
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.15
Consensus pattern (112 bp):
TTGCCCCACACCGCACGAAATCCCGCACGAAGCGTTGAGCACAATACAAAGCAACCACCGCGACC
GACCGTGATAGATAGAAAGAAGCAACCACCATGACTGGTTGTGATTT
Found at i:56928867 original size:18 final size:18
Alignment explanation
Indices: 56928841--56928877 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
56928831 AATGAGAGAA
*
56928841 AAAGTAAAAGAGATCGAG
1 AAAGAAAAAGAGATCGAG
*
56928859 AAAGAAAAAGAGATTGAG
1 AAAGAAAAAGAGATCGAG
56928877 A
1 A
56928878 GCAAAAAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.27, T:0.11
Consensus pattern (18 bp):
AAAGAAAAAGAGATCGAG
Found at i:56935325 original size:160 final size:154
Alignment explanation
Indices: 56934958--56935361 Score: 494
Period size: 160 Copynumber: 2.6 Consensus size: 154
56934948 AAAATCAAAA
* * *
56934958 TTTTCTTT-AGAAAAATTACTACTTTTCTTAAAAAAAATCAAAGC-TTTATTTCGAAATAGTTGA
1 TTTTCTTTAAAAAAAATCACTACTTTTCTT---AAAGATCAAAGCTTTTATTTCGAAATAGTTGA
* * * * ***
56935021 AAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTTGCTTGAAAATTACTAATTTTTTTTTATT
63 AAAAAATCAAAACTTTATTTTAAAAATTTAAACATTTCCTTGAAAATGACTAATAAATTTTTATT
*
56935086 TTTAAAAATCTAAACTTTCTCTTTTTC
128 TTTAAAAATCTAAACCTTCTCTTTTTC
* * *
56935113 TTTTCTTTTAAAAAAATCACTAATTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTAGAAAA
1 TTTTCTTTAAAAAAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
* *
56935178 AAATCAAAATTTTATTTTAAAAATTTAAA-ATTTCCTTTAAAATGACTAATAAAACAAATTTTTA
66 AAATCAAAACTTTATTTTAAAAATTTAAACATTTCCTTGAAAATGACTAAT-----AAATTTTTA
56935242 TTTTTAAAAATCTAAACCTTCTCGTGTTTT-
126 TTTTTAAAAATCTAAACCTTCTC-T-TTTTC
*
56935272 TTTTCCTTTAAAAAAAATCACTACTTTTCTTAAAGATCAAAACTTTTATTTCGAAATAGTTGAAA
1 TTTT-CTTTAAAAAAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTG--A
*
56935337 AAAAAATCAAAACTTT-TTTAAAAAA
63 AAAAAATCAAAACTTTATTTTAAAAA
56935362 GTCTAAACTT
Statistics
Matches: 216, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
153 28 0.13
154 48 0.22
155 8 0.04
156 18 0.08
158 28 0.13
159 5 0.02
160 57 0.26
161 8 0.04
162 16 0.07
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (154 bp):
TTTTCTTTAAAAAAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
AAATCAAAACTTTATTTTAAAAATTTAAACATTTCCTTGAAAATGACTAATAAATTTTTATTTTT
AAAAATCTAAACCTTCTCTTTTTC
Found at i:56936472 original size:42 final size:42
Alignment explanation
Indices: 56936354--56936490 Score: 184
Period size: 42 Copynumber: 3.3 Consensus size: 42
56936344 CTTCGTGTAC
* *
56936354 AATGCAATGAAAAGTAAATGGACCTCCACACCTGAGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* *
56936396 AATGCAATGAAAAGTAAATGAACATCCACACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* * ** **
56936438 AATGCAATGAAATGTAAATGGACCTACATGCTTGGGCCAATA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
56936480 AATGCAATGAA
1 AATGCAATGAA
56936491 TGCTTTCCTT
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.21
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
Found at i:56948015 original size:9 final size:9
Alignment explanation
Indices: 56948003--56948063 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
56947993 ATTAAAAACA
*
56948003 AGAGTGTTG
1 AGAGAGTTG
*
56948012 AGAGACTTG
1 AGAGAGTTG
*
56948021 AGAGGGTTTG
1 AGAGAG-TTG
*
56948031 AGAGAATTTG
1 AGAG-AGTTG
*
56948041 AGAGAATTG
1 AGAGAGTTG
56948050 AGAGAGTTG
1 AGAGAGTTG
56948059 AGAGA
1 AGAGA
56948064 AAGATATGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
9 28 0.67
10 14 0.33
ACGTcount: A:0.34, C:0.02, G:0.39, T:0.25
Consensus pattern (9 bp):
AGAGAGTTG
Found at i:56948033 original size:19 final size:19
Alignment explanation
Indices: 56948009--56948062 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
56947999 AACAAGAGTG
**
56948009 TTGAGAGACTTGAGAGGGT
1 TTGAGAGACTTGAGAGGAA
*
56948028 TTGAGAGAATTTGAGA-GAA
1 TTGAGAG-ACTTGAGAGGAA
*
56948047 TTGAGAGAGTTGAGAG
1 TTGAGAGACTTGAGAG
56948063 AAAGATATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 15 0.52
20 7 0.24
ACGTcount: A:0.33, C:0.02, G:0.39, T:0.26
Consensus pattern (19 bp):
TTGAGAGACTTGAGAGGAA
Found at i:56948044 original size:29 final size:28
Alignment explanation
Indices: 56948009--56948064 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
56947999 AACAAGAGTG
* *
56948009 TTGAGAGACTTGAGAGGGTTTGAGAGAAT
1 TTGAGAGAATTGAGAGAG-TTGAGAGAAT
56948038 TTGAGAGAATTGAGAGAGTTGAGAGAA
1 TTGAGAGAATTGAGAGAGTTGAGAGAA
56948065 AGATATGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.25
Consensus pattern (28 bp):
TTGAGAGAATTGAGAGAGTTGAGAGAAT
Found at i:56954447 original size:6 final size:6
Alignment explanation
Indices: 56954438--56954464 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
56954428 TAGAAATAGT
56954438 AAATGG AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAA
56954465 CAAGAGAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:56955465 original size:19 final size:19
Alignment explanation
Indices: 56955438--56955530 Score: 86
Period size: 19 Copynumber: 5.1 Consensus size: 19
56955428 TGATTTAAGC
*
56955438 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
56955457 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
* * * * *
56955476 -A-GTAATTTATTCCAG--C
1 AACTTAATTAACT-AAGATG
56955492 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
56955511 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
56955530 A
1 A
56955531 GTAATTTATT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
17 10 0.18
18 10 0.18
19 37 0.65
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:56955501 original size:54 final size:54
Alignment explanation
Indices: 56955435--56955553 Score: 220
Period size: 54 Copynumber: 2.2 Consensus size: 54
56955425 TAATGATTTA
*
56955435 AGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAATTTATTCC
1 AGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCC
*
56955489 AGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCC
1 AGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCC
56955543 AGCAACTAAAT
1 AGCAACTAAAT
56955554 ACTTATTCCA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (54 bp):
AGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCC
Found at i:56958654 original size:12 final size:12
Alignment explanation
Indices: 56958636--56958666 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
56958626 TTGTGCACGG
56958636 ATTTTTTTT-AA
1 ATTTTTTTTGAA
56958647 ATTTTTTTTGAA
1 ATTTTTTTTGAA
56958659 ATTTTTTT
1 ATTTTTTT
56958667 ACAAACCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
ATTTTTTTTGAA
Found at i:56959984 original size:19 final size:19
Alignment explanation
Indices: 56959957--56959995 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
56959947 TGATTTAAGC
56959957 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
*
56959976 AACTTAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
56959995 A
1 A
56959996 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:56964827 original size:8 final size:8
Alignment explanation
Indices: 56964817--56964846 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
56964807 ACTTCAGCTT
*
56964817 ATTTACTT
1 ATTTACTA
56964825 ATTTACTA
1 ATTTACTA
56964833 ATTTACTA
1 ATTTACTA
56964841 ATTTAC
1 ATTTAC
56964847 CCCTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (8 bp):
ATTTACTA
Found at i:56968600 original size:209 final size:210
Alignment explanation
Indices: 56968240--56968659 Score: 695
Period size: 209 Copynumber: 2.0 Consensus size: 210
56968230 TAGCTACACC
56968240 TACATGCCCTATGATCAGGGATGTTGATCCCAGAGAGCAAAGCATGCCCATCCATCGGATGCATG
1 TACATGCCCTATGATCAGGGATGTTGATCCCAGAGAGCAAAGCATGCCCATCCATCGGATGCATG
*
56968305 TGAAGAAAATAGTGCTTAACAGAAGGAACATACAGAAAGTTGACGAAACGACTTAGGGGATGACA
66 TGAAGAAAATAGTGCTTAACAGAAGGAACATACAGAAAGTTGACGAAACGACTTAGGGGACGACA
56968370 CGTCCAATGCATAGTTACATGCTTTTACATTTATTATTTA-TTTTTTATGCGACATGTAAAATAT
131 CGTCCAATGCATAGTTACATGCTTTTACATTTATTATTTATTTTTTTATGCGACATGTAAAATAT
56968434 TAAAC-AAATTTCGGA
196 TAAACAAAATTT-GGA
* * *
56968449 TACATGCCCTATGATCGGGGATGTTGATCCCAGAGAGCAAAGCATGCCCATCCGTCGGATGCGTG
1 TACATGCCCTATGATCAGGGATGTTGATCCCAGAGAGCAAAGCATGCCCATCCATCGGATGCATG
* * *
56968514 TGAATAAAATAGTGCTTAACAGAAGGAACATACCGAGAGTTGACGAAACAGA-TT-GGGGAACGA
66 TGAAGAAAATAGTGCTTAACAGAAGGAACATACAGAAAGTTGACGAAAC-GACTTAGGGG-ACGA
* * *
56968577 CACGTCCAATGCCTAGTTACATGCTTTTACATTTATTTTTTATTTTTTTATGCGACATGTAAACT
129 CACGTCCAATGCATAGTTACATGCTTTTACATTTATTATTTATTTTTTTATGCGACATGTAAAAT
56968642 ATTAAACAAAATTTGGA
194 ATTAAACAAAATTTGGA
56968659 T
1 T
56968660 TTGTTTTGCA
Statistics
Matches: 197, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
208 4 0.02
209 153 0.78
210 34 0.17
211 6 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (210 bp):
TACATGCCCTATGATCAGGGATGTTGATCCCAGAGAGCAAAGCATGCCCATCCATCGGATGCATG
TGAAGAAAATAGTGCTTAACAGAAGGAACATACAGAAAGTTGACGAAACGACTTAGGGGACGACA
CGTCCAATGCATAGTTACATGCTTTTACATTTATTATTTATTTTTTTATGCGACATGTAAAATAT
TAAACAAAATTTGGA
Found at i:56969921 original size:62 final size:61
Alignment explanation
Indices: 56969808--56969926 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
56969798 AATGCTCAGA
* * * * *
56969808 TTATATTAGATATTATAATTATTTAATTTTATTTTTTACCTAATTAATATTTCGATATCAT
1 TTATATTAGATATTACAATTATTAAACTTTATTTTTTACCAAAATAATATTTCGATATCAT
* * *
56969869 TTATACTTAGATATTGCAATTATTAAACTTTATTTTTTACCAAAATAGTATTTGGATA
1 TTATA-TTAGATATTACAATTATTAAACTTTATTTTTTACCAAAATAATATTTCGATA
56969927 CTATTTTGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
61 5 0.10
62 44 0.90
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (61 bp):
TTATATTAGATATTACAATTATTAAACTTTATTTTTTACCAAAATAATATTTCGATATCAT
Found at i:56972237 original size:14 final size:14
Alignment explanation
Indices: 56972215--56972252 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
56972205 CAAATTGATT
*
56972215 TTAATTTTTTATA-A
1 TTAAATTTTTA-ACA
56972229 TTAAATTTTTAACA
1 TTAAATTTTTAACA
56972243 TTAAATTTTT
1 TTAAATTTTT
56972253 CTTTCACGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TTAAATTTTTAACA
Found at i:56977394 original size:10 final size:10
Alignment explanation
Indices: 56977356--56977396 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
56977346 GATAAGAAGC
56977356 TAAATTGAGCT
1 TAAA-TGAGCT
*
56977367 TAAACGAGCT
1 TAAATGAGCT
56977377 TAAATGAGCT
1 TAAATGAGCT
*
56977387 TAAGTGAGCT
1 TAAATGAGCT
56977397 GATTCGAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 23 0.85
11 4 0.15
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (10 bp):
TAAATGAGCT
Found at i:56986018 original size:17 final size:17
Alignment explanation
Indices: 56985996--56986030 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
56985986 GTAGATACCC
56985996 ATTTTAATTTCTGAACT
1 ATTTTAATTTCTGAACT
*
56986013 ATTTTAATTTCTTAACT
1 ATTTTAATTTCTGAACT
56986030 A
1 A
56986031 AGATTCAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTTAATTTCTGAACT
Found at i:56986574 original size:145 final size:148
Alignment explanation
Indices: 56986411--56986741 Score: 414
Period size: 147 Copynumber: 2.3 Consensus size: 148
56986401 TTCTAGTTTC
56986411 TTTTTTT-AAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATCTATTGTTTTAATCATTTCAAAG
1 TTTTTTTAAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATCTATT-TTTTAATCATTTCAAAG
* *
56986475 G-AAAGT-T-TA-ATTTTTAAAACAAAGTTTTGAT-TTTTT-AACTATTTAGAAATAAAAGTTTT
65 GAAAAGTCTAAATATTTTTAAAA-AAAGTTTTGATCTTTTTCAACTATTTAGAAAT-AAAGCTTT
56986534 GATTTTTAAGAAAAATAGTGA
128 GATTTTTAAGAAAAATAGTGA
* * * **
56986555 TTTTTTTAAAAAGAGAAAGTTTATATTTT-TAAAATAAAAATCTATTTTTTAGTCATTTTTAAGG
1 TTTTTTTAAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATCTATTTTTTAATCATTTCAAAGG
* * *
56986619 AAAAGTCTAAATATTTTTAAAAGAAGTTTTGATCTTTTTCAACTATTTCGAAATAGAGCTTTGAT
66 AAAAGTCTAAATATTTTTAAAAAAAGTTTTGATCTTTTTCAACTATTTAGAAATAAAGCTTTGAT
*
56986684 TTTTAAGAAAAGTAGTGA
131 TTTTAAGAAAAATAGTGA
* * *
56986702 --TTTTTAAAAA-ATAAAATTTTGATTTTGTAAAAAATAAAAA
1 TTTTTTTAAAAAGAGAAAGTTTAGA-TTT-TAAAAAATAAAAA
56986742 AAAATTTCAG
Statistics
Matches: 161, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
143 15 0.09
144 36 0.22
145 34 0.21
146 12 0.07
147 51 0.32
148 13 0.08
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (148 bp):
TTTTTTTAAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATCTATTTTTTAATCATTTCAAAGG
AAAAGTCTAAATATTTTTAAAAAAAGTTTTGATCTTTTTCAACTATTTAGAAATAAAGCTTTGAT
TTTTAAGAAAAATAGTGA
Found at i:56986717 original size:23 final size:23
Alignment explanation
Indices: 56986691--56986740 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
56986681 GATTTTTAAG
56986691 AAAAGTAGTGATTTT-TAAAAAAT
1 AAAA-TAGTGATTTTGTAAAAAAT
**
56986714 AAAATTTTGATTTTGTAAAAAAT
1 AAAATAGTGATTTTGTAAAAAAT
56986737 AAAA
1 AAAA
56986741 AAAAATTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (23 bp):
AAAATAGTGATTTTGTAAAAAAT
Found at i:56995674 original size:19 final size:20
Alignment explanation
Indices: 56995647--56995685 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
56995637 AACTTCCAAT
*
56995647 TCAGCTCAA-TGAGCTCAAA
1 TCAGATCAATTGAGCTCAAA
*
56995666 TCAGATCAATTTAGCTCAAA
1 TCAGATCAATTGAGCTCAAA
56995686 ACTTGCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (20 bp):
TCAGATCAATTGAGCTCAAA
Found at i:57001046 original size:11 final size:10
Alignment explanation
Indices: 57001007--57001045 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 10
57000997 TGAAGATTAG
57001007 AAATATATAA
1 AAATATATAA
57001017 AAGATATATAA
1 AA-ATATATAA
*
57001028 AAAAATAT-A
1 AAATATATAA
57001037 AAATATATA
1 AAATATATA
57001046 TTTATGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 8 0.32
10 7 0.28
11 10 0.40
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (10 bp):
AAATATATAA
Found at i:57001092 original size:19 final size:19
Alignment explanation
Indices: 57001068--57001109 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
57001058 AAAAATGCAT
*
57001068 ATATAAGGATATATAA-ATA
1 ATATAAGG-TATAGAATATA
57001087 ATATAAGGTATAGAATATA
1 ATATAAGGTATAGAATATA
57001106 ATAT
1 ATAT
57001110 TTATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (19 bp):
ATATAAGGTATAGAATATA
Found at i:57002236 original size:6 final size:5
Alignment explanation
Indices: 57002211--57002246 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
57002201 AAACAAACAA
57002211 AAAAT AAAAT AAAAT AAAAT AGAAAT -AAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT A
57002247 GCAATGTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:57003225 original size:126 final size:129
Alignment explanation
Indices: 57003048--57003314 Score: 396
Period size: 131 Copynumber: 2.1 Consensus size: 129
57003038 TTGATGCGAT
* * *
57003048 CTGCTCCACTACTGCTTAGGGAGAAAGGACTGGTGGCTTAAATCTGCTTCACTACTGTTTA-G-A
1 CTGCTCCACTACTGCTTACGGAGAAAGGACTGGTGGCTTAAATCTGCTTCACCACTGCTTAGGAA
* * *
57003111 -AAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGAGAGATAGGATCTAACATCTTTGAC
66 TAAGATTCGCCATTTTCAATCTGCTCCACTACTGCTTAGAGAGATAAGATCTAACATCTTCGAC
* *
57003174 CTGCTCCACTACTGCTTACGGAGATAGGACTGGTGGCTTAAATCTGTTTCACCACTGCTTAGGAA
1 CTGCTCCACTACTGCTTACGGAGAAAGGACTGGTGGCTTAAATCTGCTTCACCACTGCTTAGG--
* * *
57003239 AATAAGATTCGCCATTTTCAATCTGCTCCACTACTGCTTAGGGAGGTAAGATCTACCATCTTCGA
64 AATAAGATTCGCCATTTTCAATCTGCTCCACTACTGCTTAGAGAGATAAGATCTAACATCTTCGA
57003304 C
129 C
57003305 CTGCTCCACT
1 CTGCTCCACT
57003315 GTAACCTTAG
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
126 56 0.45
127 1 0.01
130 1 0.01
131 67 0.54
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (129 bp):
CTGCTCCACTACTGCTTACGGAGAAAGGACTGGTGGCTTAAATCTGCTTCACCACTGCTTAGGAA
TAAGATTCGCCATTTTCAATCTGCTCCACTACTGCTTAGAGAGATAAGATCTAACATCTTCGAC
Found at i:57003309 original size:44 final size:44
Alignment explanation
Indices: 57003119--57003337 Score: 149
Period size: 44 Copynumber: 5.0 Consensus size: 44
57003109 GAAAGATTCG
* * *
57003119 CCATTTTCGATCTGCTCCACTACTGCTTAGAGAGATAGGATCTA
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
* * * * * *
57003163 ACATCTTTGACCTGCTCCACTACTGCTTACGGAGATAGGA-CTG
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
**** ** * * * * * *
57003206 GTGGCTTAAATCTGTTTCACCACTGCTTAGGAAAATAAGAT-TCG
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-A
* * *
57003250 CCATTTTCAATCTGCTCCACTACTGCTTAGGGAGGTAAGATCTA
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
*
57003294 CCATCTTCGACCTGCTCCACTGTAAC--CTTAGGGAGATAAGATCT
1 CCATCTTCGATCTGCTCCAC--T-ACTGCTTAGGGAGATAAGATCT
57003338 GAAATTCTTC
Statistics
Matches: 131, Mismatches: 38, Indels: 11
0.73 0.21 0.06
Matches are distributed among these distances:
43 29 0.22
44 81 0.62
45 18 0.14
46 1 0.01
47 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
Found at i:57003334 original size:45 final size:46
Alignment explanation
Indices: 57003275--57003385 Score: 127
Period size: 46 Copynumber: 2.4 Consensus size: 46
57003265 TCCACTACTG
* * *
57003275 CTTAGGGAGGTAAGATCT-ACCA-TCTTCGACCTGCTCCACTGTAAC
1 CTTAGGGAGATAAGATCTGA-AATTCTTCGACCTACTCCACTGTAAC
***
57003320 CTTAGGGAGATAAGATCTGAAATTCTTCGGTTTACTCCACTGTAAC
1 CTTAGGGAGATAAGATCTGAAATTCTTCGACCTACTCCACTGTAAC
* *
57003366 CTCAGGGAGATAAGACCTGA
1 CTTAGGGAGATAAGATCTGA
57003386 TGCGATCTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 18 0.32
46 38 0.68
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (46 bp):
CTTAGGGAGATAAGATCTGAAATTCTTCGACCTACTCCACTGTAAC
Found at i:57004213 original size:46 final size:45
Alignment explanation
Indices: 57004146--57004529 Score: 259
Period size: 46 Copynumber: 8.6 Consensus size: 45
57004136 NNNNNNNNNN
*
57004146 CTCCACTGTAACCTCAGGGAGATAAGATCTACAATTCTTTGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCTA-AATTCTTCGGTCTA
*
57004192 CTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-AAATTCTTCGGTCTA
** * *** *
57004238 CTCCACTGTAACCTCAGGGAGATAAGA-CTTGCA-TATTCAACCGA
1 CTCCACTGTAACCTCAGGGAGATAAGATC-TAAATTCTTCGGTCTA
* * ** * * *
57004282 CTCCACTGTAACTTCAGGGAGATAAGGT-T-TGTGGCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAT-TCTTCGGTCTA
* * *
57004326 CT-CATCTGTAATCTAAGGGAGATAAGATCTGAAATTCTTCAGTCTA
1 CTCCA-CTGTAACCTCAGGGAGATAAGATCT-AAATTCTTCGGTCTA
** * *** *
57004372 CTCCACTGTAACCTCAGGGAGATAAGA-CTTGCA-TATTCAACCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATC-TAAATTCTTCGGTCTA
* * * * * ** *
57004416 CCCCACTGTAACTTCAGGGAGATAAG-GCT---TTATGCGACCTG
1 CTCCACTGTAACCTCAGGGAGATAAGATCTAAATTCTTCGGTCTA
** * * *
57004457 CTCTGCTGTAACTTCAGAGAGATAAGATTTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGATCT-AAATTCTTCGGTCTA
*
57004503 CTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAACCTCAGGGAGATAAGA
57004530 CCTGATGGGA
Statistics
Matches: 263, Mismatches: 57, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
41 31 0.12
42 1 0.00
43 4 0.02
44 89 0.34
45 5 0.02
46 129 0.49
47 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (45 bp):
CTCCACTGTAACCTCAGGGAGATAAGATCTAAATTCTTCGGTCTA
Found at i:57004300 original size:44 final size:44
Alignment explanation
Indices: 57004191--57004441 Score: 179
Period size: 44 Copynumber: 5.6 Consensus size: 44
57004181 TCTTTGGTCT
* * ** *
57004191 ACTCCACTGTAACCTCAGGGAGATAAGACCTG-AAATTCTTCGGTCT
1 ACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAAC---CG
57004237 ACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCG
1 ACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCG
* ** **** * *
57004281 ACTCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTG
1 ACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTC-AACCG
* * * * ** *
57004326 -CT-CATCTGTAATCTAAGGGAGATAAGA-TCTGAAATTCTTCAGTCT
1 ACTCCA-CTGTAACCTCAGGGAGATAAGACT-TG-CA-TATTCAACCG
57004371 ACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
1 ACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC-G
* *
57004416 -CCCCACTGTAACTTCAGGGAGATAAG
1 ACTCCACTGTAACCTCAGGGAGATAAG
57004442 GCTTTATGCG
Statistics
Matches: 161, Mismatches: 34, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
43 3 0.02
44 85 0.53
45 5 0.03
46 59 0.37
47 9 0.06
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
ACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCG
Found at i:57004388 original size:134 final size:130
Alignment explanation
Indices: 57004197--57004530 Score: 485
Period size: 134 Copynumber: 2.5 Consensus size: 130
57004187 GTCTACTCCA
*
57004197 CTGTAACCTCAGGGAGATAAGACCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATA
1 CTGTAA-CTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATA
* * *
57004262 AGACTTGCATATTCAACC-GACTCCACTGTAACTTCAGGGAGATAAGG-TTTGTGGCTTCGATCT
65 AGACTTGCATATTCAACCTG-CCCCACTGTAACTTCAGGGAGATAAGGCTTTAT-G---CGACCT
57004325 GCTCAT-
125 GCTC-TG
* *
57004331 CTGTAATCTAAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGAGATA
1 CTGTAA-CTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATA
57004396 AGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGCTTTATGCGACCTGCTCT
65 AGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGCTTTATGCGACCTGCTCT
57004461 G
130 G
* * *
57004462 CTGTAACTTCAGAGAGATAAGATTTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATA
1 CTGTAAC-TCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATA
57004527 AGAC
65 AGAC
57004531 CTGATGGGAT
Statistics
Matches: 184, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
130 2 0.01
131 71 0.39
134 106 0.58
135 5 0.03
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (130 bp):
CTGTAACTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAA
GACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGCTTTATGCGACCTGCTCTG
Found at i:57004425 original size:90 final size:89
Alignment explanation
Indices: 57004148--57004441 Score: 256
Period size: 90 Copynumber: 3.3 Consensus size: 89
57004138 NNNNNNNNCT
**
57004148 CCACTGTAACCTCAGGGAGATAAGATCT-ACAATTCTTTGGTCTACTCCACTGTAACCTCAGGGA
1 CCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTCAGTCTACTCCACTGTAACCTCAGGGA
* ** * *
57004212 GATAAGACCTGAAATTCTTCGGTCTACT
65 GATAAGACTTGAAATTCAAC---CTGCC
* * ** * *
57004240 CCACTGTAACCTCAGGGAGATAAGA-CTTG-CA-TATTCAACCGACTCCACTGTAACTTCAGGGA
1 CCACTGTAACCTCAGGGAGATAAGATC-TGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGA
** *** * *
57004302 GATAAGGTTTGTGGCTTCGATCTG-C
65 GATAAGACTTG-AAATTCAACCTGCC
* * *
57004327 TCATCTGTAATCTAAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGA
1 CCA-CTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGA
*
57004392 GATAAGACTTGCATATTCAACCTGCC
65 GATAAGACTTG-AAATTCAACCTGCC
*
57004418 CCACTGTAACTTCAGGGAGATAAG
1 CCACTGTAACCTCAGGGAGATAAG
57004442 GCTTTATGCG
Statistics
Matches: 154, Mismatches: 40, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
87 2 0.01
88 24 0.16
89 2 0.01
90 92 0.60
91 8 0.05
92 26 0.17
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (89 bp):
CCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGGAG
ATAAGACTTGAAATTCAACCTGCC
Found at i:57004598 original size:131 final size:129
Alignment explanation
Indices: 57004192--57004663 Score: 431
Period size: 134 Copynumber: 3.6 Consensus size: 129
57004182 CTTTGGTCTA
* * *
57004192 CTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGG
* * *
57004257 AGATAAGACTTGCATATTCAACCGACTCCACTGTAACTTCAGGGAGATAAGGT-TTGTGGCTTCG
66 AGATAAGACCTG-A-ATTCAACCTACTCCACTGTAACTTCAGGGAGATAA-GTCTT-T--ATTCG
*
57004321 ATCTG
125 ATCCG
*
57004326 CT-CATCTGTAA-TCTAAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAG
1 CTCCA-CTGTAACT-TCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAG
* * * * *
57004389 GGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGCTTTATGCGA-
64 GGAGATAAGACCTG-A-ATTCAACCTACTCCACTGTAACTTCAGGGAGATAAGTCTTTATTCGAT
57004453 CCTG
127 CC-G
** * * * *
57004457 CTCTGCTGTAACTTCAGAGAGATAAGATTTGAAATTCTTCGGTCTACTCCACTGTAATCTCAGGG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGG
*** * * * **
57004522 AGATAAGACCTG-ATGGGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATC
66 AGATAAGACCTGAATTCAACCTACTCCACTGTAACTTCAGGGAGATAAG-T-CTTTA-TTCGATC
57004586 CG
128 CG
* * * * ** *
57004588 CTCCATTGTAACTTCAGGGAGATAGGAT-TG---TGTCTTCAATCTGCTCTGCTGTAATCTCAGG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAAAT-TCTTCAGTCTACTCCACTGTAACCTCAGG
*
57004649 GAGATAAGATCTGAA
65 GAGATAAGACCTGAA
57004664 ATTCTCCGAC
Statistics
Matches: 284, Mismatches: 42, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
127 1 0.00
128 64 0.23
129 1 0.00
130 8 0.03
131 97 0.34
132 3 0.01
133 4 0.01
134 106 0.37
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (129 bp):
CTCCACTGTAACTTCAGGGAGATAAGATCTGAAATTCTTCAGTCTACTCCACTGTAACCTCAGGG
AGATAAGACCTGAATTCAACCTACTCCACTGTAACTTCAGGGAGATAAGTCTTTATTCGATCCG
Found at i:57005934 original size:13 final size:13
Alignment explanation
Indices: 57005916--57005954 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
57005906 TTAGCCTCTC
57005916 CATTTTTCATTTT
1 CATTTTTCATTTT
**
57005929 CATTTTTCATCCT
1 CATTTTTCATTTT
57005942 CATTTTTCATTTT
1 CATTTTTCATTTT
57005955 TTTCTTTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:57006932 original size:18 final size:18
Alignment explanation
Indices: 57006905--57006939 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57006895 TTTCATTTTC
57006905 ATTTTCATTTTATTCTTG
1 ATTTTCATTTTATTCTTG
* *
57006923 ATTTTGATTTTTTTCTT
1 ATTTTCATTTTATTCTT
57006940 CTTTCTTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.09, G:0.06, T:0.71
Consensus pattern (18 bp):
ATTTTCATTTTATTCTTG
Found at i:57007018 original size:12 final size:12
Alignment explanation
Indices: 57006967--57007018 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
57006957 TTTTTTATTT
* *
57006967 TTTTCATTTTCA
1 TTTTGATTTTTA
*
57006979 TTTTCATTTTTA
1 TTTTGATTTTTA
* *
57006991 TTTTGACTTTGA
1 TTTTGATTTTTA
*
57007003 TTTTGATTTTTC
1 TTTTGATTTTTA
57007015 TTTT
1 TTTT
57007019 TCTTCACTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (12 bp):
TTTTGATTTTTA
Found at i:57007031 original size:73 final size:73
Alignment explanation
Indices: 57006895--57007031 Score: 183
Period size: 73 Copynumber: 1.9 Consensus size: 73
57006885 TTTTTCTCAG
* **
57006895 TTTCATTTTCATTTTCATTTTATTCTTGATTTTGATTTTTTTCTTCTTTCTTCTTTTTGTTTTTT
1 TTTCATTTTCATTTTCATTTTATTCTTGACTTTGATTTTTTTCTTCTTTCTTCTTACTGTTTTTT
57006960 TTTATTTT
66 TTTATTTT
57006968 TTTCATTTTCATTTTCATTTTTATT-TTGACTTTGATTTTGATTT-TTCTTT-TTCTTCACT-TT
1 TTTCATTTTCATTTTCA-TTTTATTCTTGACTTTGATTTT--TTTCTTCTTTCTTCTT-ACTGTT
57007029 TTT
62 TTT
57007032 GATCTGAGCC
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
73 40 0.70
74 14 0.25
75 3 0.05
ACGTcount: A:0.11, C:0.12, G:0.04, T:0.73
Consensus pattern (73 bp):
TTTCATTTTCATTTTCATTTTATTCTTGACTTTGATTTTTTTCTTCTTTCTTCTTACTGTTTTTT
TTTATTTT
Found at i:57011229 original size:11 final size:10
Alignment explanation
Indices: 57011190--57011228 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 10
57011180 AGAAGATTAG
57011190 AAATATATAA
1 AAATATATAA
57011200 AAGATATATAA
1 AA-ATATATAA
*
57011211 AAAAATAT-A
1 AAATATATAA
57011220 AAATATATA
1 AAATATATA
57011229 TTTATGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 8 0.32
10 7 0.28
11 10 0.40
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (10 bp):
AAATATATAA
Found at i:57012419 original size:6 final size:5
Alignment explanation
Indices: 57012394--57012429 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
57012384 AAACAAACAA
57012394 AAAAT AAAAT AAAAT AAAAT AGAAAT -AAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT A
57012430 GCAATGTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:57014267 original size:42 final size:42
Alignment explanation
Indices: 57014208--57014554 Score: 460
Period size: 42 Copynumber: 8.3 Consensus size: 42
57014198 AAGGAAAGCA
*
57014208 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGGCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * *
57014250 TTCATTACATTTAGAGGCCCGGGCGTAGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
57014292 TTTATTGCATTTAGAGGCCTAGGTGTGGAGATCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
57014334 TTCATTGCATTTAAAGTCCTAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
57014376 TTCATTGCATTTAAAGGCTCAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
57014418 TTCATTGCATTTAAAGGCCCAGGTGTGGAGATTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * *
57014460 TTTATTGTATTTAGAGGCCTAGGTGTGCAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
57014502 TTCATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
57014544 TGCATTGCATT
1 TTCATTGCATT
57014555 GTATATGAAG
Statistics
Matches: 264, Mismatches: 41, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 264 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:57015643 original size:150 final size:147
Alignment explanation
Indices: 57015360--57015647 Score: 393
Period size: 150 Copynumber: 1.9 Consensus size: 147
57015350 AAAGTTTTGA
** * *
57015360 TTTTTTTTTAAAAGTGAAAGTTTAGATTTTTAAAAATAAAATTTTTTTTTAGTCATTTCAAAGGA
1 TTTTTTTAAAAAAGAGAAAGTTCAGATTTTTAAAAATAAAATTTTTTTTTAGTCATTTCAAAGGA
* * * *
57015425 AAGTTTAATTTTTAAAATAAACTTTTGATTTTTTTAATTATTTTGAAATAAAAGTTATGATTTTT
66 AAGTTTAATTTTTAAAACAAACTTTTGATTTTTTCAACTATTTCGAAATAAAAGTTATGATTTTT
57015490 AAGAAAAAAAATAGTGG
131 AAGAAAAAAAATAGTGG
* **
57015507 TTTTTTTAAAAAAGAGAAAGTTCAGATTTTT-AAAATAAAAGTTTGTTTTTTTGTCATTTTTAAG
1 TTTTTTTAAAAAAGAGAAAGTTCAGATTTTTAAAAATAAAA-TTT-TTTTTTAGTCATTTCAAAG
*
57015571 GAAAGTTTACATTTTCTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAAT-AAAGATT-TG
64 GAAAGTTTA-ATTTT-TAAAACAAACTTTTGAT-TTTTTCAACTATTTCGAAATAAAAG-TTATG
57015634 ATTTTTAAGAAAAA
125 ATTTTTAAGAAAAA
57015648 TATTGATTTT
Statistics
Matches: 123, Mismatches: 12, Indels: 9
0.85 0.08 0.06
Matches are distributed among these distances:
146 9 0.07
147 30 0.24
148 25 0.20
149 5 0.04
150 35 0.28
151 19 0.15
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.45
Consensus pattern (147 bp):
TTTTTTTAAAAAAGAGAAAGTTCAGATTTTTAAAAATAAAATTTTTTTTTAGTCATTTCAAAGGA
AAGTTTAATTTTTAAAACAAACTTTTGATTTTTTCAACTATTTCGAAATAAAAGTTATGATTTTT
AAGAAAAAAAATAGTGG
Found at i:57015648 original size:147 final size:145
Alignment explanation
Indices: 57015357--57015664 Score: 390
Period size: 147 Copynumber: 2.1 Consensus size: 145
57015347 GGAAAAGTTT
** * *
57015357 TGATTTTTTTTTAAAAGTGAAAGTTTAGATTTTTAAAAATAAAATTTTTTTTTAGTCATTTCAAA
1 TGATTTTTTTAAAAAAGAGAAAGTTCAGATTTTTAAAAATAAAATTTTTTTTTAGTCATTTCAAA
* * * *
57015422 GGAAAGTTTAATTTTTAAAATAAACTTTTGATTTTTTTAATTATTTTGAAATAAAAGTTATGATT
66 GGAAAGTTTAATTTTTAAAACAAACTTTTGATTTTTTCAACTATTTCGAAATAAAAGTTATGATT
57015487 TTTAAGAAAAAAAATAG
131 TTTAAG--AAAAAATAG
* * **
57015504 TGGTTTTTTTAAAAAAGAGAAAGTTCAGATTTTT-AAAATAAAAGTTTGTTTTTTTGTCATTTTT
1 TGATTTTTTTAAAAAAGAGAAAGTTCAGATTTTTAAAAATAAAA-TTT-TTTTTTAGTCATTTCA
*
57015568 AAGGAAAGTTTACATTTTCTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAAT-AAAGATT
64 AAGGAAAGTTTA-ATTTT-TAAAACAAACTTTTGAT-TTTTTCAACTATTTCGAAATAAAAG-TT
*
57015632 -TGATTTTTAAG-AAAAATAT
125 ATGATTTTTAAGAAAAAATAG
57015651 TGATTTTTTTAAAA
1 TGATTTTTTTAAAA
57015665 TAAAACTTTG
Statistics
Matches: 140, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
146 9 0.06
147 52 0.37
148 25 0.18
149 5 0.04
150 30 0.21
151 19 0.14
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (145 bp):
TGATTTTTTTAAAAAAGAGAAAGTTCAGATTTTTAAAAATAAAATTTTTTTTTAGTCATTTCAAA
GGAAAGTTTAATTTTTAAAACAAACTTTTGATTTTTTCAACTATTTCGAAATAAAAGTTATGATT
TTTAAGAAAAAATAG
Found at i:57015669 original size:22 final size:21
Alignment explanation
Indices: 57015635--57015679 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
57015625 AAAGATTTGA
*
57015635 TTTTTAAGAAAAA-TATTGATT
1 TTTTTAAAAAAAACT-TTGATT
57015656 TTTTTAAAATAAAACTTTGATT
1 TTTTTAAAA-AAAACTTTGATT
57015678 TT
1 TT
57015680 GCAAGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 12 0.57
23 1 0.05
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (21 bp):
TTTTTAAAAAAAACTTTGATT
Found at i:57018304 original size:5 final size:5
Alignment explanation
Indices: 57018294--57018322 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
57018284 AGAACGTGCC
57018294 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
57018323 AAATCAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:57033839 original size:69 final size:69
Alignment explanation
Indices: 57033734--57034302 Score: 852
Period size: 69 Copynumber: 8.3 Consensus size: 69
57033724 GGACAGCTCT
* * * *
57033734 TATATACAACAAATGGGCAACATATACATACCAAATTTAACAACACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
57033799 AGCA
66 AGCA
* * * *
57033803 TATACACAGTAAATAGGTAGCATATACATACCAAATTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
57033868 AGCA
66 AGCA
*
57033872 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTTAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
57033937 AGCA
66 AGCA
* * *** * *
57033941 TATATACAACAAATGGGCAGCATATACATACCAAATTGGGCAGCATTTTTACACCAAAATTTATC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
* *
57034006 AACC
66 AGCA
* * * *
57034010 TATATACAACAAATGGGCAGCATATACATACCAAATTTAATAGCACTTTT-CATCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
57034074 AGCA
66 AGCA
* *
57034078 TATATACAGTAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAT
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
57034143 AGCA
66 AGCA
* * *
57034147 TATATACAACAAATAGGCAACATATACATACCAAATTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
57034212 AGCA
66 AGCA
* * * *
57034216 TATACACAGTAAATAGGTAGCATATACATACCAAATTTAATAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
57034281 AGCA
66 AGCA
57034285 TATATACAGCAAATAGGC
1 TATATACAGCAAATAGGC
57034303 TTAAAAATAA
Statistics
Matches: 448, Mismatches: 51, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
68 60 0.13
69 388 0.87
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.27
Consensus pattern (69 bp):
TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
AGCA
Found at i:57033871 original size:24 final size:22
Alignment explanation
Indices: 57033832--57034298 Score: 106
Period size: 24 Copynumber: 20.3 Consensus size: 22
57033822 GCATATACAT
* *
57033832 ACCAAATTTAATAGCACTTTTAC
1 ACCAAATTTAACAGCA-TTATAC
57033855 ACCAAAATTTAACAGCATATATAC
1 ACC-AAATTTAACAGCAT-TATAC
* *
57033879 AGCAAA--TAGGCAGCA-TATAC
1 ACCAAATTTA-ACAGCATTATAC
*
57033899 ATACCAAATTTAACAGCACTTTTAC
1 --ACCAAATTTAACAGCA-TTATAC
*
57033924 ACCAAAATTTTACAGCATATATAC
1 ACC-AAATTTAACAGCAT-TATAC
* ***
57033948 AACAAA-TGGGCAGCA-TATAC
1 ACCAAATTTAACAGCATTATAC
*** *
57033968 ATACCAAATTGGGCAGCATTTTTAC
1 --ACCAAATTTAACAGCA-TTATAC
* * *
57033993 ACCAAAATTTATCAACCTATATAC
1 ACC-AAATTTAACAGCAT-TATAC
* ***
57034017 AACAAA-TGGGCAGCA-TATAC
1 ACCAAATTTAACAGCATTATAC
* *
57034037 ATACCAAATTTAATAGCACTT-TTC
1 --ACCAAATTTAACAGCA-TTATAC
*
57034061 ATCAAAATTTAACAGCATATATAC
1 A-CCAAATTTAACAGCAT-TATAC
** *
57034085 AGTAAA--TAGGCAGCA-TATAC
1 ACCAAATTTA-ACAGCATTATAC
*
57034105 ATACCAAATTTAACAGCACTTTTAC
1 --ACCAAATTTAACAGCA-TTATAC
*
57034130 ACCAAAATTTAATAGCATATATAC
1 ACC-AAATTTAACAGCAT-TATAC
* * *
57034154 AACAAA--TAGGCAACA-TATAC
1 ACCAAATTTA-ACAGCATTATAC
* *
57034174 ATACCAAATTTAATAGCACTTTTAC
1 --ACCAAATTTAACAGCA-TTATAC
57034199 ACCAAAATTTAACAGCA-TATAC
1 ACC-AAATTTAACAGCATTATAC
* **
57034221 A-CAGTAA-ATAGGTAGCA-TATAC
1 ACCA--AATTTA-ACAGCATTATAC
* *
57034243 ATACCAAATTTAATAGCACTTTTAC
1 --ACCAAATTTAACAGCA-TTATAC
57034268 ACCAAAATTTAACAGCATATATAC
1 ACC-AAATTTAACAGCAT-TATAC
*
57034292 AGCAAAT
1 ACCAAAT
57034299 AGGCTTAAAA
Statistics
Matches: 325, Mismatches: 65, Indels: 108
0.65 0.13 0.22
Matches are distributed among these distances:
20 26 0.08
21 9 0.03
22 65 0.20
23 90 0.28
24 112 0.34
25 23 0.07
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (22 bp):
ACCAAATTTAACAGCATTATAC
Found at i:57033964 original size:22 final size:23
Alignment explanation
Indices: 57033936--57034035 Score: 78
Period size: 22 Copynumber: 4.4 Consensus size: 23
57033926 CAAAATTTTA
57033936 CAGCATATATACAACAAA-TGGG
1 CAGCATATATACAACAAATTGGG
* * *
57033958 CAGCATATACATACCAAATTGGG
1 CAGCATATATACAACAAATTGGG
* * * ***
57033981 CAGCATTTTTACACCAAAATTTAT
1 CAGCATATATACAAC-AAATTGGG
* *
57034005 CAACCTATATACAACAAA-TGGG
1 CAGCATATATACAACAAATTGGG
57034027 CAGCATATA
1 CAGCATATA
57034036 CATACCAAAT
Statistics
Matches: 56, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
22 23 0.41
23 18 0.32
24 15 0.27
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (23 bp):
CAGCATATATACAACAAATTGGG
Found at i:57033967 original size:20 final size:23
Alignment explanation
Indices: 57033942--57034046 Score: 69
Period size: 23 Copynumber: 4.7 Consensus size: 23
57033932 TTTACAGCAT
57033942 ATATACA-A-CAAA-TGGGCAGC
1 ATATACATACCAAATTGGGCAGC
57033962 ATATACATACCAAATTGGGCAGC
1 ATATACATACCAAATTGGGCAGC
* ** * *** *
57033985 ATTTTTACACCAAAATTTATCAACC
1 ATATACATACC-AAATTGGGC-AGC
57034010 TATATACA-A-CAAA-TGGGCAGC
1 -ATATACATACCAAATTGGGCAGC
57034031 ATATACATACCAAATT
1 ATATACATACCAAATT
57034047 TAATAGCACT
Statistics
Matches: 61, Mismatches: 15, Indels: 15
0.67 0.16 0.16
Matches are distributed among these distances:
20 14 0.23
21 4 0.07
22 10 0.16
23 19 0.31
24 7 0.11
25 3 0.05
26 4 0.07
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (23 bp):
ATATACATACCAAATTGGGCAGC
Found at i:57034240 original size:275 final size:276
Alignment explanation
Indices: 57033734--57034298 Score: 889
Period size: 275 Copynumber: 2.1 Consensus size: 276
57033724 GGACAGCTCT
57033734 TATATACAACAAATGGGCAACATATACATACCAAATTTAACAACACTTTTACACCAAAATTTAAC
1 TATATACAACAAATGGGCAACATATACATACCAAATTTAACAACACTTTTACACCAAAATTTAAC
* *
57033799 AGCATATACACAGTAAATAGGTAGCATATACATACCAAATTTAATAGCACTTTTACACCAAAATT
66 AGCATATACACAGTAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATT
* *
57033864 TAACAGCATATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAA
131 TAACAGCATATATACAACAAATAGGCAACATATACATACCAAATTTAACAGCACTTTTACACCAA
* * * ** *
57033929 AATTTTACAGCATATATACAACAAATGGGCAGCATATACATACCAAATTGGGCAGCATTTTTACA
196 AATTTAACAGCATATACACAACAAATAGGCAGCATATACATACCAAATTGAACAGCACTTTTACA
* *
57033994 CCAAAATTTATCAACC
261 CCAAAATTTAACAACA
* * * *
57034010 TATATACAACAAATGGGCAGCATATACATACCAAATTTAATAGCACTTTT-CATCAAAATTTAAC
1 TATATACAACAAATGGGCAACATATACATACCAAATTTAACAACACTTTTACACCAAAATTTAAC
*
57034074 AGCATATATACAGTAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATT
66 AGCATATACACAGTAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATT
* *
57034139 TAATAGCATATATACAACAAATAGGCAACATATACATACCAAATTTAATAGCACTTTTACACCAA
131 TAACAGCATATATACAACAAATAGGCAACATATACATACCAAATTTAACAGCACTTTTACACCAA
** * * *
57034204 AATTTAACAGCATATACACAGTAAATAGGTAGCATATACATACCAAATTTAATAGCACTTTTACA
196 AATTTAACAGCATATACACAACAAATAGGCAGCATATACATACCAAATTGAACAGCACTTTTACA
*
57034269 CCAAAATTTAACAGCA
261 CCAAAATTTAACAACA
*
57034285 TATATACAGCAAAT
1 TATATACAACAAAT
57034299 AGGCTTAAAA
Statistics
Matches: 263, Mismatches: 26, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
275 216 0.82
276 47 0.18
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (276 bp):
TATATACAACAAATGGGCAACATATACATACCAAATTTAACAACACTTTTACACCAAAATTTAAC
AGCATATACACAGTAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATT
TAACAGCATATATACAACAAATAGGCAACATATACATACCAAATTTAACAGCACTTTTACACCAA
AATTTAACAGCATATACACAACAAATAGGCAGCATATACATACCAAATTGAACAGCACTTTTACA
CCAAAATTTAACAACA
Found at i:57035206 original size:41 final size:40
Alignment explanation
Indices: 57035105--57035214 Score: 148
Period size: 40 Copynumber: 2.7 Consensus size: 40
57035095 NNNNNNACCG
* * ** **
57035105 GCACAAAGCCTGTTAGACATAAAGTATGATATAATTCATT
1 GCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACA
57035145 GCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACCA
1 GCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCA-CA
*
57035186 GCATAAAGCCTGCTAGGCATAAAGCCTGA
1 GCACAAAGCCTGCTAGGCATAAAGCCTGA
57035215 ACTTACAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 34 0.55
41 28 0.45
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (40 bp):
GCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACA
Found at i:57037469 original size:7 final size:7
Alignment explanation
Indices: 57037454--57037489 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
57037444 CATAAACACC
*
57037454 TAAAAAA
1 TAAAGAA
57037461 TAAAGAA
1 TAAAGAA
57037468 TAAAGAA
1 TAAAGAA
*
57037475 TAAAAAA
1 TAAAGAA
57037482 TAAAGAA
1 TAAAGAA
57037489 T
1 T
57037490 TAATTACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (7 bp):
TAAAGAA
Found at i:57055955 original size:5 final size:5
Alignment explanation
Indices: 57055945--57055969 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
57055935 TTTTGTTCAA
57055945 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
57055970 GATGCAAAGA
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):
AAAAG
Found at i:57057688 original size:45 final size:45
Alignment explanation
Indices: 57057601--57057722 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 45
57057591 GAATTTCCAA
* * * *
57057601 TGCCATAATATCTTTCAACTATGGTGTTACTCGTTACCGGTAT-G
1 TGCCATAGTATCTTTCAACTATGGTCTTATTCATTACCGGTATAG
* * *
57057645 ATGTCATAGTGTCTTTCAACTATGGTCTTATTCAATTA-TGGTATAG
1 -TGCCATAGTATCTTTCAACTATGGTCTTATTC-ATTACCGGTATAG
* *
57057691 TGCCATAGTATATTTCAACTAAGGTCTTATTC
1 TGCCATAGTATCTTTCAACTATGGTCTTATTC
57057723 GTTTCCTTCA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 60 0.94
46 4 0.06
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.41
Consensus pattern (45 bp):
TGCCATAGTATCTTTCAACTATGGTCTTATTCATTACCGGTATAG
Found at i:57063055 original size:63 final size:63
Alignment explanation
Indices: 57062976--57063101 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 63
57062966 TATTTACTGC
*
57062976 TCTTTAATGCTCAATGTTAGGTTTCTTTGGCTTGCTGCAACCAATGCTTTCTTCTCTTTCAAA
1 TCTTTAATGCTCAATGTTAGGTTTCTTTGGCTTGCTGCAACCAATGCTTTCTTCTCCTTCAAA
* * *
57063039 TCTTTAATGTTCAATGTTTGGTTTCTTTGGCTTGCTGCAACCATTGCTTTCTTCTCCTTCAAA
1 TCTTTAATGCTCAATGTTAGGTTTCTTTGGCTTGCTGCAACCAATGCTTTCTTCTCCTTCAAA
57063102 GAACATCCAC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.46
Consensus pattern (63 bp):
TCTTTAATGCTCAATGTTAGGTTTCTTTGGCTTGCTGCAACCAATGCTTTCTTCTCCTTCAAA
Found at i:57064984 original size:18 final size:19
Alignment explanation
Indices: 57064961--57064999 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
57064951 AATAAATCCA
*
57064961 AAGTCCAAAA-GAAAGTCC
1 AAGTCCAAAACAAAAGTCC
57064979 AAGTCCAAAACAAAAGTCC
1 AAGTCCAAAACAAAAGTCC
57064998 AA
1 AA
57065000 AGTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.54, C:0.23, G:0.13, T:0.10
Consensus pattern (19 bp):
AAGTCCAAAACAAAAGTCC
Found at i:57065708 original size:35 final size:36
Alignment explanation
Indices: 57065649--57065761 Score: 95
Period size: 37 Copynumber: 3.1 Consensus size: 36
57065639 TTAACATACA
* * *
57065649 AATCAGAATCAGATATAATGGCATGCTAAACATGCG
1 AATCAAAATCAGATATAATAGCATGATAAACATGCG
* * * *
57065685 AGTCAAAATCGGAT-TAATAGCATGATTAACTTGCG
1 AATCAAAATCAGATATAATAGCATGATAAACATGCG
* * * *
57065720 AATCAAAATATCAGA-ATATTAACATGTTTAACATGCG
1 AATC-AAA-ATCAGATATAATAGCATGATAAACATGCG
57065757 AATCA
1 AATCA
57065762 GAACATCAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
35 20 0.33
36 15 0.25
37 26 0.43
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (36 bp):
AATCAAAATCAGATATAATAGCATGATAAACATGCG
Found at i:57073579 original size:10 final size:10
Alignment explanation
Indices: 57073551--57073584 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
57073541 GTAAGTGTTT
*
57073551 AAAAAAATTCA
1 AAAAAAATT-G
57073562 AAAAAAATTG
1 AAAAAAATTG
57073572 AAAAAAATTG
1 AAAAAAATTG
57073582 AAA
1 AAA
57073585 TTTTTTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (10 bp):
AAAAAAATTG
Found at i:57074642 original size:29 final size:29
Alignment explanation
Indices: 57074609--57074670 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
57074599 AAGAAAGCTT
*
57074609 TGTTTTTGACCCTAGAGATTATTAATTTA
1 TGTTTCTGACCCTAGAGATTATTAATTTA
*
57074638 TGTTTCTGTCCCTAGAGATTATTAATTTA
1 TGTTTCTGACCCTAGAGATTATTAATTTA
57074667 TGTT
1 TGTT
57074671 GCTGTTCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (29 bp):
TGTTTCTGACCCTAGAGATTATTAATTTA
Found at i:57074675 original size:29 final size:29
Alignment explanation
Indices: 57074618--57074675 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
57074608 TTGTTTTTGA
*
57074618 CCCTAGAGATTATTAATTTATGTTTCTGT
1 CCCTAGAGATTATTAATTTATGTTGCTGT
57074647 CCCTAGAGATTATTAATTTATGTTGCTGT
1 CCCTAGAGATTATTAATTTATGTTGCTGT
57074676 TCAAGGGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.47
Consensus pattern (29 bp):
CCCTAGAGATTATTAATTTATGTTGCTGT
Done.