Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 289 of 310
Found at i:95108213 original size:19 final size:20
Alignment explanation
Indices: 95108180--95108219 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
95108170 AAGTAAAAAG
*
95108180 AATTTAAAATAATGTTGATA
1 AATTTAAAATAATGTGGATA
*
95108200 AATTT-AAATGATGTGGATA
1 AATTTAAAATAATGTGGATA
95108219 A
1 A
95108220 TAATTTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
AATTTAAAATAATGTGGATA
Found at i:95111157 original size:71 final size:71
Alignment explanation
Indices: 95111069--95111278 Score: 411
Period size: 71 Copynumber: 3.0 Consensus size: 71
95111059 TCAAACTTAA
*
95111069 AGCTCGGGAACATCAGCTAATCTAGGGTTAAGAACGACGACCATGTGAGATATATAAATAGGCTT
1 AGCTCGGGAACATCAGCTAATCTAGGATTAAGAACGACGACCATGTGAGATATATAAATAGGCTT
95111134 ATTCGT
66 ATTCGT
95111140 AGCTCGGGAACATCAGCTAATCTAGGATTAAGAACGACGACCATGTGAGATATATAAATAGGCTT
1 AGCTCGGGAACATCAGCTAATCTAGGATTAAGAACGACGACCATGTGAGATATATAAATAGGCTT
95111205 ATTCGT
66 ATTCGT
95111211 AGCTCGGGAACATCAGCTAATCTAGGATTAAGAACGACGACCATGTGAGATATATAAATAGGCTT
1 AGCTCGGGAACATCAGCTAATCTAGGATTAAGAACGACGACCATGTGAGATATATAAATAGGCTT
95111276 ATT
66 ATT
95111279 TGTAACATGT
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 138 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (71 bp):
AGCTCGGGAACATCAGCTAATCTAGGATTAAGAACGACGACCATGTGAGATATATAAATAGGCTT
ATTCGT
Found at i:95114286 original size:25 final size:25
Alignment explanation
Indices: 95114266--95114321 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
95114256 CAGCTCTCTC
95114266 GAGCTTCCCAATATTTGGCTCACAA
1 GAGCTTCCCAATATTTGGCTCACAA
* ** *
95114291 GAGCTTCCCATTATTCAGCTCACAT
1 GAGCTTCCCAATATTTGGCTCACAA
95114316 GAGCTT
1 GAGCTT
95114322 TCCGTTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCAATATTTGGCTCACAA
Found at i:95114311 original size:50 final size:50
Alignment explanation
Indices: 95114207--95114303 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 50
95114197 GACGCACCAT
* * * **
95114207 AGCTCTCACAAGCTTCCCGATACTTGGCTCCCATGAGCTTCTTGATTAAC
1 AGCTCTCACAAGCTTCCCAATACTTGGCTCACAAGAGCTTCTCCATTAAC
* * *
95114257 AGCTCTCTCGAGCTTCCCAATATTTGGCTCACAAGAGCTTC-CCATTA
1 AGCTCTCACAAGCTTCCCAATACTTGGCTCACAAGAGCTTCTCCATTA
95114304 TTCAGCTCAC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 4 0.10
50 35 0.90
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (50 bp):
AGCTCTCACAAGCTTCCCAATACTTGGCTCACAAGAGCTTCTCCATTAAC
Found at i:95114336 original size:25 final size:24
Alignment explanation
Indices: 95114266--95114336 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
95114256 CAGCTCTCTC
*
95114266 GAGCTTCCCAATATTTGGCTCACAA
1 GAGCTTCCCATTA-TTGGCTCACAA
* *
95114291 GAGCTTCCCATTATTCAGCTCACAT
1 GAGCTTCCCATTATT-GGCTCACAA
* *
95114316 GAGCTTTCCGTTATATGGCTC
1 GAGCTTCCCATTAT-TGGCTC
95114337 GGAAAAGCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
24 2 0.05
25 35 0.92
26 1 0.03
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (24 bp):
GAGCTTCCCATTATTGGCTCACAA
Found at i:95115510 original size:56 final size:56
Alignment explanation
Indices: 95115446--95115551 Score: 149
Period size: 56 Copynumber: 1.9 Consensus size: 56
95115436 CTCAAATTGT
* * * * * *
95115446 TCACACGGCCTAGCACACGGGCATGTGGTTTGGTCGTTTGACCTAAGTCAATATAC
1 TCACACGGCCTAACACACGGGCATATGGCTTGGTCATGTGACCCAAGTCAATATAC
*
95115502 TCACACGGCCTAATACACGGGCATATGGCTTGGTCATGTGACCCAAGTCA
1 TCACACGGCCTAACACACGGGCATATGGCTTGGTCATGTGACCCAAGTCA
95115552 GAGAGCTCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 43 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (56 bp):
TCACACGGCCTAACACACGGGCATATGGCTTGGTCATGTGACCCAAGTCAATATAC
Found at i:95116485 original size:36 final size:36
Alignment explanation
Indices: 95116440--95116508 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
95116430 AGTTCTTATA
95116440 AATTATCTTGTACACCAGTTGAATGTCTTAAGTATG
1 AATTATCTTGTACACCAGTTGAATGTCTTAAGTATG
*
95116476 AATTCTCTTGTACACCAGTTGAATGTCTTAAGT
1 AATTATCTTGTACACCAGTTGAATGTCTTAAGT
95116509 GTGCAGTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (36 bp):
AATTATCTTGTACACCAGTTGAATGTCTTAAGTATG
Found at i:95134978 original size:129 final size:129
Alignment explanation
Indices: 95134716--95135358 Score: 518
Period size: 129 Copynumber: 5.0 Consensus size: 129
95134706 CCGACACAAT
* * * * * * * * *
95134716 TATACTGGTACACACAGTGCATCATTGGATATACCGAAGCAACTATACAAGCACACACAGTGCAT
1 TATACTAGCACACATAGTGCATCATCGAATAAACCGAAGAAAATATACTAGCACACACAGTGCAT
* * ** * * * * * ** **
95134781 TATCGGATATACTCAAGTAACTATAATGGCACACACAATGCATCATCAGATAAATTGAAGTATG
66 CACCAAATAAACTAAAGTAACTATACTGGCACACACAGTGCATCATCGGATAAATCAAAGTAAC
* * ** * *
95134845 TATACTAGCACATACAGTGCATCATTTAACT-AACCAAAGAAAATATACTAGCACACACAGTGTA
1 TATACTAGCACACATAGTGCATCATCGAA-TAAACCGAAGAAAATATACTAGCACACACAGTGCA
* * * * * * *
95134909 TCACCAGATAAATTGAACTAACTATACTAGCACACACAGTGCATCATCGGATAAATCAAAGAAAA
65 TCACCAAATAAACTAAAGTAACTATACTGGCACACACAGTGCATCATCGGATAAATCAAAGTAAC
* * * * * * *
95134974 TATACCT-GCACACATAGTGCATCATCGGATAAACTGAATAAAATATACTGGCACACATATTACA
1 TATA-CTAGCACACATAGTGCATCATCGAATAAACCGAAGAAAATATACTAGCACACACAGTGCA
* * * * *
95135038 TCATCAAATAAACTAAAGTATCAATACTGGCACATACAGTGCATCATCGGATAAATTAAAGTAAC
65 TCACCAAATAAACTAAAGTAACTATACTGGCACACACAGTGCATCATCGGATAAATCAAAGTAAC
* * * * * ** * * * *
95135103 TATACTGGCATACATAGTGCATCATCGGATAAACTGAAGTATCTATACTGGCACACACAATGTAC
1 TATACTAGCACACATAGTGCATCATCGAATAAACCGAAGAAAATATACTAGCACACACAGTGCAT
* * * * * * *
95135168 CATCGAATAAACTGAAGTAACTATACTGGCACACATAGTGCATCATCAGATAAACCAAAGTATC
66 CACCAAATAAACTAAAGTAACTATACTGGCACACACAGTGCATCATCGGATAAATCAAAGTAAC
* * * * * * * * *
95135232 TATACTAACACATATAGTACATCAT-TAGATAAATCGAAGTAACTATACTAGCATACCCAGTGCA
1 TATACTAGCACACATAGTGCATCATCGA-ATAAACCGAAGAAAATATACTAGCACACACAGTGCA
* * * * * *
95135296 TCACCAAATAAACCAAAGTAACTATACCGACACATATAGTGCATCATCGGATAAACCAAAGTA
65 TCACCAAATAAACTAAAGTAACTATACTGGCACACACAGTGCATCATCGGATAAATCAAAGTA
95135359 TAACTTGTAT
Statistics
Matches: 413, Mismatches: 96, Indels: 10
0.80 0.18 0.02
Matches are distributed among these distances:
128 3 0.01
129 407 0.99
130 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.23
Consensus pattern (129 bp):
TATACTAGCACACATAGTGCATCATCGAATAAACCGAAGAAAATATACTAGCACACACAGTGCAT
CACCAAATAAACTAAAGTAACTATACTGGCACACACAGTGCATCATCGGATAAATCAAAGTAAC
Found at i:95135353 original size:43 final size:43
Alignment explanation
Indices: 95134716--95135358 Score: 439
Period size: 43 Copynumber: 15.0 Consensus size: 43
95134706 CCGACACAAT
* * * * * *
95134716 TATACTGGTACACACAGTGCATCATTGGATATACCGAAGCAAC
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
** * * *
95134759 TATACAAGCACACACAGTGCATTATCGGATATACTC-AAGTAAC
1 TATACTGGCACACATAGTGCATCATCGGATAAAC-CAAAGTAAC
* * * * *** **
95134802 TATAATGGCACACACAATGCATCATCAGATAAATTGAAGTATG
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
* * * *** * *
95134845 TATACTAGCACATACAGTGCATCATTTAACT-AACCAAAGAAAA
1 TATACTGGCACACATAGTGCATCATCGGA-TAAACCAAAGTAAC
* * * * * *** *
95134888 TATACTAGCACACACAGTGTATCACCAGATAAATTGAACTAAC
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
* * * * *
95134931 TATACTAGCACACACAGTGCATCATCGGATAAATCAAAGAAAA
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
** *
95134974 TATACCT-GCACACATAGTGCATCATCGGATAAACTGAA-TAAAA
1 TATA-CTGGCACACATAGTGCATCATCGGATAAACCAAAGT-AAC
* * ** * *
95135017 TATACTGGCACACATATTACATCATCAAATAAACTAAAGTATC
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
* * * **
95135060 AATACTGGCACATACAGTGCATCATCGGATAAATTAAAGTAAC
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
* ** *
95135103 TATACTGGCATACATAGTGCATCATCGGATAAACTGAAGTATC
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
* * * * * **
95135146 TATACTGGCACACACAATGTACCATCGAATAAACTGAAGTAAC
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
* *
95135189 TATACTGGCACACATAGTGCATCATCAGATAAACCAAAGTATC
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
** * * ** * *
95135232 TATACTAACACATATAGTACATCATTAGATAAATCGAAGTAAC
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
* * ** * **
95135275 TATACTAGCATACCCAGTGCATCACCAAATAAACCAAAGTAAC
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
* * *
95135318 TATACCGACACATATAGTGCATCATCGGATAAACCAAAGTA
1 TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTA
95135359 TAACTTGTAT
Statistics
Matches: 469, Mismatches: 123, Indels: 16
0.77 0.20 0.03
Matches are distributed among these distances:
42 3 0.01
43 461 0.98
44 5 0.01
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.23
Consensus pattern (43 bp):
TATACTGGCACACATAGTGCATCATCGGATAAACCAAAGTAAC
Found at i:95144859 original size:146 final size:143
Alignment explanation
Indices: 95144596--95144883 Score: 434
Period size: 146 Copynumber: 2.0 Consensus size: 143
95144586 GTTACATAGA
* **
95144596 CATTTAACCTCTAAAAATGTATAAAAAGTTTTCTCCTCATACGGCTCGAGAAAAAAAGATCAATT
1 CATTTAACCCCTAAAAATGTATAAAAAGTTTTCTCCTCATACAACTCGAGAAAAAAAGATCAATT
**
95144661 AAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAAGATCCATATTTC
66 AAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATAT-AAAAA-ATCCATAAATC
95144726 AACAAATCAATTAGG
129 AACAAATCAATTAGG
* * * *
95144741 CATTTAACCCCTAGAAATGTATAATAAA-TTTTTTCCTCATACAACTTGAGAAAAAAAAGATTAA
1 CATTTAACCCCTAAAAATGTATAA-AAAGTTTTCTCCTCATACAACTCGAG-AAAAAAAGATCAA
* *
95144805 TTAAAAGTTATGTCTATGTATGAAATTATAATGTATGGAATTAGAATATAAAAAATCCATAAATC
64 TTAAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAATCCATAAATC
95144870 AACAAATCAATTAG
129 AACAAATCAATTAG
95144884 CCTTTCAAGA
Statistics
Matches: 130, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
144 23 0.18
145 45 0.35
146 62 0.48
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (143 bp):
CATTTAACCCCTAAAAATGTATAAAAAGTTTTCTCCTCATACAACTCGAGAAAAAAAGATCAATT
AAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAATCCATAAATCAA
CAAATCAATTAGG
Found at i:95145199 original size:90 final size:90
Alignment explanation
Indices: 95145035--95145203 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 90
95145025 CCAATTTAGT
* * *
95145035 CCTTGCAGTTAATTAACATAATCAATTAAGCCCCTTTGTTAACTGAATCCATGGTTGACCACATT
1 CCTTGCAGTTAATTAAAATAATCAATCAAG-CCCTTTGTTAACGGAATCCATGGTTGACCACATT
95145100 GACTATTAAAATAAGCCCAATTGAAC
65 GACTATTAAAATAAGCCCAATTGAAC
* *
95145126 CCTTGCCA-TTAATTAAAATAATTAATCAAG-CCTTTCGTTAACGGAATCCGTGGTTGACCACAT
1 CCTTG-CAGTTAATTAAAATAATCAATCAAGCCCTTT-GTTAACGGAATCCATGGTTGACCACAT
*
95145189 TGACTGTTAAAATAA
64 TGACTATTAAAATAA
95145204 ATTGACTGAC
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
89 5 0.07
90 39 0.56
91 24 0.34
92 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (90 bp):
CCTTGCAGTTAATTAAAATAATCAATCAAGCCCTTTGTTAACGGAATCCATGGTTGACCACATTG
ACTATTAAAATAAGCCCAATTGAAC
Found at i:95145310 original size:20 final size:19
Alignment explanation
Indices: 95145262--95145309 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
95145252 TAATATTTTT
95145262 TTTATAAAAAATA-AAAAA
1 TTTATAAAAAATAGAAAAA
* * *
95145280 ATCATACAAAATAGAAAAA
1 TTTATAAAAAATAGAAAAA
95145299 TTTATAAAAAA
1 TTTATAAAAAA
95145310 ACTGGAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (19 bp):
TTTATAAAAAATAGAAAAA
Found at i:95145354 original size:16 final size:17
Alignment explanation
Indices: 95145315--95145354 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
95145305 AAAAAACTGG
95145315 AAAATATTATTAAAAATT
1 AAAATATTA-TAAAAATT
95145333 AGAAATATTA-AAAAATT
1 A-AAATATTATAAAAATT
95145350 AAAAT
1 AAAAT
95145355 TGATATAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.19
17 8 0.38
18 1 0.05
19 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAATATTATAAAAATT
Found at i:95145502 original size:21 final size:21
Alignment explanation
Indices: 95145477--95145521 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
95145467 AAACATATTT
* *
95145477 AAAACATTTA-AAATTTTATAA
1 AAAACATATACAAATTCT-TAA
95145498 AAAACATATACAAATTCTTAA
1 AAAACATATACAAATTCTTAA
95145519 AAA
1 AAA
95145522 CTTATAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAACATATACAAATTCTTAA
Found at i:95145522 original size:20 final size:22
Alignment explanation
Indices: 95145497--95145542 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
95145487 AAATTTTATA
*
95145497 AAAAACATAT-ACAAATTC-TT
1 AAAAACATATAACAAAATCATT
*
95145517 AAAAACTTATAACAAAATCATT
1 AAAAACATATAACAAAATCATT
95145539 AAAA
1 AAAA
95145543 TATAAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAACATATAACAAAATCATT
Found at i:95145619 original size:9 final size:9
Alignment explanation
Indices: 95145365--95145668 Score: 90
Period size: 9 Copynumber: 32.0 Consensus size: 9
95145355 TGATATAATC
95145365 TTATAAAAA
1 TTATAAAAA
95145374 -TATAAAAA
1 TTATAAAAA
*
95145382 ATATTAGAAAA
1 TTA-TA-AAAA
95145393 TAATATAAAAA
1 T--TATAAAAA
*
95145404 CCTTATAAATA
1 --TTATAAAAA
*
95145415 CTATAAAAA
1 TTATAAAAA
*
95145424 ATATAAAAGA
1 TTATAAAA-A
95145434 TT-TAATAAA
1 TTATAA-AAA
*
95145443 TTGTAATAAA
1 TTATAA-AAA
95145453 TT-TAAAAA
1 TTATAAAAA
95145461 TTAATGAAACATA
1 TT-AT-AAA-A-A
95145474 TT-TAAAACA
1 TTATAAAA-A
*
95145483 TT-TAAAATT
1 TTATAAAA-A
95145492 TTATAAAAAA
1 TTAT-AAAAA
* *
95145502 CATATACAAA
1 -TTATAAAAA
*
95145512 TTCTTAAAAA
1 TT-ATAAAAA
95145522 CTTATAACAAAA
1 -TTAT-A-AAAA
* *
95145534 TCATTAAAA
1 TTATAAAAA
*
95145543 -TATAAAAG
1 TTATAAAAA
95145551 TTATTAAAAA
1 TTA-TAAAAA
*
95145561 TCATAAAAA
1 TTATAAAAA
* *
95145570 TAAT-TAAA
1 TTATAAAAA
95145578 -TATAAAAA
1 TTATAAAAA
95145586 TGT-T-AAAA
1 T-TATAAAAA
* *
95145594 TTGATATACAC
1 TT-ATA-AAAA
95145605 TTATAAAAA
1 TTATAAAAA
95145614 TTATAAAAA
1 TTATAAAAA
**
95145623 AAATCATAAAA
1 TTAT-A-AAAA
95145634 -TATAAAAA
1 TTATAAAAA
*
95145642 ATATAAAAA
1 TTATAAAAA
*
95145651 ATATAAAAA
1 TTATAAAAA
*
95145660 ATATAAAAA
1 TTATAAAAA
95145669 CAACTAGTTT
Statistics
Matches: 227, Mismatches: 34, Indels: 68
0.69 0.10 0.21
Matches are distributed among these distances:
7 3 0.01
8 33 0.15
9 94 0.41
10 44 0.19
11 40 0.18
12 7 0.03
13 6 0.03
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:95145637 original size:28 final size:27
Alignment explanation
Indices: 95145606--95145668 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
95145596 GATATACACT
* *
95145606 TATAAAAATTATAAAAAAAATCATAAAA
1 TATAAAAAATATAAAAAAAAT-AAAAAA
*
95145634 TATAAAAAATATAAAAAATATAAAAAA
1 TATAAAAAATATAAAAAAAATAAAAAA
95145661 TATAAAAA
1 TATAAAAA
95145669 CAACTAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 13 0.41
28 19 0.59
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (27 bp):
TATAAAAAATATAAAAAAAATAAAAAA
Found at i:95145884 original size:16 final size:16
Alignment explanation
Indices: 95145845--95145886 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
95145835 AAAATAACGA
*
95145845 TATAATTACACTTTGT
1 TATAATTACAATTTGT
*
95145861 TA-AATTACAATTTTT
1 TATAATTACAATTTGT
95145876 TATAATTACAA
1 TATAATTACAA
95145887 AAGAGTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (16 bp):
TATAATTACAATTTGT
Found at i:95162795 original size:132 final size:129
Alignment explanation
Indices: 95162577--95162837 Score: 290
Period size: 132 Copynumber: 2.0 Consensus size: 129
95162567 CATTTATGGT
* * * ** * * * *
95162577 TATTACTGGACTTTTCAATTAAGAGGCATGTTTGCTTGATGGTAGTGTTTCATTATGTATGATTC
1 TATTACTGGACATTTCAATTAAGAGGCATGTTTGCTTGACGCTAGTGCGTCACTAAGCATAATTC
* * * *
95162642 TTCCTCGAATTTGCTTGTGTTGCTTTAATACTATTATTCATTGTGTATATATATCCTTGATCTTT
66 TTCCTCGAATTTGCTTGTGTTGCTTGAAAACTATTA-TCAAT-TG-ATATATATCCTTGATCCTT
95162707 TA
128 TA
* *
95162709 TATTACTGGACATTTCAATTAATAGGCATGTTTGCTTGACGCTAGTGCGTCCCTAAGCATAATTC
1 TATTACTGGACATTTCAATTAAGAGGCATGTTTGCTTGACGCTAGTGCGTCACTAAGCATAATTC
** * * * *
95162774 TT-CTATTAGTTTTCTTTTGTTGCTTGAAAACTATTATCAATTGCTATATATCCTTGATCCTTTA
66 TTCCT-CGAATTTGCTTGTGTTGCTTGAAAACTATTATCAATTGATATATATCCTTGATCCTTTA
95162838 GGTTTTTATG
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
129 19 0.18
130 2 0.02
131 6 0.06
132 80 0.75
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (129 bp):
TATTACTGGACATTTCAATTAAGAGGCATGTTTGCTTGACGCTAGTGCGTCACTAAGCATAATTC
TTCCTCGAATTTGCTTGTGTTGCTTGAAAACTATTATCAATTGATATATATCCTTGATCCTTTA
Found at i:95170126 original size:34 final size:34
Alignment explanation
Indices: 95170068--95170133 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
95170058 CAAACACCAG
95170068 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
95170103 AAAATATTTTCCCG-AAATCATTTTACGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACGAAAA
95170134 ATATTTTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (34 bp):
AAAATATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:95173137 original size:39 final size:39
Alignment explanation
Indices: 95173105--95173371 Score: 339
Period size: 39 Copynumber: 7.0 Consensus size: 39
95173095 AGAACAGGTG
*
95173105 GGTATGGCTCAATTGAGCATACTTTCAGTAGAATCAGTA
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* *
95173144 GGTA----T--ATTGAGCATACTTTTAGTAGAATCAGTG
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * *
95173177 GGTATGTCTTGATTGAGCATACTTTTAGTAGAATCAGTA
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * *
95173216 GGTATGGCTCAATTAAGCATACTTTTAGTAGAATCAGTA
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * *
95173255 GGTATGACTCGATTGATCATACTTTCAGTAGAATCAGTG
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* *
95173294 GGTATGACTCGATTGAGCATACTTTCATTAGAATCAGTA
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * *
95173333 GATATGGCTCGATTGAGCATACTTTTAATAGAATCAGTA
1 GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
95173372 TCCCATTTTT
Statistics
Matches: 202, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
33 30 0.15
35 1 0.00
37 1 0.00
39 170 0.84
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (39 bp):
GGTATGGCTCGATTGAGCATACTTTCAGTAGAATCAGTA
Found at i:95173318 original size:117 final size:111
Alignment explanation
Indices: 95173105--95173371 Score: 381
Period size: 117 Copynumber: 2.4 Consensus size: 111
95173095 AGAACAGGTG
* *
95173105 GGTATGGCTCAATTGAGCATACTTTCAGTAGAATCAGTAGGTATATTGAGCATACTTTTAGTAGA
1 GGTATGGCTCAATTGAGCATACTTTTAGTAGAATCAGTAGGTATATTGAGCATACTTTCAGTAGA
* * *
95173170 ATCAGTGGGTATGTCTTGATTGAGCATACTTTTAGTAGAATCAGTA
66 ATCAGTGGGTATGACTCGATTGAGCATACTTTCAGTAGAATCAGTA
* *
95173216 GGTATGGCTCAATTAAGCATACTTTTAGTAGAATCAGTAGGTATGACTCGATTGATCATACTTTC
1 GGTATGGCTCAATTGAGCATACTTTTAGTAGAATCAGTAGG--T-A-T--ATTGAGCATACTTTC
*
95173281 AGTAGAATCAGTGGGTATGACTCGATTGAGCATACTTTCATTAGAATCAGTA
60 AGTAGAATCAGTGGGTATGACTCGATTGAGCATACTTTCAGTAGAATCAGTA
* * *
95173333 GATATGGCTCGATTGAGCATACTTTTAATAGAATCAGTA
1 GGTATGGCTCAATTGAGCATACTTTTAGTAGAATCAGTA
95173372 TCCCATTTTT
Statistics
Matches: 138, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
111 39 0.28
113 1 0.01
114 1 0.01
115 1 0.01
117 96 0.70
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (111 bp):
GGTATGGCTCAATTGAGCATACTTTTAGTAGAATCAGTAGGTATATTGAGCATACTTTCAGTAGA
ATCAGTGGGTATGACTCGATTGAGCATACTTTCAGTAGAATCAGTA
Found at i:95180085 original size:19 final size:19
Alignment explanation
Indices: 95180044--95180099 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
95180034 TTTAAAATAG
* *
95180044 TTTTAACTCGATTGAAA-A
1 TTTTAACTCTATTAAAACA
95180062 TATTTAACTCTATTAAAACCA
1 T-TTTAACTCTATTAAAA-CA
95180083 TTTTAACT-TGATTAAAA
1 TTTTAACTCT-ATTAAAA
95180100 GTTGATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
20 14 0.44
21 2 0.06
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (19 bp):
TTTTAACTCTATTAAAACA
Found at i:95197071 original size:22 final size:21
Alignment explanation
Indices: 95197037--95197080 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
95197027 TTACACTTAA
*
95197037 AATTATTAATATATTGAATTTT
1 AATTATTAATATAAT-AATTTT
**
95197059 AATTATTTTTATAATAATTTT
1 AATTATTAATATAATAATTTT
95197080 A
1 A
95197081 CACAAATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTATTAATATAATAATTTT
Found at i:95200829 original size:14 final size:14
Alignment explanation
Indices: 95200796--95200839 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
95200786 TAAGGTCTTG
*
95200796 TTAATTAAAGTTTAA
1 TTAATT-AATTTTAA
*
95200811 TTAATTAATTTTGA
1 TTAATTAATTTTAA
95200825 TTAATTAAGTTTTAA
1 TTAATTAA-TTTTAA
95200840 ACTAAGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTAATTAATTTTAA
Found at i:95207032 original size:69 final size:69
Alignment explanation
Indices: 95206954--95207104 Score: 205
Period size: 69 Copynumber: 2.2 Consensus size: 69
95206944 TCTACGGAGA
* *
95206954 CCTTGGTGTGGTGGAGGGATGATAT-TTTATCTGATACAATATTGTGCCTACGAGCTTTACACTA
1 CCTTGGTGTGGTGGAGGGATGAT-TCGTTATATGATACAATATTGTGCCTACGAGCTTTACACTA
**
95207018 TGGTG
65 CAGTG
* *** *
95207023 CCTTGGTGTGATGGAGGGATGATTCGTTATATGATATGTTATTGTGCCTACGAGCTTTGCACTAC
1 CCTTGGTGTGGTGGAGGGATGATTCGTTATATGATACAATATTGTGCCTACGAGCTTTACACTAC
95207088 AGTG
66 AGTG
95207092 CCTTGGTGTGGTG
1 CCTTGGTGTGGTG
95207105 TAGTTATTGT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
68 1 0.01
69 70 0.99
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (69 bp):
CCTTGGTGTGGTGGAGGGATGATTCGTTATATGATACAATATTGTGCCTACGAGCTTTACACTAC
AGTG
Found at i:95212082 original size:17 final size:18
Alignment explanation
Indices: 95212048--95212083 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
95212038 CAAGAGTCTC
*
95212048 CCTACAGTTTCTAGTTTT
1 CCTACAGTCTCTAGTTTT
95212066 CCTACAGTCTC-AGTTTT
1 CCTACAGTCTCTAGTTTT
95212083 C
1 C
95212084 TCTAATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.44
Consensus pattern (18 bp):
CCTACAGTCTCTAGTTTT
Found at i:95212247 original size:21 final size:20
Alignment explanation
Indices: 95212222--95212262 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
95212212 TTGAAGAAAT
95212222 AATTCAAAACAGTTTTCAAAA
1 AATTCAAAACA-TTTTCAAAA
* *
95212243 AATTCCAAATATTTTCAAAA
1 AATTCAAAACATTTTCAAAA
95212263 CCCATTCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (20 bp):
AATTCAAAACATTTTCAAAA
Found at i:95212908 original size:33 final size:30
Alignment explanation
Indices: 95212884--95212967 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
95212874 TAGTAGTATA
95212884 GTGTGGGCCTTAGCCCATTACAGTAACAAT
1 GTGTGGGCCTTAGCCCATTACAGTAACAAT
95212914 GTGTGGGCCTTAGCCCATTACAGTAAC-A-
1 GTGTGGGCCTTAGCCCATTACAGTAACAAT
* *
95212942 GTGTGGGCCTTAGCCCAGTATAGTAA
1 GTGTGGGCCTTAGCCCATTACAGTAA
95212968 TCAGTACAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
28 24 0.46
29 1 0.02
30 27 0.52
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCATTACAGTAACAAT
Found at i:95213101 original size:26 final size:26
Alignment explanation
Indices: 95213071--95213153 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
95213061 GCCAACACAC
*
95213071 CAATATCGCAACAAAGCTGCCAGTAA
1 CAATAACGCAACAAAGCTGCCAGTAA
* * *
95213097 TAATAACACAACAAAGCTTCCAGTAA
1 CAATAACGCAACAAAGCTGCCAGTAA
* * *
95213123 CAGTAACGCAGCAAAGCTGCTAGTAA
1 CAATAACGCAACAAAGCTGCCAGTAA
95213149 CAATA
1 CAATA
95213154 TATGTGGCAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.45, C:0.24, G:0.14, T:0.17
Consensus pattern (26 bp):
CAATAACGCAACAAAGCTGCCAGTAA
Found at i:95213361 original size:27 final size:27
Alignment explanation
Indices: 95213331--95213522 Score: 214
Period size: 27 Copynumber: 7.1 Consensus size: 27
95213321 TATAACAGTT
*
95213331 ATTTTACCCTAT-GAGGGTATTTCAATC
1 ATTTTACCCT-TCGAGGGTATTTCGATC
95213358 ATTTTACCCTTC-AGGGGTATTTCGATC
1 ATTTTACCCTTCGA-GGGTATTTCGATC
95213385 ATTTTACCCTTCG-GGGATATTTCGATC
1 ATTTTACCCTTCGAGGG-TATTTCGATC
* *
95213412 ATTTTACCCTTCGAGGTTATTTTGATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* * * *
95213439 ATCTTACCCATCGAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* *
95213466 ATTTTACCCATT-GATGGTATTTCGGGT-
1 ATTTTACCC-TTCGAGGGTATTTC-GATC
*
95213493 ATTTTACCCTTCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATC
95213520 ATT
1 ATT
95213523 AGCCCATAAA
Statistics
Matches: 144, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.07
27 128 0.89
28 6 0.04
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATC
Found at i:95220186 original size:19 final size:18
Alignment explanation
Indices: 95220153--95220198 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
95220143 ACTCAAAAAA
*
95220153 TATTATTTTTATTTTATT
1 TATTTTTTTTATTTTATT
*
95220171 TATTTTTTTGTATTTTTTT
1 TATTTTTTT-TATTTTATT
*
95220190 TGTTTTTTT
1 TATTTTTTT
95220199 CACTTTTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (18 bp):
TATTTTTTTTATTTTATT
Found at i:95220195 original size:9 final size:9
Alignment explanation
Indices: 95220153--95220198 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
95220143 ACTCAAAAAA
*
95220153 TATTATTTT
1 TATTTTTTT
*
95220162 TATTTTATT
1 TATTTTTTT
95220171 TATTTTTTT
1 TATTTTTTT
95220180 GTATTTTTTT
1 -TATTTTTTT
*
95220190 TGTTTTTTT
1 TATTTTTTT
95220199 CACTTTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (9 bp):
TATTTTTTT
Found at i:95220617 original size:18 final size:18
Alignment explanation
Indices: 95220574--95220623 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
95220564 AAATTTGAGA
*
95220574 ATAAAAAAATAA-AAATC
1 ATAAATAAATAAGAAATC
95220591 ATAAATAAATAAGAAAT-
1 ATAAATAAATAAGAAATC
*
95220608 ATAAATTAAAAAAGAA
1 ATAAA-TAAATAAGAA
95220624 CAAAGTGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 16 0.55
18 13 0.45
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAATAAATAAGAAATC
Found at i:95248584 original size:29 final size:29
Alignment explanation
Indices: 95248542--95248600 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
95248532 ACAAAATCAA
95248542 CAGAGATAACTCTATCTGAGATCAATTTT
1 CAGAGATAACTCTATCTGAGATCAATTTT
95248571 CAGAGATAACTCTATCTGAGATCAATTTT
1 CAGAGATAACTCTATCTGAGATCAATTTT
95248600 C
1 C
95248601 TAACAGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (29 bp):
CAGAGATAACTCTATCTGAGATCAATTTT
Found at i:95250974 original size:82 final size:81
Alignment explanation
Indices: 95250873--95251127 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 81
95250863 AAAATGAAAG
* * ** *
95250873 TAAAATATGTTCAACGGCAGGAATAAATCCCGAAACAGAATTATTTGATTAAGTCTTCATTTGGA
1 TAAAATCTGTTAAACGGCAGGAATAAATCCCGAAACAGAATTATTCAATTAAGTC-TCATTTGAA
*
95250938 AACAAATCAAGATTGAA
65 AAAAAATCAAGATTGAA
* ** * ** *
95250955 TAAAATCTGTTAAAAGGCAGGAATAAATCTTGTAACAG-ATTATTCAATTATTTCTCGTTTGAAA
1 TAAAATCTGTTAAACGGCAGGAATAAATCCCGAAACAGAATTATTCAATTAAGTCTCATTTGAAA
* *
95251019 AAAAATTAATATTGAA
66 AAAAATCAAGATTGAA
* * * * * *
95251035 TAAAATCTATTAAACGGCGGGAATAAACCCCGAAACAGATTTTATTTAATTTTAA-TACTCGTTT
1 TAAAATCTGTTAAACGGCAGGAATAAATCCCGAAACAGA-ATTATTCAA--TTAAGT-CTCATTT
*
95251099 GGAAAAAAATCAAAGA-TGAAA
62 GAAAAAAAATC-AAGATTG-AA
95251120 TAAAATCT
1 TAAAATCT
95251128 ATTGAATAGC
Statistics
Matches: 138, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
80 52 0.38
81 12 0.09
82 39 0.28
83 1 0.01
84 21 0.15
85 13 0.09
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (81 bp):
TAAAATCTGTTAAACGGCAGGAATAAATCCCGAAACAGAATTATTCAATTAAGTCTCATTTGAAA
AAAAATCAAGATTGAA
Found at i:95251160 original size:85 final size:84
Alignment explanation
Indices: 95251008--95251172 Score: 188
Period size: 85 Copynumber: 2.0 Consensus size: 84
95250998 TCAATTATTT
* * * * **
95251008 CTCGTTTGAAAAAAAATTAATATTGAATAAAATCTATTAAACGGCGGGAATAAACCCCGAAACAG
1 CTCGTTTGAAAAAAAATCAATAATGAATAAAATCTATTAAACAGCGGGAACAAACCCAAAAACAG
* *
95251073 ATTTTATTTAATTTTAATA
66 ATTTAATTAAATTTTAATA
* * * * *
95251092 CTCGTTTGGAAAAAAATCAA-AGATGAAATAAAATCTATTGAATAGCGGGAACAAATCCAAAAAT
1 CTCGTTTGAAAAAAAATCAATA-ATG-AATAAAATCTATTAAACAGCGGGAACAAACCCAAAAAC
95251156 AGATTTAATTAAATTTT
64 AGATTTAATTAAATTTT
95251173 TATTTTTATT
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
83 1 0.02
84 20 0.30
85 45 0.68
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (84 bp):
CTCGTTTGAAAAAAAATCAATAATGAATAAAATCTATTAAACAGCGGGAACAAACCCAAAAACAG
ATTTAATTAAATTTTAATA
Found at i:95252215 original size:23 final size:23
Alignment explanation
Indices: 95252189--95252239 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
95252179 TAGCATATTA
*
95252189 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
95252212 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
95252235 AGTAA
1 TGTAA
95252240 GAAAGTAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:95254134 original size:23 final size:23
Alignment explanation
Indices: 95254094--95254144 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
95254084 GGGATAGAAA
* * *
95254094 TGTAATATCTCGATAATTACTAC
1 TGTAATAACCCGAAAATTACTAC
95254117 TGTAATAACCCGAAAATTACTAC
1 TGTAATAACCCGAAAATTACTAC
*
95254140 AGTAA
1 TGTAA
95254145 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (23 bp):
TGTAATAACCCGAAAATTACTAC
Found at i:95254919 original size:61 final size:61
Alignment explanation
Indices: 95254844--95254961 Score: 227
Period size: 61 Copynumber: 1.9 Consensus size: 61
95254834 AGGAGACAAT
95254844 GGGGAGCTTGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAG
1 GGGGAGCTTGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAG
*
95254905 GGGGAGCTTGAATATCAAGTTAGATTCAAGAAATATAAGCTGGAGGAGAGAGAAAAT
1 GGGGAGCTTGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAGGAGAGAGAAAAT
95254962 TAAATTAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.42, C:0.08, G:0.31, T:0.19
Consensus pattern (61 bp):
GGGGAGCTTGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAG
Found at i:95254977 original size:61 final size:61
Alignment explanation
Indices: 95254851--95254982 Score: 176
Period size: 61 Copynumber: 2.2 Consensus size: 61
95254841 AATGGGGAGC
* ** **
95254851 TTGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAGGGGGAGC
1 TTGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAAGGAAAAA
* * **
95254912 TTGAATATCAAGTTAGATTCAAGAAATATAAGCTGGAGGAGAGAGAAAATTAAATTAAAAA
1 TTGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAAGGAAAAA
95254973 TTGAA-ATCAA
1 TTGAATATCAA
95254983 TAGCACAAGA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
60 5 0.08
61 57 0.92
ACGTcount: A:0.47, C:0.07, G:0.24, T:0.22
Consensus pattern (61 bp):
TTGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAGGAGAGAGAAAATCAAAGGAAAAA
Found at i:95258202 original size:48 final size:48
Alignment explanation
Indices: 95258149--95258245 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
95258139 GTTAGATTCA
*
95258149 AGAAATAGAAGCTGGAGGAGAGAGAAAATCAAGTTAAAAATTGAAATC
1 AGAAATAGAAGCTGGAGGAGAGAGAAAATCAAATTAAAAATTGAAATC
* *
95258197 AGAAATATAAGCTGGAGGAGAGAGAAAATTAAATTAAAAATTGAAATC
1 AGAAATAGAAGCTGGAGGAGAGAGAAAATCAAATTAAAAATTGAAATC
95258245 A
1 A
95258246 ATAGCACAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.54, C:0.05, G:0.23, T:0.19
Consensus pattern (48 bp):
AGAAATAGAAGCTGGAGGAGAGAGAAAATCAAATTAAAAATTGAAATC
Found at i:95260610 original size:50 final size:50
Alignment explanation
Indices: 95260512--95260800 Score: 357
Period size: 50 Copynumber: 5.7 Consensus size: 50
95260502 ATGTGAGCCA
*
95260512 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCC
*
95260568 ATGTAATACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
*
95260618 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
*
95260668 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-AGGATGAGAGGTGCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-GATGAGAGGT-CCC
* * * * * * **
95260719 -CGTAAGATCATGTTTGGGACATGGCATGGGCATCGATATGAGAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
* * *
95260768 ATGTAAGACCATATCTGAGATATGGCATTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
95260801 GTACAAGAAA
Statistics
Matches: 207, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
49 4 0.02
50 163 0.79
51 4 0.02
53 3 0.01
55 1 0.00
56 32 0.15
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCC
Found at i:95262370 original size:23 final size:23
Alignment explanation
Indices: 95262330--95262380 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
95262320 GGGATAGAAA
* * *
95262330 TGTAATATCTCGATAATTACTAC
1 TGTAATAACCCGAAAATTACTAC
95262353 TGTAATAACCCGAAAATTACTAC
1 TGTAATAACCCGAAAATTACTAC
*
95262376 AGTAA
1 TGTAA
95262381 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (23 bp):
TGTAATAACCCGAAAATTACTAC
Found at i:95264180 original size:59 final size:59
Alignment explanation
Indices: 95264124--95264245 Score: 217
Period size: 59 Copynumber: 2.1 Consensus size: 59
95264114 GGTAAATTTG
*
95264124 TAAAAATGTCAAAAAGCGACCAAATTGCATGAAATGAATTTTTTTATTATTTAAATTAA
1 TAAAAATGTCAAAAAGCGACCAAATTGCATGAAATGAATTGTTTTATTATTTAAATTAA
* *
95264183 TAAAAATGTCAAAAAGTGACCAAATTGCATGAAATGGATTGTTTTATTATTTAAATTAA
1 TAAAAATGTCAAAAAGCGACCAAATTGCATGAAATGAATTGTTTTATTATTTAAATTAA
95264242 TAAA
1 TAAA
95264246 TTGAATGAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.35
Consensus pattern (59 bp):
TAAAAATGTCAAAAAGCGACCAAATTGCATGAAATGAATTGTTTTATTATTTAAATTAA
Found at i:95273885 original size:15 final size:15
Alignment explanation
Indices: 95273865--95273893 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
95273855 TTCAAGCATC
95273865 AACCTATGATGCTGA
1 AACCTATGATGCTGA
95273880 AACCTATGATGCTG
1 AACCTATGATGCTG
95273894 GAAAAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (15 bp):
AACCTATGATGCTGA
Found at i:95275133 original size:22 final size:20
Alignment explanation
Indices: 95275108--95275160 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 20
95275098 ATTTATTTAA
*
95275108 TTATTTTTAGGTATTTAGGAAT
1 TTATTTTTA-GTAATTA-GAAT
95275130 TTATTTCTTTAGTAATTAGAAT
1 TTA-TT-TTTAGTAATTAGAAT
95275152 TTAATTTTT
1 TT-ATTTTT
95275161 GCAAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 3 0.11
22 11 0.41
23 9 0.33
24 4 0.15
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.58
Consensus pattern (20 bp):
TTATTTTTAGTAATTAGAAT
Found at i:95275158 original size:23 final size:25
Alignment explanation
Indices: 95275102--95275158 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
95275092 CTTGTTATTT
* *
95275102 ATTTAATTATTTTTAGGTATTTAGGA
1 ATTTAATT-TCTTTAGGTAATTAGGA
95275128 ATTT-ATTTCTTTA-GTAATTA-GA
1 ATTTAATTTCTTTAGGTAATTAGGA
95275150 ATTTAATTT
1 ATTTAATTT
95275159 TTGCAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 6 0.21
23 10 0.36
24 5 0.18
25 3 0.11
26 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.56
Consensus pattern (25 bp):
ATTTAATTTCTTTAGGTAATTAGGA
Found at i:95279003 original size:16 final size:16
Alignment explanation
Indices: 95278982--95279013 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
95278972 AGTATTTTCG
95278982 AACGATCTCATACCTT
1 AACGATCTCATACCTT
95278998 AACGATCTCATACCTT
1 AACGATCTCATACCTT
95279014 CTAGTGGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (16 bp):
AACGATCTCATACCTT
Found at i:95282865 original size:20 final size:20
Alignment explanation
Indices: 95282840--95282883 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
95282830 CAAAAACCAG
*
95282840 AAATTGATTAAAATCAAATC
1 AAATTGATTAAAATCAAATA
**
95282860 AAATTGATTGGAATCAAATA
1 AAATTGATTAAAATCAAATA
95282880 AAAT
1 AAAT
95282884 CAGGTCACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.30
Consensus pattern (20 bp):
AAATTGATTAAAATCAAATA
Found at i:95285551 original size:4 final size:4
Alignment explanation
Indices: 95285542--95285568 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
95285532 TGTTGTATCC
95285542 ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATG
95285569 AAGTTGGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:95301374 original size:20 final size:20
Alignment explanation
Indices: 95301337--95301375 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95301327 TAATACAACA
*
95301337 GAACAGAACAAGACAAAACC
1 GAACAGAACAAAACAAAACC
* *
95301357 GAACAGAGCAAAATAAAAC
1 GAACAGAACAAAACAAAAC
95301376 AAATCAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.21, G:0.15, T:0.03
Consensus pattern (20 bp):
GAACAGAACAAAACAAAACC
Found at i:95321418 original size:9 final size:9
Alignment explanation
Indices: 95321404--95321497 Score: 82
Period size: 9 Copynumber: 10.4 Consensus size: 9
95321394 TTTGGTTAAA
95321404 AATTAACCG
1 AATTAACCG
95321413 AATTAACCG
1 AATTAACCG
* *
95321422 AATTGACTG
1 AATTAACCG
**
95321431 AATTAACTA
1 AATTAACCG
* *
95321440 AACTACCCG
1 AATTAACCG
*
95321449 AATTAAACG
1 AATTAACCG
*
95321458 AATTAACTG
1 AATTAACCG
*
95321467 AATT-ACTCA
1 AATTAAC-CG
*
95321476 AATTACCCG
1 AATTAACCG
95321485 AATTAACCG
1 AATTAACCG
95321494 AATT
1 AATT
95321498 GAATCCCTAC
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
8 2 0.03
9 62 0.95
10 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:95321453 original size:36 final size:36
Alignment explanation
Indices: 95321410--95321499 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 36
95321400 TAAAAATTAA
95321410 CCGAATTAACCGAATTGACTGAATTAACT-AAACTAC
1 CCGAATTAACCGAATTGACTGAATT-ACTCAAACTAC
* * *
95321446 CCGAATTAAACGAATTAACTGAATTACTCAAATTAC
1 CCGAATTAACCGAATTGACTGAATTACTCAAACTAC
95321482 CCGAATTAACCGAATTGA
1 CCGAATTAACCGAATTGA
95321500 ATCCCTACAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 3 0.06
36 45 0.94
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (36 bp):
CCGAATTAACCGAATTGACTGAATTACTCAAACTAC
Found at i:95323778 original size:79 final size:82
Alignment explanation
Indices: 95323667--95323851 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
95323657 GCTACTCGTT
* * *
95323667 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
95323730 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
95323747 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
95323810 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
95323827 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95323852 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:95323851 original size:40 final size:40
Alignment explanation
Indices: 95323648--95323851 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
95323638 CGGAATTTAA
** *
95323648 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
95323688 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
95323728 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
95323767 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
95323807 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
95323847 CCGGA
1 CCGGA
95323852 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:95325894 original size:20 final size:20
Alignment explanation
Indices: 95325866--95325914 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
95325856 ATATATCCTG
* *
95325866 ATTTTATTTGATTCTAGTCA
1 ATTTGATTTGATTCTAATCA
*
95325886 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTCTAATCA
*
95325906 AATTGATTT
1 ATTTGATTT
95325915 AATTTCCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (20 bp):
ATTTGATTTGATTCTAATCA
Found at i:95326403 original size:22 final size:23
Alignment explanation
Indices: 95326362--95326405 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
95326352 TTCAATTTAT
95326362 TTTATTATATACATAAATATTTG
1 TTTATTATATACATAAATATTTG
* *
95326385 TTTATT-TATACTTACATATTT
1 TTTATTATATACATAAATATTT
95326406 TTGTTCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATTATATACATAAATATTTG
Found at i:95326758 original size:85 final size:83
Alignment explanation
Indices: 95326519--95326990 Score: 446
Period size: 81 Copynumber: 5.6 Consensus size: 83
95326509 TATTTGAAAA
* * * * *
95326519 AAATGAAATAAAATCTATTTCGGGATTTATTCTCACCGTTTAACAGGTTTTATTCCATTTTTTAT
1 AAATTAAATAAAATCTGTTTCGGGATTTATTC-CGCCGTTTAACAGATTTTATTCCA-TTTTAAT
*
95326584 TTTGTTTCCAAATGAGTATT
64 TTTGTTTCCAAATGAGAATT
* * * *
95326604 AAAAATTAAATAAAATCTG-TTCTAGGATTTATTCCTGCCATTCAACAAATTTTATTCCATTTT-
1 --AAATTAAATAAAATCTGTTTC-GGGATTTATTCC-GCCGTTTAACAGATTTTATTCCATTTTA
* *
95326667 TTTTTGTTTCCAAATGAGTATT
62 ATTTTGTTTCCAAATGAGAATT
* *
95326689 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCATCCGTTTAACAGATTTTATTCGATTTTAAT
1 -AAATTAAATAAAATCTGTTTCGGGATTTATTCC-GCCGTTTAACAGATTTTATTCCATTTTAAT
*
95326754 TTTGTTTCTAAAATG-GAATT
64 TTTGTTTC-CAAATGAGAATT
* * * * * *
95326774 AAATT---GAAAGTTTGTTTCTGGATTTATTCCCGCTGTTTAACAGATTTTATTCGATTTTAATT
1 AAATTAAATAAAATCTGTTTCGGGATTTATT-CCGCCGTTTAACAGATTTTATTCCATTTTAATT
*
95326836 TTATTTCCAAAAT-AGAATT
65 TTGTTTCC-AAATGAGAATT
* * * *
95326855 AAATT---GAAAATCTGTTTCGGTATTTATTCTCGCCCTTTAACAGATTTTATTCTATTTTAATT
1 AAATTAAATAAAATCTGTTTCGGGATTTATTC-CGCCGTTTAACAGATTTTATTCCATTTTAATT
95326917 TTGTTTCCAAATGAGAAGACTT
65 TTGTTTCCAAATGAG-A-A-TT
* * * *
95326939 -AATCAAAT-AATTCTATTTCGGGATTTATTCCCGCAGTTTAACAGATTTTATT
1 AAATTAAATAAAATCTGTTTCGGGATTTATT-CCGCCGTTTAACAGATTTTATT
95326991 TTGATTTAAT
Statistics
Matches: 326, Mismatches: 42, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
80 5 0.02
81 125 0.38
82 3 0.01
83 4 0.01
84 58 0.18
85 74 0.23
86 14 0.04
87 43 0.13
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (83 bp):
AAATTAAATAAAATCTGTTTCGGGATTTATTCCGCCGTTTAACAGATTTTATTCCATTTTAATTT
TGTTTCCAAATGAGAATT
Found at i:95333909 original size:18 final size:18
Alignment explanation
Indices: 95333886--95333933 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
95333876 CTCATGGGTG
95333886 CTAGATGCTAAAATTCAC
1 CTAGATGCTAAAATTCAC
95333904 CTAGATGCTAAAATTCAC
1 CTAGATGCTAAAATTCAC
95333922 CTAGATGCTAAA
1 CTAGATGCTAAA
95333934 GGTATTGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (18 bp):
CTAGATGCTAAAATTCAC
Found at i:95337480 original size:17 final size:17
Alignment explanation
Indices: 95337458--95337491 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
95337448 TAAAGGTAAG
*
95337458 GATATTGAGATTTCATC
1 GATATTGAGATCTCATC
95337475 GATATTGAGATCTCATC
1 GATATTGAGATCTCATC
95337492 ATCTCTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (17 bp):
GATATTGAGATCTCATC
Found at i:95342464 original size:28 final size:28
Alignment explanation
Indices: 95342420--95342481 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
95342410 TTAACCCTAA
*
95342420 GGGTATAGAGGTCATTTTGCATACATAG
1 GGGTATAGAGGTAATTTTGCATACATAG
95342448 GGGTATA-ATGGTAATTTTGCATACATAG
1 GGGTATAGA-GGTAATTTTGCATACATAG
95342476 GGGTAT
1 GGGTAT
95342482 TCTAGTACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
GGGTATAGAGGTAATTTTGCATACATAG
Found at i:95343294 original size:12 final size:13
Alignment explanation
Indices: 95343275--95343312 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
95343265 GCGTTCGGCT
95343275 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
95343288 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
95343300 ATGGAGAA-GAAG
1 ATGGAGAAGGAAG
95343312 A
1 A
95343313 AAAGATGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.45, T:0.08
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:95349843 original size:28 final size:28
Alignment explanation
Indices: 95349793--95349939 Score: 258
Period size: 28 Copynumber: 5.2 Consensus size: 28
95349783 GTGACAGAGT
* * *
95349793 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGGGC
95349822 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
95349850 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
95349878 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
95349906 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
95349934 CACCAG
1 CACCAG
95349940 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
28 108 0.94
29 7 0.06
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGGGC
Found at i:95349993 original size:65 final size:64
Alignment explanation
Indices: 95349912--95350044 Score: 239
Period size: 65 Copynumber: 2.1 Consensus size: 64
95349902 GGGCCACCAG
*
95349912 AACAGATAATTTGTGGCAGGGCCACCAGGACGCTTCCTCCATAATATAACCCATGTCCCCATGC
1 AACAGATAATTTGTGGCAGAGCCACCAGGACGCTTCCTCCATAATATAACCCATGTCCCCATGC
*
95349976 AACAGNATAATTTGTGGCATAGCCACCAGGACGCTTCCTCCATAATATAACCCATGTCCCCATGC
1 AACAG-ATAATTTGTGGCAGAGCCACCAGGACGCTTCCTCCATAATATAACCCATGTCCCCATGC
95350041 AACA
1 AACA
95350045 AATATTCATT
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 5 0.08
65 61 0.92
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (64 bp):
AACAGATAATTTGTGGCAGAGCCACCAGGACGCTTCCTCCATAATATAACCCATGTCCCCATGC
Found at i:95350157 original size:28 final size:28
Alignment explanation
Indices: 95350110--95350171 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
95350100 AAATTAACCC
*
95350110 TAGGGGTATAAAGGTCATTTTACACACA
1 TAGGGGTATAAAGGTAATTTTACACACA
** * *
95350138 TAGGGGTATAGTGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTACACACA
95350166 TAGGGG
1 TAGGGG
95350172 AATTCTAGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.31
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTACACACA
Found at i:95350700 original size:12 final size:13
Alignment explanation
Indices: 95350681--95350718 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
95350671 GGGTTCGGCT
95350681 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
95350694 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
95350706 ATGGAGAA-GAAG
1 ATGGAGAAGGAAG
95350718 A
1 A
95350719 AAAGATGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.47, C:0.00, G:0.45, T:0.08
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:95353276 original size:10 final size:10
Alignment explanation
Indices: 95353261--95353310 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
95353251 TAATTTTAAG
95353261 ATTTAT-TTT
1 ATTTATCTTT
95353270 CATTTATCTTT
1 -ATTTATCTTT
*
95353281 AATTATCTTT
1 ATTTATCTTT
95353291 ATTTAT-TTGT
1 ATTTATCTT-T
95353301 ATTTATCTTT
1 ATTTATCTTT
95353311 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:95357194 original size:13 final size:14
Alignment explanation
Indices: 95357171--95357201 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
95357161 TAAAGGTTGC
95357171 TATATTTAAGTAAT
1 TATATTTAAGTAAT
95357185 TATA-TTAAGTAAT
1 TATATTTAAGTAAT
95357198 TATA
1 TATA
95357202 AAATATTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (14 bp):
TATATTTAAGTAAT
Found at i:95364264 original size:20 final size:20
Alignment explanation
Indices: 95364239--95364284 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
95364229 ATTAGGCCTT
95364239 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
95364259 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
95364278 GCCCATA
1 GCCCATA
95364285 ACAAAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:95372892 original size:34 final size:35
Alignment explanation
Indices: 95372854--95372919 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
95372844 TAATACTGTA
95372854 ATGGGCTAAGGCCCTAATGCATA-CTGATACTATG
1 ATGGGCTAAGGCCCTAATGCATATCTGATACTATG
* *
95372888 ATGGGCTAAGGCCCTACTGCATATTTGATACT
1 ATGGGCTAAGGCCCTAATGCATATCTGATACT
95372920 GTATTGAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 22 0.76
35 7 0.24
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (35 bp):
ATGGGCTAAGGCCCTAATGCATATCTGATACTATG
Found at i:95382190 original size:26 final size:26
Alignment explanation
Indices: 95382161--95382210 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
95382151 GAAAATGATG
95382161 TGAATGAATG-AACACCAATGGGCAGA
1 TGAATGAA-GAAACACCAATGGGCAGA
*
95382187 TGAATGAAGAAACTCCAATGGGCA
1 TGAATGAAGAAACACCAATGGGCA
95382211 TACAATGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (26 bp):
TGAATGAAGAAACACCAATGGGCAGA
Found at i:95385214 original size:12 final size:12
Alignment explanation
Indices: 95385189--95385226 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
95385179 AAACTCTTTT
*
95385189 TCTTTTTCATTC
1 TCTTTTTCAATC
*
95385201 TCTTTGTCAATC
1 TCTTTTTCAATC
95385213 TCTTTTTCAATC
1 TCTTTTTCAATC
95385225 TC
1 TC
95385227 AATTTGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.13, C:0.26, G:0.03, T:0.58
Consensus pattern (12 bp):
TCTTTTTCAATC
Found at i:95385364 original size:14 final size:13
Alignment explanation
Indices: 95385340--95385381 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
95385330 TGTCTTTTGA
95385340 TCTCTTTTTTCTTT
1 TCTC-TTTTTCTTT
95385354 TCATCTTTTTCTTT
1 TC-TCTTTTTCTTT
*
95385368 TCTCATTTTCTTT
1 TCTCTTTTTCTTT
95385381 T
1 T
95385382 ACAAGCGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.42
14 13 0.50
15 2 0.08
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (13 bp):
TCTCTTTTTCTTT
Found at i:95385373 original size:16 final size:14
Alignment explanation
Indices: 95385345--95385381 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
95385335 TTTGATCTCT
95385345 TTTTTCTTTTCATC
1 TTTTTCTTTTCATC
95385359 TTTTTCTTTTC-TC
1 TTTTTCTTTTCATC
*
95385372 ATTTTCTTTT
1 TTTTTCTTTT
95385382 ACAAGCGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTCTTTTCATC
Found at i:95386268 original size:16 final size:16
Alignment explanation
Indices: 95386226--95386272 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
95386216 TTACACTTTT
*
95386226 TTTC-CTTTTTTTTTA
1 TTTCACTTTTTTTTAA
*
95386241 TATTCGAATTTTTTTTAA
1 T-TTC-ACTTTTTTTTAA
95386259 TTTCACTTTTTTTT
1 TTTCACTTTTTTTT
95386273 CACTAATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.04
16 12 0.46
17 3 0.12
18 10 0.38
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTCACTTTTTTTTAA
Found at i:95390091 original size:21 final size:21
Alignment explanation
Indices: 95390067--95390110 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
95390057 GTTCTGCTCT
95390067 GCCTCTCT-CGCTGCTGCCTCC
1 GCCTC-CTGCGCTGCTGCCTCC
95390088 GCCTCCTGCGCTGCTGCCTCC
1 GCCTCCTGCGCTGCTGCCTCC
95390109 GC
1 GC
95390111 TCTAATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.00, C:0.52, G:0.23, T:0.25
Consensus pattern (21 bp):
GCCTCCTGCGCTGCTGCCTCC
Found at i:95395649 original size:9 final size:9
Alignment explanation
Indices: 95395635--95395801 Score: 154
Period size: 9 Copynumber: 17.6 Consensus size: 9
95395625 ATGTATTAGT
95395635 TAAGTTATG
1 TAAGTTATG
95395644 TAAGTTGTTATG
1 TAA---GTTATG
*
95395656 TACGTTATG
1 TAAGTTATG
*
95395665 TGAGTTATG
1 TAAGTTATG
*
95395674 TAAATTATG
1 TAAGTTATG
95395683 TAAGTTATG
1 TAAGTTATG
*
95395692 TGAGTTATG
1 TAAGTTATG
95395701 TAAGTTGTTATG
1 TAA---GTTATG
*
95395713 TAAATTATG
1 TAAGTTATG
95395722 TAAGTTATG
1 TAAGTTATG
*
95395731 TGAGTTATG
1 TAAGTTATG
95395740 TAAGTTGTTATG
1 TAA---GTTATG
*
95395752 TAAATTATG
1 TAAGTTATG
*
95395761 TAAGTTATA
1 TAAGTTATG
*
95395770 TGAGTTATG
1 TAAGTTATG
95395779 TAAGTTATG
1 TAAGTTATG
* *
95395788 TAATTTATT
1 TAAGTTATG
95395797 TAAGT
1 TAAGT
95395802 AATGATCAAT
Statistics
Matches: 128, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
9 102 0.80
12 26 0.20
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:95395682 original size:39 final size:40
Alignment explanation
Indices: 95395639--95395801 Score: 168
Period size: 39 Copynumber: 4.2 Consensus size: 40
95395629 ATTAGTTAAG
95395639 TTATGTAAGTTGTTATGT-ACGTTATGT-G-AGTTATGTAAA
1 TTATGTAAG-TGTTATGTGA-GTTATGTAGTAGTTATGTAAA
*
95395678 TTATGTAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
*
95395717 TTATGTAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
* *
95395756 TTATGTAA--GTTATATGAGTTATGTA--AGTTATGTAAT
1 TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
*
95395792 TTATTTAAGT
1 TTATGTAAGT
95395802 AATGATCAAT
Statistics
Matches: 113, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
36 30 0.27
37 1 0.01
38 2 0.02
39 80 0.71
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (40 bp):
TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
Found at i:95395711 original size:48 final size:44
Alignment explanation
Indices: 95395650--95395789 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 44
95395640 TATGTAAGTT
*
95395650 GTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGT-AGTTATGTAAATTATGTAAGTTATGTGA
95395695 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
*
95395734 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATATGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
95395773 GTTATGTAAGTTATGTA
1 GTTATGTAAGTTATGTA
95395790 ATTTATTTAA
Statistics
Matches: 88, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
39 75 0.85
41 1 0.01
42 2 0.02
43 1 0.01
45 9 0.10
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.46
Consensus pattern (44 bp):
GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
Found at i:95395728 original size:57 final size:57
Alignment explanation
Indices: 95395635--95395801 Score: 196
Period size: 57 Copynumber: 2.9 Consensus size: 57
95395625 ATGTATTAGT
* *
95395635 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
* * * *
95395692 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAA---GTTATG
* * * *
95395752 TAAATTATGTAAGTT-ATATG--AGTTATGTAAGTTATGTAATTTATTTAAGT
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGT
95395802 AATGATCAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
54 2 0.02
57 69 0.73
59 4 0.04
60 19 0.20
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
Found at i:95395790 original size:48 final size:48
Alignment explanation
Indices: 95395635--95395790 Score: 188
Period size: 48 Copynumber: 3.2 Consensus size: 48
95395625 ATGTATTAGT
* * *
95395635 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * * *
95395683 TAAGTTATGTGAGTTATGTAAGT-TGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGT-TATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * *
95395731 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
95395779 TAAGTTATGTAA
1 TAAGTTATGTAA
95395791 TTTATTTAAG
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 4 0.04
48 81 0.91
49 4 0.04
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
Found at i:95396399 original size:244 final size:243
Alignment explanation
Indices: 95395971--95396458 Score: 931
Period size: 244 Copynumber: 2.0 Consensus size: 243
95395961 TTTGAAATAA
95395971 ATTAAGGTTATATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTCCAAGTCTTTTTGAAT
1 ATTAAGGTTATATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTCCAAGTCTTTTTGAAT
*
95396036 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCG
66 TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
95396101 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGG
131 ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGG
*
95396166 TTGGAGAGAAGGTCGGCTATTGTTGTAATTTTAATGGACAAGCAAGCT
196 TTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCT
* *
95396214 ATTAAGGTTATATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
1 ATTAAGGTTATATAAATATTCAATAGTAAATGAGATCGATAGAAC-TTTTCCAAGTCTTTTTGAA
95396279 TTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
65 TTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
95396344 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAG
130 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAG
95396409 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCT
195 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCT
95396458 A
1 A
95396459 CATGGTAATA
Statistics
Matches: 240, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
243 44 0.18
244 196 0.82
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (243 bp):
ATTAAGGTTATATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTCCAAGTCTTTTTGAAT
TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCG
ATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGG
TTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCT
Found at i:95398813 original size:13 final size:13
Alignment explanation
Indices: 95398795--95398819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95398785 AAGCACCCAT
95398795 ACCTTGTGATCAC
1 ACCTTGTGATCAC
95398808 ACCTTGTGATCA
1 ACCTTGTGATCA
95398820 AATTTAGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (13 bp):
ACCTTGTGATCAC
Found at i:95400176 original size:26 final size:26
Alignment explanation
Indices: 95400111--95400185 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
95400101 AAGAATTAGA
**
95400111 TAAAATTTGAAATAATGAAAATTATT
1 TAAAATTTGAAATCTTGAAAATTATT
*
95400137 TAAAATTTGAAATCTTGAAATTTATT
1 TAAAATTTGAAATCTTGAAAATTATT
*
95400163 CT-AAATTTGAAATCTTTAAAATT
1 -TAAAATTTGAAATCTTGAAAATT
95400186 TTAAATTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 42 0.98
27 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.43
Consensus pattern (26 bp):
TAAAATTTGAAATCTTGAAAATTATT
Found at i:95400496 original size:21 final size:21
Alignment explanation
Indices: 95400466--95400505 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
95400456 CTAATCCACT
*
95400466 AACCCCTAAACCTTAAACCCC
1 AACCCCTAAACCATAAACCCC
*
95400487 AACCCTTAAACCATAAACC
1 AACCCCTAAACCATAAACC
95400506 AAAATCTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (21 bp):
AACCCCTAAACCATAAACCCC
Found at i:95400517 original size:21 final size:22
Alignment explanation
Indices: 95400493--95400547 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
95400483 CCCCAACCCT
95400493 TAAACCATAAACCA-AAATCTC-
1 TAAACCATAAACCATAAA-CTCA
* * *
95400514 TAAACCTTAAAACATTAACTCA
1 TAAACCATAAACCATAAACTCA
95400536 TAAACCATAAAC
1 TAAACCATAAAC
95400548 TCCTTTCCCA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCATAAACCATAAACTCA
Found at i:95400546 original size:7 final size:7
Alignment explanation
Indices: 95400421--95400547 Score: 53
Period size: 7 Copynumber: 17.6 Consensus size: 7
95400411 TTTAAACCCC
95400421 AAACCAT
1 AAACCAT
95400428 AAATACC-T
1 -AA-ACCAT
*
95400436 AAATCAT
1 AAACCAT
95400443 GAAACCAT
1 -AAACCAT
*
95400451 AAACCCT
1 AAACCAT
*
95400458 AATCCACT
1 AAACCA-T
* *
95400466 AACCCCT
1 AAACCAT
*
95400473 AAACCTT
1 AAACCAT
**
95400480 AAACCCC
1 AAACCAT
* *
95400487 AACCCTT
1 AAACCAT
95400494 AAACCAT
1 AAACCAT
95400501 AAACCA-
1 AAACCAT
95400507 AAATCTC-T
1 AAA-C-CAT
*
95400515 AAACCTT
1 AAACCAT
*
95400522 AAAACAT
1 AAACCAT
*
95400529 TAACTCAT
1 AAAC-CAT
95400537 AAACCAT
1 AAACCAT
95400544 AAAC
1 AAAC
95400548 TCCTTTCCCA
Statistics
Matches: 89, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
6 6 0.07
7 56 0.63
8 24 0.27
9 3 0.03
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCAT
Found at i:95400640 original size:14 final size:14
Alignment explanation
Indices: 95400617--95400696 Score: 72
Period size: 14 Copynumber: 5.6 Consensus size: 14
95400607 TTAACCATTA
*
95400617 AACCCATAATCCAT
1 AACCCTTAATCCAT
* *
95400631 GACCCTTAATCCTT
1 AACCCTTAATCCAT
*
95400645 AAACCCGTAATCCAT
1 -AACCCTTAATCCAT
*
95400660 AACCCTTAA-CCTT
1 AACCCTTAATCCAT
* *
95400673 TACCCACTAATCCAT
1 AACCC-TTAATCCAT
95400688 AACCCTTAA
1 AACCCTTAA
95400697 CCTTTACCCA
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
13 7 0.14
14 25 0.50
15 18 0.36
ACGTcount: A:0.35, C:0.36, G:0.03, T:0.26
Consensus pattern (14 bp):
AACCCTTAATCCAT
Found at i:95400646 original size:29 final size:28
Alignment explanation
Indices: 95400607--95400713 Score: 128
Period size: 28 Copynumber: 3.8 Consensus size: 28
95400597 CCCTATCCCT
*
95400607 TTAACCATTAAACCCA-TAATCCATGACCC
1 TTAACC-TT-AACCCACTAATCCATAACCC
*
95400636 TTAATCCTTAAACCC-GTAATCCATAACCC
1 TTAA-CCTT-AACCCACTAATCCATAACCC
*
95400665 TTAACCTTTACCCACTAATCCATAACCC
1 TTAACCTTAACCCACTAATCCATAACCC
*
95400693 TTAACCTTTACCCACTAATCC
1 TTAACCTTAACCCACTAATCC
95400714 CTAAACTTTA
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
27 4 0.06
28 38 0.53
29 28 0.39
30 2 0.03
ACGTcount: A:0.34, C:0.36, G:0.02, T:0.28
Consensus pattern (28 bp):
TTAACCTTAACCCACTAATCCATAACCC
Found at i:95400684 original size:28 final size:28
Alignment explanation
Indices: 95400618--95400713 Score: 133
Period size: 28 Copynumber: 3.4 Consensus size: 28
95400608 TAACCATTAA
* *
95400618 ACCCA-TAATCCATGACCCTTAATCCTTAA
1 ACCCACTAATCCATAACCCTTAA-CCTT-T
*
95400647 ACCC-GTAATCCATAACCCTTAACCTTT
1 ACCCACTAATCCATAACCCTTAACCTTT
95400674 ACCCACTAATCCATAACCCTTAACCTTT
1 ACCCACTAATCCATAACCCTTAACCTTT
95400702 ACCCACTAATCC
1 ACCCACTAATCC
95400714 CTAAACTTTA
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.06
28 38 0.61
29 20 0.32
ACGTcount: A:0.32, C:0.39, G:0.02, T:0.27
Consensus pattern (28 bp):
ACCCACTAATCCATAACCCTTAACCTTT
Found at i:95400724 original size:28 final size:28
Alignment explanation
Indices: 95400618--95400724 Score: 110
Period size: 28 Copynumber: 3.8 Consensus size: 28
95400608 TAACCATTAA
* * *
95400618 ACCCA-TAATCCATGACCCTTAATCCTTAA
1 ACCCACTAATCCATAAACCTTAA-CCTT-T
* *
95400647 ACCC-GTAATCCATAACCCTTAACCTTT
1 ACCCACTAATCCATAAACCTTAACCTTT
*
95400674 ACCCACTAATCCATAACCCTTAACCTTT
1 ACCCACTAATCCATAAACCTTAACCTTT
* *
95400702 ACCCACTAATCCCTAAACTTTAA
1 ACCCACTAATCCATAAACCTTAA
95400725 ACCACAACTC
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
27 4 0.06
28 46 0.66
29 20 0.29
ACGTcount: A:0.34, C:0.36, G:0.02, T:0.28
Consensus pattern (28 bp):
ACCCACTAATCCATAAACCTTAACCTTT
Found at i:95401107 original size:28 final size:29
Alignment explanation
Indices: 95401067--95401121 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
95401057 AATAAATTGT
*
95401067 ATTTTAATCAATATAA-ATATAAATAAACC
1 ATTTAAATCAATA-AATATATAAATAAACC
*
95401096 ATTTAAAT-AATAAATATATACATAAA
1 ATTTAAATCAATAAATATATAAATAAA
95401122 ATACTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
ATTTAAATCAATAAATATATAAATAAACC
Found at i:95401543 original size:39 final size:39
Alignment explanation
Indices: 95401415--95401546 Score: 119
Period size: 40 Copynumber: 3.3 Consensus size: 39
95401405 TTGAGCAGTT
* *
95401415 GCGGTGTTTTTTATAAAAGCGCCGCTAATGCTCGATA-TATA
1 GCGGCGTTTTTTAGAAAA-CGCCGCTAATGCT-GA-ACTATA
* * *
95401456 GCGGCG-CTTTTAGAAAAACGCTGCTAATGTCCT-ATCTATA
1 GCGGCGTTTTTTAG-AAAACGCCGCTAATG--CTGAACTATA
*
95401496 GTGGCGTTTGTTTAG-AAACGCCGCTAATGCTGAACTATA
1 GCGGCGTTT-TTTAGAAAACGCCGCTAATGCTGAACTATA
95401535 GCGGCGTTTTTT
1 GCGGCGTTTTTT
95401547 GTTCAAACGA
Statistics
Matches: 74, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
38 5 0.07
39 14 0.19
40 38 0.51
41 10 0.14
42 7 0.09
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (39 bp):
GCGGCGTTTTTTAGAAAACGCCGCTAATGCTGAACTATA
Found at i:95402865 original size:26 final size:26
Alignment explanation
Indices: 95402834--95402941 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
95402824 TGAAATGCCC
*
95402834 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
95402860 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
95402886 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
95402912 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
95402938 ATCA
1 ATCA
95402942 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:95403437 original size:14 final size:15
Alignment explanation
Indices: 95403408--95403466 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 15
95403398 CTAATCTAGT
95403408 AACCCCTAAACCTTA
1 AACCCCTAAACCTTA
*
95403423 AACCCC-AACCCTTA
1 AACCCCTAAACCTTA
* *
95403437 AA-CCATAAACC-AA
1 AACCCCTAAACCTTA
* *
95403450 AATCTCTAAACCTTA
1 AACCCCTAAACCTTA
95403465 AA
1 AA
95403467 ACATTAACTC
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
13 5 0.15
14 20 0.59
15 9 0.26
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCCTAAACCTTA
Found at i:95403438 original size:21 final size:21
Alignment explanation
Indices: 95403408--95403447 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
95403398 CTAATCTAGT
*
95403408 AACCCCTAAACCTTAAACCCC
1 AACCCCTAAACCATAAACCCC
*
95403429 AACCCTTAAACCATAAACC
1 AACCCCTAAACCATAAACC
95403448 AAAATCTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (21 bp):
AACCCCTAAACCATAAACCCC
Found at i:95403459 original size:21 final size:22
Alignment explanation
Indices: 95403435--95403490 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
95403425 CCCCAACCCT
95403435 TAAACCATAAACCA-AAATCTC-
1 TAAACCATAAACCATAAA-CTCA
* * *
95403456 TAAACCTTAAAACATTAACTCA
1 TAAACCATAAACCATAAACTCA
95403478 TAAACCATAAACC
1 TAAACCATAAACC
95403491 CTTTTCCCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAACCATAAACCATAAACTCA
Found at i:95403579 original size:29 final size:28
Alignment explanation
Indices: 95403546--95403614 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 28
95403536 AACCCCTATC
*
95403546 CCTTTAACCATTAAACCCATAACCCATGA
1 CCTTTAACC-TTAAACCCATAACCCATAA
*
95403575 CCTTTAATCCTTAAACCCATAATCCATAA
1 CCTTTAA-CCTTAAACCCATAACCCATAA
*
95403604 CCCTTAACCTT
1 CCTTTAACCTT
95403615 TACCAACTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.11
29 30 0.83
30 2 0.06
ACGTcount: A:0.35, C:0.35, G:0.01, T:0.29
Consensus pattern (28 bp):
CCTTTAACCTTAAACCCATAACCCATAA
Found at i:95404020 original size:28 final size:29
Alignment explanation
Indices: 95403980--95404034 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
95403970 AATAAATTGT
*
95403980 ATTTTAATCAATATAA-ATATAAATAAACC
1 ATTTAAATCAATA-AATATATAAATAAACC
*
95404009 ATTTAAAT-AATAAATATATATATAAA
1 ATTTAAATCAATAAATATATAAATAAA
95404035 ATATTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 14 0.61
29 7 0.30
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (29 bp):
ATTTAAATCAATAAATATATAAATAAACC
Found at i:95412173 original size:74 final size:74
Alignment explanation
Indices: 95412048--95412200 Score: 191
Period size: 74 Copynumber: 2.1 Consensus size: 74
95412038 ATATTGGAAT
* * * *
95412048 GGCCTACTTGTATTTTTGGGAGGGCTATAGTATATATACAAAGAAAAAAATT-ACAAAAATCTTA
1 GGCCTACATATATTTTTGGGAGGGCCATAGTATATATACAAAGAAAAAAATTAAAAAAAAT-TTA
95412112 AACCTTAGGG
65 AACCTTAGGG
* * ****
95412122 GGCCTACATATATTTTTGGGTGGGCCATAGTATATCTACAAAGGGCTAAATTGAAAAAAAATTTA
1 GGCCTACATATATTTTTGGGAGGGCCATAGTATATATACAAAGAAAAAAATT-AAAAAAAATTTA
95412187 AACCTTAGGG
65 AACCTTAGGG
95412197 GGCC
1 GGCC
95412201 ATGGCCCTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
74 43 0.64
75 17 0.25
76 7 0.10
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (74 bp):
GGCCTACATATATTTTTGGGAGGGCCATAGTATATATACAAAGAAAAAAATTAAAAAAAATTTAA
ACCTTAGGG
Found at i:95413574 original size:19 final size:19
Alignment explanation
Indices: 95413546--95413583 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
95413536 AAAACTTAGT
95413546 AAGTTCGTATAAATTTAAA
1 AAGTTCGTATAAATTTAAA
*
95413565 AAGTTTGTATAAATTTAAA
1 AAGTTCGTATAAATTTAAA
95413584 CACAACATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (19 bp):
AAGTTCGTATAAATTTAAA
Found at i:95418304 original size:40 final size:40
Alignment explanation
Indices: 95418206--95418403 Score: 234
Period size: 40 Copynumber: 5.0 Consensus size: 40
95418196 TAAAGCATGC
** * * *
95418206 TTTCAGTAGAAGCAGTAGGTAAGGCTCAATAGCGCATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATACG
* * * * *
95418246 TTTCAATGGAATCGGTAGGTATGGCTCAAAAGCGCATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATACG
* * *
95418286 TTTCAGCAGATTCAGTAGGTATGGCTCGAAAGCACATATG
1 TTTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATACG
* * * *
95418326 TTTCAGTAGATTCAGAAGGCAGGGCTCGAAAGCACATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATACG
*
95418366 TTTTAGTAGATTCAGTAGGTATGGCTCAAAAGCACATA
1 TTTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATA
95418404 ATTGATATCG
Statistics
Matches: 134, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (40 bp):
TTTCAGTAGATTCAGTAGGTATGGCTCAAAAGCACATACG
Found at i:95418511 original size:36 final size:37
Alignment explanation
Indices: 95418430--95418504 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
95418420 TGAGCACCAG
** *
95418430 TCAATATATTAGTGGATAATGCTCATTTGAGCTTCAT
1 TCAATATATCGGTGGATAATGCTCATTTGAACTTCAT
95418467 TCAATATATCGGTGGAT-ATCGCTCA-TTGAACTTCAT
1 TCAATATATCGGTGGATAAT-GCTCATTTGAACTTCAT
95418503 TC
1 TC
95418505 GGTATATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 14 0.41
37 20 0.59
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (37 bp):
TCAATATATCGGTGGATAATGCTCATTTGAACTTCAT
Found at i:95420402 original size:58 final size:57
Alignment explanation
Indices: 95420340--95420519 Score: 258
Period size: 57 Copynumber: 3.1 Consensus size: 57
95420330 ATAGAAATTG
*
95420340 TGAAAATGGAGAAATGATAAACATTTGAAAATTG-TTATGGTTTTCT-CTAAAATGAAAA
1 TGAAAATGGAGAAATGA-AAACATTTGAAAA-TGAATATGGTTTTCTCCT-AAATGAAAA
* *
95420398 TGAAAATGGAGAAATGGAAACATTT-AGAAATGAATATCGTTTTCTCCTAAATGAAAA
1 TGAAAATGGAGAAATGAAAACATTTGA-AAATGAATATGGTTTTCTCCTAAATGAAAA
* *
95420455 AGAAAATGGAGAAATGAAAACATTTGGAAATGAATATGGTTTTCTCCTAAATGAAAA
1 TGAAAATGGAGAAATGAAAACATTTGAAAATGAATATGGTTTTCTCCTAAATGAAAA
95420512 TGAAAATG
1 TGAAAATG
95420520 ATTTGGAAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
56 3 0.03
57 89 0.81
58 18 0.16
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (57 bp):
TGAAAATGGAGAAATGAAAACATTTGAAAATGAATATGGTTTTCTCCTAAATGAAAA
Found at i:95436178 original size:69 final size:69
Alignment explanation
Indices: 95436102--95436236 Score: 243
Period size: 69 Copynumber: 2.0 Consensus size: 69
95436092 GTTGTTTTAA
*
95436102 TTAAAATAATGTATTTGTTAATTAACTAAAATTATAAATATGAGTTAAAACATAAAAACATAAAA
1 TTAAAATAATGTATTTGTTAATTAACTAAAATTATAAACATGAGTTAAAACATAAAAACATAAAA
95436167 ACAT
66 ACAT
* *
95436171 TTAAAATAATGTATTTGTTAATTAATTAAAATTATAAACATTAGTTAAAACATAAAAACATAAAA
1 TTAAAATAATGTATTTGTTAATTAACTAAAATTATAAACATGAGTTAAAACATAAAAACATAAAA
95436236 A
66 A
95436237 AAAAATTCTT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (69 bp):
TTAAAATAATGTATTTGTTAATTAACTAAAATTATAAACATGAGTTAAAACATAAAAACATAAAA
ACAT
Found at i:95445858 original size:26 final size:26
Alignment explanation
Indices: 95445827--95445934 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
95445817 TGAAATGCCC
*
95445827 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
95445853 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
95445879 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
95445905 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
95445931 ATCA
1 ATCA
95445935 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:95448545 original size:23 final size:23
Alignment explanation
Indices: 95448519--95448562 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
95448509 CGTATACTCC
*
95448519 AAACTATTTTACAAGTAATCAAG
1 AAACTATTATACAAGTAATCAAG
*
95448542 AAACTATTATATAAGTAATCA
1 AAACTATTATACAAGTAATCA
95448563 TTACTTCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (23 bp):
AAACTATTATACAAGTAATCAAG
Found at i:95450767 original size:35 final size:36
Alignment explanation
Indices: 95450693--95450768 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
95450683 AACGAAGGAG
* *
95450693 TGAATCAGTTAGAATAGATTCCAAAGGCTACTTAGC
1 TGAATCAGTTAGAATAGATTCCAAAGGCTACTGAAC
* *
95450729 TGAATCAGTTAGAATAGA-TCCGAAGGCTGCTGAAC
1 TGAATCAGTTAGAATAGATTCCAAAGGCTACTGAAC
95450764 TGAAT
1 TGAAT
95450769 AGAGTTTACT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 18 0.50
36 18 0.50
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (36 bp):
TGAATCAGTTAGAATAGATTCCAAAGGCTACTGAAC
Found at i:95454278 original size:27 final size:26
Alignment explanation
Indices: 95454243--95454354 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
95454233 AACATGGCTG
* *
95454243 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
95454269 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
95454297 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
95454324 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
95454351 CCAG
1 CCAG
95454355 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:95454335 original size:54 final size:54
Alignment explanation
Indices: 95454243--95454354 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
95454233 AACATGGCTG
* *
95454243 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
95454297 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
95454351 CCAG
1 CCAG
95454355 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:95461925 original size:27 final size:27
Alignment explanation
Indices: 95461853--95461937 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
95461843 AGCATGGCTG
* * *
95461853 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGATCAGATAATTGTGGCAGAGACA
* * * *
95461879 CCAAATACAGAAAATCGTGGCAGAGCCA
1 CCAGAT-CAGATAATTGTGGCAGAGACA
*
95461907 CCAGATCAGATAATTGTGGCATAGACA
1 CCAGATCAGATAATTGTGGCAGAGACA
95461934 CCAG
1 CCAG
95461938 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
26 4 0.09
27 27 0.59
28 15 0.33
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGACA
Found at i:95463906 original size:21 final size:20
Alignment explanation
Indices: 95463882--95463920 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
95463872 GAGTATTTTG
95463882 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
95463903 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
95463921 ACAAGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:95463928 original size:20 final size:21
Alignment explanation
Indices: 95463884--95463928 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
95463874 GTATTTTGAT
*
95463884 GTTTGATGATAGATTATGAAT
1 GTTTGATGATAGATTATGAAA
95463905 GTTTGATGATAG-TTAT-ACAA
1 GTTTGATGATAGATTATGA-AA
95463925 GTTT
1 GTTT
95463929 TACTACGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.41
21 12 0.55
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.44
Consensus pattern (21 bp):
GTTTGATGATAGATTATGAAA
Found at i:95466230 original size:38 final size:38
Alignment explanation
Indices: 95466182--95466254 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
95466172 AATGCCAGAC
*
95466182 AAAATGTAAAAGTAGGGTGAATGAGAATTAAACAAACA
1 AAAATGTAAAAGTAGGATGAATGAGAATTAAACAAACA
95466220 AAAATGTAAAAGTAGGATGAATGAGAATTAAACAA
1 AAAATGTAAAAGTAGGATGAATGAGAATTAAACAA
95466255 TCTTTTTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.56, C:0.04, G:0.21, T:0.19
Consensus pattern (38 bp):
AAAATGTAAAAGTAGGATGAATGAGAATTAAACAAACA
Found at i:95468623 original size:22 final size:22
Alignment explanation
Indices: 95468587--95468628 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
95468577 CAATTCTTCT
*
95468587 TCCATCTTCATACCTTTTCCTC
1 TCCATCTTCATACCTGTTCCTC
95468609 TCCATTCTTCA-ACCTGTTCC
1 TCCA-TCTTCATACCTGTTCC
95468629 ATTGACAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.14, C:0.40, G:0.02, T:0.43
Consensus pattern (22 bp):
TCCATCTTCATACCTGTTCCTC
Found at i:95473243 original size:20 final size:20
Alignment explanation
Indices: 95473218--95473255 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95473208 ATAACATATA
95473218 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
95473238 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
95473256 TAGTTCTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:95476407 original size:28 final size:27
Alignment explanation
Indices: 95476343--95476494 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
95476333 TTATTAAGTC
* *
95476343 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
95476370 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
95476398 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
95476425 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
95476453 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
95476480 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
95476495 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:95476427 original size:55 final size:55
Alignment explanation
Indices: 95476343--95476519 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
95476333 TTATTAAGTC
* * *
95476343 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
95476398 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
95476453 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
95476509 CGCACACTTAG
1 CGCACACTTAG
95476520 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:95483258 original size:11 final size:11
Alignment explanation
Indices: 95483242--95483268 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
95483232 AGTTTCAGCA
95483242 ACTTGACGAAT
1 ACTTGACGAAT
95483253 ACTTGACGAAT
1 ACTTGACGAAT
95483264 ACTTG
1 ACTTG
95483269 CCATAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (11 bp):
ACTTGACGAAT
Done.