Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 82 of 187
Found at i:24355479 original size:21 final size:19
Alignment explanation
Indices: 24355414--24355507 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
24355404 AATTTTTGAG
24355414 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
24355433 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
24355452 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
24355471 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
24355492 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
24355508 AGATATGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:24355489 original size:40 final size:38
Alignment explanation
Indices: 24355414--24355514 Score: 152
Period size: 40 Copynumber: 2.7 Consensus size: 38
24355404 AATTTTTGAG
24355414 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
*
24355452 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
*
24355492 GATATGTAATCTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
24355515 ATTTTGTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
36 5 0.08
38 21 0.36
39 1 0.02
40 32 0.54
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
Found at i:24355526 original size:23 final size:22
Alignment explanation
Indices: 24355446--24355530 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
24355436 ATGCAATCCT
*
24355446 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
24355467 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
24355486 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
24355508 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
24355531 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:24355540 original size:22 final size:23
Alignment explanation
Indices: 24355496--24355540 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24355486 AGATATGATA
*
24355496 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
24355519 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
24355541 GTAGATATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:24356543 original size:9 final size:9
Alignment explanation
Indices: 24356531--24356555 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24356521 GATGATGTAT
24356531 TTATTATTG
1 TTATTATTG
24356540 TTATTATTG
1 TTATTATTG
24356549 TTATTAT
1 TTATTAT
24356556 AGCATTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:24356945 original size:98 final size:98
Alignment explanation
Indices: 24356831--24357021 Score: 337
Period size: 98 Copynumber: 1.9 Consensus size: 98
24356821 AATAATAAAG
* *
24356831 GAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
* *
24356896 TCTTTGATAAGTGGATGTTCTTTTAAAGAAAAA
66 TCTTGGATAAGTGGAGGTTCTTTTAAAGAAAAA
*
24356929 GAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
24356994 TCTTGGATAAGTGGAGGTTCTTTTAAAG
66 TCTTGGATAAGTGGAGGTTCTTTTAAAG
24357022 TTTTATTGTA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
TCTTGGATAAGTGGAGGTTCTTTTAAAGAAAAA
Found at i:24380205 original size:23 final size:23
Alignment explanation
Indices: 24380179--24380268 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
24380169 GAAAAGTTAA
24380179 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
24380202 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
24380225 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
24380244 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
24380267 AA
1 AA
24380269 AATTTATACA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:24380257 original size:42 final size:42
Alignment explanation
Indices: 24380198--24380281 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
24380188 GAGACTTGAA
24380198 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* * *
24380240 TATGAAGAGTGAAGAGACTTGAATATGAAAATTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
24380282 GCATGAATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.25
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:24384744 original size:23 final size:23
Alignment explanation
Indices: 24384718--24384807 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
24384708 GAAAAGTTAA
24384718 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
24384741 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
24384764 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
24384783 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
24384806 AA
1 AA
24384808 AATTTATACA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:24384796 original size:42 final size:42
Alignment explanation
Indices: 24384737--24384820 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
24384727 GAGACTTGAA
24384737 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* * *
24384779 TATGAAGAGTGAAGAGACTTGAATATGAAAATTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
24384821 GCATGGATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.25
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:24390466 original size:14 final size:14
Alignment explanation
Indices: 24390437--24390477 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
24390427 GAATATTTAC
24390437 ATAAAAATTAAAATAA
1 ATAAAAA-T-AAATAA
*
24390453 GTAAAAATAAATAA
1 ATAAAAATAAATAA
24390467 ATAAAAATAAA
1 ATAAAAATAAA
24390478 ACTTTACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 16 0.70
15 1 0.04
16 6 0.26
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:24394810 original size:8 final size:8
Alignment explanation
Indices: 24394788--24394820 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
24394778 GAGTAAAATC
24394788 ATGTA-AT
1 ATGTATAT
*
24394795 ATGCATAT
1 ATGTATAT
24394803 ATGTATAT
1 ATGTATAT
24394811 ATGTATAT
1 ATGTATAT
24394819 AT
1 AT
24394821 TTTGGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (8 bp):
ATGTATAT
Found at i:24400137 original size:29 final size:31
Alignment explanation
Indices: 24400105--24400172 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
24400095 TAAAAGGACA
*
24400105 CCTTTTTGGCTATCTC-AATAAA-AAGTGAG
1 CCTTTGTGGCTATCTCTAATAAAGAAGTGAG
* *
24400134 CCTTTGTGGTTATCTCTACTAAAGAAGTGA-
1 CCTTTGTGGCTATCTCTAATAAAGAAGTGAG
24400164 -CTTTGTGGC
1 CCTTTGTGGC
24400173 AGTTTCTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 22 0.67
30 5 0.15
31 6 0.18
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (31 bp):
CCTTTGTGGCTATCTCTAATAAAGAAGTGAG
Found at i:24402602 original size:45 final size:45
Alignment explanation
Indices: 24402538--24402631 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
24402528 ATTAGTAATA
* *
24402538 TAAAACTTAATATTATCTTGCTTTTATTATTAAACATACGAAAAT
1 TAAAACTTAATATTATCTTGCATTTATTATTAAACATACCAAAAT
* *
24402583 TAAAACTTAATATTATCTTGCATTTATTATTAGATATACCAAAAT
1 TAAAACTTAATATTATCTTGCATTTATTATTAAACATACCAAAAT
24402628 TAAA
1 TAAA
24402632 CTACCTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (45 bp):
TAAAACTTAATATTATCTTGCATTTATTATTAAACATACCAAAAT
Found at i:24405319 original size:31 final size:31
Alignment explanation
Indices: 24405283--24405346 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
24405273 TCTATCAAAG
* *
24405283 TTTTACCACTCTCATATGTACGAAGACGGGT
1 TTTTACCACCCTCATATGCACGAAGACGGGT
24405314 TTTTACCACCCTCATATGCACGAAGACGGGT
1 TTTTACCACCCTCATATGCACGAAGACGGGT
24405345 TT
1 TT
24405347 GATTCCACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (31 bp):
TTTTACCACCCTCATATGCACGAAGACGGGT
Found at i:24408915 original size:18 final size:19
Alignment explanation
Indices: 24408888--24408925 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
24408878 AAGCAAATAA
*
24408888 ATTATTAAAA-ATAAAAAT
1 ATTATAAAAATATAAAAAT
24408906 ATTATAAAAATTATAAAAAT
1 ATTATAAAAA-TATAAAAAT
24408926 CGGTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTATAAAAATATAAAAAT
Found at i:24410414 original size:23 final size:23
Alignment explanation
Indices: 24410388--24410441 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
24410378 GTTCCATAAA
* *
24410388 CACTTGCAACGTAGTGTCATC-AT
1 CACTTGCAACATAGTGCCA-CAAT
*
24410411 CACTTGCACCATAGTGCCACAAT
1 CACTTGCAACATAGTGCCACAAT
24410434 CACTTGCA
1 CACTTGCA
24410442 CGCATTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (23 bp):
CACTTGCAACATAGTGCCACAAT
Found at i:24411809 original size:23 final size:23
Alignment explanation
Indices: 24411783--24411836 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
24411773 AAATTCAAAT
*
24411783 TTCGAGTTAA-TCGAATCAACTTA
1 TTCGAGTTAACTCGAAT-AACTGA
*
24411806 TTCGAGTCAACTCGAATAACTGA
1 TTCGAGTTAACTCGAATAACTGA
*
24411829 TTCAAGTT
1 TTCGAGTT
24411837 TCGAGTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (23 bp):
TTCGAGTTAACTCGAATAACTGA
Found at i:24411985 original size:19 final size:19
Alignment explanation
Indices: 24411963--24412007 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
24411953 AAAATACAAA
24411963 AAAAAATCAAAATAATTT-T
1 AAAAAATCAAAAT-ATTTAT
*
24411982 AAAAATTCAAAATATTTAT
1 AAAAAATCAAAATATTTAT
24412001 AAAAAAT
1 AAAAAAT
24412008 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAAATCAAAATATTTAT
Found at i:24412751 original size:15 final size:16
Alignment explanation
Indices: 24412731--24412763 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24412721 TTTTTTTCAT
*
24412731 ATTTTAAATA-AAAAA
1 ATTTTAAAAATAAAAA
24412746 ATTTTAAAAATAAAAA
1 ATTTTAAAAATAAAAA
24412762 AT
1 AT
24412764 ATGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTTTAAAAATAAAAA
Found at i:24413494 original size:14 final size:15
Alignment explanation
Indices: 24413467--24413499 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
24413457 TTTTTAGAAT
24413467 TTTTTAATATTTTTA
1 TTTTTAATATTTTTA
24413482 TTTTTAATA-TTTTA
1 TTTTTAATATTTTTA
24413496 TTTT
1 TTTT
24413500 CTTTGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTAATATTTTTA
Found at i:24421176 original size:23 final size:23
Alignment explanation
Indices: 24421106--24421191 Score: 110
Period size: 21 Copynumber: 4.0 Consensus size: 23
24421096 CCTGATCAGT
24421106 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
24421127 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
24421147 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
24421170 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
24421192 TCGGCAAAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
20 9 0.16
21 23 0.42
23 23 0.42
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:24421188 original size:44 final size:41
Alignment explanation
Indices: 24421106--24421192 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 41
24421096 CCTGATCAGT
* *
24421106 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
24421147 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
24421191 AT
1 AT
24421193 CGGCAAAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 11 0.28
42 10 0.25
43 1 0.03
44 18 0.45
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:24427538 original size:6 final size:6
Alignment explanation
Indices: 24427527--24427551 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24427517 AATTACACTG
24427527 GCACCT GCACCT GCACCT GCACCT G
1 GCACCT GCACCT GCACCT GCACCT G
24427552 AAGACTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.48, G:0.20, T:0.16
Consensus pattern (6 bp):
GCACCT
Found at i:24432706 original size:43 final size:42
Alignment explanation
Indices: 24432655--24432875 Score: 250
Period size: 43 Copynumber: 5.2 Consensus size: 42
24432645 ATAAATAAAT
24432655 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTT-TCCCACAAAC
* *
24432698 GCCGCTAAAGACCAAGACCTTTAGCGACGCTTCTCCCACAAAT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTT-TCCCACAAAC
* *
24432741 GCCGCTAAAGACCAAGATCTTTAGCGGCGCTATTCCCAC-AAT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCT-TTCCCACAAAC
* * **
24432783 GCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTAACACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTCCCACAAAC
* * * * * *
24432826 GCCGCTATAGA--ATAGATCTTCAGCGGCGCTTTTCTAAAAAC
1 GCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTCCCACAAAC
24432867 GCCGCTAAA
1 GCCGCTAAA
24432876 AATATATCTT
Statistics
Matches: 154, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
41 17 0.11
42 47 0.31
43 89 0.58
44 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (42 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCACAAAC
Found at i:24432805 original size:42 final size:43
Alignment explanation
Indices: 24432651--24432832 Score: 260
Period size: 43 Copynumber: 4.3 Consensus size: 43
24432641 TTTTATAAAT
24432651 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
1 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
* *
24432694 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTCTCCCAC
1 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
*
24432737 AAATGCCGCTAAAGACCAAGATCTTTAGCGGCGCTAT-TCCCAC
1 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCT-TCTCCCAC
* * * **
24432780 -AATGCCGCTAAAGACCATGACCTTTAGCAGCGCTTTTAACAC
1 AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
*
24432822 AAACGCCGCTA
1 AAATGCCGCTA
24432833 TAGAATAGAT
Statistics
Matches: 125, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.01
42 35 0.28
43 88 0.70
44 1 0.01
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (43 bp):
AAATGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCAC
Found at i:24439095 original size:2 final size:2
Alignment explanation
Indices: 24439088--24439117 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24439078 AAATATTCAA
24439088 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24439118 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24443685 original size:17 final size:17
Alignment explanation
Indices: 24443637--24443679 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
24443627 CTGACCCAGT
*
24443637 TCGTGTGGCCCACACAG
1 TCGTGTGGCCCACATAG
*
24443654 TCATGTGGCCCACATAG
1 TCGTGTGGCCCACATAG
24443671 TCGTGTGGC
1 TCGTGTGGC
24443680 TTACATGGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.23
Consensus pattern (17 bp):
TCGTGTGGCCCACATAG
Found at i:24444810 original size:14 final size:14
Alignment explanation
Indices: 24444791--24444818 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24444781 GGTACAATCA
24444791 AAGTCTATTTGGTT
1 AAGTCTATTTGGTT
24444805 AAGTCTATTTGGTT
1 AAGTCTATTTGGTT
24444819 GGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
AAGTCTATTTGGTT
Found at i:24445365 original size:13 final size:13
Alignment explanation
Indices: 24445347--24445371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24445337 TTTATTTAGT
24445347 GTTTAGGGTTTAA
1 GTTTAGGGTTTAA
24445360 GTTTAGGGTTTA
1 GTTTAGGGTTTA
24445372 GGGTTAAGAA
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:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (13 bp):
GTTTAGGGTTTAA
Found at i:24446835 original size:28 final size:28
Alignment explanation
Indices: 24446795--24446851 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
24446785 AGTAAAAAAG
24446795 GTACCTAAGCAGGATTTACGTCGTTGGA
1 GTACCTAAGCAGGATTTACGTCGTTGGA
24446823 GTACCTAAGCAGGATTTACGTCGTTGGA
1 GTACCTAAGCAGGATTTACGTCGTTGGA
24446851 G
1 G
24446852 ACCCCTCGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
GTACCTAAGCAGGATTTACGTCGTTGGA
Found at i:24447495 original size:3 final size:3
Alignment explanation
Indices: 24447487--24447560 Score: 103
Period size: 3 Copynumber: 24.3 Consensus size: 3
24447477 TGTTGAATTA
* *
24447487 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT GTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
24447535 ATT ACT ACT ATT ATT AATT ATT ATT A
1 ATT ATT ATT ATT ATT -ATT ATT ATT A
24447561 GTTTTATTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:24452606 original size:12 final size:12
Alignment explanation
Indices: 24452589--24452613 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24452579 ACCATAGTGG
24452589 AAGTATAAACAT
1 AAGTATAAACAT
24452601 AAGTATAAACAT
1 AAGTATAAACAT
24452613 A
1 A
24452614 CATCTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AAGTATAAACAT
Found at i:24467763 original size:17 final size:17
Alignment explanation
Indices: 24467741--24467773 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24467731 ACATGAGTTG
*
24467741 ACATATCATAAGGGTTC
1 ACATATCACAAGGGTTC
24467758 ACATATCACAAGGGTT
1 ACATATCACAAGGGTT
24467774 TGCAAATCAT
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:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (17 bp):
ACATATCACAAGGGTTC
Found at i:24471973 original size:43 final size:43
Alignment explanation
Indices: 24471923--24472257 Score: 206
Period size: 43 Copynumber: 7.8 Consensus size: 43
24471913 ATACGAAGTG
* * *
24471923 TATACTAGCATACATAATGCTTCATCGGATATACCGAAAAAAC
1 TATACTAGCACACACAATGCTTCATCGAATATACCGAAAAAAC
* * *
24471966 TGTACTAGCACACACAATGCATCATCGAATATACCGAAACAAC
1 TATACTAGCACACACAATGCTTCATCGAATATACCGAAAAAAC
* *
24472009 TATACTAGCACACACAATGCATT-ATCGAATATA-CTAAAGCAAC
1 TATACTAGCACACACAATGC-TTCATCGAATATACCGAAA-AAAC
* * * * *
24472052 TATATTGGCACACACAGTGCATCATCGAAT-TACC-AAAGCAAC
1 TATACTAGCACACACAATGCTTCATCGAATATACCGAAA-AAAC
* * * *
24472094 TATAC-AGGCACACATAGTGCATCATC-AGATAAACC-AAAGTAAA-
1 TATACTA-GCACACACAATGCTTCATCGA-ATATACCGAAA--AAAC
* * * ** **
24472137 TATACTGGCACACACAGTGCATCATC-ATATATATTGAAGCAAC
1 TATACTAGCACACACAATGCTTCATCGA-ATATACCGAAAAAAC
* * * * * *
24472180 TATA-TTG-ACACACATAGTGCATCATTGGATATACCGGAACAAC
1 TATACTAGCACACACA-A-TGCTTCATCGAATATACCGAAAAAAC
* * *
24472223 TATACTAGCACACACAATGCATCATTGGATATACC
1 TATACTAGCACACACAATGCTTCATCGAATATACC
24472258 AAAGGACACA
Statistics
Matches: 240, Mismatches: 36, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
41 8 0.03
42 43 0.18
43 174 0.73
44 8 0.03
45 7 0.03
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.23
Consensus pattern (43 bp):
TATACTAGCACACACAATGCTTCATCGAATATACCGAAAAAAC
Found at i:24472073 original size:86 final size:86
Alignment explanation
Indices: 24471923--24472257 Score: 292
Period size: 86 Copynumber: 3.9 Consensus size: 86
24471913 ATACGAAGTG
* * * * * * *
24471923 TATACTAGCATACATAATGCTTCATCGGATATACCGAAA-AAACTGTACTAGCACACACAATGCA
1 TATACTAGCACACACAATGCATCATCGAATATACC-AAAGCAACTATACTGGCACACACAATGCA
24471987 TCATCGAATATACCGAAACAAC
65 TCATCGAATATACCGAAACAAC
* * * *
24472009 TATACTAGCACACACAATGCATTATCGAATATACTAAAGCAACTATATTGGCACACACAGTGCAT
1 TATACTAGCACACACAATGCATCATCGAATATACCAAAGCAACTATACTGGCACACACAATGCAT
24472074 CATCGAAT-TACC-AAAGCAAC
66 CATCGAATATACCGAAA-CAAC
* * * * * *
24472094 TATAC-AGGCACACATAGTGCATCATC-AGATAAACCAAAGTAAATATACTGGCACACACAGTGC
1 TATACTA-GCACACACAATGCATCATCGA-ATATACCAAAGCAACTATACTGGCACACACAATGC
** *
24472157 ATCATC-ATATATATTGAAGCAAC
64 ATCATCGA-ATATACCGAAACAAC
* * * * *
24472180 TATA-TTG-ACACACATAGTGCATCATTGGATATACCGGAA-CAACTATACTAGCACACACAATG
1 TATACTAGCACACACA-A-TGCATCATCGAATATACC-AAAGCAACTATACTGGCACACACAATG
* *
24472242 CATCATTGGATATACC
63 CATCATCGAATATACC
24472258 AAAGGACACA
Statistics
Matches: 199, Mismatches: 37, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
84 12 0.06
85 71 0.36
86 112 0.56
87 4 0.02
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.23
Consensus pattern (86 bp):
TATACTAGCACACACAATGCATCATCGAATATACCAAAGCAACTATACTGGCACACACAATGCAT
CATCGAATATACCGAAACAAC
Found at i:24472149 original size:128 final size:129
Alignment explanation
Indices: 24471944--24472261 Score: 360
Period size: 128 Copynumber: 2.5 Consensus size: 129
24471934 ACATAATGCT
* * * * *
24471944 TCATCGGATATACCGAAAAAACTGTACTAGCACACACAATGCATCATC-GAATATACCGAAA-CA
1 TCATCGAATATACCGAAACAACTATACTAGCACACACAATGCATCATCAG-ATAAACC-AAAGTA
* * *
24472007 ACTATACTAGCACACACAATGCATTATCGA-ATATACTAAAGCAACTATATTGGCACACACAGTG
64 AATATACTAGCACACACAATGCATCATC-ATATATACTAAAGCAACTATATTGACACACACAGTG
24472071 CA
128 CA
* *
24472073 TCATCGAAT-TACC-AAAGCAACTATAC-AGGCACACATAGTGCATCATCAGATAAACCAAAGTA
1 TCATCGAATATACCGAAA-CAACTATACTA-GCACACACAATGCATCATCAGATAAACCAAAGTA
* * * * *
24472135 AATATACTGGCACACACAGTGCATCATCATATATATTGAAGCAACTATATTGACACACATAGTGC
64 AATATACTAGCACACACAATGCATCATCATATATACTAAAGCAACTATATTGACACACACAGTGC
24472200 A
129 A
* * * ** *
24472201 TCATTGGATATACCGGAACAACTATACTAGCACACACAATGCATCATTGGATATACCAAAG
1 TCATCGAATATACCGAAACAACTATACTAGCACACACAATGCATCATCAGATAAACCAAAG
24472262 GACACAGTGC
Statistics
Matches: 158, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
127 8 0.05
128 98 0.62
129 49 0.31
130 3 0.02
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (129 bp):
TCATCGAATATACCGAAACAACTATACTAGCACACACAATGCATCATCAGATAAACCAAAGTAAA
TATACTAGCACACACAATGCATCATCATATATACTAAAGCAACTATATTGACACACACAGTGCA
Found at i:24472274 original size:72 final size:71
Alignment explanation
Indices: 24472195--24472335 Score: 176
Period size: 72 Copynumber: 2.0 Consensus size: 71
24472185 TGACACACAT
** * *
24472195 AGTGCATCATTGGATATACCG-GAACAACTATACTAGCACACACAATGCATCATTGGATATACCA
1 AGTGCATCATTAAATATACCGAGAA-AA-TATACTAGCACACACAATACATCATCGGATATACCA
24472259 AAGGACAC
64 AAGGACAC
* * * *
24472267 AGTGCATCATTAAATATATCGAAGAAAATATATTGGCACACACAGTACATCATCGGATATACCAA
1 AGTGCATCATTAAATATACCG-AGAAAATATACTAGCACACACAATACATCATCGGATATACCAA
24472332 AGGA
65 AGGA
24472336 TAACCTGTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
72 54 0.92
73 2 0.03
74 3 0.05
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (71 bp):
AGTGCATCATTAAATATACCGAGAAAATATACTAGCACACACAATACATCATCGGATATACCAAA
GGACAC
Found at i:24476308 original size:35 final size:35
Alignment explanation
Indices: 24476239--24476331 Score: 141
Period size: 35 Copynumber: 2.6 Consensus size: 35
24476229 AGTACATCGA
*
24476239 CAATCCAACCAAAACACACCAGATGCTCACAAGAGC
1 CAATCCAACCGAAACACACCA-ATGCTCACAAGAGC
* *
24476275 CAATCCATCCGAAACACACCAATGCTCATAAGAGC
1 CAATCCAACCGAAACACACCAATGCTCACAAGAGC
*
24476310 TAATCCAACCGAAACACACCAA
1 CAATCCAACCGAAACACACCAA
24476332 AATAGAGAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
35 33 0.63
36 19 0.37
ACGTcount: A:0.44, C:0.35, G:0.10, T:0.11
Consensus pattern (35 bp):
CAATCCAACCGAAACACACCAATGCTCACAAGAGC
Found at i:24477667 original size:35 final size:35
Alignment explanation
Indices: 24477624--24477800 Score: 159
Period size: 35 Copynumber: 5.2 Consensus size: 35
24477614 GTTGTTACAG
24477624 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
* * * **
24477659 GTTTTGTGGTGGAATATTAAATGAATGAAGTAAGG
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
* * *
24477694 GTGTTGTGG-TAAA-A-T--ATTAATGAAGTAACA
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
** *
24477724 GTGTTGTGGCGGGATATTAAATGAATGAAGT-ATCG
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAAT-A
* * * * *
24477759 GTGTTGTGGCGATATGTTAAAAGAATGAAGTATTG
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
24477794 GTGTTGT
1 GTGTTGT
24477801 AATGGGATGT
Statistics
Matches: 113, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
30 21 0.19
31 1 0.01
32 2 0.02
33 2 0.02
34 3 0.03
35 83 0.73
36 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.34
Consensus pattern (35 bp):
GTGTTGTGGCGAAATATTAAATGAATGAAGTAATA
Found at i:24477811 original size:35 final size:35
Alignment explanation
Indices: 24477712--24477839 Score: 103
Period size: 35 Copynumber: 3.7 Consensus size: 35
24477702 GTAAAATATT
* * ** * *
24477712 AATGAAGTAACAGTGTTGTGGCGGGATATTAAATG
1 AATGAAGTATCGGTGTTGTAACGGGATGTTAAAAG
** **
24477747 AATGAAGTATCGGTGTTGTGGCGATATGTTAAAAG
1 AATGAAGTATCGGTGTTGTAACGGGATGTTAAAAG
* * **
24477782 AATGAAGTATTGGTGTTGTAATGGGATGTTAATTG
1 AATGAAGTATCGGTGTTGTAACGGGATGTTAAAAG
* * *
24477817 AAAGAAGTATCGGTTTTCTAACG
1 AATGAAGTATCGGTGTTGTAACG
24477840 AAATTTTAAT
Statistics
Matches: 74, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 74 1.00
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (35 bp):
AATGAAGTATCGGTGTTGTAACGGGATGTTAAAAG
Found at i:24477814 original size:100 final size:100
Alignment explanation
Indices: 24477624--24477803 Score: 229
Period size: 100 Copynumber: 1.8 Consensus size: 100
24477614 GTTGTTACAG
* * *
24477624 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATAGTTTTGTGGTGGAATATTAAATGAATGAAG
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAATAGTGTTGTGGTCGAATATTAAAAGAATGAAG
**
24477689 TAAGGGTGTTGTGGTAAAATATTAATGAAGTAACA
66 TAAGGGTGTTGTAATAAAATATTAATGAAGTAACA
** * *
24477724 GTGTTGTGGCGGGATATTAAATGAATGAAGT-ATCGGTGTTGTGG-CGATATGTTAAAAGAATGA
1 GTGTTGTGGCGAAATATTAAATGAATGAAGTAAT-AGTGTTGTGGTCGA-ATATTAAAAGAATGA
**
24477787 AGTATTGGTGTTGTAAT
64 AGTAAGGGTGTTGTAAT
24477804 GGGATGTTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
99 4 0.06
100 63 0.94
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (100 bp):
GTGTTGTGGCGAAATATTAAATGAATGAAGTAATAGTGTTGTGGTCGAATATTAAAAGAATGAAG
TAAGGGTGTTGTAATAAAATATTAATGAAGTAACA
Found at i:24488933 original size:58 final size:59
Alignment explanation
Indices: 24488783--24488952 Score: 175
Period size: 60 Copynumber: 2.9 Consensus size: 59
24488773 ATTGCGACAA
* * * * * * *
24488783 AAAAAAAACTCTAGTACCTAATTAAACACTGAAGCCAAACTTAGGTACTTAAATGGGAC
1 AAAAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAAGTACTCAAATGGGAC
* * *
24488842 AAAGAAAAACTCAAGTACCAAAGTGAACTTTGAAGTCAAACTCAAGTAC-CAAATTGGGAC
1 AAA-AAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAAGTACTCAAA-TGGGAC
* * * *
24488902 -AAAAAAACTCAAATACCGAATTGAACATTGAAGCCAAATTCATGTA-TCAAA
1 AAAAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAAGTACTCAAA
24488953 CAGTATATTA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
58 41 0.45
59 8 0.09
60 42 0.46
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.21
Consensus pattern (59 bp):
AAAAAAAACTCAAGTACCAAATTGAACATTGAAGCCAAACTCAAGTACTCAAATGGGAC
Found at i:24489702 original size:25 final size:24
Alignment explanation
Indices: 24489656--24489701 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
24489646 TTTGACAAGT
24489656 TTAGGTACAAATTGAGAAAAAAGC
1 TTAGGTACAAATTGAGAAAAAAGC
24489680 TTAGGTACCAAATT-AGAAAAAA
1 TTAGGTA-CAAATTGAGAAAAAA
24489702 AATGTCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (24 bp):
TTAGGTACAAATTGAGAAAAAAGC
Found at i:24497460 original size:26 final size:26
Alignment explanation
Indices: 24497430--24497490 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
24497420 TTAGCTCTTA
24497430 TGAGCTTCCCGATT-ATAGGCTCCTCG
1 TGAGCTTCCCG-TTAATAGGCTCCTCG
* * * *
24497456 TGAGCTTCCTGTTAATTGGCTCTTTG
1 TGAGCTTCCCGTTAATAGGCTCCTCG
24497482 TGAGCTTCC
1 TGAGCTTCC
24497491 TGATATGGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (26 bp):
TGAGCTTCCCGTTAATAGGCTCCTCG
Found at i:24501333 original size:42 final size:42
Alignment explanation
Indices: 24501286--24501382 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
24501276 ACGAGTGGAG
*
24501286 ACACGGGTGTGTGTCTCAGTCGTGTGTGACACACGGCC-ATGC
1 ACACGGGTGTGTGTCTCAGCCGTGTGTGACACACGGCCTA-GC
*
24501328 GCACGGGTGTGTGTCTCAGCCGTGTGTGACACACGGCCTAGC
1 ACACGGGTGTGTGTCTCAGCCGTGTGTGACACACGGCCTAGC
*
24501370 ACACGGGCGTGTG
1 ACACGGGTGTGTG
24501383 GCTTGACTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.36, T:0.22
Consensus pattern (42 bp):
ACACGGGTGTGTGTCTCAGCCGTGTGTGACACACGGCCTAGC
Found at i:24502190 original size:12 final size:13
Alignment explanation
Indices: 24502165--24502189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24502155 TAGCCCGCCC
24502165 ATATTAATTTTTT
1 ATATTAATTTTTT
24502178 ATATTAATTTTT
1 ATATTAATTTTT
24502190 AAAATAAATA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:24502463 original size:3 final size:3
Alignment explanation
Indices: 24502457--24502497 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
24502447 ATATCAAGAA
24502457 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24502498 AACAATTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24506100 original size:88 final size:88
Alignment explanation
Indices: 24505951--24506269 Score: 496
Period size: 88 Copynumber: 3.6 Consensus size: 88
24505941 AGAGCAGATT
* *
24505951 GGTTAAAAATAGCAGATCTTGCATTCTTGCGTCGACAGCGAAGCAGATCGAAGACACCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTG
* *
24506016 CCTCCCTGGGTTGTAGCTGAGCA
66 CCTCCCTGGGTTGCAGCGGAGCA
* * *
24506039 GGTTAAAAAGAGCAGATCTTGCCTTCTTGCGCCGACAGCGAAACCGATCGAAGACACCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTG
*
24506104 CCTTCCTGGGTTGCAGCGGAGCA
66 CCTCCCTGGGTTGCAGCGGAGCA
* * * *
24506127 GGTTAAAAATAACAGATCTTGCCTTCCTGCACCGAGAGCGAAGCAGATCGAAGACACCAGCCTTG
1 GGTTAAAAATAGCAGATCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTG
*
24506192 CCTCCCTGGGTTGCAGCGGAACA
66 CCTCCCTGGGTTGCAGCGGAGCA
*
24506215 GGTTAAAAATAGCA-ATTCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCAAAGAC
1 GGTTAAAAATAGCAGA-TCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGAC
24506270 TGATGGGTGT
Statistics
Matches: 208, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
87 1 0.00
88 207 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (88 bp):
GGTTAAAAATAGCAGATCTTGCCTTCTTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTG
CCTCCCTGGGTTGCAGCGGAGCA
Found at i:24508103 original size:174 final size:174
Alignment explanation
Indices: 24507792--24508118 Score: 410
Period size: 174 Copynumber: 1.9 Consensus size: 174
24507782 AAGACATCAG
* * * *
24507792 CCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAACAGATCTTGCCTTTCTGCGCCGACG
1 CCTTGCCTCCCTCGGTTGCAGCAGAACAGGTTAAAAATAACAGATCTTGCCTTTCTGCACCGACA
* * * *
24507857 GTGAAGCAGATCGAAGACTCCAGCCTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACA
66 GTGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGCAGCAGTGGAGCAGGTTGAAAATTACA
24507922 AATCTTATCTCCCTAAGCAGTAGCGGAGTAATCGAAGACACTAA
131 AATCTTATCTCCCTAAGCAGTAGCGGAGTAATCGAAGACACTAA
* * * * * *
24507966 CCTTGCCTCCCTCGG-TGACAGGAGAACAGGTTAAAGATAGCCGATCTTGCCTTAT-TGTACTGA
1 CCTTGCCTCCCTCGGTTG-CAGCAGAACAGGTTAAAAATAACAGATCTTGCCTT-TCTGCACCGA
* * * **
24508029 CAGTGAAGTAGATCGAAGACACTAGCCTTGCCTCCCTCG-GTGGCAGTGGAGCAGGTT-AAAGAT
64 CAGTGAAGCAGATCGAAGACACCAGCCTTACCTCCCT-GAGCAGCAGTGGAGCAGGTTGAAA-AT
*
24508092 TACAGATCTTATCTCCCTAAGCAGTAG
127 TACAAATCTTATCTCCCTAAGCAGTAG
24508119 TGAAGCAGAT
Statistics
Matches: 129, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
173 5 0.04
174 122 0.95
175 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (174 bp):
CCTTGCCTCCCTCGGTTGCAGCAGAACAGGTTAAAAATAACAGATCTTGCCTTTCTGCACCGACA
GTGAAGCAGATCGAAGACACCAGCCTTACCTCCCTGAGCAGCAGTGGAGCAGGTTGAAAATTACA
AATCTTATCTCCCTAAGCAGTAGCGGAGTAATCGAAGACACTAA
Found at i:24510087 original size:2 final size:2
Alignment explanation
Indices: 24510080--24510113 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
24510070 ATAATTGATT
* *
24510080 TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24510114 ATTTTATGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:24510450 original size:15 final size:16
Alignment explanation
Indices: 24510430--24510460 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24510420 GATTTGTGTT
24510430 TTCATTT-ATATTTTA
1 TTCATTTGATATTTTA
24510445 TTCATTTGATATTTTA
1 TTCATTTGATATTTTA
24510461 CATGTCGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (16 bp):
TTCATTTGATATTTTA
Found at i:24514276 original size:2 final size:2
Alignment explanation
Indices: 24514269--24514311 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
24514259 CAAAGTTCCT
24514269 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
24514311 T
1 T
24514312 TTTATCAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:24530597 original size:2 final size:2
Alignment explanation
Indices: 24530590--24530626 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
24530580 TCTATTCCCT
24530590 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
24530627 GTAAAACAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:24540864 original size:30 final size:30
Alignment explanation
Indices: 24540828--24541211 Score: 528
Period size: 30 Copynumber: 12.9 Consensus size: 30
24540818 ATATATTTCT
**
24540828 GAATTGATTTGTATATGAATATACATTTTC
1 GAATTGATTTGTATATGAATATACATTGCC
* * *
24540858 GAATTGATTCGTATATGGATATACATCGCC
1 GAATTGATTTGTATATGAATATACATTGCC
* * *
24540888 GAATTGATTCGTATATGGATATACATCGCC
1 GAATTGATTTGTATATGAATATACATTGCC
*
24540918 GAATTGATTTGTATATGGATATACATTGCC
1 GAATTGATTTGTATATGAATATACATTGCC
* *
24540948 GAATTGATTTGTATATGGATATACATTGCT
1 GAATTGATTTGTATATGAATATACATTGCC
24540978 GAATTGATTTGTATATGAATATACATTGCC
1 GAATTGATTTGTATATGAATATACATTGCC
* *
24541008 GAATTGATTTGTATAT-AGATATAAATTACC
1 GAATTGATTTGTATATGA-ATATACATTGCC
24541038 GAATTGATTTGTATAT-AGATATACATTGCC
1 GAATTGATTTGTATATGA-ATATACATTGCC
* *
24541068 GAATTGATTTGTATATGGATATACATTGCT
1 GAATTGATTTGTATATGAATATACATTGCC
*
24541098 GAATTGATTTGTATATGAATATACATTACC
1 GAATTGATTTGTATATGAATATACATTGCC
* *
24541128 GAATTGATTTGTATAT-AGATATAAATTACC
1 GAATTGATTTGTATATGA-ATATACATTGCC
24541158 GAATTGATTTGTATAT-AGATATACATTGCC
1 GAATTGATTTGTATATGA-ATATACATTGCC
24541188 GAATTGATTTGTATATG--TATACAT
1 GAATTGATTTGTATATGAATATACAT
24541212 ATATATTGTT
Statistics
Matches: 328, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
28 7 0.02
29 2 0.01
30 319 0.97
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.40
Consensus pattern (30 bp):
GAATTGATTTGTATATGAATATACATTGCC
Found at i:24540951 original size:90 final size:90
Alignment explanation
Indices: 24540828--24541211 Score: 583
Period size: 90 Copynumber: 4.3 Consensus size: 90
24540818 ATATATTTCT
* ** * * *
24540828 GAATTGATTTGTATATGAATATACATTTTCGAATTGATTCGTATATGGATATACATCGCCGAATT
1 GAATTGATTTGTATATGGATATACATTACCGAATTGATTTGTATATAGATATACATTGCCGAATT
* *
24540893 GATTCGTATATGGATATACATCGCC
66 GATTTGTATATGGATATACATTGCC
* * *
24540918 GAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGGATATACATTGCTGAATT
1 GAATTGATTTGTATATGGATATACATTACCGAATTGATTTGTATATAGATATACATTGCCGAATT
*
24540983 GATTTGTATATGAATATACATTGCC
66 GATTTGTATATGGATATACATTGCC
* *
24541008 GAATTGATTTGTATATAGATATAAATTACCGAATTGATTTGTATATAGATATACATTGCCGAATT
1 GAATTGATTTGTATATGGATATACATTACCGAATTGATTTGTATATAGATATACATTGCCGAATT
*
24541073 GATTTGTATATGGATATACATTGCT
66 GATTTGTATATGGATATACATTGCC
* * *
24541098 GAATTGATTTGTATATGAATATACATTACCGAATTGATTTGTATATAGATATAAATTACCGAATT
1 GAATTGATTTGTATATGGATATACATTACCGAATTGATTTGTATATAGATATACATTGCCGAATT
*
24541163 GATTTGTATATAGATATACATTGCC
66 GATTTGTATATGGATATACATTGCC
24541188 GAATTGATTTGTATAT-G-TATACAT
1 GAATTGATTTGTATATGGATATACAT
24541212 ATATATTGTT
Statistics
Matches: 270, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
88 7 0.03
90 263 0.97
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.40
Consensus pattern (90 bp):
GAATTGATTTGTATATGGATATACATTACCGAATTGATTTGTATATAGATATACATTGCCGAATT
GATTTGTATATGGATATACATTGCC
Found at i:24545871 original size:19 final size:18
Alignment explanation
Indices: 24545847--24545906 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
24545837 TTTAACAAAA
24545847 TTTTTAAAACTTTATAAAT
1 TTTTTAAAACTTT-TAAAT
* *
24545866 TTTTTATAACTTTTATGAT
1 TTTTTAAAACTTTTA-AAT
*
24545885 TTTTTAATAATTTTTAAAT
1 TTTTTAA-AACTTTTAAAT
24545904 TTT
1 TTT
24545907 AGAAGAGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 2 0.06
19 25 0.74
20 7 0.21
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTTAAAACTTTTAAAT
Found at i:24548088 original size:152 final size:152
Alignment explanation
Indices: 24547812--24548091 Score: 355
Period size: 152 Copynumber: 1.8 Consensus size: 152
24547802 GATGTGGCAT
* * * *
24547812 TGATACATGCACAGATGGGGTGAAATTTACTTCATTCCATTCACTGAAGGTGCCAATTTCTAAAT
1 TGATACATGCACAAAGGGGGTAAAATTTACTTCATTCCATTCACCGAAGGTGCCAATTTCTAAAT
* * * * ** * **
24547877 TTGGAAAATCAATCGACTTGCGATAACTTTTTGGATGGGATCTTGATATTTCTGGGTCAATATTT
66 TTGAAAAATCAATCGAATTGCGACAACTTTTTCGATGGGATCCAGACATTTCTAAGTCAATATTT
24547942 CCTCTTATCGATTGAATATATG
131 CCTCTTATCGATTGAATATATG
* * * * * *
24547964 TGATACATGCACAAAGGGGGTAAAATTTA-TTATATTCTATTCACCGGAGGTGTCAATTTTTAAG
1 TGATACATGCACAAAGGGGGTAAAATTTACTT-CATTCCATTCACCGAAGGTGCCAATTTCTAAA
* *
24548028 TTTGAAAAATCAATTGAATTGTGACAACTTTTTCGATGGGATCCAGACATTTCTAAGTCAATAT
65 TTTGAAAAATCAATCGAATTGCGACAACTTTTTCGATGGGATCCAGACATTTCTAAGTCAATAT
24548092 GTCTTCATAT
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
151 2 0.02
152 104 0.98
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (152 bp):
TGATACATGCACAAAGGGGGTAAAATTTACTTCATTCCATTCACCGAAGGTGCCAATTTCTAAAT
TTGAAAAATCAATCGAATTGCGACAACTTTTTCGATGGGATCCAGACATTTCTAAGTCAATATTT
CCTCTTATCGATTGAATATATG
Found at i:24557125 original size:14 final size:14
Alignment explanation
Indices: 24557103--24557151 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
24557093 CACAGATAGT
24557103 AATCAGAATATTAA
1 AATCAGAATATTAA
*
24557117 AATCTGAATATTATA
1 AATCAGAATATTA-A
24557132 TGAATCAGCAATATTAA
1 --AATCAG-AATATTAA
24557149 AAT
1 AAT
24557152 ATGTAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
17 6 0.21
18 7 0.24
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (14 bp):
AATCAGAATATTAA
Found at i:24557271 original size:27 final size:26
Alignment explanation
Indices: 24557241--24557304 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
24557231 TTTATCGAGG
24557241 TTATTAATTTATCGATAAATGAATATT
1 TTATTAATTTATCGATAAATGAATA-T
* *
24557268 TTATTAATTTATCGGTAAATTAATAT
1 TTATTAATTTATCGATAAATGAATAT
*
24557294 CTATTAATTTA
1 TTATTAATTTA
24557305 GAGAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 11 0.32
27 23 0.68
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.50
Consensus pattern (26 bp):
TTATTAATTTATCGATAAATGAATAT
Found at i:24557431 original size:38 final size:38
Alignment explanation
Indices: 24557386--24557462 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 38
24557376 TGAATCAAAG
24557386 TTAATTGGTTCATGTAA-CAACAAA-AAAAAGAGAGTTAA
1 TTAATTGGTTCATGTAACCAA-AAAGAAAAA-AGAGTTAA
24557424 TTAATTGGTTCATGTAACCAAAAAGAAAAAAGAGTTAA
1 TTAATTGGTTCATGTAACCAAAAAGAAAAAAGAGTTAA
24557462 T
1 T
24557463 GGTTTCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
38 29 0.78
39 8 0.22
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (38 bp):
TTAATTGGTTCATGTAACCAAAAAGAAAAAAGAGTTAA
Found at i:24565116 original size:15 final size:15
Alignment explanation
Indices: 24565096--24565129 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24565086 GGTTTCAATC
24565096 ATGTATGATCAA-TAT
1 ATGTATGA-CAAGTAT
24565111 ATGTATGACAAGTAT
1 ATGTATGACAAGTAT
24565126 ATGT
1 ATGT
24565130 GACATTCTTT
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:0.06, G:0.18, T:0.38
Consensus pattern (15 bp):
ATGTATGACAAGTAT
Found at i:24567349 original size:27 final size:27
Alignment explanation
Indices: 24567319--24567429 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
24567309 AGGCTAGCCC
*
24567319 TTCATAATTTGTCACAAAAGCTTTTCT
1 TTCATAATTTGCCACAAAAGCTTTTCT
* * *
24567346 TTCATGATTCGCCACAAAGGCTTTTCT
1 TTCATAATTTGCCACAAAAGCTTTTCT
*
24567373 TTCAT-ATTTCGCCACAAAAGCTTTCCT
1 TTCATAATTT-GCCACAAAAGCTTTTCT
* * *
24567400 TTCATATTTTGACACAAAGGCTTTTCT
1 TTCATAATTTGCCACAAAAGCTTTTCT
24567427 TTC
1 TTC
24567430 TTGATGTGTT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
26 3 0.04
27 65 0.92
28 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.41
Consensus pattern (27 bp):
TTCATAATTTGCCACAAAAGCTTTTCT
Found at i:24568916 original size:25 final size:24
Alignment explanation
Indices: 24568869--24568921 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
24568859 GCAGACCGTA
24568869 GCTCTTTATGAGCATCCTAATATAG
1 GCTCTTTATGAGCATCCTAATAT-G
* * * *
24568894 GCTCTTTGTGAGCTTCTTGATATG
1 GCTCTTTATGAGCATCCTAATATG
24568918 GCTC
1 GCTC
24568922 GCTTGAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (24 bp):
GCTCTTTATGAGCATCCTAATATG
Found at i:24569017 original size:45 final size:47
Alignment explanation
Indices: 24568966--24569054 Score: 121
Period size: 45 Copynumber: 1.9 Consensus size: 47
24568956 CCATGATAAT
24568966 AACTCTT-TAGAGTTACCTGTTA-AG-CTCAATAAGCTTCCTGTTTTA
1 AACTCTTAT-GAGTTACCTGTTATAGCCTCAATAAGCTTCCTGTTTTA
* **
24569011 AACTCTTATGAGTTTCCTGTTATAGCCTGGATAAGCTTCCTGTT
1 AACTCTTATGAGTTACCTGTTATAGCCTCAATAAGCTTCCTGTT
24569055 ACATGGCTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 19 0.50
46 3 0.08
47 16 0.42
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (47 bp):
AACTCTTATGAGTTACCTGTTATAGCCTCAATAAGCTTCCTGTTTTA
Found at i:24569540 original size:14 final size:14
Alignment explanation
Indices: 24569521--24569560 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
24569511 TTGATTGCCA
24569521 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
24569535 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
24569549 GGAAAATGTTTT
1 GTAAAATGTTTT
24569561 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:24569569 original size:20 final size:20
Alignment explanation
Indices: 24569544--24569583 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24569534 CGTAAAATGA
*
24569544 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
24569564 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
24569584 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:24569573 original size:34 final size:35
Alignment explanation
Indices: 24569529--24569595 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
24569519 CAGTAAAATG
*
24569529 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
24569563 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
24569596 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:24569599 original size:14 final size:15
Alignment explanation
Indices: 24569523--24569599 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
24569513 GATTGCCAGT
* *
24569523 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
24569537 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
24569551 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
24569571 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
24569586 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
24569600 TGTTTGTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:24572542 original size:18 final size:18
Alignment explanation
Indices: 24572521--24572571 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
24572511 AGGAATGAAG
24572521 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
*** * *
24572539 GAAGGGAGCTTACTAGAT
1 GAAGGGAGAAGAATGGAT
24572557 GAAGGGAGAAGAATG
1 GAAGGGAGAAGAATG
24572572 CCTGAGAGCT
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.41, T:0.14
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:24581535 original size:28 final size:25
Alignment explanation
Indices: 24581490--24581546 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 25
24581480 AAAATAAAGA
*
24581490 AAAAGATGAAATTGGAAAGTGAAATAAT
1 AAAAGATGAAAATGGAAA---AAATAAT
24581518 AAAAGATGATAAAT-GAAAAAATAAT
1 AAAAGATGA-AAATGGAAAAAATAAT
24581543 AAAA
1 AAAA
24581547 ATATCATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 11 0.41
28 13 0.48
29 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (25 bp):
AAAAGATGAAAATGGAAAAAATAAT
Found at i:24586082 original size:17 final size:18
Alignment explanation
Indices: 24586060--24586100 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
24586050 TATTTGATCC
24586060 TTTTAT-CAACTTT-TTCA
1 TTTTATGCAA-TTTGTTCA
*
24586077 TTTTATGCAATTTGTTCC
1 TTTTATGCAATTTGTTCA
24586095 TTTTAT
1 TTTTAT
24586101 AAATTAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTTATGCAATTTGTTCA
Found at i:24586100 original size:18 final size:17
Alignment explanation
Indices: 24586051--24586105 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
24586041 TTTCATAGCT
*
24586051 ATTTGATCCTTTTATCA
1 ATTTGTTCCTTTTATCA
*
24586068 ACTTT-TTCATTTTATGCA
1 A-TTTGTTCCTTTTAT-CA
*
24586086 ATTTGTTCCTTTTATAA
1 ATTTGTTCCTTTTATCA
24586103 ATT
1 ATT
24586106 AAACATGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.24, C:0.15, G:0.05, T:0.56
Consensus pattern (17 bp):
ATTTGTTCCTTTTATCA
Found at i:24591605 original size:22 final size:22
Alignment explanation
Indices: 24591581--24591659 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
24591571 CCTCTACGAT
**
24591581 TAACGTACTAAGCTCTCATGTT
1 TAACGTACTAAGCTCTCATGGC
* * *
24591603 TAACGAACTAAACCCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
24591625 TAACGTACTAAGCTCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
24591647 TAACGTACTAAGC
1 TAACGTACTAAGC
24591660 AATGAGATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (22 bp):
TAACGTACTAAGCTCTCATGGC
Found at i:24593108 original size:24 final size:24
Alignment explanation
Indices: 24593055--24593220 Score: 74
Period size: 24 Copynumber: 6.8 Consensus size: 24
24593045 TGTATAACAA
* *
24593055 GAAGCTCATAAGAGGCATAATCGG
1 GAAGCTCATAAGAGCCATAATCAG
24593079 GAAGCTCATAAGAGCCAATAAT-AG
1 GAAGCTCATAAGAGCC-ATAATCAG
* *** *
24593103 GTAGCTCCGGAGAGCCATTAA-CGG
1 GAAGCTCATAAGAGCCA-TAATCAG
* * * * *
24593127 GAAGCTCTTGATAACCATATATCGG
1 GAAGCTCATAAGAGCCATA-ATCAG
*
24593152 GAAGTTC--AAGCAAGCCAT-ATCAG
1 GAAGCTCATAAG--AGCCATAATCAG
*
24593175 GAAGCTCCA-AAGATCCATTAAATCAG
1 GAAGCT-CATAAGAGCCA-T-AATCAG
*
24593201 GAAGCTCATAAAGAGTCATA
1 GAAGCTCAT-AAGAGCCATA
24593221 TAACGGGACA
Statistics
Matches: 107, Mismatches: 21, Indels: 27
0.69 0.14 0.17
Matches are distributed among these distances:
23 17 0.16
24 47 0.44
25 25 0.23
26 12 0.11
27 6 0.06
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCATAATCAG
Found at i:24600396 original size:25 final size:25
Alignment explanation
Indices: 24600368--24600427 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
24600358 TAGTCCTTCA
24600368 TCCCTCCCTCCCCCACCCTTATCCC
1 TCCCTCCCTCCCCCACCCTTATCCC
24600393 TCCCTCCCTCCCCCACCCTTATCCC
1 TCCCTCCCTCCCCCACCCTTATCCC
24600418 TCCCTCCCTC
1 TCCCTCCCTC
24600428 ATCATCCCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.07, C:0.68, G:0.00, T:0.25
Consensus pattern (25 bp):
TCCCTCCCTCCCCCACCCTTATCCC
Found at i:24604828 original size:16 final size:16
Alignment explanation
Indices: 24604802--24604835 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
24604792 ATCATAGGTT
24604802 AATTAATTTAAACCTTA
1 AATTAATTTAAA-CTTA
24604819 AATTAA-TTAAACTTA
1 AATTAATTTAAACTTA
24604834 AA
1 AA
24604836 ACCCTTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 5 0.29
17 6 0.35
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAATTTAAACTTA
Found at i:24605831 original size:25 final size:25
Alignment explanation
Indices: 24605797--24605844 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
24605787 TTTTTTTAAA
24605797 ACTTTTATTTAATATTAATATAATT
1 ACTTTTATTTAATATTAATATAATT
24605822 ACTTTTATTTAATATTAATATAA
1 ACTTTTATTTAATATTAATATAA
24605845 AATTTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (25 bp):
ACTTTTATTTAATATTAATATAATT
Found at i:24608887 original size:178 final size:177
Alignment explanation
Indices: 24608551--24608889 Score: 493
Period size: 178 Copynumber: 1.9 Consensus size: 177
24608541 AATTTGGCCG
24608551 TTAATCATTAGACTTATTATTTTGTTGTGTGCCTTAGAACAAATCCATTGCATATTCTGTGACTC
1 TTAATCATTAGACTTATTATTTTGTTGTGTGCCTTAGAACAAATCCATTGCATATTCTGTGACTC
** * * *
24608616 TGATAAAATGTTTTGTTTGCTTTTGTGTTGGTACGAGGTGTTCAGAGAACTAGAAATGTTAAGCT
66 TGATAAAATGTTTTGTTTGCTTTTGTGGCGGTACAAGGTGTTCAGAGAACCAGAAATGTAAAGCT
* *
24608681 TGATCTTCAGTTTAGTTTAGGATATTTAGCTTTATCTGTTTTGGGAA
131 TAATCTTCAGTTTACTTTAGGATATTTAGCTTTATCTGTTTTGGGAA
* * **
24608728 TTAATCTTTCGACTTA-TATTTTTGTTGTGTGTTTTAGAAACAAATCCATTGCATATTCTGTGAC
1 TTAATCATTAGACTTATTA-TTTTGTTGTGTGCCTTAG-AACAAATCCATTGCATATTCTGTGAC
* *
24608792 TGTGATCAAATGTTTTGTTTGCTTTTGTGGCGGTTA-AAGGTGTTCAGAGAACCAGAAATGTAAA
64 TCTGATAAAATGTTTTGTTTGCTTTTGTGGCGG-TACAAGGTGTTCAGAGAACCAGAAATGTAAA
* **
24608856 GCTTAATCTTCTGTTTACTTTAGTTTATTTAGCT
128 GCTTAATCTTCAGTTTACTTTAGGATATTTAGCT
24608890 CTATATATTA
Statistics
Matches: 143, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
176 2 0.01
177 30 0.21
178 109 0.76
179 2 0.01
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (177 bp):
TTAATCATTAGACTTATTATTTTGTTGTGTGCCTTAGAACAAATCCATTGCATATTCTGTGACTC
TGATAAAATGTTTTGTTTGCTTTTGTGGCGGTACAAGGTGTTCAGAGAACCAGAAATGTAAAGCT
TAATCTTCAGTTTACTTTAGGATATTTAGCTTTATCTGTTTTGGGAA
Found at i:24614883 original size:5 final size:5
Alignment explanation
Indices: 24614873--24614898 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24614863 ATTATGTGCA
24614873 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
24614899 TGAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:24617698 original size:79 final size:78
Alignment explanation
Indices: 24617547--24617694 Score: 187
Period size: 78 Copynumber: 1.9 Consensus size: 78
24617537 AAAGTTCACA
* * * *
24617547 AAATTAAAAATATTTACTTTTATTTTTTAAAATATAAAAAAATGTCAAACAAATTAATAAAAACC
1 AAATTAAAAATATATACTTTTATTTTTCAAAATATAAAAAAATGACAAAAAAATT-ATAAAAACC
24617612 TCAAAAATTTTAAG
65 TCAAAAATTTTAAG
*
24617626 AAATTAAAAA-ATATATTTTTATTTTTCAAAA-ATAAATAAAAT-ACAAAAAAATGT-TAAAAAC
1 AAATTAAAAATATATACTTTTATTTTTCAAAATATAAA-AAAATGACAAAAAAAT-TATAAAAAC
*
24617687 TTCAAAAA
64 CTCAAAAA
24617695 AAATCTCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
76 14 0.23
77 13 0.21
78 24 0.39
79 10 0.16
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (78 bp):
AAATTAAAAATATATACTTTTATTTTTCAAAATATAAAAAAATGACAAAAAAATTATAAAAACCT
CAAAAATTTTAAG
Found at i:24620378 original size:22 final size:23
Alignment explanation
Indices: 24620337--24620381 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
24620327 AAGATAGGTT
24620337 AAATTACATAAAAAAATTTTAAA
1 AAATTACATAAAAAAATTTTAAA
24620360 AAATTA-A-AAAATAAATTTTAAA
1 AAATTACATAAAA-AAATTTTAAA
24620382 GAAAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 11 0.52
23 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATTACATAAAAAAATTTTAAA
Found at i:24620641 original size:20 final size:20
Alignment explanation
Indices: 24620616--24620656 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24620606 TAAACTAAAT
*
24620616 ATTAAAATTAATAAAATTAA
1 ATTAAAAATAATAAAATTAA
**
24620636 ATTAAAAATGTTAAAATTAA
1 ATTAAAAATAATAAAATTAA
24620656 A
1 A
24620657 ATTGTGTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
ATTAAAAATAATAAAATTAA
Found at i:24620656 original size:15 final size:15
Alignment explanation
Indices: 24620612--24620657 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
24620602 ACTTTAAACT
24620612 AAATATTAAAATTAA
1 AAATATTAAAATTAA
24620627 TAAA-ATT-AAATTAA
1 -AAATATTAAAATTAA
*
24620641 AAATGTTAAAATTAA
1 AAATATTAAAATTAA
24620656 AA
1 AA
24620658 TTGTGTTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 3 0.11
14 9 0.33
15 12 0.44
16 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AAATATTAAAATTAA
Found at i:24623057 original size:24 final size:24
Alignment explanation
Indices: 24623024--24623072 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
24623014 CAATATGGAG
* * *
24623024 AAATGTAGCCTGTCGGGACTGTAA
1 AAATGAAGCCAGTCGGGACAGTAA
24623048 AAATGAAGCCAGTCGGGACAGTAA
1 AAATGAAGCCAGTCGGGACAGTAA
24623072 A
1 A
24623073 CACGATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (24 bp):
AAATGAAGCCAGTCGGGACAGTAA
Found at i:24624382 original size:51 final size:51
Alignment explanation
Indices: 24624253--24624448 Score: 227
Period size: 51 Copynumber: 3.9 Consensus size: 51
24624243 AGTGAAAGTG
*
24624253 ATGGTCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGA-A-TA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * *
24624302 ATAGGTCGCATGTGTAGTACTATGCGCAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * * *
24624353 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * *
24624405 ATGGTCACATGTGTAGGACTATGTGCAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
24624449 AATATCATTG
Statistics
Matches: 120, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.32
51 77 0.64
52 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:24624517 original size:45 final size:45
Alignment explanation
Indices: 24624452--24624538 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
24624442 TGAACCGAAT
* * *
24624452 ATCATTGTTTAGTAAAGTGGTTGCTATGTGCTGATTCCACCGGAC
1 ATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCACCGGAC
*
24624497 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCACCG
24624539 AGTATTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (45 bp):
ATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCACCGGAC
Found at i:24628974 original size:14 final size:16
Alignment explanation
Indices: 24628950--24628981 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24628940 CATTTCACTA
24628950 TTATGTCCTTTT-TAT
1 TTATGTCCTTTTATAT
24628965 TTATGT-CTTTTATAT
1 TTATGTCCTTTTATAT
24628980 TT
1 TT
24628982 TACATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (16 bp):
TTATGTCCTTTTATAT
Found at i:24632208 original size:17 final size:17
Alignment explanation
Indices: 24632170--24632214 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
24632160 AATGAATGAA
*
24632170 AAATTGAGA-ACTAAAT
1 AAATTGAGAGAATAAAT
*
24632186 -AGTTGAGAGAATAAAT
1 AAATTGAGAGAATAAAT
24632202 AAATTGAGAGAAT
1 AAATTGAGAGAAT
24632215 TAGGAGAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.20, T:0.24
Consensus pattern (17 bp):
AAATTGAGAGAATAAAT
Found at i:24633047 original size:19 final size:20
Alignment explanation
Indices: 24633025--24633062 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24633015 TGCAAAAAAT
*
24633025 TACTTAATACAT-AAAATAC
1 TACTTAAAACATGAAAATAC
24633044 TACTTAAAACATGAAAATA
1 TACTTAAAACATGAAAATA
24633063 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (20 bp):
TACTTAAAACATGAAAATAC
Found at i:24633073 original size:71 final size:71
Alignment explanation
Indices: 24632979--24633123 Score: 238
Period size: 71 Copynumber: 2.0 Consensus size: 71
24632969 TTAATACATC
* * *
24632979 AAACGTGAAAATGTTTTTAAAGTAATTAATAAAACTTGCAAAAAATTACTTAATACATAAAATAC
1 AAACATGAAAATATTTTAAAAGTAATTAATAAAACTTG-AAAAAATTACTTAATACATAAAATAC
24633044 TACTT-A
65 TACTTCA
*
24633050 AAACATGAAAATATTTTAAAAGTAATTAATAAAACTTGAAAAAATTACTTAATACATAAAATATT
1 AAACATGAAAATATTTTAAAAGTAATTAATAAAACTTGAAAAAATTACTTAATACATAAAATACT
24633115 ACTTCA
66 ACTTCA
24633121 AAA
1 AAA
24633124 AAATGTTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
70 30 0.43
71 39 0.57
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.32
Consensus pattern (71 bp):
AAACATGAAAATATTTTAAAAGTAATTAATAAAACTTGAAAAAATTACTTAATACATAAAATACT
ACTTCA
Found at i:24639562 original size:16 final size:16
Alignment explanation
Indices: 24639541--24639605 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
24639531 TTCGCTGTAT
24639541 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
24639557 TGGAATAGAGGCGTAC
1 TGGAATAGAGGCGTAA
*
24639573 TGGAATAGAGGCATAA
1 TGGAATAGAGGCGTAA
24639589 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
24639605 T
1 T
24639606 AGCAATTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:24639680 original size:44 final size:45
Alignment explanation
Indices: 24639586--24639681 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 45
24639576 AATAGAGGCA
*
24639586 TAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATG
1 TAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTAGTTGAATG
* * *
24639631 TAATGGAATAGAGGTGTAATAG-TATTC-TTGTGTTTAGTTGAATG
1 TAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTAGTTGAATG
24639675 TAATGGA
1 TAATGGA
24639682 GGTGTAATAG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.52
45 21 0.46
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.36
Consensus pattern (45 bp):
TAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTAGTTGAATG
Found at i:24639859 original size:18 final size:17
Alignment explanation
Indices: 24639838--24639872 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24639828 TTATTATTAA
*
24639838 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24639856 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24639873 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24640012 original size:16 final size:16
Alignment explanation
Indices: 24639991--24640029 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
24639981 ATTTAATAAA
24639991 ATTCTTAATAATCAAT
1 ATTCTTAATAATCAAT
24640007 ATTCTTAATAATCAAT
1 ATTCTTAATAATCAAT
24640023 ATTCTTA
1 ATTCTTA
24640030 TAACAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTCTTAATAATCAAT
Found at i:24648106 original size:41 final size:41
Alignment explanation
Indices: 24648049--24648130 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
24648039 TTGTTTTCTG
*
24648049 CTAAATCGGGTATATGTTTATCCAAGTAATAAAATGTGTCA
1 CTAAATCGGGTATATGTTTATACAAGTAATAAAATGTGTCA
24648090 CTAAATCGGGTATATGTTTATACAAGTAATAAAATGTGTCA
1 CTAAATCGGGTATATGTTTATACAAGTAATAAAATGTGTCA
24648131 AACAGAGCAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (41 bp):
CTAAATCGGGTATATGTTTATACAAGTAATAAAATGTGTCA
Found at i:24652421 original size:18 final size:17
Alignment explanation
Indices: 24652364--24652423 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 17
24652354 TTTATATTTT
* *
24652364 AATTAAAAACATA-AAA
1 AATTAAAAACTTATGAA
24652380 AATTAAAAACTTATGAA
1 AATTAAAAACTTATGAA
* *
24652397 AAATAAAAACTCTTTGAA
1 AATTAAAAACT-TATGAA
*
24652415 ATTTAAAAA
1 AATTAAAAA
24652424 ATACAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
16 12 0.33
17 12 0.33
18 12 0.33
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (17 bp):
AATTAAAAACTTATGAA
Found at i:24654381 original size:16 final size:17
Alignment explanation
Indices: 24654338--24654397 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 17
24654328 ATTATTTTAT
*
24654338 TTTTATTTTTAATAT--
1 TTTTAATTTTAATATAA
24654353 TTTATAAATTTTAATATAA
1 TTT-T-AATTTTAATATAA
*
24654372 TTTT-ATTTTAATATAT
1 TTTTAATTTTAATATAA
24654388 TTTTAATTTT
1 TTTTAATTTT
24654398 TAGGATAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 3 0.08
16 16 0.42
17 15 0.39
18 1 0.03
19 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTAATTTTAATATAA
Found at i:24660524 original size:22 final size:21
Alignment explanation
Indices: 24660487--24660528 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
24660477 TTAAAATTTT
24660487 AAAAATAATATCAAATCAAATA
1 AAAAATAATATCAAAT-AAATA
* *
24660509 AAAAATAATTTTAAATAAAT
1 AAAAATAATATCAAATAAAT
24660529 TTTATTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATAATATCAAATAAATA
Found at i:24668265 original size:6 final size:6
Alignment explanation
Indices: 24668225--24668255 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
24668215 TTTAAATGTT
24668225 ATATTA ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA ATATTA A
24668256 ATAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:24668950 original size:20 final size:20
Alignment explanation
Indices: 24668925--24668972 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
24668915 GATCAACAAC
24668925 TATCGATACTTGACTTAC-AG
1 TATCGATACTT-ACTTACTAG
* *
24668945 TATCGATGCTTCCTTACTAG
1 TATCGATACTTACTTACTAG
24668965 TATCGATA
1 TATCGATA
24668973 TAAATTTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (20 bp):
TATCGATACTTACTTACTAG
Found at i:24669258 original size:19 final size:19
Alignment explanation
Indices: 24669234--24669272 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
24669224 ACAAAATGAT
24669234 TATGGATGAATGGTTGTGA
1 TATGGATGAATGGTTGTGA
24669253 TATGGATGAATGGTTGTGA
1 TATGGATGAATGGTTGTGA
24669272 T
1 T
24669273 GAGGTGGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (19 bp):
TATGGATGAATGGTTGTGA
Found at i:24669371 original size:3 final size:3
Alignment explanation
Indices: 24669363--24669387 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24669353 CATTTTCCTC
24669363 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
24669388 TATGGGTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:24675139 original size:15 final size:15
Alignment explanation
Indices: 24675119--24675156 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
24675109 TTTTATGTAA
24675119 ATTTATTATA-AATAT
1 ATTTATTATATAAT-T
24675134 ATTTATTATATAATT
1 ATTTATTATATAATT
24675149 ATGTTATT
1 AT-TTATT
24675157 TATTAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
ATTTATTATATAATT
Found at i:24675283 original size:20 final size:21
Alignment explanation
Indices: 24675260--24675302 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
24675250 ATAATTTCTA
*
24675260 TAACTTTA-ATATGATTTTGT
1 TAACATTAGATATGATTTTGT
24675280 TAACATTAGATATGATTTTGT
1 TAACATTAGATATGATTTTGT
24675301 TA
1 TA
24675303 CCTTGGAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (21 bp):
TAACATTAGATATGATTTTGT
Found at i:24677844 original size:15 final size:14
Alignment explanation
Indices: 24677820--24677884 Score: 62
Period size: 16 Copynumber: 4.5 Consensus size: 14
24677810 TTTTATAAAT
24677820 TAAAAATAAT--TA
1 TAAAAATAATAATA
24677832 TAAAAATAATAATA
1 TAAAAATAATAATA
24677846 GTAAAAATAAATAATA
1 -TAAAAAT-AATAATA
*
24677862 TAGAAAATATTAAATA
1 TA-AAAATAAT-AATA
*
24677878 TAGAAAT
1 TAAAAAT
24677885 CATTATATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
12 10 0.22
14 2 0.04
15 15 0.33
16 18 0.40
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (14 bp):
TAAAAATAATAATA
Found at i:24692967 original size:13 final size:13
Alignment explanation
Indices: 24692937--24692961 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24692927 TAATTCATAC
24692937 AATATATAAAATG
1 AATATATAAAATG
24692950 AATATATAAAAT
1 AATATATAAAAT
24692962 ATATATCTAA
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATATATAAAATG
Found at i:24695384 original size:17 final size:17
Alignment explanation
Indices: 24695312--24695385 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
24695302 GTTAGATGGA
24695312 GTATGAACTATTATTTT
1 GTATGAACTATTATTTT
* * * **
24695329 GCATAAATTATTATTCG
1 GTATGAACTATTATTTT
* *
24695346 GTATGAATTGA-TATTTC
1 GTATGAACT-ATTATTTT
*
24695363 ATATGAACTATTATTTT
1 GTATGAACTATTATTTT
24695380 GTATGA
1 GTATGA
24695386 GCTGTCATTT
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
16 1 0.02
17 40 0.95
18 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (17 bp):
GTATGAACTATTATTTT
Found at i:24699449 original size:48 final size:48
Alignment explanation
Indices: 24699388--24699482 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
24699378 TATTGATGTC
24699388 AAAGATACAAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCTTT
1 AAAGATACAAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCTTT
* *
24699436 AAAGATACGAAAACGGGGGTCACATTTAAAGTTAATGGACAACGCTT
1 AAAGATACAAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCTT
24699483 GAAGCACTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (48 bp):
AAAGATACAAAAACGAGGGTCACATTTAAAGTTAATGGACAACGCTTT
Found at i:24709081 original size:15 final size:16
Alignment explanation
Indices: 24709052--24709088 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
24709042 AGAAATTTAT
24709052 AAATAAAAGATTCAAA
1 AAATAAAAGATTCAAA
24709068 AAATAAAA-ATTCAAA
1 AAATAAAAGATTCAAA
24709083 AAATAA
1 AAATAA
24709089 TGAATCAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (16 bp):
AAATAAAAGATTCAAA
Found at i:24711630 original size:13 final size:13
Alignment explanation
Indices: 24711614--24711644 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
24711604 TTCATATTTA
*
24711614 CATTTCATGTGTC
1 CATTTCATGTATC
24711627 CATTTCATGTATC
1 CATTTCATGTATC
24711640 CATTT
1 CATTT
24711645 TCACCCTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (13 bp):
CATTTCATGTATC
Found at i:24723432 original size:16 final size:16
Alignment explanation
Indices: 24723411--24723442 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24723401 ATTTTTAATA
24723411 TTATTCATGCACTAGC
1 TTATTCATGCACTAGC
24723427 TTATTCATGCACTAGC
1 TTATTCATGCACTAGC
24723443 AAGTGTGTAA
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:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (16 bp):
TTATTCATGCACTAGC
Found at i:24728643 original size:19 final size:19
Alignment explanation
Indices: 24728619--24728731 Score: 190
Period size: 19 Copynumber: 5.8 Consensus size: 19
24728609 AATCATATAT
24728619 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
24728638 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
24728657 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
24728676 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
24728697 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
24728716 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
24728732 CTCAAAAATT
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
19 69 0.78
21 19 0.22
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:24728702 original size:40 final size:40
Alignment explanation
Indices: 24728619--24728730 Score: 210
Period size: 40 Copynumber: 2.9 Consensus size: 40
24728609 AATCATATAT
24728619 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
24728657 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
24728697 TCTAAGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
24728731 CCTCAAAAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
38 28 0.39
40 44 0.61
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:24728703 original size:59 final size:56
Alignment explanation
Indices: 24728612--24728731 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 56
24728602 ATTACAAAAT
*
24728612 CATAT-ATTCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
*
24728667 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTG
24728726 CATATC
1 CATATC
24728732 CTCAAAAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
55 5 0.08
56 2 0.03
57 11 0.19
59 41 0.69
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (56 bp):
CATATCATTCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:24729049 original size:18 final size:18
Alignment explanation
Indices: 24729026--24729070 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
24729016 TACATGCAAT
*
24729026 ATCTATACATCATTTATC
1 ATCTATAAATCATTTATC
* *
24729044 ATCTATAAATTATTTATA
1 ATCTATAAATCATTTATC
*
24729062 ATATATAAA
1 ATCTATAAA
24729071 AAATGAATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
ATCTATAAATCATTTATC
Found at i:24732806 original size:105 final size:104
Alignment explanation
Indices: 24732613--24732809 Score: 243
Period size: 105 Copynumber: 1.9 Consensus size: 104
24732603 AATGTTTAAA
* * * **
24732613 TGTAAGACCATAGCTGGGCTATGGCATTTTAATGAAAAAACCATAACTGGGTTATGGTACCTTGA
1 TGTAAGACCATAGCTGAGCTATGGCATTCTAATGAAAAAACCATAACTGGGTTAT-GAACCTCAA
**
24732678 ACGTAAGACCATGGTTGGACCATGGCAGTATAGATACATG
65 ACGTAAGACCATGGCAGGACCATGGCAGTATAGATACATG
* * * *
24732718 TGTAAGACCATAGCTGAGCTATGGCATTCTGATGATAAGACTATAACTGGGTTAT-AACACTACA
1 TGTAAGACCATAGCTGAGCTATGGCATTCTAATGAAAAAACCATAACTGGGTTATGAAC-CT-CA
* *
24732782 AATGTAAGACCATGGCAGGGCCATGGCA
64 AACGTAAGACCATGGCAGGACCATGGCA
24732810 ATACATGTGT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
103 2 0.03
104 2 0.03
105 73 0.95
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (104 bp):
TGTAAGACCATAGCTGAGCTATGGCATTCTAATGAAAAAACCATAACTGGGTTATGAACCTCAAA
CGTAAGACCATGGCAGGACCATGGCAGTATAGATACATG
Found at i:24734124 original size:12 final size:11
Alignment explanation
Indices: 24734102--24734180 Score: 56
Period size: 11 Copynumber: 6.9 Consensus size: 11
24734092 CAAATACCTC
24734102 TAAAATAATAA
1 TAAAATAATAA
24734113 TAAAATTAATAA
1 TAAAA-TAATAA
24734125 TAAAA-AATAA
1 TAAAATAATAA
24734135 TTATACAAT-ATCCAA
1 -TA-A-AATAAT--AA
* *
24734150 -ACAATAACAA
1 TAAAATAATAA
24734160 TAAAATAATAA
1 TAAAATAATAA
*
24734171 TAATATAATA
1 TAAAATAATA
24734181 GCTAAATGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
10 7 0.13
11 27 0.50
12 13 0.24
13 5 0.09
15 2 0.04
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:24734660 original size:2 final size:2
Alignment explanation
Indices: 24734653--24734684 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24734643 TTTTAAAGCA
24734653 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24734685 TACACCCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24741730 original size:16 final size:15
Alignment explanation
Indices: 24741709--24741738 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24741699 TAAATTCATA
24741709 TAAGAATTTTGATTAT
1 TAAGAATTTT-ATTAT
24741725 TAAGAATTTTATTA
1 TAAGAATTTTATTA
24741739 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (15 bp):
TAAGAATTTTATTAT
Done.