Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 159 of 204
Found at i:47696818 original size:54 final size:53
Alignment explanation
Indices: 47696750--47696878 Score: 138
Period size: 50 Copynumber: 2.5 Consensus size: 53
47696740 GAACAATGAA
* * *
47696750 TTACTTAATGCATGACTTCATTAAAAAAAATGCAAACTTTAACTAACATGGGAG
1 TTACATAATGCATGACTTAATTAAAAAAAATGCAAAC-TTAACTAACATGAGAG
* * ** *
47696804 TTACATAATGCATGACATAATT---TATGATGCAATCTTAACTAACATGAGAG
1 TTACATAATGCATGACTTAATTAAAAAAAATGCAAACTTAACTAACATGAGAG
* *
47696854 TAACATAATGCATGACTTTATTAAA
1 TTACATAATGCATGACTTAATTAAA
47696879 TGTAGAACAC
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
50 34 0.56
51 8 0.13
54 19 0.31
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (53 bp):
TTACATAATGCATGACTTAATTAAAAAAAATGCAAACTTAACTAACATGAGAG
Found at i:47696942 original size:34 final size:34
Alignment explanation
Indices: 47696878--47696943 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
47696868 ACTTTATTAA
* * *
47696878 ATGTAGAACACATAATGCATGTCATGATTAAAAG
1 ATGTAGAACACATAATGCAAGACATAATTAAAAG
*
47696912 ATGTAGATCA-ATAATGCAAGACATTAATTAAA
1 ATGTAGAACACATAATGCAAGACA-TAATTAAA
47696944 GATTCATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (34 bp):
ATGTAGAACACATAATGCAAGACATAATTAAAAG
Found at i:47696945 original size:33 final size:34
Alignment explanation
Indices: 47696856--47696946 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 34
47696846 CATGAGAGTA
*
47696856 ACATAATGCATGAC-TTTATT-AA-ATGTAGAAC
1 ACATAATGCATGACATTAATTAAAGATGTAGAAC
* * *
47696887 ACATAATGCATGTCA-TGATTAAAAGATGTAGATC
1 ACATAATGCATGACATTAATT-AAAGATGTAGAAC
*
47696921 A-ATAATGCAAGACATTAATTAAAGAT
1 ACATAATGCATGACATTAATTAAAGAT
47696947 TCATTTAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
31 17 0.35
33 19 0.39
34 13 0.27
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (34 bp):
ACATAATGCATGACATTAATTAAAGATGTAGAAC
Found at i:47699087 original size:24 final size:24
Alignment explanation
Indices: 47699060--47699109 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
47699050 CACTCTTGAA
47699060 ACCATTTCCACAGCTCCTCTCTTC
1 ACCATTTCCACAGCTCCTCTCTTC
47699084 ACCATTTCCACAGCTCCTCTCTTC
1 ACCATTTCCACAGCTCCTCTCTTC
47699108 AC
1 AC
47699110 TCTCTTTACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.46, G:0.04, T:0.32
Consensus pattern (24 bp):
ACCATTTCCACAGCTCCTCTCTTC
Found at i:47699151 original size:14 final size:14
Alignment explanation
Indices: 47699132--47699161 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47699122 ACCGATTGCA
47699132 GCCTCATCATCTCT
1 GCCTCATCATCTCT
*
47699146 GCCTCATCTTCTCT
1 GCCTCATCATCTCT
47699160 GC
1 GC
47699162 TAGTTCACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.43, G:0.10, T:0.37
Consensus pattern (14 bp):
GCCTCATCATCTCT
Found at i:47700735 original size:14 final size:14
Alignment explanation
Indices: 47700705--47700744 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
47700695 ACAGAAAAGT
*
47700705 AAAATATTTT-CTA
1 AAAATATTTTACGA
47700718 AAAATAATTTTACGA
1 AAAAT-ATTTTACGA
47700733 AAAATATTTTAC
1 AAAATATTTTAC
47700745 TGACAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 5 0.21
14 12 0.50
15 7 0.29
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (14 bp):
AAAATATTTTACGA
Found at i:47703701 original size:6 final size:6
Alignment explanation
Indices: 47703690--47703719 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
47703680 TTCATTTCAC
47703690 AATCAG AATCAG AATCAG AATCAG AATCAG
1 AATCAG AATCAG AATCAG AATCAG AATCAG
47703720 CCATCATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
AATCAG
Found at i:47704575 original size:18 final size:18
Alignment explanation
Indices: 47704533--47704583 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
47704523 TGATGAGTGA
*
47704533 TGTAAGTCCTAGGATCGC
1 TGTAAGTCCAAGGATCGC
* * * *
47704551 TGCAAGTCCGAGGATTGT
1 TGTAAGTCCAAGGATCGC
47704569 TGTAAGTCCAAGGAT
1 TGTAAGTCCAAGGAT
47704584 ATCTATAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (18 bp):
TGTAAGTCCAAGGATCGC
Found at i:47707533 original size:24 final size:24
Alignment explanation
Indices: 47707506--47707551 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
47707496 GGTCAACTAA
*
47707506 ATTATGCTAATAAATACTAAATAT
1 ATTATACTAATAAATACTAAATAT
*
47707530 ATTATACTAATGAATACTAAAT
1 ATTATACTAATAAATACTAAAT
47707552 CTTCTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (24 bp):
ATTATACTAATAAATACTAAATAT
Found at i:47709468 original size:24 final size:24
Alignment explanation
Indices: 47709440--47709491 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
47709430 TTCGTAGGTC
* *
47709440 AAATAAATAATGCTAATAAATGCT
1 AAATAAATAATACTAATAAATACT
* *
47709464 AAATATATTATACTAATAAATACT
1 AAATAAATAATACTAATAAATACT
47709488 AAAT
1 AAAT
47709492 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATAATACTAATAAATACT
Found at i:47712929 original size:50 final size:50
Alignment explanation
Indices: 47712852--47712995 Score: 173
Period size: 50 Copynumber: 2.9 Consensus size: 50
47712842 TCCTGTACTA
* * * * **
47712852 CCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAAACATGGTCTTACGTGGGACCTCTCATATCGGTG
* * * *
47712902 CCCATGCCATG-CCTCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCC-CAAACATGGTCTTACGTGGGACCTCTCATATCGGTG
*
47712952 CCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATA
1 CCAACGCCATGTCCCAAACATGGTCTTACGTGGGACCTCTCATA
47712996 ACCTCAATAA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.03
50 75 0.95
51 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
CCAACGCCATGTCCCAAACATGGTCTTACGTGGGACCTCTCATATCGGTG
Found at i:47718202 original size:26 final size:26
Alignment explanation
Indices: 47718173--47718225 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
47718163 TTCTGCCTTT
47718173 CAGGCTCTTTCAACTAGAACAACAAA
1 CAGGCTCTTTCAACTAGAACAACAAA
47718199 CAGGCTCTTTCAACTAGAACAACAAA
1 CAGGCTCTTTCAACTAGAACAACAAA
47718225 C
1 C
47718226 TCTTTTATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.28, G:0.11, T:0.19
Consensus pattern (26 bp):
CAGGCTCTTTCAACTAGAACAACAAA
Found at i:47720332 original size:20 final size:20
Alignment explanation
Indices: 47720307--47720345 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
47720297 TTGCTTCTTC
47720307 TTTACTTACTCT-CTTATTTG
1 TTTACTTACT-TGCTTATTTG
47720327 TTTACTTACTTGCTTATTT
1 TTTACTTACTTGCTTATTT
47720346 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.18, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTACTTACTTGCTTATTTG
Found at i:47720672 original size:50 final size:50
Alignment explanation
Indices: 47720603--47720741 Score: 154
Period size: 50 Copynumber: 2.8 Consensus size: 50
47720593 TACTACTAAT
* * ** * *
47720603 GCCATATCCCAAATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATATCGGTGCCAAC
** * *
47720653 GCCATG-CCTCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCC-CAAACATGGTCTTACATGAGACCTCTCATATCGGTGCCAAC
* *
47720703 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 GCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATA
47720742 ACCTCAATAA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
49 2 0.03
50 69 0.95
51 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATATCGGTGCCAAC
Found at i:47722106 original size:74 final size:74
Alignment explanation
Indices: 47722007--47722179 Score: 208
Period size: 74 Copynumber: 2.3 Consensus size: 74
47721997 TGTTACACTC
* * * *
47722007 ATTTACAATCTAAGAAAAAATT-AAAAAATATTTTTGTTGTATTCTATTGTATTTCATATCAATA
1 ATTTACAATCTAAGAAAAAATTAAAAAAATATTTATATT-TATTCTATTATATTTCACATCAATA
*
47722071 ATATAT-ACTT
65 ATATATCA-AT
* *
47722081 ATTTACAATCTACGAGAAAAA-TAAAAAAATATTTATATTTATTCTATTATATTTTACATCAATA
1 ATTTACAATCTAAGA-AAAAATTAAAAAAATATTTATATTTATTCTATTATATTTCACATCAATA
47722145 ATATATCAAT
65 ATATATCAAT
* * *
47722155 ATTTACAATTTAACAGAAAATTAAA
1 ATTTACAATCTAAGAAAAAATTAAA
47722180 GTAATAAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
73 4 0.05
74 60 0.71
75 20 0.24
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (74 bp):
ATTTACAATCTAAGAAAAAATTAAAAAAATATTTATATTTATTCTATTATATTTCACATCAATAA
TATATCAAT
Found at i:47726549 original size:3 final size:3
Alignment explanation
Indices: 47726537--47726574 Score: 51
Period size: 3 Copynumber: 12.3 Consensus size: 3
47726527 ATACAGATTT
47726537 ATA A-A ATA ATA ATA ATA ATA ATA CATAA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA A
47726575 AAATGTAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 2 0.06
3 25 0.78
4 4 0.12
5 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:47726805 original size:19 final size:18
Alignment explanation
Indices: 47726764--47726806 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
47726754 AGCATTGACA
47726764 ATAAT-AATAAAAATAAT
1 ATAATAAATAAAAATAAT
47726781 ATTAATAAATAAAAATAAT
1 A-TAATAAATAAAAATAAT
47726800 GATAATA
1 -ATAATA
47726807 GCAAGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 4 0.17
19 17 0.74
20 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAATAAATAAAAATAAT
Found at i:47727399 original size:2 final size:2
Alignment explanation
Indices: 47727392--47727433 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
47727382 TCCCTTTTAT
47727392 TA TA TA TA TA TA TA TA TA TA TA 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 TA TA TA TA
47727434 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47729275 original size:34 final size:34
Alignment explanation
Indices: 47729210--47729321 Score: 120
Period size: 34 Copynumber: 3.3 Consensus size: 34
47729200 AGTTTTTTTT
* *
47729210 AAAAAATAATTAAATTAGGTTTTAGGGGTTTTAAA
1 AAAAAATAATTAAATTAGGGTTTA-GAGTTTTAAA
* * * *
47729245 TAAAATTAATTAAACTAGGGTTTAGAGTTTTTAA
1 AAAAAATAATTAAATTAGGGTTTAGAGTTTTAAA
* * *
47729279 GAAAATTAATTAAATTATGGTTT--AGTTTTAAA
1 AAAAAATAATTAAATTAGGGTTTAGAGTTTTAAA
47729311 AAAAAATAATT
1 AAAAAATAATT
47729322 TTGTGTTTAG
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
32 17 0.26
34 28 0.43
35 20 0.31
ACGTcount: A:0.46, C:0.01, G:0.13, T:0.39
Consensus pattern (34 bp):
AAAAAATAATTAAATTAGGGTTTAGAGTTTTAAA
Found at i:47729537 original size:126 final size:126
Alignment explanation
Indices: 47729378--47729619 Score: 333
Period size: 126 Copynumber: 1.9 Consensus size: 126
47729368 ATTTTGTTTT
* *
47729378 TTTTTCTACAATGGTTCCTGAAAAAATAATTTTGAGAAGACGATTTTGAAA-AGATAATGTAAAA
1 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGATTTT-AAACAAATAATGTAAAA
* * * * *
47729442 AACGCTTCAAGTAGGATGCACTGTCAGCAAAATTATTAAAAAAAGCTCCCACGTGGACACTC
65 AACGCTCCAAGCAAGATGCACTGTCAGCAAAAATACTAAAAAAAGCTCCCACGTGGACACTC
* * * *
47729504 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTAAACAAATAGTGTCAAAA
1 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGATTTTAAACAAATAATGTAAAAA
* * * *
47729569 AGGCTCCAAGCAAGATGTATTGTCAGCAAAAATACTGAAAAAAGCTCCCAC
66 ACGCTCCAAGCAAGATGCACTGTCAGCAAAAATACTAAAAAAAGCTCCCAC
47729620 TTGAGCGCTT
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
125 3 0.03
126 97 0.97
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (126 bp):
TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGATTTTAAACAAATAATGTAAAAA
ACGCTCCAAGCAAGATGCACTGTCAGCAAAAATACTAAAAAAAGCTCCCACGTGGACACTC
Found at i:47731336 original size:14 final size:13
Alignment explanation
Indices: 47731314--47731353 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 13
47731304 GAAAATATAT
47731314 ATATATATATAAATA
1 ATATATA-AT-AATA
47731329 ATTATATAATAATA
1 A-TATATAATAATA
47731343 ATATATAATAA
1 ATATATAATAA
47731354 GAAAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.42
14 5 0.21
15 3 0.12
16 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATATAATAATA
Found at i:47731469 original size:8 final size:7
Alignment explanation
Indices: 47731432--47731618 Score: 68
Period size: 8 Copynumber: 26.0 Consensus size: 7
47731422 ATAAAAGGAC
47731432 ATAATAA
1 ATAATAA
47731439 ATAATAA
1 ATAATAA
47731446 ATAATAA
1 ATAATAA
47731453 ATAAT--
1 ATAATAA
47731458 ATAATAA
1 ATAATAA
47731465 GATAATAA
1 -ATAATAA
*
47731473 GATAATTAT
1 -ATAA-TAA
*
47731482 ATACACAA
1 ATA-ATAA
*
47731490 AGAA-AA
1 ATAATAA
* *
47731496 ATGCATAT
1 AT-AATAA
*
47731504 ATATATAT
1 ATA-ATAA
47731512 ATAATAA
1 ATAATAA
*
47731519 AAAATAA
1 ATAATAA
47731526 AGCTAA-AA
1 A--TAATAA
47731534 ATAATACA
1 ATAATA-A
47731542 A-AACTAA
1 ATAA-TAA
*
47731549 TTAATATA
1 ATAATA-A
*
47731557 TTAATACA
1 ATAATA-A
* *
47731565 ATAGTAG
1 ATAATAA
**
47731572 CGAATAA
1 ATAATAA
47731579 ATAAAATAA
1 AT--AATAA
47731588 A-AATAA
1 ATAATAA
47731594 A-AATAA
1 ATAATAA
47731600 A-AATAA
1 ATAATAA
47731606 A-AATAA
1 ATAATAA
47731612 ATAATAA
1 ATAATAA
47731619 TAGCAAATTT
Statistics
Matches: 140, Mismatches: 22, Indels: 36
0.71 0.11 0.18
Matches are distributed among these distances:
5 5 0.04
6 30 0.21
7 45 0.32
8 49 0.35
9 11 0.08
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (7 bp):
ATAATAA
Found at i:47731471 original size:16 final size:15
Alignment explanation
Indices: 47731432--47731478 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
47731422 ATAAAAGGAC
*
47731432 ATAATAAATAATA-A
1 ATAAGAAATAATATA
*
47731446 ATAATAAATAATATA
1 ATAAGAAATAATATA
*
47731461 ATAAGATAATAAGATA
1 ATAAGA-AATAATATA
47731477 AT
1 AT
47731479 TATATACACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 13 0.45
15 6 0.21
16 10 0.34
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (15 bp):
ATAAGAAATAATATA
Found at i:47731477 original size:13 final size:12
Alignment explanation
Indices: 47731432--47731471 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 12
47731422 ATAAAAGGAC
47731432 ATAATAAATAAT
1 ATAATAAATAAT
47731444 AAATAATAAATAAT
1 --ATAATAAATAAT
47731458 ATAATAAGATAAT
1 ATAATAA-ATAAT
47731471 A
1 A
47731472 AGATAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.28
13 6 0.24
14 12 0.48
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:47731620 original size:6 final size:6
Alignment explanation
Indices: 47731577--47731618 Score: 68
Period size: 6 Copynumber: 7.0 Consensus size: 6
47731567 AGTAGCGAAT
47731577 AAAT-A AAATAA AAATAA AAATAA AAATAA AAATAA ATAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATAA
47731619 TAGCAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 4 0.11
6 26 0.74
7 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:47734012 original size:126 final size:125
Alignment explanation
Indices: 47733787--47734168 Score: 536
Period size: 126 Copynumber: 3.0 Consensus size: 125
47733777 GGCCAAACAG
* * * * *
47733787 GAACTACTGCAGAAAAAAAGCGTTCACGTGGGAGCTTTTTTCA-TCAATTTTGCTGATAATGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCAT
* *
47733851 CCTGCTTGAAGAGTTTTTGACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAA
65 CCTGCTTGAAGCGTTTTTGACACTATTT-TTCAGAACCGTCTTCTCAAAATTATTTTTTCAA
* * *
47733913 GAACTACAGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGTTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
*
47733978 TTGCTTGAAGCGTTTTTGACACTATTTATTCAGAACCGTCTTCTCAAAATTATTTTTT-AA
66 CTGCTTGAAGCGTTTTTGACACTATTT-TTCAGAACCGTCTTCTCAAAATTATTTTTTCAA
* * *
47734038 GGAACTATTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGTAT
1 -GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCAT
* * * *
47734103 CCTGCTTGAAACGTTTTTGACATTATCTTTTCAGAACCGTATTCTCAAAATTA-TTTTTCAG
65 CCTGCTTGAAGCGTTTTTGACACTAT-TTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAA
47734164 GAACT
1 GAACT
47734169 GTAAAAACAA
Statistics
Matches: 229, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
125 12 0.05
126 214 0.93
127 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAA
Found at i:47734286 original size:35 final size:33
Alignment explanation
Indices: 47734235--47734354 Score: 118
Period size: 35 Copynumber: 3.5 Consensus size: 33
47734225 CACAAAATTA
*
47734235 TTTTTAAAAAA-ACTAAACCATAATTTAATTACTT
1 TTTTTAAAAAACTCTAAACC-TAATTTAATTA-TT
47734269 TTTTTAAAAAACTCTAAACCCTAATTTAATTAATT
1 TTTTTAAAAAACTCTAAA-CCTAATTTAATT-ATT
* * * *
47734304 TTATTT-TAAACCCCTAAAACCTAATTTAATTAAT
1 TT-TTTAAAAAACTCT-AAACCTAATTTAATTATT
*
47734338 TTTTAAAAAAACTCTAA
1 TTTTTAAAAAACTCTAA
47734355 CCCCTGATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
33 4 0.06
34 21 0.30
35 37 0.52
36 9 0.13
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (33 bp):
TTTTTAAAAAACTCTAAACCTAATTTAATTATT
Found at i:47741103 original size:7 final size:7
Alignment explanation
Indices: 47741091--47741116 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
47741081 ACACACATCT
47741091 ATTTCCC
1 ATTTCCC
47741098 ATTTCCC
1 ATTTCCC
47741105 ATTTCCC
1 ATTTCCC
47741112 ATTTC
1 ATTTC
47741117 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTCCC
Found at i:47743959 original size:8 final size:9
Alignment explanation
Indices: 47743936--47743962 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
47743926 TTTTGCTACT
47743936 TATTTTTAA
1 TATTTTTAA
47743945 TATTTTTAA
1 TATTTTTAA
47743954 TATTTTTAA
1 TATTTTTAA
47743963 AGTCAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTTTAA
Found at i:47744488 original size:7 final size:7
Alignment explanation
Indices: 47744476--47744707 Score: 78
Period size: 7 Copynumber: 32.6 Consensus size: 7
47744466 AATTTATTAA
47744476 GTTTAGG
1 GTTTAGG
47744483 GTTTAGAG
1 GTTTAG-G
*
47744491 TTTTTA-G
1 -GTTTAGG
47744498 GTTTAGG
1 GTTTAGG
47744505 GTTT-GTG
1 GTTTAG-G
*
47744512 GTTTTTA-A
1 G--TTTAGG
47744520 GTTTAGG
1 GTTTAGG
47744527 GTTTAGG
1 GTTTAGG
47744534 GTTTTA-G
1 G-TTTAGG
47744541 GTTTAGG
1 GTTTAGG
47744548 GTTT-GTG
1 GTTTAG-G
*
47744555 GTTTTTA-A
1 G--TTTAGG
*
47744563 GTTAAGG
1 GTTTAGG
47744570 G-TTAGG
1 GTTTAGG
47744576 GTTTTA-G
1 G-TTTAGG
*
47744583 GTTTGGG
1 GTTTAGG
*
47744590 GTTTGGG
1 GTTTAGG
*
47744597 GTTTTA-A
1 G-TTTAGG
*
47744604 GTTTAGA
1 GTTTAGG
47744611 GTTTAAGG
1 GTTT-AGG
*
47744619 TTTTTA-G
1 -GTTTAGG
47744626 GTTTAGG
1 GTTTAGG
47744633 GTTT-GG
1 GTTTAGG
*
47744639 GTTTTTA-A
1 G--TTTAGG
47744647 GTTTAGG
1 GTTTAGG
*
47744654 GTTTATGT
1 GTTTA-GG
*
47744662 TTTTA-G
1 GTTTAGG
47744668 GTTTAGG
1 GTTTAGG
47744675 GTTTAGG
1 GTTTAGG
*
47744682 GTTTTTA-A
1 G--TTTAGG
*
47744690 GTTAAGG
1 GTTTAGG
47744697 GTTTAGG
1 GTTTAGG
47744704 GTTT
1 GTTT
47744708 TTAATTTAAG
Statistics
Matches: 169, Mismatches: 24, Indels: 64
0.66 0.09 0.25
Matches are distributed among these distances:
6 47 0.28
7 79 0.47
8 26 0.15
9 17 0.10
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (7 bp):
GTTTAGG
Found at i:47744736 original size:43 final size:43
Alignment explanation
Indices: 47744472--47744738 Score: 355
Period size: 43 Copynumber: 6.2 Consensus size: 43
47744462 TTAAAATTTA
* *
47744472 TTAAGTTTAGGGTTTAGAGTTTTTAGGTTTAGGGTTTGTGGTTT
1 TTAAGTTAAGGGTTTAGGGTTTTTAGGTTTAGGGTTTG-GGTTT
*
47744516 TTAAGTTTAGGGTTTAGGG-TTTTAGGTTTAGGGTTTGTGGTTT
1 TTAAGTTAAGGGTTTAGGGTTTTTAGGTTTAGGGTTTG-GGTTT
* *
47744559 TTAAGTTAAGGG-TTAGGG-TTTTAGGTTTGGGGTTTGGGGTT
1 TTAAGTTAAGGGTTTAGGGTTTTTAGGTTTAGGGTTTGGGTTT
* * *
47744600 TTAAGTTTAGAGTTTAAGGTTTTTAGGTTTAGGGTTTGGGTTT
1 TTAAGTTAAGGGTTTAGGGTTTTTAGGTTTAGGGTTTGGGTTT
* *
47744643 TTAAGTTTAGGGTTTA-TGTTTTTAGGTTTAGGGTTTAGGGTTT
1 TTAAGTTAAGGGTTTAGGGTTTTTAGGTTTAGGGTTT-GGGTTT
* *
47744686 TTAAGTTAAGGGTTTAGGGTTTTTA-ATTTAAGGGTTAGGGTTT
1 TTAAGTTAAGGGTTTAGGGTTTTTAGGTTT-AGGGTTTGGGTTT
47744729 TTAAGTTAAG
1 TTAAGTTAAG
47744739 AGTTAGGATT
Statistics
Matches: 203, Mismatches: 15, Indels: 11
0.89 0.07 0.05
Matches are distributed among these distances:
41 14 0.07
42 47 0.23
43 111 0.55
44 31 0.15
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (43 bp):
TTAAGTTAAGGGTTTAGGGTTTTTAGGTTTAGGGTTTGGGTTT
Found at i:47744737 original size:21 final size:21
Alignment explanation
Indices: 47744472--47744745 Score: 268
Period size: 22 Copynumber: 12.8 Consensus size: 21
47744462 TTAAAATTTA
*
47744472 TTAAGTTTAGGGTTTAGAGTTT
1 TTAAGTTTAGGG-TTAGGGTTT
* *
47744494 TTAGGTTTAGGGTTTGTGGTTT
1 TTAAGTTTAGGGTTAG-GGTTT
47744516 TTAAGTTTAGGGTTTAGGG-TT
1 TTAAGTTTAGGG-TTAGGGTTT
* *
47744537 TTAGGTTTAGGGTTTGTGGTTT
1 TTAAGTTTAGGGTTAG-GGTTT
*
47744559 TTAAGTTAAGGGTTAGGG-TT
1 TTAAGTTTAGGGTTAGGGTTT
* * * *
47744579 TTAGGTTTGGGGTTTGGGGTT
1 TTAAGTTTAGGGTTAGGGTTT
* *
47744600 TTAAGTTTAGAGTTTAAGGTTT
1 TTAAGTTTAG-GGTTAGGGTTT
* *
47744622 TTAGGTTTAGGGTTTGGGTTT
1 TTAAGTTTAGGGTTAGGGTTT
*
47744643 TTAAGTTTAGGGTTTA-TGTTT
1 TTAAGTTTAGGG-TTAGGGTTT
*
47744664 TTAGGTTTAGGGTTTAGGGTTT
1 TTAAGTTTAGGG-TTAGGGTTT
*
47744686 TTAAGTTAAGGGTTTAGGGTTT
1 TTAAGTTTAGGG-TTAGGGTTT
47744708 TTAA-TTTAAGGGTTAGGGTTT
1 TTAAGTTT-AGGGTTAGGGTTT
* *
47744729 TTAAGTTAAGAGTTAGG
1 TTAAGTTTAGGGTTAGG
47744746 ATTAGGGTTA
Statistics
Matches: 208, Mismatches: 34, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
20 19 0.09
21 91 0.44
22 95 0.46
23 3 0.01
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (21 bp):
TTAAGTTTAGGGTTAGGGTTT
Found at i:47744765 original size:21 final size:22
Alignment explanation
Indices: 47744745--47744792 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
47744735 TAAGAGTTAG
47744745 GATT-AGGG-TTAGGGTTTTTA
1 GATTAAGGGTTTAGGGTTTTTA
*
47744765 GTTTAAGGGTTTAGGGTTTGTTA
1 GATTAAGGGTTTAGGGTTT-TTA
47744788 -ATTAA
1 GATTAA
47744793 ATTATGCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.13
21 4 0.17
22 13 0.57
23 3 0.13
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (22 bp):
GATTAAGGGTTTAGGGTTTTTA
Found at i:47745348 original size:18 final size:18
Alignment explanation
Indices: 47745325--47745364 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
47745315 GACTCGGAAA
* *
47745325 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
47745343 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
47745361 AGGA
1 AGGA
47745365 AACGAACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:47747278 original size:11 final size:12
Alignment explanation
Indices: 47747262--47747305 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
47747252 ATTAAATATG
47747262 AATTTGAGA-GA
1 AATTTGAGAGGA
47747273 AATTTG-GAAGGA
1 AATTTGAG-AGGA
47747285 AA-TTGAGAGGA
1 AATTTGAGAGGA
47747296 AATTTGAGAG
1 AATTTGAGAG
47747306 AGGATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 16 0.55
12 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:47748567 original size:40 final size:40
Alignment explanation
Indices: 47748523--47748609 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
47748513 GTTTGGATAA
* * *
47748523 AAAAACGTCACTATAGATCGAGCATTAGCAGTGCTTTTTG
1 AAAAACGCCACTATAGATCGACCATTAGCAGCGCTTTTTG
* * *
47748563 AAAAACGCCACTATAGGTTGACCATTAGCGGCGCTTTTTG
1 AAAAACGCCACTATAGATCGACCATTAGCAGCGCTTTTTG
47748603 AAAAACG
1 AAAAACG
47748610 GCGCAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (40 bp):
AAAAACGCCACTATAGATCGACCATTAGCAGCGCTTTTTG
Found at i:47748992 original size:7 final size:7
Alignment explanation
Indices: 47748982--47749200 Score: 70
Period size: 7 Copynumber: 30.9 Consensus size: 7
47748972 TATTATTATA
47748982 GTTTAGG
1 GTTTAGG
**
47748989 GTTTATA
1 GTTTAGG
47748996 GTTTAGG
1 GTTTAGG
** *
47749003 GTACATG
1 GTTTAGG
47749010 GTTTAGG
1 GTTTAGG
47749017 G-TTAGG
1 GTTTAGG
47749023 GTTTAGG
1 GTTTAGG
*
47749030 ATTTAGG
1 GTTTAGG
47749037 AGTTACTA--
1 -GTT--TAGG
* *
47749045 TTTTAAG
1 GTTTAGG
*
47749052 GTTTATG
1 GTTTAGG
*
47749059 GATTATGG
1 GTTTA-GG
*
47749067 GTTTAGA
1 GTTTAGG
* *
47749074 GATTATG
1 GTTTAGG
* **
47749081 GATTATA
1 GTTTAGG
* *
47749088 GATTATG
1 GTTTAGG
*
47749095 GTTTATG
1 GTTTAGG
47749102 GTTTAAGG
1 GTTT-AGG
*
47749110 G-TTGGG
1 GTTTAGG
*
47749116 GTTTAAG
1 GTTTAGG
47749123 GTTTAAGG
1 GTTT-AGG
47749131 G-TTAGGG
1 GTTTA-GG
*
47749138 GCTTAGG
1 GTTTAGG
*
47749145 GTTTATG
1 GTTTAGG
*
47749152 GTTTATG
1 GTTTAGG
* *
47749159 TTTTATG
1 GTTTAGG
*
47749166 ATTTAGG
1 GTTTAGG
47749173 GTTTAGG
1 GTTTAGG
*
47749180 GGTTAGGG
1 GTTTA-GG
*
47749188 GCTTAGG
1 GTTTAGG
47749195 GTTTAG
1 GTTTAG
47749201 ATTAATTAGT
Statistics
Matches: 160, Mismatches: 39, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
5 2 0.01
6 10 0.06
7 124 0.77
8 22 0.14
10 2 0.01
ACGTcount: A:0.21, C:0.02, G:0.34, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:47748996 original size:14 final size:14
Alignment explanation
Indices: 47748977--47749019 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
47748967 TTAATTATTA
47748977 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
47748991 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
** *
47749005 ACATGGTTTAGGGT
1 TTATAGTTTAGGGT
47749019 T
1 T
47749020 AGGGTTTAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:47749118 original size:21 final size:22
Alignment explanation
Indices: 47749094--47749149 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
47749084 TATAGATTAT
*
47749094 GGTTTATGGTTTAAGGGTT-GG
1 GGTTTAAGGTTTAAGGGTTAGG
47749115 GGTTTAAGGTTTAAGGGTTAGG
1 GGTTTAAGGTTTAAGGGTTAGG
* *
47749137 GGCTTAGGGTTTA
1 GGTTTAAGGTTTA
47749150 TGGTTTATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.18, C:0.02, G:0.41, T:0.39
Consensus pattern (22 bp):
GGTTTAAGGTTTAAGGGTTAGG
Found at i:47749148 original size:50 final size:50
Alignment explanation
Indices: 47749094--47749199 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
47749084 TATAGATTAT
* *
47749094 GGTTTATGGTTTAAGGGTTGGGGTTTAAGGTTTAAGGGTTAGGGGCTTAG
1 GGTTTATGGTTTAAGGGTTAGGATTTAAGGTTTAAGGGTTAGGGGCTTAG
* ** * * *
47749144 GGTTTATGGTTTATGTTTTATGATTTAGGGTTTAGGGGTTAGGGGCTTAG
1 GGTTTATGGTTTAAGGGTTAGGATTTAAGGTTTAAGGGTTAGGGGCTTAG
47749194 GGTTTA
1 GGTTTA
47749200 GATTAATTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.17, C:0.02, G:0.39, T:0.42
Consensus pattern (50 bp):
GGTTTATGGTTTAAGGGTTAGGATTTAAGGTTTAAGGGTTAGGGGCTTAG
Found at i:47752267 original size:30 final size:30
Alignment explanation
Indices: 47752227--47752286 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
47752217 AAAATCGTCG
* *
47752227 CTAAAGGTCTTGTTTTACAGCGGCGTTTGT
1 CTAAAGGTCTTGTTCTACAGCGGCATTTGT
* *
47752257 CTAAATGTCTTGTTCTATAGCGGCATTTGT
1 CTAAAGGTCTTGTTCTACAGCGGCATTTGT
47752287 GGAAAAACAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (30 bp):
CTAAAGGTCTTGTTCTACAGCGGCATTTGT
Found at i:47752319 original size:42 final size:43
Alignment explanation
Indices: 47752257--47752365 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 43
47752247 CGGCGTTTGT
* *
47752257 CTAAATGTCTTGTTCTATAGCGGCATTTGT-GGAAAAACACCA
1 CTAAAAGTCATGTTCTATAGCGGCATTTGTGGGAAAAACACCA
* * * * *
47752299 CTAAAAGTCATGTTTTATAGCGGCGTTTGTGGGAAAAGCGCCG
1 CTAAAAGTCATGTTCTATAGCGGCATTTGTGGGAAAAACACCA
*
47752342 CTAAAGGTCATGTTCTATAGCGGC
1 CTAAAAGTCATGTTCTATAGCGGC
47752366 TTTTTTATAT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 26 0.46
43 31 0.54
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
CTAAAAGTCATGTTCTATAGCGGCATTTGTGGGAAAAACACCA
Found at i:47754521 original size:14 final size:14
Alignment explanation
Indices: 47754504--47754537 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
47754494 ACTATGGATT
*
47754504 AGGGTTCTGGTTTA
1 AGGGTTCTGATTTA
*
47754518 AGGGTTGTGATTTA
1 AGGGTTCTGATTTA
47754532 AGGGTT
1 AGGGTT
47754538 AGGGGTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.03, G:0.38, T:0.41
Consensus pattern (14 bp):
AGGGTTCTGATTTA
Found at i:47754657 original size:7 final size:7
Alignment explanation
Indices: 47754645--47754696 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
47754635 TAAATAAAGT
47754645 TTAGGGG
1 TTAGGGG
47754652 TTAGGGG
1 TTAGGGG
*
47754659 TTCGGGG
1 TTAGGGG
*
47754666 TTAGGGA
1 TTAGGGG
*
47754673 TT-CGGG
1 TTAGGGG
*
47754679 TTAGGGT
1 TTAGGGG
*
47754686 TTAGGGT
1 TTAGGGG
47754693 TTAG
1 TTAG
47754697 ATTAATTAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
6 4 0.11
7 33 0.89
ACGTcount: A:0.13, C:0.04, G:0.48, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:47754681 original size:13 final size:14
Alignment explanation
Indices: 47754648--47754684 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
47754638 ATAAAGTTTA
*
47754648 GGGGTTAGGGGTTC
1 GGGGTTAGGGATTC
47754662 GGGGTTAGGGATTC
1 GGGGTTAGGGATTC
47754676 -GGGTTAGGG
1 GGGGTTAGGG
47754685 TTTAGGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.11, C:0.05, G:0.57, T:0.27
Consensus pattern (14 bp):
GGGGTTAGGGATTC
Found at i:47754681 original size:88 final size:90
Alignment explanation
Indices: 47754589--47754759 Score: 274
Period size: 88 Copynumber: 1.9 Consensus size: 90
47754579 TTTGGTGTTA
*
47754589 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATA-T-TAAATAAAGTTTAGGGG
1 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATTATAAATAAAGTTTAAGGG
* *
47754652 TTAGGGGTTCGGGGTTAGGGATTCG
66 TTAGGAGTTAGGGGTTAGGGATTCG
* *
47754677 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATTATAAATAAGGTTTAAGGG
1 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATTATAAATAAAGTTTAAGGG
*
47754742 TTAGTAGTTAGGGGTTAG
66 TTAGGAGTTAGGGGTTAG
47754760 TAGTTAGGGG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
88 44 0.59
89 1 0.01
90 30 0.40
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.43
Consensus pattern (90 bp):
GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATTATAAATAAAGTTTAAGGG
TTAGGAGTTAGGGGTTAGGGATTCG
Found at i:47754758 original size:14 final size:14
Alignment explanation
Indices: 47754739--47754773 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
47754729 TAAGGTTTAA
47754739 GGGTTAGTAGTTAG
1 GGGTTAGTAGTTAG
47754753 GGGTTAGTAGTTAG
1 GGGTTAGTAGTTAG
47754767 GGGTTAG
1 GGGTTAG
47754774 GGGTTAGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (14 bp):
GGGTTAGTAGTTAG
Found at i:47754765 original size:21 final size:21
Alignment explanation
Indices: 47754741--47754794 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
47754731 AGGTTTAAGG
*
47754741 GTTAGTAGTTAGGGGTTAGTA
1 GTTAGGAGTTAGGGGTTAGTA
*
47754762 GTTAGGGGTTAGGGGTTAG-A
1 GTTAGGAGTTAGGGGTTAGTA
*
47754782 GGTTAAGAGTTAG
1 -GTTAGGAGTTAG
47754795 TGATTTAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (21 bp):
GTTAGGAGTTAGGGGTTAGTA
Found at i:47754772 original size:7 final size:7
Alignment explanation
Indices: 47754748--47754786 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
47754738 AGGGTTAGTA
47754748 GTTAGGG
1 GTTAGGG
**
47754755 GTTAGTA
1 GTTAGGG
47754762 GTTAGGG
1 GTTAGGG
47754769 GTTAGGG
1 GTTAGGG
*
47754776 GTTAGAG
1 GTTAGGG
47754783 GTTA
1 GTTA
47754787 AGAGTTAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (7 bp):
GTTAGGG
Found at i:47754779 original size:14 final size:14
Alignment explanation
Indices: 47754739--47754794 Score: 67
Period size: 14 Copynumber: 4.0 Consensus size: 14
47754729 TAAGGTTTAA
*
47754739 GGGTTAGTAGTTAG
1 GGGTTAGGAGTTAG
*
47754753 GGGTTAGTAGTTAG
1 GGGTTAGGAGTTAG
*
47754767 GGGTTAGGGGTTAG
1 GGGTTAGGAGTTAG
* *
47754781 AGGTTAAGAGTTAG
1 GGGTTAGGAGTTAG
47754795 TGATTTAGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.23, C:0.00, G:0.45, T:0.32
Consensus pattern (14 bp):
GGGTTAGGAGTTAG
Found at i:47758404 original size:43 final size:43
Alignment explanation
Indices: 47758332--47758531 Score: 287
Period size: 43 Copynumber: 4.7 Consensus size: 43
47758322 CGAGAAGCAT
* * *
47758332 CGCTAAAGGT-TTGTTTTATAGCGGTGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* *
47758374 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGTGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
** *
47758417 CGCTAAAGGTCTTGAGATATAGCGGCGTTTGT-GCAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
*
47758459 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* *
47758502 CGCTAAAGGTCATGGTCTATAGCGGCGTTT
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTT
47758532 ATTTCTAAAA
Statistics
Matches: 141, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
42 47 0.33
43 94 0.67
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (43 bp):
CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
Found at i:47758455 original size:85 final size:86
Alignment explanation
Indices: 47758348--47758531 Score: 282
Period size: 85 Copynumber: 2.2 Consensus size: 86
47758338 AGGTTTGTTT
* * *
47758348 TATAGCGGTGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAA
1 TATAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGAAAAA
* *
47758413 GTGCCGCTAAAGGTCTTGAG-A
66 GCGCCGCTAAAGGTCATG-GTA
*
47758434 TATAGCGGCGTTTGT-GCAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAA
1 TATAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGAAAAA
*
47758498 GCGCCGCTAAAGGTCATGGTC
66 GCGCCGCTAAAGGTCATGGTA
47758519 TATAGCGGCGTTT
1 TATAGCGGCGTTT
47758532 ATTTCTAAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
84 1 0.01
85 75 0.83
86 14 0.16
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (86 bp):
TATAGCGGCGTTTGTGGCAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGAAAAA
GCGCCGCTAAAGGTCATGGTA
Found at i:47760095 original size:28 final size:29
Alignment explanation
Indices: 47760051--47760118 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
47760041 TTCTGTTTTT
47760051 TATTTTA-TAACAAAAAA-CATATTAACAA
1 TATTTTATTAA-AAAAAATCATATTAACAA
* * * *
47760079 TATTTTATTAAATAAAATTATATTTATAA
1 TATTTTATTAAAAAAAATCATATTAACAA
47760108 -ATTTTATTAAA
1 TATTTTATTAAA
47760119 GATACCATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 23 0.68
29 11 0.32
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
TATTTTATTAAAAAAAATCATATTAACAA
Found at i:47763872 original size:5 final size:5
Alignment explanation
Indices: 47763862--47763890 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
47763852 AAAATAGGGG
47763862 AAGAA AAGAA AAGAA AAGAA AAGAA AAGA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGA
47763891 TAGGATTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:47770064 original size:20 final size:19
Alignment explanation
Indices: 47770039--47770087 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
47770029 TTACTTTTTC
47770039 CCAAAACTTTTATTTCCTCT
1 CCAAAACTTTTATTTCC-CT
**
47770059 CCAAAAAATTTATTTCCCT
1 CCAAAACTTTTATTTCCCT
*
47770078 CCAAACCTTT
1 CCAAAACTTT
47770088 CAATTTTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.39
Consensus pattern (19 bp):
CCAAAACTTTTATTTCCCT
Found at i:47770129 original size:18 final size:19
Alignment explanation
Indices: 47770098--47770133 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
47770088 CAATTTTTTC
47770098 CTTTTACTTTCCCCCAAAA
1 CTTTTACTTTCCCCCAAAA
47770117 CTTTTAC-TTCCCCCAAA
1 CTTTTACTTTCCCCCAAA
47770134 CCCCTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.25, C:0.39, G:0.00, T:0.36
Consensus pattern (19 bp):
CTTTTACTTTCCCCCAAAA
Found at i:47771304 original size:57 final size:57
Alignment explanation
Indices: 47771194--47771304 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
47771184 GGTGCTGGTG
** *
47771194 GTTATAGTTTCCAGGAACTCTATACCGGTGATATATTTTGAGGTGTTATGTACAGGT
1 GTTATAGTTTCCAGGAACTCTATACCGGTGATATATTTTGAGGTACTACGTACAGGT
* * * **
47771251 GTTATAGTTTCTAGGCACTCTGTGTCGGTGATATATTTCT-AGGTACTACGTACA
1 GTTATAGTTTCCAGGAACTCTATACCGGTGATATATTT-TGAGGTACTACGTACA
47771305 AGTGGTGGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 44 0.98
58 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.39
Consensus pattern (57 bp):
GTTATAGTTTCCAGGAACTCTATACCGGTGATATATTTTGAGGTACTACGTACAGGT
Found at i:47774325 original size:24 final size:25
Alignment explanation
Indices: 47774298--47774344 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47774288 CTGAAGCTCG
*
47774298 ATATGGTT-AAACCACCAGTAAAGT
1 ATATAGTTAAAACCACCAGTAAAGT
*
47774322 ATATAGTTAAAACTACCAGTAAA
1 ATATAGTTAAAACCACCAGTAAA
47774345 ATGTTGACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.26
Consensus pattern (25 bp):
ATATAGTTAAAACCACCAGTAAAGT
Found at i:47776038 original size:21 final size:21
Alignment explanation
Indices: 47776012--47776054 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
47776002 TTCGGGTGGA
*
47776012 TCAGCTCTTATGAGTTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
47776033 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
47776054 T
1 T
47776055 GGCGTGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTGT
Found at i:47776077 original size:39 final size:39
Alignment explanation
Indices: 47776034--47776142 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 39
47776024 AGTTTCTGTT
47776034 CAGCTCTTATGAGCTTCTGTTGGCGTGTTTCGAG-TGGAC
1 CAGCTCTTATGAGCTTCTGTTGGCGTGTTT-GAGTTGGAC
* * * *
47776073 CAGCTATTATGAGCTTCTGTTTGGCGTATTTTAGTTGGAT
1 CAGCTCTTATGAGCTTCTG-TTGGCGTGTTTGAGTTGGAC
* * *
47776113 CAGCTCTTATAAGCTTATGTCTGGTGTGTT
1 CAGCTCTTATGAGCTTCTGT-TGGCGTGTT
47776143 CAGTCTATCT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 21 0.36
40 37 0.64
ACGTcount: A:0.16, C:0.17, G:0.27, T:0.41
Consensus pattern (39 bp):
CAGCTCTTATGAGCTTCTGTTGGCGTGTTTGAGTTGGAC
Found at i:47776117 original size:40 final size:39
Alignment explanation
Indices: 47776033--47776128 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 39
47776023 GAGTTTCTGT
*
47776033 TCAGCTCTTATGAGCTTCTGTTGGCGTGTTTCGAGTGGA
1 TCAGCTCTTATGAGCTTCTGTTGGCGTATTTCGAGTGGA
* * *
47776072 CCAGCTATTATGAGCTTCTGTTTGGCGTATTT-TAGTTGGA
1 TCAGCTCTTATGAGCTTCTG-TTGGCGTATTTCGAG-TGGA
*
47776112 TCAGCTCTTATAAGCTT
1 TCAGCTCTTATGAGCTT
47776129 ATGTCTGGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 20 0.42
40 28 0.58
ACGTcount: A:0.17, C:0.18, G:0.25, T:0.41
Consensus pattern (39 bp):
TCAGCTCTTATGAGCTTCTGTTGGCGTATTTCGAGTGGA
Found at i:47777794 original size:55 final size:55
Alignment explanation
Indices: 47777702--47777812 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 55
47777692 CAAAGGTTTG
* * **
47777702 CAAGTCAGACAGTTACAGGGCCTGACACACGGGCGTGTGGCTTGGCCGTGTGACC
1 CAAGTCAGACAGTTACAGGGCCTGACACACAGACGTGTGGCTCAGCCGTGTGACC
* ** *
47777757 CAAGTCAGAGAGTTACACGGG-CTGGGACACAGACGTGTGTCTCAGCCGTGTGACC
1 CAAGTCAGACAGTTACA-GGGCCTGACACACAGACGTGTGGCTCAGCCGTGTGACC
47777812 C
1 C
47777813 CTACAGTTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 44 0.94
56 3 0.06
ACGTcount: A:0.22, C:0.27, G:0.33, T:0.18
Consensus pattern (55 bp):
CAAGTCAGACAGTTACAGGGCCTGACACACAGACGTGTGGCTCAGCCGTGTGACC
Found at i:47778969 original size:43 final size:43
Alignment explanation
Indices: 47778834--47778976 Score: 193
Period size: 43 Copynumber: 3.3 Consensus size: 43
47778824 AATCTGAAAT
47778834 AATTAATATAGACACCTCATACAGTCTTACTGTAACACCCTGC
1 AATTAATATAGACACCTCATACAGTCTTACTGTAACACCCTGC
* ** *
47778877 AATTAAAAGGGA-ACCATAACATATA-T-TTACTGTAACACCCTGC
1 AATTAATATAGACACC-T--CATACAGTCTTACTGTAACACCCTGC
47778920 AATTAATATAGACACCTCATACAGTCTTACTGTAACACCCTGC
1 AATTAATATAGACACCTCATACAGTCTTACTGTAACACCCTGC
*
47778963 AATTAATATCGACA
1 AATTAATATAGACA
47778977 GCATTCCTAC
Statistics
Matches: 85, Mismatches: 9, Indels: 12
0.80 0.08 0.11
Matches are distributed among these distances:
41 5 0.06
42 4 0.05
43 67 0.79
44 4 0.05
45 5 0.06
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.27
Consensus pattern (43 bp):
AATTAATATAGACACCTCATACAGTCTTACTGTAACACCCTGC
Found at i:47780290 original size:103 final size:103
Alignment explanation
Indices: 47780111--47780479 Score: 623
Period size: 103 Copynumber: 3.6 Consensus size: 103
47780101 TAGCCGTTAT
** *
47780111 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
47780176 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
47780214 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
47780279 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
47780317 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
**
47780382 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTT-TTATTTCAAAGATA
* * * **
47780421 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
47780480 TTTATATACA
Statistics
Matches: 254, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
103 189 0.74
104 64 0.25
105 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
Found at i:47787268 original size:103 final size:102
Alignment explanation
Indices: 47787089--47787345 Score: 462
Period size: 103 Copynumber: 2.5 Consensus size: 102
47787079 TAGCCGTTAT
** *
47787089 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
47787154 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTTATTTC-AAGATA
47787192 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
47787257 AATCAGCACATAGCAACCCCCTTTTTATTTCAAGATA
66 AATCAGCACATAGCAACCCCCTTTTTATTTCAAGATA
*
47787294 TGGTGGATATCGCACTTAGCACCACC-ATGAATCGGGGGATCAGCACTTAGCA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCA
47787346 NNNNNNNNNN
Statistics
Matches: 150, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
101 25 0.17
102 32 0.21
103 93 0.62
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTTATTTCAAGATA
Found at i:47787818 original size:29 final size:29
Alignment explanation
Indices: 47787785--47787848 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
47787775 TAATCCACCA
47787785 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
47787814 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
47787844 CCCAA
1 CCCAA
47787849 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:47787822 original size:30 final size:30
Alignment explanation
Indices: 47787792--47787848 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47787782 CCACCCAACT
47787792 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
47787821 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
47787849 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:47789461 original size:27 final size:27
Alignment explanation
Indices: 47789426--47789479 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
47789416 AGATATTTGA
* *
47789426 GACTTTTGTGATCTGTGTAGATAGTAC
1 GACTCTTGTGATATGTGTAGATAGTAC
47789453 GACTCTTGTGATATGTGTAGATAGTAC
1 GACTCTTGTGATATGTGTAGATAGTAC
47789480 ACTTCTCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (27 bp):
GACTCTTGTGATATGTGTAGATAGTAC
Found at i:47791526 original size:15 final size:15
Alignment explanation
Indices: 47791506--47791535 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47791496 ATAGATAGTC
47791506 AATTTAATTAACATT
1 AATTTAATTAACATT
47791521 AATTTAATTAACATT
1 AATTTAATTAACATT
47791536 CATACAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTAATTAACATT
Found at i:47799029 original size:52 final size:52
Alignment explanation
Indices: 47798951--47799072 Score: 167
Period size: 52 Copynumber: 2.3 Consensus size: 52
47798941 ACTAGTGACT
* *
47798951 CAAGTGTGGTACTATGTGAAGGCCAC-TTTGTGAAGAAAGATAGCTTTGG-TCA
1 CAAGTGTGGTACTATGTGAAGACCACTTTTGTGAAG-AAGATAGCGTTGGCT-A
*
47799003 CAAGTGTGGTACTATGTGAAGACCACTTTTGTGAAGAAGGTAGCGTTGGCTA
1 CAAGTGTGGTACTATGTGAAGACCACTTTTGTGAAGAAGATAGCGTTGGCTA
* *
47799055 CAAGGGTGGAACTATGTG
1 CAAGTGTGGTACTATGTG
47799073 CAATTATGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
52 53 0.84
53 10 0.16
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGACCACTTTTGTGAAGAAGATAGCGTTGGCTA
Found at i:47804181 original size:9 final size:9
Alignment explanation
Indices: 47804165--47804197 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
47804155 AAGCAATAGC
47804165 AAAA-AAAT
1 AAAATAAAT
47804173 AAAATAAAT
1 AAAATAAAT
47804182 AAAATAAAT
1 AAAATAAAT
*
47804191 GAAATAA
1 AAAATAA
47804198 CAAATCAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:47804430 original size:21 final size:20
Alignment explanation
Indices: 47804396--47804455 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
47804386 AAAAATGGAA
*
47804396 AAAAATATAGATATATATAT
1 AAAAATATAAATATATATAT
* *
47804416 AAAATTATAAA-ATATGTAT
1 AAAAATATAAATATATATAT
*
47804435 AAAAAATATAAGTATATATAT
1 -AAAAATATAAATATATATAT
47804456 GTACATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 7 0.22
20 18 0.56
21 7 0.22
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
AAAAATATAAATATATATAT
Found at i:47804473 original size:29 final size:28
Alignment explanation
Indices: 47804441--47804538 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 28
47804431 GTATAAAAAA
*
47804441 TATAAGTATATATATGTACATATATAAGT
1 TATAAGAATA-ATATGTACATATATAAGT
**
47804470 TATAAGAATAGATATGTATGTATATATAGAT
1 TATAAGAATA-ATATGTACATATATA-AG-T
47804501 TATGAA-AATAATGAT-TACATATATAAGT
1 TAT-AAGAATAAT-ATGTACATATATAAGT
*
47804529 TATAAAAATA
1 TATAAGAATA
47804539 GAAATAATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.03
28 8 0.14
29 24 0.41
30 12 0.21
31 10 0.17
32 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (28 bp):
TATAAGAATAATATGTACATATATAAGT
Found at i:47808400 original size:17 final size:17
Alignment explanation
Indices: 47808378--47808427 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
47808368 ATAGAAAGTC
47808378 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
47808395 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
47808412 AAAGCTATGGGTATCA
1 AAAGATATGGGTATCA
47808428 AAATCTGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:47809643 original size:17 final size:17
Alignment explanation
Indices: 47809621--47809653 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47809611 GTAATTCGAC
47809621 AAGAAGAGAAAACAAAG
1 AAGAAGAGAAAACAAAG
*
47809638 AAGAAGAGAACACAAA
1 AAGAAGAGAAAACAAA
47809654 TGGGTGACAC
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:0.70, C:0.09, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAGAGAAAACAAAG
Found at i:47819029 original size:127 final size:127
Alignment explanation
Indices: 47818794--47819049 Score: 476
Period size: 127 Copynumber: 2.0 Consensus size: 127
47818784 GGAATATATA
47818794 TAGGATACAAATGACATGTCATTAGGGTTACCATGTTTCGGGTACTGGTCCTGAATGCCCTACCG
1 TAGGATACAAATGACATGTCATTAGGGTTACCATGTTTCGGGTACTGGTCCTGAATGCCCTACCG
*
47818859 ATGGCTGAGTTCCAACATTTGTTGCGGATACTCGTCAGATTGTGTGAGCGGCATCGTGTAGC
66 ATGGCTGAGTTCCAACATTTGTTGCGGATACTCATCAGATTGTGTGAGCGGCATCGTGTAGC
*
47818921 TAGGATACAAATGACATGTCATTAGGGTTACCATGTTTCGGGTGCTGGTCCTGAATGCCCTACCG
1 TAGGATACAAATGACATGTCATTAGGGTTACCATGTTTCGGGTACTGGTCCTGAATGCCCTACCG
* *
47818986 ATGGTTGAGTTCCAACATTTGTTGCGGATACTCATCAGCTTGTGTGAGCGGCATCGTGTAGC
66 ATGGCTGAGTTCCAACATTTGTTGCGGATACTCATCAGATTGTGTGAGCGGCATCGTGTAGC
47819048 TA
1 TA
47819050 CATTCCGATC
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (127 bp):
TAGGATACAAATGACATGTCATTAGGGTTACCATGTTTCGGGTACTGGTCCTGAATGCCCTACCG
ATGGCTGAGTTCCAACATTTGTTGCGGATACTCATCAGATTGTGTGAGCGGCATCGTGTAGC
Found at i:47828354 original size:21 final size:21
Alignment explanation
Indices: 47828324--47828378 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
47828314 GTGGCTCCAG
*
47828324 ACATGGCCGTGTGGCTA-TCCC
1 ACATGCCCGTGTGGCTACT-CC
47828345 ACATGCCCGTGTGGCTACTCC
1 ACATGCCCGTGTGGCTACTCC
*
47828366 ACTTGCCCGTGTG
1 ACATGCCCGTGTG
47828379 CTCTTTCGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.13, C:0.35, G:0.27, T:0.25
Consensus pattern (21 bp):
ACATGCCCGTGTGGCTACTCC
Found at i:47831808 original size:73 final size:73
Alignment explanation
Indices: 47831689--47831879 Score: 301
Period size: 73 Copynumber: 2.6 Consensus size: 73
47831679 TCTCTAACTT
* * * *
47831689 AGGTCACACGGCCAAGACAAACGCCCGTGTACTAGGCCGTGTGAACATATTATTTTTCATTAATT
1 AGGTCACACGGCCAAGTCAAACGCCCGTGTGCTAGGCCGTGTGAACACATTAATTTTCATTAATT
47831754 AGGTGCAG
66 AGGTGCAG
*
47831762 AGGTCACACGGCCAAGTCAAACGCCCGTGTGCTAGGCTGTGTGAACACATTAATTTTCATTAATT
1 AGGTCACACGGCCAAGTCAAACGCCCGTGTGCTAGGCCGTGTGAACACATTAATTTTCATTAATT
47831827 AGGTGCAG
66 AGGTGCAG
* * * *
47831835 AGGTCACACGGCCGAGTCACATGCCCGTGTGCCAGGCCGTGTGAA
1 AGGTCACACGGCCAAGTCAAACGCCCGTGTGCTAGGCCGTGTGAA
47831880 AATACCCGAA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 108 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (73 bp):
AGGTCACACGGCCAAGTCAAACGCCCGTGTGCTAGGCCGTGTGAACACATTAATTTTCATTAATT
AGGTGCAG
Found at i:47832980 original size:24 final size:24
Alignment explanation
Indices: 47832953--47833003 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
47832943 GTGAACCACG
*
47832953 TAACGGGTAGCTCCGAAGACCAAT
1 TAACGAGTAGCTCCGAAGACCAAT
*
47832977 TAACGAGTAGCTCCGAAGAGCAAT
1 TAACGAGTAGCTCCGAAGACCAAT
47833001 TAA
1 TAA
47833004 TCAGGAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (24 bp):
TAACGAGTAGCTCCGAAGACCAAT
Found at i:47843553 original size:24 final size:24
Alignment explanation
Indices: 47843525--47843571 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
47843515 AGCCTATAAT
*
47843525 GGGTAGCTCCGAAAAGCAATTAAC
1 GGGTAGCTCCGAAAAGAAATTAAC
* *
47843549 GGGTAGCTCTGAAGAGAAATTAA
1 GGGTAGCTCCGAAAAGAAATTAA
47843572 TCAGGAAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.19
Consensus pattern (24 bp):
GGGTAGCTCCGAAAAGAAATTAAC
Found at i:47847155 original size:20 final size:20
Alignment explanation
Indices: 47847130--47847182 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 20
47847120 TTAATTCTTA
*
47847130 ATTCTATTATATATTTATCT
1 ATTCTATTATATATTTATAT
47847150 ATTCTATTATATA--TATAT
1 ATTCTATTATATATTTATAT
*
47847168 ATTCTAATATATATT
1 ATTCTATTATATATT
47847183 AGTATTAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 16 0.55
20 13 0.45
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTCTATTATATATTTATAT
Found at i:47847188 original size:18 final size:17
Alignment explanation
Indices: 47847130--47847188 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
47847120 TTAATTCTTA
47847130 ATTCTATTATATATTTATCT
1 ATTCTATTATATA-TTA--T
47847150 ATTCTATTATATATATAT
1 ATTCTATTATATAT-TAT
*
47847168 ATTCTAATATATATTAGT
1 ATTCTATTATATATTA-T
47847186 ATT
1 ATT
47847189 AGAATTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 2 0.06
18 18 0.50
19 1 0.03
20 15 0.42
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTCTATTATATATTAT
Found at i:47861345 original size:6 final size:6
Alignment explanation
Indices: 47861334--47861377 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
47861324 TTCTTTTGGC
*
47861334 TACACA TACACA TACACA TACACA TACACA TACACA CACACA TA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TA
47861378 TATATATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (6 bp):
TACACA
Found at i:47870866 original size:2 final size:2
Alignment explanation
Indices: 47870859--47870884 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47870849 CATATTCATG
47870859 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
47870885 CAATGCCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47882225 original size:17 final size:17
Alignment explanation
Indices: 47882203--47882236 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47882193 CTGTCTAAGT
47882203 ACAGTCTGAATATCCGA
1 ACAGTCTGAATATCCGA
47882220 ACAGTCTGAATATCCGA
1 ACAGTCTGAATATCCGA
47882237 TTCATCAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (17 bp):
ACAGTCTGAATATCCGA
Found at i:47889380 original size:52 final size:52
Alignment explanation
Indices: 47889315--47889419 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 52
47889305 TTACAAATGG
47889315 TAAGAAAAAATTATTAAATTATTTAATTTT-AATCAGTTAATTATTATGATGT
1 TAAGAAAAAATTATTAAATTATTTAATTTTAAAT-AGTTAATTATTATGATGT
* * *
47889367 TAAGAAAATATTATTAAATTATTTTATTTTAAATAGTTAATTATTATGTTGT
1 TAAGAAAAAATTATTAAATTATTTAATTTTAAATAGTTAATTATTATGATGT
47889419 T
1 T
47889420 TAGATTATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 46 0.94
53 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.50
Consensus pattern (52 bp):
TAAGAAAAAATTATTAAATTATTTAATTTTAAATAGTTAATTATTATGATGT
Found at i:47892275 original size:41 final size:41
Alignment explanation
Indices: 47892215--47892362 Score: 242
Period size: 41 Copynumber: 3.6 Consensus size: 41
47892205 GAATGTAAGC
* * * *
47892215 GGTTGCTAAGTGCATATTCCCTGAAACACTGATAAAAGAGG
1 GGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAAGAGG
47892256 GGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAAGAGG
1 GGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAAGAGG
*
47892297 GGTTGCTAAGTGCAGATTCCCCGAATTACTGATCAAAGAGG
1 GGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAAGAGG
*
47892338 GGTTGCTAAGTGCAAATTCCCCGAA
1 GGTTGCTAAGTGCAGATTCCCCGAA
47892363 GGGTTGCTAA
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (41 bp):
GGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAAGAGG
Found at i:47898050 original size:30 final size:30
Alignment explanation
Indices: 47898016--47898076 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
47898006 CACTCCGCCA
47898016 TTACTAGAAAAATGAGATCAAAGAAGAAAT
1 TTACTAGAAAAATGAGATCAAAGAAGAAAT
* *
47898046 TTACTATAAAAATGAGATGAAAGAAGAAAT
1 TTACTAGAAAAATGAGATCAAAGAAGAAAT
47898076 T
1 T
47898077 GTTGAAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.05, G:0.16, T:0.23
Consensus pattern (30 bp):
TTACTAGAAAAATGAGATCAAAGAAGAAAT
Found at i:47906332 original size:43 final size:42
Alignment explanation
Indices: 47906180--47906344 Score: 129
Period size: 43 Copynumber: 3.9 Consensus size: 42
47906170 TTCTGAGATA
*
47906180 TGATTTCATGTAAGACCACGTCTGGGACGTTGGCATCGAT-TT
1 TGATTACATGTAAGACCACGTCTGGGACGTTGGCATC-ATATT
* * * * * ** * *
47906222 GAGATTTACGTGTAAGACCATGTTTGGGACATCAGCATCGTATA
1 -TGA-TTACATGTAAGACCACGTCTGGGACGTTGGCATCATATT
* * * *
47906266 TGATTTCGTGTAAAATCC-TGTCTGGGACAG-TGGCATCAATATT
1 TGATTACATGTAAGA-CCACGTCTGGGAC-GTTGGCATC-ATATT
47906309 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
47906345 TGTATGAGCT
Statistics
Matches: 92, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
42 27 0.29
43 37 0.40
44 28 0.30
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGATTACATGTAAGACCACGTCTGGGACGTTGGCATCATATT
Found at i:47914063 original size:26 final size:26
Alignment explanation
Indices: 47914028--47914177 Score: 189
Period size: 26 Copynumber: 5.9 Consensus size: 26
47914018 AAAAAATCTC
*
47914028 TTTTAT-TATTATTTATTTTAAGTTT
1 TTTTATATATTATTTATTTTAAATTT
* *
47914053 TTTTATATATTATTTATTTTAAACTA
1 TTTTATATATTATTTATTTTAAATTT
*
47914079 TTTTACATATTATTTATTTTAAATTT
1 TTTTATATATTATTTATTTTAAATTT
* *
47914105 TTTTATATATTATTTATTTTAAACTA
1 TTTTATATATTATTTATTTTAAATTT
* *
47914131 TTATATATATTA--TCTTTTAAATTT
1 TTTTATATATTATTTATTTTAAATTT
* *
47914155 TTATATATATTATTTTTTTTAAA
1 TTTTATATATTATTTATTTTAAA
47914178 AACTGTTTTA
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
24 21 0.19
25 6 0.06
26 81 0.75
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTTATATATTATTTATTTTAAATTT
Found at i:47914090 original size:52 final size:49
Alignment explanation
Indices: 47914028--47914320 Score: 261
Period size: 52 Copynumber: 6.0 Consensus size: 49
47914018 AAAAAATCTC
47914028 TTTTATTATTATTTATTTTAAGTTTTTTTATATATTATTTATTTTAAACTA
1 TTTTA-TATTATTTATTTTAA-TTTTTTTATATATTATTTATTTTAAACTA
47914079 TTTTACATATTATTTATTTTAAATTTTTTTATATATTATTTATTTTAAACTA
1 TTTT--ATATTATTTATTTT-AATTTTTTTATATATTATTTATTTTAAACTA
* * * * *
47914131 TTATATATATTATCT-TTTAAATTTTTATATATATTATTTTTTTTAAA-AA
1 TT-T-TATATTATTTATTTTAATTTTTTTATATATTATTTATTTTAAACTA
* * *
47914180 CTGT-T-TTA--TATGTT-A-TTTTTT-TATATTATTTATTTTAAACTA
1 TTTTATATTATTTATTTTAATTTTTTTATATATTATTTATTTTAAACTA
** * * *
47914222 TTTTATTATTATTTA-TTTAAAGTTTTTACATATTGTTTATTTGAAAC--
1 TTTTA-TATTATTTATTTTAATTTTTTTATATATTATTTATTTTAAACTA
* * *
47914269 TTTT-TATTATTTATTTTGAATTGTTCTTATAAATTATTTATTTTAAATTA
1 TTTTATATTATTTATTTT-AATT-TTTTTATATATTATTTATTTTAAACTA
47914319 TT
1 TT
47914321 ATTTACTTTA
Statistics
Matches: 195, Mismatches: 27, Indels: 41
0.74 0.10 0.16
Matches are distributed among these distances:
41 17 0.09
42 8 0.04
43 2 0.01
44 3 0.02
45 15 0.08
46 6 0.03
47 10 0.05
48 24 0.12
49 18 0.09
50 28 0.14
51 7 0.04
52 52 0.27
53 4 0.02
54 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (49 bp):
TTTTATATTATTTATTTTAATTTTTTTATATATTATTTATTTTAAACTA
Found at i:47914098 original size:16 final size:15
Alignment explanation
Indices: 47914077--47914126 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
47914067 TATTTTAAAC
47914077 TATTTTACATATTATT
1 TATTTTA-ATATTATT
47914093 TATTTTAA-ATT-TT
1 TATTTTAATATTATT
*
47914106 T-TTAT-ATATTATT
1 TATTTTAATATTATT
47914119 TATTTTAA
1 TATTTTAA
47914127 ACTATTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
11 1 0.04
12 6 0.21
13 6 0.21
14 6 0.21
15 2 0.07
16 7 0.25
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTTAATATTATT
Found at i:47914187 original size:78 final size:79
Alignment explanation
Indices: 47914019--47914202 Score: 191
Period size: 78 Copynumber: 2.4 Consensus size: 79
47914009 TATATTTTAA
** * *
47914019 AAAAATCTCTTTTAT-TATTATTTATTTTAAGTTTTTTTATATATTATTTATTTTAAACTATTTT
1 AAAAA-CTCTTTTATATATTATTTATTTTAAACTATTATATATATTA-TTATTTTAAACTATTTT
47914083 ACATATTATTTATTTT
64 ACATATTATTTATTTT
* * * *
47914099 --AAATTTTTTTATATATTATTTATTTTAAACTATTATATATATTA-TCTTTTAAA-TTTTTATA
1 AAAAACTCTTTTATATATTATTTATTTTAAACTATTATATATATTATTATTTTAAACTATTT-TA
* *
47914160 TATATTATTTTTTTT
65 CATATTATTTATTTT
* *
47914175 AAAAACTGTTTTATATGTTATTT-TTTTA
1 AAAAACTCTTTTATATATTATTTATTTTA
47914203 TATTATTTAT
Statistics
Matches: 87, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
75 4 0.05
76 23 0.26
77 12 0.14
78 48 0.55
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (79 bp):
AAAAACTCTTTTATATATTATTTATTTTAAACTATTATATATATTATTATTTTAAACTATTTTAC
ATATTATTTATTTT
Found at i:47914225 original size:24 final size:23
Alignment explanation
Indices: 47914197--47914315 Score: 100
Period size: 24 Copynumber: 5.0 Consensus size: 23
47914187 ATATGTTATT
47914197 TTTTTATATTATTTATTTTAAAC
1 TTTTTATATTATTTATTTTAAAC
*
47914220 TATTTTATTATTATTTA-TTTAAAG
1 T-TTTTA-TATTATTTATTTTAAAC
* *
47914244 TTTTTACATATTGTTTATTTGAAAC
1 TTTTT--ATATTATTTATTTTAAAC
* *
47914269 -TTTT-TATTATTTATTTTGAAT
1 TTTTTATATTATTTATTTTAAAC
47914290 TGTTCTTATAAATTATTTATTTTAAA
1 T-TT-TTAT--ATTATTTATTTTAAA
47914316 TTATTATTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
21 13 0.17
23 7 0.09
24 26 0.34
25 16 0.21
27 14 0.18
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTATATTATTTATTTTAAAC
Found at i:47914231 original size:25 final size:24
Alignment explanation
Indices: 47914197--47914284 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 24
47914187 ATATGTTATT
47914197 TTTTTA-TATTATTTATTTTAAAC
1 TTTTTATTATTATTTATTTTAAAC
*
47914220 TATTTTATTATTATTTA-TTTAAAG
1 T-TTTTATTATTATTTATTTTAAAC
* * *
47914244 TTTTTACATATTGTTTATTTGAAAC
1 TTTTTA-TTATTATTTATTTTAAAC
47914269 TTTTTATTATTTATTT
1 TTTTTATTA-TTATTT
47914285 TGAATTGTTC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
23 6 0.11
24 22 0.42
25 25 0.47
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.65
Consensus pattern (24 bp):
TTTTTATTATTATTTATTTTAAAC
Found at i:47914322 original size:13 final size:14
Alignment explanation
Indices: 47914274--47914324 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 14
47914264 GAAACTTTTT
*
47914274 ATTATTTATTTTGA
1 ATTATTTATTTTAA
* * *
47914288 ATT-GTTCTTATAA
1 ATTATTTATTTTAA
47914301 ATTATTTATTTTAA
1 ATTATTTATTTTAA
47914315 ATTA-TTATTT
1 ATTATTTATTT
47914325 ACTTTAACTT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 15 0.52
14 14 0.48
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (14 bp):
ATTATTTATTTTAA
Found at i:47918087 original size:19 final size:20
Alignment explanation
Indices: 47918046--47918090 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
47918036 TGCCTCTTTT
* *
47918046 TGCATT-CATTTCATTTATC
1 TGCATTACATTTCATTCATA
47918065 TGCATTACATTTCA-TCATA
1 TGCATTACATTTCATTCATA
47918084 TGCATTA
1 TGCATTA
47918091 AGTTTCATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TGCATTACATTTCATTCATA
Found at i:47919674 original size:9 final size:8
Alignment explanation
Indices: 47919656--47919685 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
47919646 ATAATGAAAT
47919656 AAATAAAA
1 AAATAAAA
47919664 AAATAAAA
1 AAATAAAA
47919672 AAATAAAA
1 AAATAAAA
47919680 ACAATA
1 A-AATA
47919686 CAAAGCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATAAAA
Found at i:47923202 original size:31 final size:31
Alignment explanation
Indices: 47923166--47923229 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
47923156 TTTGTGAAGG
47923166 ACGGACTCAAATTTCATATCTATTTCCATTC
1 ACGGACTCAAATTTCATATCTATTTCCATTC
47923197 ACGGACTCAAATTTCATATCTATTTCCATTC
1 ACGGACTCAAATTTCATATCTATTTCCATTC
47923228 AC
1 AC
47923230 CTTTTAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.38
Consensus pattern (31 bp):
ACGGACTCAAATTTCATATCTATTTCCATTC
Found at i:47924824 original size:17 final size:17
Alignment explanation
Indices: 47924795--47924827 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47924785 TATATTTTAA
47924795 TATTTTAATTAAATATC
1 TATTTTAATTAAATATC
47924812 TATTATTAA-TAAATAT
1 TATT-TTAATTAAATAT
47924828 TTTAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTTTAATTAAATATC
Found at i:47924885 original size:27 final size:27
Alignment explanation
Indices: 47924847--47924900 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
47924837 TCCGCAAGGT
47924847 ATGATTTCCTCACATTTTGATCTAATC
1 ATGATTTCCTCACATTTTGATCTAATC
*
47924874 ATGATTTTCTCACATTTTGATCTAATC
1 ATGATTTCCTCACATTTTGATCTAATC
47924901 CATTATATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.46
Consensus pattern (27 bp):
ATGATTTCCTCACATTTTGATCTAATC
Found at i:47928411 original size:27 final size:26
Alignment explanation
Indices: 47928371--47928421 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
47928361 AATACTCATA
47928371 TTTATATAATTAAAATAT-TCATATT
1 TTTATATAATTAAAATATGTCATATT
47928396 TTTATAGTAGATTAAAATATGTCATA
1 TTTATA-TA-ATTAAAATATGTCATA
47928422 AGTCCTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 2 0.09
27 10 0.43
28 5 0.22
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (26 bp):
TTTATATAATTAAAATATGTCATATT
Found at i:47931648 original size:25 final size:25
Alignment explanation
Indices: 47931620--47931678 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
47931610 CATAGCTTGC
47931620 GTGAGCATTTATAGTCACAGCTCAT
1 GTGAGCATTTATAGTCACAGCTCAT
* **
47931645 GTGAGCATTTATCGTCACAGCTTGT
1 GTGAGCATTTATAGTCACAGCTCAT
47931670 GTGAGCATT
1 GTGAGCATT
47931679 GTTCTCGCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (25 bp):
GTGAGCATTTATAGTCACAGCTCAT
Found at i:47933110 original size:25 final size:25
Alignment explanation
Indices: 47933064--47933143 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
47933054 TCCAGCTCTT
*
47933064 ATGAGCTTCCCGATACTCAGCTCGC
1 ATGAGCTTCCCGTTACTCAGCTCGC
* * * *
47933089 ATGAGCTTCCCGTTATTTAGCTTGG
1 ATGAGCTTCCCGTTACTCAGCTCGC
* *
47933114 ATGAGCTTACCGTT--TACAGCTCGT
1 ATGAGCTTCCCGTTACT-CAGCTCGC
47933138 ATGAGC
1 ATGAGC
47933144 AAACATGTAC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 1 0.02
24 11 0.24
25 33 0.73
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACTCAGCTCGC
Found at i:47945917 original size:18 final size:17
Alignment explanation
Indices: 47945884--47945922 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
47945874 TTTTATAAAT
47945884 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
47945902 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
47945919 TGTG
1 TGTG
47945923 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:47946166 original size:23 final size:23
Alignment explanation
Indices: 47946140--47946261 Score: 181
Period size: 23 Copynumber: 5.3 Consensus size: 23
47946130 AGTGTTATTG
47946140 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
47946163 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
47946186 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * **
47946209 TTCAGTGATAGCTACGGCTATGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
47946232 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
47946255 ATCAGTG
1 ATCAGTG
47946262 TGGCACTTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 86 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:47963270 original size:15 final size:16
Alignment explanation
Indices: 47963250--47963280 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
47963240 AGCCCACTAA
47963250 CTCAGCCC-AACTGGT
1 CTCAGCCCAAACTGGT
47963265 CTCAGCCCAAACTGGT
1 CTCAGCCCAAACTGGT
47963281 TCATGGGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.23, C:0.39, G:0.19, T:0.19
Consensus pattern (16 bp):
CTCAGCCCAAACTGGT
Found at i:47970824 original size:50 final size:54
Alignment explanation
Indices: 47970719--47970861 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 54
47970709 AGGAATGAGA
* * *
47970719 TCCCATATAAGAACATATCTGGGATATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATATAAGACCATGTCTGGGATATGGCATTGGCATCA-CGAGATTA-GAGAGG
*
47970775 TCCCATATAAGACCATGTCTGGGACATGGCATTGGCA-C-CGAGA-TA-AGAGG
1 TCCCATATAAGACCATGTCTGGGATATGGCATTGGCATCACGAGATTAGAGAGG
* * *
47970825 TCTCATGTAAGACCATGTATGGGATATGGCATTGGCA
1 TCCCATATAAGACCATGTCTGGGATATGGCATTGGCA
47970862 GTATAGGAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
50 38 0.48
52 2 0.03
53 4 0.05
55 1 0.01
56 34 0.43
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (54 bp):
TCCCATATAAGACCATGTCTGGGATATGGCATTGGCATCACGAGATTAGAGAGG
Found at i:47971130 original size:12 final size:12
Alignment explanation
Indices: 47971113--47971163 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
47971103 ATGAGTTATT
47971113 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
47971125 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
47971137 TAAGTGAGTAAG
1 TAAGTAAGCAAG
47971149 TAAAG-AAGCAAG
1 T-AAGTAAGCAAG
47971161 TAA
1 TAA
47971164 AGATTCTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.06
12 27 0.84
13 3 0.09
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:47971161 original size:20 final size:20
Alignment explanation
Indices: 47971123--47971161 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47971113 TAAGTAAGCA
*
47971123 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGCAAGTG
*
47971143 AGTAAGTAAAGAAGCAAGT
1 AGTAAGTAAACAAGCAAGT
47971162 AAAGATTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGCAAGTG
Found at i:47973491 original size:36 final size:36
Alignment explanation
Indices: 47973445--47973515 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
47973435 GAGGAGTGCC
* * *
47973445 TCAGTCAGAATAGATCCGAAAGGCTGCTGAACTGAG
1 TCAGTCAGAATAGATCCAAAAGACTGCTAAACTGAG
* *
47973481 TCAGTTAGAATAGATCTAAAAGACTGCTAAACTGA
1 TCAGTCAGAATAGATCCAAAAGACTGCTAAACTGA
47973516 ATAGAGTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (36 bp):
TCAGTCAGAATAGATCCAAAAGACTGCTAAACTGAG
Found at i:47976061 original size:25 final size:25
Alignment explanation
Indices: 47976034--47976245 Score: 103
Period size: 25 Copynumber: 8.5 Consensus size: 25
47976024 AAGCTCTTTT
*
47976034 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGA
* * * * *
47976059 GAGCTATGTAACGAGAAGATTC-GGA
1 GAGCCATATAACGGGAAG-CTCATGA
* *
47976084 GAGCCAT-TAACGGAAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATGA
* ** *
47976108 GAGCCATTTATTGGGAAGCTC-CGAA
1 GAGCCATATAACGGGAAGCTCATG-A
* *
47976133 GAGCAATA-AACGGGAAGCTCAAAAGA
1 GAGCCATATAACGGGAAGCTC--ATGA
* * ***
47976159 GAGCCAT-TAATCAGGAAACTCGCAA
1 GAGCCATATAA-CGGGAAGCTCATGA
* * *
47976184 GAACCATTTAACGGGAAGCTCGTGA
1 GAGCCATATAACGGGAAGCTCATGA
* * *
47976209 GAGCCAAATATCAGGAAGCTCATGA
1 GAGCCATATAACGGGAAGCTCATGA
*
47976234 GAGCTA-ATAACG
1 GAGCCATATAACG
47976246 AGACACTCTT
Statistics
Matches: 135, Mismatches: 42, Indels: 21
0.68 0.21 0.11
Matches are distributed among these distances:
23 2 0.01
24 30 0.22
25 80 0.59
26 14 0.10
27 9 0.07
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGA
Found at i:47978898 original size:16 final size:16
Alignment explanation
Indices: 47978879--47978942 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
47978869 TGTATATGTT
*
47978879 ATATAATATATATAAA
1 ATATAAAATATATAAA
*
47978895 ATATAAAATGTAT-AA
1 ATATAAAATATATAAA
47978910 ATATTAGAAA-AGTA-AAA
1 ATA-TA-AAATA-TATAAA
47978927 ATATAAAATATA-AAA
1 ATATAAAATATATAAA
47978942 A
1 A
47978943 AGTATGTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
15 14 0.35
16 16 0.40
17 10 0.25
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
ATATAAAATATATAAA
Found at i:47978994 original size:3 final size:3
Alignment explanation
Indices: 47978986--47979024 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
47978976 ATATGTACAG
*
47978986 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
47979025 AGTCATAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:47983530 original size:18 final size:19
Alignment explanation
Indices: 47983490--47983533 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
47983480 TATTGAATTT
47983490 TATATTATATAAATTTAGAA
1 TATATTATATAAATTTA-AA
47983510 TAT-TTATAT--ATTTAAA
1 TATATTATATAAATTTAAA
47983526 TATATTAT
1 TATATTAT
47983534 TATCGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 9 0.39
19 6 0.26
20 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TATATTATATAAATTTAAA
Found at i:47984743 original size:23 final size:23
Alignment explanation
Indices: 47984715--47984764 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
47984705 TAAGAATGTT
47984715 TTTGATGTTTTAAACTATGATCC
1 TTTGATGTTTTAAACTATGATCC
*
47984738 TTTGATGTTTTAAATTATGATCC
1 TTTGATGTTTTAAACTATGATCC
47984761 TTTG
1 TTTG
47984765 CCCTCTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (23 bp):
TTTGATGTTTTAAACTATGATCC
Found at i:47991301 original size:30 final size:30
Alignment explanation
Indices: 47991270--47991325 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 30
47991260 CTTTTTTACT
*
47991270 TTTCCCTCAAAACTTTTACT-CCTTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
47991299 TTTCCCCCAAAACTTTTACTCCCTTCC
1 TTTCCCCCAAAACTTTTACTCCCTTCC
47991326 GCTCCCAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.38
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:47992897 original size:3 final size:3
Alignment explanation
Indices: 47992889--47992922 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
47992879 TTTTGTATCA
47992889 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
47992923 TGTTAGGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48001125 original size:23 final size:23
Alignment explanation
Indices: 48001099--48001142 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
48001089 ATTTTAGTTT
48001099 GTTTTATAATATA-TAGTTTTCAA
1 GTTTTA-AATATATTAGTTTTCAA
*
48001122 GTTTTAGATATATTAGTTTTC
1 GTTTTAAATATATTAGTTTTC
48001143 TTCAGGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (23 bp):
GTTTTAAATATATTAGTTTTCAA
Found at i:48001263 original size:3 final size:3
Alignment explanation
Indices: 48001255--48001320 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
48001245 CAGCCATAGC
48001255 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48001303 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
48001321 TTGAATTAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Done.