Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 93 of 175
Found at i:29790755 original size:33 final size:33
Alignment explanation
Indices: 29790703--29790821 Score: 152
Period size: 33 Copynumber: 3.6 Consensus size: 33
29790693 GACAGTTGTA
29790703 ATTTGTTATAATTTCACAAAATGAAAATCTGAT
1 ATTTGTTATAATTTCACAAAATGAAAATCTGAT
* * * *
29790736 ATTTGTTATCATTTTACAAAATTAAAGT-TG-T
1 ATTTGTTATAATTTCACAAAATGAAAATCTGAT
* *
29790767 AATTTGTTATAATTTTACAAAATGAAAAGCTGAT
1 -ATTTGTTATAATTTCACAAAATGAAAATCTGAT
*
29790801 ATTTGTTATCATTTCACAAAA
1 ATTTGTTATAATTTCACAAAA
29790822 CCGCGCGTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
31 1 0.01
32 26 0.36
33 45 0.62
34 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (33 bp):
ATTTGTTATAATTTCACAAAATGAAAATCTGAT
Found at i:29790777 original size:65 final size:65
Alignment explanation
Indices: 29790696--29790821 Score: 225
Period size: 65 Copynumber: 1.9 Consensus size: 65
29790686 TGGTTTTGAC
* *
29790696 AGTTGTAATTTGTTATAATTTCACAAAATGAAAATCTGATATTTGTTATCATTTTACAAAATTAA
1 AGTTGTAATTTGTTATAATTTCACAAAATGAAAAGCTGATATTTGTTATCATTTCACAAAATTAA
*
29790761 AGTTGTAATTTGTTATAATTTTACAAAATGAAAAGCTGATATTTGTTATCATTTCACAAAA
1 AGTTGTAATTTGTTATAATTTCACAAAATGAAAAGCTGATATTTGTTATCATTTCACAAAA
29790822 CCGCGCGTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (65 bp):
AGTTGTAATTTGTTATAATTTCACAAAATGAAAAGCTGATATTTGTTATCATTTCACAAAATTAA
Found at i:29793516 original size:10 final size:10
Alignment explanation
Indices: 29793501--29793567 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
29793491 CATATGACAA
29793501 AAAAAATTAT
1 AAAAAATTAT
*
29793511 AAAAAA-AAT
1 AAAAAATTAT
29793520 CAATAAAAGTTAT
1 -AA-AAAA-TTAT
29793533 AAAAAATT-T
1 AAAAAATTAT
*
29793542 -AAAATTTAAT
1 AAAAAATT-AT
29793552 AAAAAA-TAT
1 AAAAAATTAT
29793561 AAAAAAT
1 AAAAAAT
29793568 ATTTAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
8 6 0.13
9 11 0.24
10 12 0.27
11 12 0.27
12 2 0.04
13 2 0.04
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:29793554 original size:28 final size:29
Alignment explanation
Indices: 29793521--29793604 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 29
29793511 AAAAAAAATC
*
29793521 AATAAAAGTTATAAAAA-ATTTAAAATTT
1 AATAAAAATTATAAAAATATTTAAAATTT
*
29793549 AATAAAAAATATAAAAAATATTTAAAATTT
1 AATAAAAATTAT-AAAAATATTTAAAATTT
*
29793579 AATAAAAATTA-AAAATATATATAAAA
1 AATAAAAATTATAAAA-ATATTTAAAA
29793605 CGTAAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 14 0.29
29 14 0.29
30 21 0.43
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (29 bp):
AATAAAAATTATAAAAATATTTAAAATTT
Found at i:29793574 original size:30 final size:30
Alignment explanation
Indices: 29793533--29793626 Score: 115
Period size: 29 Copynumber: 3.2 Consensus size: 30
29793523 TAAAAGTTAT
29793533 AAAAA-ATTTAAAATTTAATAAAAAATATA
1 AAAAATATTTAAAATTTAATAAAAAATATA
29793562 AAAAATATTTAAAATTTAAT-AAAAAT-TA
1 AAAAATATTTAAAATTTAATAAAAAATATA
* ** *
29793590 AAAATATATATAAAACGTAA-AAAAAATAAA
1 AAAA-ATATTTAAAATTTAATAAAAAATATA
29793620 AAAAATA
1 AAAAATA
29793627 AAAAACTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
28 6 0.11
29 32 0.56
30 19 0.33
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (30 bp):
AAAAATATTTAAAATTTAATAAAAAATATA
Found at i:29793575 original size:18 final size:18
Alignment explanation
Indices: 29793553--29793621 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
29793543 AAATTTAATA
29793553 AAAAATATAA-AAAATATT
1 AAAAATATAATAAAA-ATT
* *
29793571 TAAAATTTAATAAAAATT
1 AAAAATATAATAAAAATT
**
29793589 AAAAATATATATAAAACGT
1 AAAAATATA-ATAAAAATT
29793608 AAAAA-A-AATAAAAA
1 AAAAATATAATAAAAA
29793622 AAATAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
16 6 0.14
17 1 0.02
18 19 0.45
19 16 0.38
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (18 bp):
AAAAATATAATAAAAATT
Found at i:29793621 original size:10 final size:9
Alignment explanation
Indices: 29793607--29793631 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
29793597 ATATAAAACG
29793607 TAAAAAAAA
1 TAAAAAAAA
29793616 TAAAAAAAA
1 TAAAAAAAA
29793625 TAAAAAA
1 TAAAAAA
29793632 CTTTTATAAA
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:29793869 original size:19 final size:20
Alignment explanation
Indices: 29793823--29793866 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
29793813 TAGTATGATA
29793823 ATTTTTATAATTCTTTCACG
1 ATTTTTATAATTCTTTCACG
*
29793843 AATTTTATAATTCTTT-AC-
1 ATTTTTATAATTCTTTCACG
29793861 ATTTTT
1 ATTTTT
29793867 TATCATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 2 0.09
20 15 0.68
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTTTATAATTCTTTCACG
Found at i:29794000 original size:19 final size:19
Alignment explanation
Indices: 29793959--29794002 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
29793949 TTTACAATTT
*
29793959 TTTTATAATTTTTTACGAC
1 TTTTATAATTTTTTACGAA
*
29793978 TTTTATAATCTTTTT-CTAA
1 TTTTATAAT-TTTTTACGAA
29793997 TTTTAT
1 TTTTAT
29794003 TTTATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAA
Found at i:29794264 original size:86 final size:87
Alignment explanation
Indices: 29794164--29794335 Score: 220
Period size: 88 Copynumber: 2.0 Consensus size: 87
29794154 AAAAAGCAAT
* * ** *
29794164 GGCTTAATTGCTTTTTTGAAAAAAAGTTTGAGGG-TCTTTTTAATGCATTTTGGTAGTTCAAGTA
1 GGCTTAATTACTTTTTTGAAAAAAAGTTTGAGGGATCTTTTTAATGCATGTTGAAAGTTCAAATA
*
29794228 CCCAATTGAGTGCAAAAAAAGG
66 CACAATTGAGTGCAAAAAAAGG
*** * *
29794250 GGCTTAATTACTTTTTTTTGAAAAAGTTTGAGGGCATTTTTTTTATGCATGTTGAAAGTTCAAAT
1 GGCTTAATTACTTTTTTGAAAAAAAGTTTGAGGG-ATCTTTTTAATGCATGTTGAAAGTTCAAAT
*
29794315 ATACAATTGAGTGCAAAAAAA
65 ACACAATTGAGTGCAAAAAAA
29794336 AAAAAGCAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 30 0.42
88 42 0.58
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (87 bp):
GGCTTAATTACTTTTTTGAAAAAAAGTTTGAGGGATCTTTTTAATGCATGTTGAAAGTTCAAATA
CACAATTGAGTGCAAAAAAAGG
Found at i:29795102 original size:9 final size:9
Alignment explanation
Indices: 29795085--29795139 Score: 83
Period size: 9 Copynumber: 6.1 Consensus size: 9
29795075 GGTTAAAAAA
29795085 TAACCGAAT
1 TAACCGAAT
*
29795094 TAGCCGAAT
1 TAACCGAAT
*
29795103 TAACCAAAT
1 TAACCGAAT
29795112 TAACCGAAT
1 TAACCGAAT
29795121 TAACCGAAT
1 TAACCGAAT
*
29795130 TAATCGAAT
1 TAACCGAAT
29795139 T
1 T
29795140 GAATCACTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (9 bp):
TAACCGAAT
Found at i:29798588 original size:13 final size:13
Alignment explanation
Indices: 29798570--29798595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29798560 GAGTTCAAGG
29798570 AAATCAACAGAGA
1 AAATCAACAGAGA
29798583 AAATCAACAGAGA
1 AAATCAACAGAGA
29798596 TAGTTATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.15, T:0.08
Consensus pattern (13 bp):
AAATCAACAGAGA
Found at i:29800009 original size:84 final size:84
Alignment explanation
Indices: 29799909--29800085 Score: 248
Period size: 84 Copynumber: 2.1 Consensus size: 84
29799899 AAAGAATATG
* * * * *
29799909 TGGAAAATAGATAATCAAATATGAGAAAGGAAAGAGAATAAT-ATATATGGAAAATAGAGATATG
1 TGGAAAATAGAGAATCAAATATGAAAAAAGAAAGAGAATAATAAAAT-TGAAAAATAGAGATATG
29799973 AAAAGAAATTTAATATTTTA
65 AAAAGAAATTTAATATTTTA
29799993 TGGAAAATAGAGAATCAAATATGAAAAAAGAAAGAGAATAATAAAATTGAAAAATAGAGATATGA
1 TGGAAAATAGAGAATCAAATATGAAAAAAGAAAGAGAATAATAAAATTGAAAAATAGAGATATGA
* ** *
29800058 AAGGGTATTTAATATTTTG
66 AAAGAAATTTAATATTTTA
*
29800077 TGAAAAATA
1 TGGAAAATA
29800086 TATCTCTATT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 79 0.96
85 3 0.04
ACGTcount: A:0.55, C:0.01, G:0.18, T:0.25
Consensus pattern (84 bp):
TGGAAAATAGAGAATCAAATATGAAAAAAGAAAGAGAATAATAAAATTGAAAAATAGAGATATGA
AAAGAAATTTAATATTTTA
Found at i:29800225 original size:84 final size:83
Alignment explanation
Indices: 29800084--29800301 Score: 301
Period size: 84 Copynumber: 2.6 Consensus size: 83
29800074 TTGTGAAAAA
* * * *
29800084 TATATCTCTATTTTCCATATATGTGATTCTCTTTCCTTTCCCATATTTGATTCTCTATTTTCCAT
1 TATATCTCTATTTT-CATATTTGTTATTCTCTTTCATTTCCCATATTTGATTATCTATTTTCCAT
*
29800149 AAAATATTAAATTCTCTTT
65 AAAATATTAAATTCCCTTT
* *
29800168 TATATCTCTATTTTCTATATTTGTTATTCTCTTTCATTTCTCATATTTGATTATCTATTTTTCAT
1 TATATCTCTATTTTC-ATATTTGTTATTCTCTTTCATTTCCCATATTTGATTATCTATTTTCCAT
*
29800233 AAAATATTCAATTCCCTTT
65 AAAATATTAAATTCCCTTT
* * * *
29800252 CATATCTCTATTTTACATAGTTGTTATTTTCTTTTATTTCCCATATTTGA
1 TATATCTCTATTTT-CATATTTGTTATTCTCTTTCATTTCCCATATTTGA
29800302 CTTTCCCTCT
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
83 1 0.01
84 117 0.98
85 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.04, T:0.55
Consensus pattern (83 bp):
TATATCTCTATTTTCATATTTGTTATTCTCTTTCATTTCCCATATTTGATTATCTATTTTCCATA
AAATATTAAATTCCCTTT
Found at i:29800390 original size:2 final size:2
Alignment explanation
Indices: 29800308--29800372 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
29800298 TTGACTTTCC
29800308 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
29800350 CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT C
29800373 GTCCCTCTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:29801443 original size:23 final size:23
Alignment explanation
Indices: 29801416--29801461 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
29801406 GACTTTGCCA
*
29801416 ATCAGCCACTTTATGTGTCGTAT
1 ATCAGACACTTTATGTGTCGTAT
29801439 ATCAGACACTTTATGTGTCGTAT
1 ATCAGACACTTTATGTGTCGTAT
29801462 TTTAGGCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (23 bp):
ATCAGACACTTTATGTGTCGTAT
Found at i:29806497 original size:26 final size:26
Alignment explanation
Indices: 29806461--29806510 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
29806451 ACCAATATTG
29806461 CAGCAAAGCTGCCTGTAACAGTATCT
1 CAGCAAAGCTGCCTGTAACAGTATCT
29806487 CAGCAAAGCTGCCTGTAACAGTAT
1 CAGCAAAGCTGCCTGTAACAGTAT
29806511 ACTTCCTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGCAAAGCTGCCTGTAACAGTATCT
Found at i:29813972 original size:26 final size:25
Alignment explanation
Indices: 29813941--29814020 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 25
29813931 AACACACCAA
*
29813941 TATCGCAGCAAAGCTACCAGTAATAG
1 TATCGCAGCAAAGCT-CCAGTAACAG
* *
29813967 TATCGCAGCGAAGCTGCCAATAACAG
1 TATCGCAGCAAAGCT-CCAGTAACAG
* * *
29813993 TATCACAGTAAAGCTGCAGTAACAG
1 TATCGCAGCAAAGCTCCAGTAACAG
29814018 TAT
1 TAT
29814021 ACTTCCTCCA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 11 0.24
26 34 0.76
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (25 bp):
TATCGCAGCAAAGCTCCAGTAACAG
Found at i:29815632 original size:30 final size:31
Alignment explanation
Indices: 29815593--29815652 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
29815583 GGAGGTGGGA
*
29815593 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
29815624 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
29815653 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:29815883 original size:9 final size:9
Alignment explanation
Indices: 29815866--29815902 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
29815856 TATAGTTTAA
*
29815866 TATTGGAAT
1 TATTCGAAT
29815875 TATTCGAAT
1 TATTCGAAT
*
29815884 TATTCGAGT
1 TATTCGAAT
29815893 TATTCGAAT
1 TATTCGAAT
29815902 T
1 T
29815903 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:29815971 original size:9 final size:9
Alignment explanation
Indices: 29815954--29815984 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
29815944 TCGAGTTGAT
29815954 TCGAATAAC
1 TCGAATAAC
*
29815963 TCGATTAAC
1 TCGAATAAC
29815972 TCGAATAAC
1 TCGAATAAC
29815981 TCGA
1 TCGA
29815985 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:29817680 original size:19 final size:19
Alignment explanation
Indices: 29817643--29817680 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
29817633 CTAATTAAGT
*
29817643 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
29817662 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
29817681 GAAAAATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:29818992 original size:19 final size:19
Alignment explanation
Indices: 29818964--29819005 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
29818954 TCATCAATTA
29818964 ATTTAATAAT-ATTACTATT
1 ATTTAATAATCA-TACTATT
* *
29818983 ATTTATTAATCATATTATT
1 ATTTAATAATCATACTATT
29819002 ATTT
1 ATTT
29819006 GTATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTAATAATCATACTATT
Found at i:29823369 original size:30 final size:30
Alignment explanation
Indices: 29823333--29823392 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
29823323 AATAACATAG
29823333 ATTGTAGCTTATCTCCGGACTTGTTGAGGA
1 ATTGTAGCTTATCTCCGGACTTGTTGAGGA
*
29823363 ATTGTAGCTTATCTTCGGACTTGTTGAGGA
1 ATTGTAGCTTATCTCCGGACTTGTTGAGGA
29823393 TGGTAGAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.38
Consensus pattern (30 bp):
ATTGTAGCTTATCTCCGGACTTGTTGAGGA
Found at i:29825655 original size:31 final size:30
Alignment explanation
Indices: 29825620--29825722 Score: 82
Period size: 31 Copynumber: 3.4 Consensus size: 30
29825610 GATTTAGTGC
29825620 TTGGGTGACTAAAATGAAAGCGCCTTAAAAG
1 TTGGGTGACTAAAATGAAAGCG-CTTAAAAG
* * * * ** **
29825651 TTGGGTGACGAAATTGTAAG-GATTTCATT
1 TTGGGTGACTAAAATGAAAGCGCTTAAAAG
* * *
29825680 TTGGGTGACCAAAATAAAAGCTTCTTAAAAG
1 TTGGGTGACTAAAATGAAAGC-GCTTAAAAG
29825711 TTGGGTGACTAA
1 TTGGGTGACTAA
29825723 TTAGGTAGTT
Statistics
Matches: 51, Mismatches: 19, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
29 19 0.37
30 1 0.02
31 31 0.61
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (30 bp):
TTGGGTGACTAAAATGAAAGCGCTTAAAAG
Found at i:29828356 original size:88 final size:88
Alignment explanation
Indices: 29827913--29828344 Score: 677
Period size: 88 Copynumber: 4.9 Consensus size: 88
29827903 ACAAACCGGT
* * *
29827913 AAGACTGA-AAGTCCTAACTCCCTGAACAGCAGTGAAATAGGCGGAAGATTATAAATCCTAGCTC
1 AAGACT-ATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTC
* *
29827977 CCTGGCCAGTAGTGGAATAGGTGG
65 CCTGACCAGCAGTGGAATAGGTGG
* *
29828001 AAGACTAAAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTATAAATCCTAGCTCC
1 AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTCC
* *
29828066 CAGACCAGCAGGGGAATAGGTGG
66 CTGACCAGCAGTGGAATAGGTGG
* *
29828089 AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGTATAGGCAGAAGATTGTAAATCCTAGCTCC
1 AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTCC
*
29828154 CTGACCAGCAGCGGAATAGGTGG
66 CTGACCAGCAGTGGAATAGGTGG
*
29828177 AAGACTATAACTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTCC
1 AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTCC
29828242 CTGACCAGCAGTGGAATAGGTGG
66 CTGACCAGCAGTGGAATAGGTGG
* * * * *
29828265 AAGAATGTAAGTCCTAGCTCCCTGAACAGCAGTGGAATGGGCAGAAGATTGTAAGTCCTAGCTCC
1 AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTCC
*
29828330 CTGAGCAGCAGTGGA
66 CTGACCAGCAGTGGA
29828345 GCAGGTTGAA
Statistics
Matches: 320, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
87 1 0.00
88 319 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (88 bp):
AAGACTATAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTCC
CTGACCAGCAGTGGAATAGGTGG
Found at i:29828357 original size:44 final size:44
Alignment explanation
Indices: 29827921--29828344 Score: 542
Period size: 44 Copynumber: 9.6 Consensus size: 44
29827911 GTAAGACTGA
* *
29827921 AAGTCCTAACTCCCTGAACAGCAGTGAAATAGGCGGAAGATTAT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* ** * * * *
29827965 AAATCCTAGCTCCCTGGCCAGTAGTGGAATAGGTGGAAGACTAA
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
29828009 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* * * * * *
29828053 AAATCCTAGCTCCCAGACCAGCAGGGGAATAGGTGGAAGACTAT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* * *
29828097 AAGTCCTAGCTCCCTGAACAGCAGTGGTATAGGCAGAAGATTGT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* * * * *
29828141 AAATCCTAGCTCCCTGACCAGCAGCGGAATAGGTGGAAGACTAT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* *
29828185 AACTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTGT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* * * * *
29828229 AAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGAATGT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
* * *
29828273 AAGTCCTAGCTCCCTGAACAGCAGTGGAATGGGCAGAAGATTGT
1 AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
*
29828317 AAGTCCTAGCTCCCTGAGCAGCAGTGGA
1 AAGTCCTAGCTCCCTGAACAGCAGTGGA
29828345 GCAGGTTGAA
Statistics
Matches: 324, Mismatches: 56, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 324 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (44 bp):
AAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGATTAT
Found at i:29828418 original size:88 final size:88
Alignment explanation
Indices: 29828339--29828752 Score: 668
Period size: 88 Copynumber: 4.7 Consensus size: 88
29828329 CCTGAGCAGC
* * * *
29828339 AGTGGAGCAGGTTGAAGATAGCAGATCTTACCTTCCTGCATCGAAAGCGAAGTAGATCGAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACA
29828404 CAAGCCTTGCCTCCCTCGGTTGT
66 CAAGCCTTGCCTCCCTCGGTTGT
* * * *
29828427 AGTAGAGTAGGTTGAAGATAGCAGATCTTGCCTTCTTGCATCGACAGCGAAGCAGATCGAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACA
29828492 CAAGCCTTGCCTCCCTCGGTTGT
66 CAAGCCTTGCCTCCCTCGGTTGT
* * * * *
29828515 AGTGGAGTAGGTTGAAGATAACAAATCTTGCCTTCCTGCATCGACGGTGAAGTAGATCGAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACA
29828580 CAAGCCTTGCCTCCCTCGGTTGT
66 CAAGCCTTGCCTCCCTCGGTTGT
* *
29828603 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGATA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACA
29828668 CAAGCCTTGCCTCCCTCGGTTGT
66 CAAGCCTTGCCTCCCTCGGTTGT
*
29828691 AGTGGAGCAGGTTGAAGATAGCATG-TCTTGCCTTCCTACATCGACAGTGAAGCAGATCGAAG
1 AGTGGAGCAGGTTGAAGATAGCA-GATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAG
29828753 CCAATGGTCC
Statistics
Matches: 303, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
88 302 1.00
89 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (88 bp):
AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACA
CAAGCCTTGCCTCCCTCGGTTGT
Found at i:29828721 original size:44 final size:43
Alignment explanation
Indices: 29828397--29828723 Score: 189
Period size: 44 Copynumber: 7.4 Consensus size: 43
29828387 GAAGTAGATC
* * * *
29828397 GAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTAGAGTAGGTT
1 GAAGATACAAGTCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTT
* * * * * * * * *
29828440 GAAGATAGC-AGATCTTGCCT-TCTTGCATCGACAGCGAAGCAGATC
1 GAAGATA-CAAG-TCTTGCCTCCCTCG-GTTG-TAGTGGAGCAGGTT
* * *
29828485 GAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGTAGGTT
1 GAAGATACAAGTCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTT
* * * * * * * *
29828528 GAAGATAACAAATCTTGCCTTCCT-GCATCG-ACGGTGAAGTAGATC
1 GAAGAT-ACAAGTCTTGCCTCCCTCG-GTTGTA--GTGGAGCAGGTT
* *
29828573 GAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTT
1 GAAGATACAAGTCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTT
* * * * * *
29828616 GAAGATAGC-AGATCTTGCCTTCCT-GCATCGACAGTGAAGCAGATT
1 GAAGATA-CAAG-TCTTGCCTCCCTCG-GTTG-TAGTGGAGCAGGTT
*
29828661 GAAGATACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTT
1 GAAGATACAAGTCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTT
*
29828704 GAAGATAGCATGTCTTGCCT
1 GAAGATA-CAAGTCTTGCCT
29828724 TCCTACATCG
Statistics
Matches: 204, Mismatches: 61, Indels: 37
0.68 0.20 0.12
Matches are distributed among these distances:
43 61 0.30
44 88 0.43
45 55 0.27
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (43 bp):
GAAGATACAAGTCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTT
Found at i:29829515 original size:18 final size:20
Alignment explanation
Indices: 29829492--29829537 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
29829482 TGATTGGCAG
29829492 TTTTTCTT-TGT-TTTTCTT
1 TTTTTCTTCTGTCTTTTCTT
*
29829510 TTTTTCTTCGTTTCTTTTCTT
1 TTTTTCTTC-TGTCTTTTCTT
29829531 TTTTTCT
1 TTTTTCT
29829538 CTATGCGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
20 2 0.08
21 14 0.58
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.80
Consensus pattern (20 bp):
TTTTTCTTCTGTCTTTTCTT
Found at i:29829752 original size:17 final size:18
Alignment explanation
Indices: 29829730--29829769 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
29829720 TTAGGTTTTG
29829730 TTTATTTATT-TATTTA-T
1 TTTATTTATTCT-TTTAGT
29829747 TTTATTTATTCTTTTAGT
1 TTTATTTATTCTTTTAGT
29829765 TTTAT
1 TTTAT
29829770 AAAATGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTATTTATTCTTTTAGT
Found at i:29830150 original size:19 final size:19
Alignment explanation
Indices: 29830122--29830163 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
29830112 TCATCAATTA
29830122 ATTTAATAAT-ATTACTATT
1 ATTTAATAATCA-TACTATT
* *
29830141 ATTTATTAATCATATTATT
1 ATTTAATAATCATACTATT
29830160 ATTT
1 ATTT
29830164 GTATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTAATAATCATACTATT
Found at i:29832836 original size:23 final size:23
Alignment explanation
Indices: 29832810--29832920 Score: 106
Period size: 23 Copynumber: 5.0 Consensus size: 23
29832800 GACTTTGCCG
*
29832810 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
* *
29832833 ATCAGGCACTTTATGTGTCATAT
1 ATCAGGCACCTTATGTGTCGTAT
* *
29832856 TTCAGGCACCTCATGTGTCG--T
1 ATCAGGCACCTTATGTGTCGTAT
* * *
29832877 ATCAGGCACCTCATGTTTTGT-T
1 ATCAGGCACCTTATGTGTCGTAT
*
29832899 -TCAGGCA-CTTATGTGTTGTAT
1 ATCAGGCACCTTATGTGTCGTAT
29832920 A
1 A
29832921 CGGATCAGGT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
20 10 0.13
21 26 0.35
22 1 0.01
23 38 0.51
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (23 bp):
ATCAGGCACCTTATGTGTCGTAT
Found at i:29840293 original size:45 final size:45
Alignment explanation
Indices: 29840239--29840521 Score: 243
Period size: 45 Copynumber: 6.3 Consensus size: 45
29840229 TGGTATGTTC
* * * *
29840239 CAACCATGGTCTTATACATTCCCGAAGTGATGCCATAGTATCTTT
1 CAACTATGGTCTTATTCATTCCGGAAGTAATGCCATAGTATCTTT
* * * * * * *
29840284 CCACTATGGTATTGTTCGTTATC-GATGTAATGCTATAGTATCTTT
1 CAACTATGGTCTTATTCATT-CCGGAAGTAATGCCATAGTATCTTT
* ** *
29840329 CAACTATGGTCTTATTCATTTCGGATTTAATGCCATGGTATCTTT
1 CAACTATGGTCTTATTCATTCCGGAAGTAATGCCATAGTATCTTT
* * * * * *
29840374 CAACTATAGTCTTATTCGTTTCTGGTA-TAGTGTCATAGTATCTTT
1 CAACTATGGTCTTATTC-ATTCCGGAAGTAATGCCATAGTATCTTT
* *
29840419 CAACTATGGTCTTATTCATCTCCGGAA-CAATACCATAGTATCTTT
1 CAACTATGGTCTTATTCAT-TCCGGAAGTAATGCCATAGTATCTTT
* * *
29840464 CAACTATGGTCTT-TCTCGTTCC-GAATATAATGCCATGGTATCTTT
1 CAACTATGGTCTTAT-TCATTCCGGAA-GTAATGCCATAGTATCTTT
*
29840509 CAACCATGGTCTT
1 CAACTATGGTCTT
29840522 TCTCGTTTCT
Statistics
Matches: 192, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
43 3 0.02
44 7 0.04
45 177 0.92
46 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (45 bp):
CAACTATGGTCTTATTCATTCCGGAAGTAATGCCATAGTATCTTT
Found at i:29840528 original size:45 final size:44
Alignment explanation
Indices: 29840268--29840521 Score: 251
Period size: 45 Copynumber: 5.7 Consensus size: 44
29840258 TCCCGAAGTG
* * * * *
29840268 ATGCCATAGTATCTTTCCACTATGGTATTGTTCGTTATCGATGTA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTCGTT-CCGATATA
* * * *
29840313 ATGCTATAGTATCTTTCAACTATGGTCTTATTCATTTCGGATTTA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTC-GTTCCGATATA
* * * *
29840358 ATGCCATGGTATCTTTCAACTATAGTCTTATTCGTTTCTGGTATA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTCG-TTCCGATATA
* * * *
29840403 GTGTCATAGTATCTTTCAACTATGGTCTTATTCATCTCCGGA-ACA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTCGT-TCC-GATATA
*
29840448 ATACCATAGTATCTTTCAACTATGGTCTT-TCTCGTTCCGAATATA
1 ATGCCATAGTATCTTTCAACTATGGTCTTAT-TCGTTCCG-ATATA
* *
29840493 ATGCCATGGTATCTTTCAACCATGGTCTT
1 ATGCCATAGTATCTTTCAACTATGGTCTT
29840522 TCTCGTTTCT
Statistics
Matches: 171, Mismatches: 31, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
43 1 0.01
44 6 0.04
45 161 0.94
46 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.42
Consensus pattern (44 bp):
ATGCCATAGTATCTTTCAACTATGGTCTTATTCGTTCCGATATA
Found at i:29847744 original size:26 final size:26
Alignment explanation
Indices: 29847697--29847760 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
29847687 TATACATATA
*
29847697 TTATAT-ATATATGCATGACTTTATC
1 TTATATAATATATACATGACTTTATC
* * *
29847722 TTATATAATATATATATGGCTTTATT
1 TTATATAATATATACATGACTTTATC
* *
29847748 TTACATAGTATAT
1 TTATATAATATAT
29847761 GTAGGACCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (26 bp):
TTATATAATATATACATGACTTTATC
Found at i:29848198 original size:12 final size:12
Alignment explanation
Indices: 29848174--29848206 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
29848164 CGTTTCGTTA
29848174 TTTATCTTT-ATT
1 TTTAT-TTTCATT
29848186 TTTATTTTCATT
1 TTTATTTTCATT
29848198 TTTATTTTC
1 TTTATTTTC
29848207 CTTACAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.15
12 17 0.85
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTTCATT
Found at i:29849300 original size:30 final size:30
Alignment explanation
Indices: 29849266--29849325 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
29849256 TATAAAAAAA
*
29849266 AACTAT-CTACATATCTACATATATTTTTAT
1 AACTATGC-ACATATATACATATATTTTTAT
*
29849296 AACTATGCATATATATACATATATTTTTAT
1 AACTATGCACATATATACATATATTTTTAT
29849326 TTTCATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (30 bp):
AACTATGCACATATATACATATATTTTTAT
Found at i:29849375 original size:20 final size:20
Alignment explanation
Indices: 29849352--29849390 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29849342 TTATACATAC
29849352 GTATA-TTTTCATATATTTTT
1 GTATAGTTTT-ATATATTTTT
*
29849372 GTATAGTTTTATTTATTTT
1 GTATAGTTTTATATATTTT
29849391 ATTTATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.67
Consensus pattern (20 bp):
GTATAGTTTTATATATTTTT
Found at i:29852915 original size:19 final size:19
Alignment explanation
Indices: 29852874--29852916 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
29852864 TACTTCCTTT
*
29852874 TGCATTCATTTCATTCATC
1 TGCATTCATTTCATTCATA
29852893 TGCATTACATTTCATT-ATA
1 TGCATT-CATTTCATTCATA
29852912 TGCAT
1 TGCAT
29852917 CAAGTATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.47
Consensus pattern (19 bp):
TGCATTCATTTCATTCATA
Found at i:29854384 original size:16 final size:16
Alignment explanation
Indices: 29854363--29854430 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
29854353 TTTGGTTCGC
29854363 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
29854379 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
29854395 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
29854411 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
29854427 TGTA
1 TGTA
29854431 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:29854814 original size:14 final size:15
Alignment explanation
Indices: 29854765--29854816 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
29854755 ATAAAATATA
29854765 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
29854780 TATTAAATATATTAT
1 AATTAAATATATTAT
29854795 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
29854808 AATTTAATA
1 AATTAAATA
29854817 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:29854818 original size:59 final size:58
Alignment explanation
Indices: 29854649--29854945 Score: 164
Period size: 59 Copynumber: 5.0 Consensus size: 58
29854639 ATCATATTTA
* * *
29854649 AACATAATTATTATTAGATATATTATAATTAAAATATA-GAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATG-ATTTAATAAAA-TATAAAT
* * * * *
29854708 AATCA-ATATTCTTATATGAATTTACTCA-AA-TAATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAA-AATATATGAT-TTAATAAAATATAAA-T
* * *
29854769 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * * *
29854828 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTT
1 AACATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTAATAAAATATAA-AT
* * *
29854889 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAA
29854946 ATAATTATAA
Statistics
Matches: 176, Mismatches: 38, Indels: 49
0.67 0.14 0.19
Matches are distributed among these distances:
57 10 0.06
58 11 0.06
59 53 0.30
60 34 0.19
61 46 0.26
62 13 0.07
63 9 0.05
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAAT
Found at i:29854864 original size:120 final size:121
Alignment explanation
Indices: 29854649--29854941 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 121
29854639 ATCATATTTA
* *
29854649 AACATAATTATTATTAGATATATTATAATTAAAATATAGAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
29854714 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
*
29854769 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
29854834 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
* * *
29854890 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
29854942 TAAAATAATT
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 161 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
Found at i:29857796 original size:8 final size:8
Alignment explanation
Indices: 29857783--29857817 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
29857773 TAAAGATTCT
29857783 AAAAAAGA
1 AAAAAAGA
29857791 AAAAAAGA
1 AAAAAAGA
*
29857799 AACAAAG-
1 AAAAAAGA
29857806 AAAAAAGA
1 AAAAAAGA
29857814 AAAA
1 AAAA
29857818 GTAGAATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:29857811 original size:15 final size:16
Alignment explanation
Indices: 29857786--29857815 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29857776 AGATTCTAAA
29857786 AAAGAAAAAAAGAAAC
1 AAAGAAAAAAAGAAAC
29857802 AAAG-AAAAAAGAAA
1 AAAGAAAAAAAGAAA
29857816 AAGTAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAGAAAC
Found at i:29865307 original size:87 final size:87
Alignment explanation
Indices: 29865161--29865600 Score: 619
Period size: 87 Copynumber: 5.0 Consensus size: 87
29865151 AGTCATCATA
* * * * * *
29865161 ACCAGTCCTATCTCCATGAGCAGCAGTGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAAGT
1 ACCAGCCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
* **
29865226 AATAGTAAAGCAGATCGAAGGC
66 AGTAGTGGAGCAGATCGAAGGC
* * *
29865248 ACCAGCCCTATCTCCCTGATCAGCAGCGGAGTAGGTCAAAGATTGCAGATCTTATCTCCCTAAGC
1 ACCAGCCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
29865313 AGTAGTGGAGCAGATCGAAGGC
66 AGTAGTGGAGCAGATCGAAGGC
* * ** ** *
29865335 ACCAGCCATATCTCTCTTGAATAGCAGCAAAATAGGTCGAAGATTGTAGATCTTATCTCCCTAAG
1 ACCAGCCCTATCTC-CCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAG
29865400 CAGTAGTGGAGCAGATCGAAGGC
65 CAGTAGTGGAGCAGATCGAAGGC
* * * *
29865423 ACTAGCCCTATCTCCCTGAGCAACAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCTCTAAGT
1 ACCAGCCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
* *
29865488 AGTAGTGGAGTAGATCAAAGGC
66 AGTAGTGGAGCAGATCGAAGGC
* *
29865510 ACCAGCCCTATCTCCCTGAGCAACAGCAGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
1 ACCAGCCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
*
29865575 AGTAGTGGAGCAGATCGAAAGC
66 AGTAGTGGAGCAGATCGAAGGC
29865597 ACCA
1 ACCA
29865601 ATACCTCTAA
Statistics
Matches: 311, Mismatches: 41, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
87 234 0.75
88 77 0.25
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (87 bp):
ACCAGCCCTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAGGC
Found at i:29865419 original size:44 final size:44
Alignment explanation
Indices: 29865371--29865593 Score: 171
Period size: 44 Copynumber: 5.1 Consensus size: 44
29865361 GCAAAATAGG
*
29865371 TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
**** * * * ** * *
29865415 TCGAAGGCACTAG-CCCTATCTCCCTGAGCAACAGCGGAGTAGG
1 TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
* *
29865458 TCGAAGATTGTAGATCTTATCTCTCTAAGTAGTAGTGGAGTAGA
1 TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
* ***** * * * ** ** *
29865502 TCAAAGGCACCAG-CCCTATCTCCCTGAGCAACAGCAGAGTAGG
1 TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
*
29865545 TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
29865589 TCGAA
1 TCGAA
29865594 AGCACCAATA
Statistics
Matches: 121, Mismatches: 56, Indels: 4
0.67 0.31 0.02
Matches are distributed among these distances:
43 58 0.48
44 63 0.52
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (44 bp):
TCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
Found at i:29865436 original size:43 final size:44
Alignment explanation
Indices: 29865388--29865598 Score: 138
Period size: 43 Copynumber: 4.8 Consensus size: 44
29865378 TTGTAGATCT
*
29865388 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACTAG-CCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGGCACTAGACCC
* ** * * **** * *
29865431 TATCTCCCTGAGCAACAGCGGAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGGCACTAGACCC
* * * *
29865475 TATCTCTCTAAGTAGTAGTGGAGTAGATCAAAGGCACCAG-CCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGGCACTAGACCC
* ** ** * **** * *
29865518 TATCTCCCTGAGCAACAGCAGAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGGCACTAGACCC
* *
29865562 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCAC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGGCAC
29865599 CAATACCTCT
Statistics
Matches: 111, Mismatches: 55, Indels: 3
0.66 0.33 0.02
Matches are distributed among these distances:
43 57 0.51
44 54 0.49
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.22
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGGCACTAGACCC
Found at i:29865494 original size:175 final size:174
Alignment explanation
Indices: 29865192--29865600 Score: 602
Period size: 175 Copynumber: 2.3 Consensus size: 174
29865182 AGCAGTGGAG
* * * * **
29865192 TAGGTTGAAAATTGTAGATCTTATCTCCCTAAGTAATAGTAAAGCAGATCGAAGGCACCAGCCCT
1 TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACCAGCCCT
* *
29865257 ATCTCCCTGATCAGCAGCGGAGTAGGTCAAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ATCTCCCTGAGCAACAGCGGAGTAGGTCAAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGA
* * * *
29865322 GCAGATCGAAGGCACCAGCCATATCTCTCTTGAATAGCAGCAAAA
131 GCAGATCAAAGGCACCAGCCATATCTC-CCTGAACAACAGCAAAA
*
29865367 TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACTAGCCCT
1 TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACCAGCCCT
* * * *
29865432 ATCTCCCTGAGCAACAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCTCTAAGTAGTAGTGGA
66 ATCTCCCTGAGCAACAGCGGAGTAGGTCAAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGA
* * * * *
29865497 GTAGATCAAAGGCACCAGCCCTATCTCCCTGAGCAACAGCAGAG
131 GCAGATCAAAGGCACCAGCCATATCTCCCTGAACAACAGCAAAA
*
29865541 TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCA
1 TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACCA
29865601 ATACCTCTAA
Statistics
Matches: 210, Mismatches: 24, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
174 69 0.33
175 141 0.67
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (174 bp):
TAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGCACCAGCCCT
ATCTCCCTGAGCAACAGCGGAGTAGGTCAAAGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGA
GCAGATCAAAGGCACCAGCCATATCTCCCTGAACAACAGCAAAA
Found at i:29867252 original size:30 final size:30
Alignment explanation
Indices: 29867218--29867277 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
29867208 TTATAAAAAA
29867218 AACTAT-CTACATATATACATATATTTTTAT
1 AACTATGC-ACATATATACATATATTTTTAT
* *
29867248 AACTATGCATATATATACATATGTTTTTAT
1 AACTATGCACATATATACATATATTTTTAT
29867278 TTTCATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (30 bp):
AACTATGCACATATATACATATATTTTTAT
Found at i:29868792 original size:36 final size:36
Alignment explanation
Indices: 29868745--29868819 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
29868735 GTTATATTTT
*
29868745 GAACCATGTTAACTTGGTGAAT-TATATTATTATGGC
1 GAACCATGTTAACTTGGT-AATCTATATTAATATGGC
* *
29868781 GAACCATGTTAATTTGGTAATCTGTATTAATATGGC
1 GAACCATGTTAACTTGGTAATCTATATTAATATGGC
29868817 GAA
1 GAA
29868820 TTGCATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 3 0.09
36 32 0.91
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (36 bp):
GAACCATGTTAACTTGGTAATCTATATTAATATGGC
Found at i:29869207 original size:80 final size:79
Alignment explanation
Indices: 29869111--29869270 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 79
29869101 CATTGTGACT
29869111 TTATGGAACCATTGGATATAGTTGGCATGCCATAAGATTGTGAGTACTCACCCTTTTTTTCTCTA
1 TTATGGAACCATTGGATATAGTTGGCATGCCATAAGATTGTGAGTACTCACCC-TTTTTTCTCTA
29869176 ATGAGCATTATGGCC
65 ATGAGCATTATGGCC
* *
29869191 TTATGGAACCATTGGATATAGTTGGCATGCCATAAGATTGTGAGTACTCACCCTTTTTTCTGTGA
1 TTATGGAACCATTGGATATAGTTGGCATGCCATAAGATTGTGAGTACTCACCCTTTTTTCTCTAA
29869256 TGAGCATTATGGCC
66 TGAGCATTATGGCC
29869270 T
1 T
29869271 AGAGATGTGT
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
79 25 0.32
80 53 0.68
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (79 bp):
TTATGGAACCATTGGATATAGTTGGCATGCCATAAGATTGTGAGTACTCACCCTTTTTTCTCTAA
TGAGCATTATGGCC
Found at i:29869599 original size:17 final size:18
Alignment explanation
Indices: 29869565--29869611 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
29869555 ATTATACTGA
*
29869565 ATGAACTGTTA-AATTGT
1 ATGAACTGTTATTATTGT
29869582 ATGAACTGTTATTA-TGT
1 ATGAACTGTTATTATTGT
*
29869599 ATAAACTGTTATT
1 ATGAACTGTTATT
29869612 TCATATGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 26 0.96
18 1 0.04
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (18 bp):
ATGAACTGTTATTATTGT
Found at i:29872766 original size:38 final size:35
Alignment explanation
Indices: 29872715--29872793 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 35
29872705 TTTTTCTTTA
29872715 AATTGAATCATGATAGTAAAC-TAAACACAACATTAAAT
1 AATT-AATCATGATA-TAAACAT-AACACAACA-TAAAT
* *
29872753 AATTAATGCATGATATAAACATAACATAAGATAAAT
1 AATTAAT-CATGATATAAACATAACACAACATAAAT
29872789 AATTA
1 AATTA
29872794 TAAAGCAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
36 10 0.27
37 15 0.41
38 12 0.32
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (35 bp):
AATTAATCATGATATAAACATAACACAACATAAAT
Found at i:29872988 original size:60 final size:62
Alignment explanation
Indices: 29872874--29873073 Score: 195
Period size: 59 Copynumber: 3.3 Consensus size: 62
29872864 CTTTTTGGGG
* * *
29872874 CTTGAACTTGACAATGGTTCTCACATGGAGGGCTAAACTTTTCTCTTTTATCTAAGTTTA-TT
1 CTTGAACTTGACAATTGTTCTCACATGAAGGGCTAAACTTTTATCTTTTATCTAAG-TTAGTT
* *
29872936 CTTGAACTTG-CAATTGTTCTCACATTAAGGGTTAAA-TTATTAT-TTTTATCTAAGTTAGTT
1 CTTGAACTTGACAATTGTTCTCACATGAAGGGCTAAACTT-TTATCTTTTATCTAAGTTAGTT
* * * *
29872996 CCTGAACTTGACAATTGTT-TC-CAT-AAGGGCTTGAACCTTTT-T-TTTTGTCCAAGTTA-TT
1 CTTGAACTTGACAATTGTTCTCACATGAAGGGC-T-AAACTTTTATCTTTTATCTAAGTTAGTT
*
29873054 CTTTGAACTAGACAATTGTT
1 C-TTGAACTTGACAATTGTT
29873074 TCCACTTTGA
Statistics
Matches: 119, Mismatches: 12, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
58 8 0.07
59 36 0.30
60 30 0.25
61 35 0.29
62 10 0.08
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (62 bp):
CTTGAACTTGACAATTGTTCTCACATGAAGGGCTAAACTTTTATCTTTTATCTAAGTTAGTT
Found at i:29879674 original size:44 final size:44
Alignment explanation
Indices: 29879607--29879707 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 44
29879597 CCTTTATTTT
* *
29879607 AATCTGCTCCACTATAATATCAGGGAA-ATAGGATTACTGGCTTC
1 AATCTGCTCTACTATAATATCA-GGAAGATAAGATTACTGGCTTC
* * * *
29879651 AATCTGCTCTGCTGTAATCTCAGGAAGATAAGATTTCTGGCTTC
1 AATCTGCTCTACTATAATATCAGGAAGATAAGATTACTGGCTTC
29879695 AATCTGCTCTACT
1 AATCTGCTCTACT
29879708 TTAACCTCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 4 0.08
44 45 0.92
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (44 bp):
AATCTGCTCTACTATAATATCAGGAAGATAAGATTACTGGCTTC
Found at i:29879724 original size:44 final size:44
Alignment explanation
Indices: 29879638--29879729 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
29879628 AGGGAAATAG
* * *
29879638 GATTACTGGCTTCAATCTGCTCTGCTGTAATCTCAGGAAGATAA
1 GATTACTGGCTTCAATCTGCTCTACTGTAACCTCAAGAAGATAA
* *
29879682 GATTTCTGGCTTCAATCTGCTCTACTTTAACCTCACAG-AGATAA
1 GATTACTGGCTTCAATCTGCTCTACTGTAACCTCA-AGAAGATAA
29879726 GATT
1 GATT
29879730 CTTCGGTCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (44 bp):
GATTACTGGCTTCAATCTGCTCTACTGTAACCTCAAGAAGATAA
Found at i:29880029 original size:128 final size:128
Alignment explanation
Indices: 29879840--29880522 Score: 1127
Period size: 128 Copynumber: 5.3 Consensus size: 128
29879830 CTACAACTTC
* * * * *
29879840 AGGGAGATAGGATCTGTAGTTTCCCAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGATCAGGGATATAGGACTTGTGGC
29879905 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTTGATCTGCTCCGCTACTGCTT
65 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTTGATCTGCTCCGCTACTGCTT
* *
29879969 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGACATAGGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGATCAGGGATATAGGACTTGTGGCT
* *
29880034 TAAATCTGCTTCGTTACACTTGAAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTGCTT
66 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTTGATCTGCTCCGCTACTGCTT
* * * *
29880097 AGGGAGACAAGATATGTAATTTCCAACCTATCCCACTGCTAATCAGGGACATAGGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGATCAGGGATATAGGACTTGTGGCT
* * * *
29880162 TAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCTGTTATTGCTT
66 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTTGATCTGCTCCGCTACTGCTT
29880225 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGATCAGGGATATAGGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGATCAGGGATATAGGACTTGTGGCT
** *
29880290 TAAATCTGCTTCCTTACTTTTGAAGATAAGATTTGCCG-CTTTCGATCTGCTCCGCTACTACTT
66 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTT-GATCTGCTCCGCTACTGCTT
29880353 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGATCAGGGATATAGGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGATCAGGGATATAGGACTTGTGGCT
*
29880418 TAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCG-CTTTCGATCTGCTCCGCTACTGCTT
66 TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTT-GATCTGCTCCGCTACTGCTT
29880481 AGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTG
1 AGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTG
29880523 GTCAATGAGC
Statistics
Matches: 522, Mismatches: 30, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
127 4 0.01
128 480 0.92
129 38 0.07
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (128 bp):
AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGATCAGGGATATAGGACTTGTGGCT
TAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTTGATCTGCTCCGCTACTGCTT
Found at i:29881790 original size:7 final size:7
Alignment explanation
Indices: 29881771--29881815 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
29881761 TTAGCCTCTC
29881771 CATTTTT
1 CATTTTT
29881778 -ACTTTTT
1 CA-TTTTT
29881785 CATTTTTT
1 CA-TTTTT
29881793 CATTTTT
1 CATTTTT
29881800 CA-TTTT
1 CATTTTT
29881806 CATTTTT
1 CATTTTT
29881813 CAT
1 CAT
29881816 CTCTTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
6 7 0.21
7 19 0.56
8 8 0.24
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:29881798 original size:15 final size:15
Alignment explanation
Indices: 29881771--29881815 Score: 60
Period size: 13 Copynumber: 3.2 Consensus size: 15
29881761 TTAGCCTCTC
*
29881771 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
29881785 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
29881800 CA--TTTTCATTTTT
1 CATTTTTTCATTTTT
29881813 CAT
1 CAT
29881816 CTCTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 13 0.46
14 8 0.29
15 7 0.25
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:29884078 original size:14 final size:15
Alignment explanation
Indices: 29884045--29884081 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
29884035 GATAACAAAC
29884045 AAAAAAGAGAAACAG
1 AAAAAAGAGAAACAG
*
29884060 -AAAAAGA-AAATAG
1 AAAAAAGAGAAACAG
29884073 AAAAAAGAG
1 AAAAAAGAG
29884082 CAGAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (15 bp):
AAAAAAGAGAAACAG
Found at i:29884642 original size:22 final size:23
Alignment explanation
Indices: 29884578--29884655 Score: 80
Period size: 22 Copynumber: 3.7 Consensus size: 23
29884568 CTTAACATTG
* **
29884578 TTTTAAATTTATCATTAGTTTTA
1 TTTTAAATTTATCATAAGTACTA
29884601 TTTT-AA--TATCAT-A-TACTA
1 TTTTAAATTTATCATAAGTACTA
29884619 TTTTAAA-TTATCATAAGTACTA
1 TTTTAAATTTATCATAAGTACTA
29884641 -TTTAAATTTATCATA
1 TTTTAAATTTATCATA
29884656 TATCATAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
18 7 0.15
19 3 0.06
20 12 0.25
21 7 0.15
22 15 0.31
23 4 0.08
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (23 bp):
TTTTAAATTTATCATAAGTACTA
Found at i:29884643 original size:40 final size:42
Alignment explanation
Indices: 29884578--29884657 Score: 101
Period size: 40 Copynumber: 1.9 Consensus size: 42
29884568 CTTAACATTG
* ** *
29884578 TTTTAAATTTATCATTAGTTTTATTTTAA-TATCATATACTA
1 TTTTAAATTTATCATAAGTACTATTTAAATTATCATATACTA
29884619 TTTTAAA-TTATCATAAGTACTATTTAAATTTATCATATA
1 TTTTAAATTTATCATAAGTACTATTTAAA-TTATCATATA
29884658 TCATAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 17 0.52
41 7 0.21
42 9 0.27
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (42 bp):
TTTTAAATTTATCATAAGTACTATTTAAATTATCATATACTA
Found at i:29884892 original size:13 final size:14
Alignment explanation
Indices: 29884871--29884911 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
29884861 TTTCATACAT
29884871 TATTATTATATATA
1 TATTATTATATATA
29884885 TATT-TTATATATA
1 TATTATTATATATA
*
29884898 AATTATTAT-TATA
1 TATTATTATATATA
29884911 T
1 T
29884912 GATAGTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTATATATA
Found at i:29889692 original size:19 final size:19
Alignment explanation
Indices: 29889670--29889709 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
29889660 AATCAAAATC
29889670 AAAATCAAAAACCAAAAAGA
1 AAAATCAAAAA-CAAAAAGA
*
29889690 AAAATCAAAGACAAAAAGA
1 AAAATCAAAAACAAAAAGA
29889709 A
1 A
29889710 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.75, C:0.12, G:0.07, T:0.05
Consensus pattern (19 bp):
AAAATCAAAAACAAAAAGA
Found at i:29890147 original size:7 final size:7
Alignment explanation
Indices: 29890130--29890179 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
29890120 ATTCCAAAAA
29890130 AAAAGATG
1 AAAA-ATG
29890138 AAAAATG
1 AAAAATG
29890145 -AAAATG
1 AAAAATG
*
29890151 AAAAGTG
1 AAAAATG
29890158 AAAAAATG
1 -AAAAATG
29890166 AAAAA-G
1 AAAAATG
29890172 TAAAAATG
1 -AAAAATG
29890180 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 7 0.19
7 18 0.50
8 11 0.31
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:29890162 original size:21 final size:21
Alignment explanation
Indices: 29890130--29890169 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
29890120 ATTCCAAAAA
29890130 AAAAGATGAAAAATGAAAATG
1 AAAAGATGAAAAATGAAAATG
29890151 AAAAG-TGAAAAAATGAAAA
1 AAAAGATG-AAAAATGAAAA
29890170 AGTAAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.12
Consensus pattern (21 bp):
AAAAGATGAAAAATGAAAATG
Found at i:29890322 original size:42 final size:42
Alignment explanation
Indices: 29890263--29890353 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
29890253 GGCTCAAATA
*
29890263 TTGATCAGAATGGGGCATGAAGTGATTAGAGCTA-CTTGTATC
1 TTGATCAAAATGGGGCATGAAGTGATTAGAGC-AGCTTGTATC
29890305 TTGATCAAAATGGGGCATGAAGTGATTAGAGCAGCTTGTATC
1 TTGATCAAAATGGGGCATGAAGTGATTAGAGCAGCTTGTATC
29890347 TTGATCA
1 TTGATCA
29890354 GATCGAGGCG
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (42 bp):
TTGATCAAAATGGGGCATGAAGTGATTAGAGCAGCTTGTATC
Found at i:29891671 original size:44 final size:44
Alignment explanation
Indices: 29891623--29892096 Score: 251
Period size: 44 Copynumber: 10.8 Consensus size: 44
29891613 CCAGTAATTC
*
29891623 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
** * * ** * *
29891667 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * *
29891711 TACCTCCCTGTGGTTA-TAGTGGAGTA-CTTGAAGCCAGTA-A-TTC-
1 TATCTCCCTG-GG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* *
29891754 TATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
** * ** *
29891798 TATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCAGATTT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * *
29891842 TAACTCCCTGTGGTTA-CAGTGGAGTACATTGAA-A--CCAGTAAT-T
1 TATCTCCCTG-GG-CAGCAGTGGAGTAGATTGAAGATTACAG--ATCT
* *
29891885 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCT
1 -TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
** * ** *** *
29891930 TATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGAGGGCAGATTT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * *
29891974 TACCTCCTTGTGGTTA-CAGTGGAGTACATTGAAG--T-CAGTAAT-T
1 TATCTCCCTG-GG-CAGCAGTGGAGTAGATTGAAGATTACAG--ATCT
* *
29892017 CTA-CTTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCT
1 -TATC-TCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* ** * * *
29892062 TATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGAT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGAT
29892097 GGCGGATTTT
Statistics
Matches: 318, Mismatches: 81, Indels: 62
0.69 0.18 0.13
Matches are distributed among these distances:
41 4 0.01
42 19 0.06
43 53 0.17
44 186 0.58
45 46 0.14
46 10 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
Found at i:29891951 original size:132 final size:132
Alignment explanation
Indices: 29891559--29892264 Score: 1068
Period size: 132 Copynumber: 5.5 Consensus size: 132
29891549 ACAGCGAAGC
**
29891559 AGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
29891624 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
29891689 GT
131 GT
* *
29891691 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTAC-TTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
29891755 ATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
29891820 GT
131 GT
* * *
29891822 AGATTGAAGATGGCAGATTTTAACTCCCTGTGGTTACAGTGGAGTACATTGAAACCAGTAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
29891887 ATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
29891952 GT
131 GT
* * * *
29891954 AGATCAAAGAGGGCAGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGTCAGTAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * *
29892019 A-CTTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCTTAAGCAGTAGTGG
66 ATC-TCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGG
*
29892083 AGC
130 AGT
*
29892086 AGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* *
29892151 ACCTCCCT-------AGT----CAG--T--AGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
66 ATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
29892201 GT
131 GT
* ** * *
29892203 AGATCGAAGGTGGCAGATTTTACCTCCCTCAGGTTACAGTGGAGTATATTGAAGCCACTAAT
1 AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
29892265 CTTATCCCCC
Statistics
Matches: 538, Mismatches: 33, Indels: 21
0.91 0.06 0.04
Matches are distributed among these distances:
117 91 0.17
119 1 0.00
121 2 0.00
125 3 0.01
131 127 0.24
132 313 0.58
133 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
ATCTCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
GT
Found at i:29892276 original size:117 final size:117
Alignment explanation
Indices: 29892049--29892264 Score: 360
Period size: 117 Copynumber: 1.8 Consensus size: 117
29892039 AATAGATTGA
* *
29892049 AGATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCC
1 AGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCC
** *
29892114 TGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACCTCCCTAGTCAGT
66 TCAGGTTACAGTGGAGTACATTGAAGCCACTAATTCTACCTCCCTAGTCAGT
* *
29892166 AGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGGTGGCAGATTTTACCTCCC
1 AGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCC
*
29892231 TCAGGTTACAGTGGAGTATATTGAAGCCACTAAT
66 TCAGGTTACAGTGGAGTACATTGAAGCCACTAAT
29892265 CTTATCCCCC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 91 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (117 bp):
AGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCC
TCAGGTTACAGTGGAGTACATTGAAGCCACTAATTCTACCTCCCTAGTCAGT
Found at i:29894106 original size:64 final size:64
Alignment explanation
Indices: 29893946--29894115 Score: 201
Period size: 61 Copynumber: 2.7 Consensus size: 64
29893936 ATTTAGTTTT
* ** * *
29893946 TTATTAATTTAAT-TTTAAATCTAATTAGTGCATATTTTTGACATGGTTTTTTTTAAGATCTAGT
1 TTATTAA-TTAATGTTTAAATCTAATTAGTGCATATTTTT-ATATAATTATGTTTAAGATCTAGT
29894010 A
64 A
*
29894011 TTA-T--TTAATGTTT-AATCTCATTAGTGCATATTTTTATATAATTAATGTTT-A-ATCTAGTA
1 TTATTAATTAATGTTTAAATCTAATTAGTGCATATTTTTATATAATT-ATGTTTAAGATCTAGTA
29894070 TTATCTAATTAATGTTTAAATCTAATTAGTGCATATTTTTATATAA
1 TTAT-TAATTAATGTTTAAATCTAATTAGTGCATATTTTTATATAA
29894116 GTTTAATATA
Statistics
Matches: 91, Mismatches: 7, Indels: 15
0.81 0.06 0.13
Matches are distributed among these distances:
59 11 0.12
60 6 0.07
61 31 0.34
62 3 0.03
63 9 0.10
64 28 0.31
65 3 0.03
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (64 bp):
TTATTAATTAATGTTTAAATCTAATTAGTGCATATTTTTATATAATTATGTTTAAGATCTAGTA
Found at i:29894277 original size:27 final size:27
Alignment explanation
Indices: 29894206--29894278 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
29894196 TCTAAAGAAA
*
29894206 TATATGATAGT-ATTT-TCATACATTAT
1 TATATGATAGTAATTTAT-ATAAATTAT
29894232 TATAT-ATA-TATATTATATATAAATTAT
1 TATATGATAGTA-ATT-TATATAAATTAT
29894259 TATATGATAGTAATTTATAT
1 TATATGATAGTAATTTATAT
29894279 TTTTATCCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
24 1 0.03
25 3 0.08
26 8 0.20
27 19 0.47
28 7 0.17
29 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (27 bp):
TATATGATAGTAATTTATATAAATTAT
Found at i:29905124 original size:23 final size:22
Alignment explanation
Indices: 29905098--29905146 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 22
29905088 TTTTTCTTCT
29905098 TTTTAAATATTT-ATATCATTTTA
1 TTTTAAATATTTAATAT-A-TTTA
29905121 TTTT-AATATTTAATATATTTA
1 TTTTAAATATTTAATATATTTA
29905142 TTTTA
1 TTTTA
29905147 TTTTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.33
22 8 0.33
23 8 0.33
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTAAATATTTAATATATTTA
Found at i:29905992 original size:45 final size:45
Alignment explanation
Indices: 29905914--29906613 Score: 1174
Period size: 45 Copynumber: 15.5 Consensus size: 45
29905904 TACGTATGAT
* *
29905914 CACTTATCAC-TTGTC-CCTGATCAGATAAATGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
29905957 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
29906003 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
29906048 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
29906093 AATCTTATTACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
1 CA-CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
29906139 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
* *
29906184 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
*
29906230 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
29906276 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
29906321 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
29906366 CATCTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
1 CA-CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
29906412 CACTTATCACTTTGTCACTTGATCAAATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
29906457 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
29906503 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
29906548 CACTTATCACTTTGTCACTTGAACAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
29906593 CACTTATCACTTTTTCACTTG
1 CACTTATCACTTTGTCACTTG
29906614 GCTACCACTT
Statistics
Matches: 624, Mismatches: 22, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
43 10 0.02
44 5 0.01
45 348 0.56
46 261 0.42
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:29906038 original size:91 final size:91
Alignment explanation
Indices: 29905914--29906613 Score: 1198
Period size: 91 Copynumber: 7.7 Consensus size: 91
29905904 TACGTATGAT
* *
29905914 CACTTATCAC-TTGTC-CCTGATCAGATAAATGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
29905977 GATCAGATAAGTGTAGCTAAAGCTAC
66 GATCAGATAAGTGTAGCTAAAGCTAC
29906003 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
29906068 GATCAGATAAGTGTAGCTAAAGCTA-
66 GATCAGATAAGTGTAGCTAAAGCTAC
* *
29906093 AATCTTATTACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACT
1 CA-CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACT
*
29906158 TGATCAGATAAGTGTAGCT-AGGCTAC
65 TGATCAGATAAGTGTAGCTAAAGCTAC
* *
29906184 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCACT
29906249 TGATCAGATAAGTGTAGCTAAAGCTAC
65 TGATCAGATAAGTGTAGCTAAAGCTAC
29906276 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
29906341 GATCAGATAAGTGTAGCTAAAGCTA-
66 GATCAGATAAGTGTAGCTAAAGCTAC
29906366 CATCTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACT
1 CA-CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACT
* *
29906431 TGATCAAATAAGTGTAGCT-AGGCTAC
65 TGATCAGATAAGTGTAGCTAAAGCTAC
*
29906457 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCACT
*
29906522 TGATCAGATAAGTGTAGCT-AGGCTAC
65 TGATCAGATAAGTGTAGCTAAAGCTAC
* *
29906548 CACTTATCACTTTGTCACTTGAACAGATAAGTGTAGCTAGGCTACCACTTATCACTTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
29906613 G
66 G
29906614 GCTACCACTT
Statistics
Matches: 583, Mismatches: 19, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
89 10 0.02
90 114 0.20
91 416 0.71
92 43 0.07
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (91 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGTGTAGCTAAAGCTAC
Found at i:29906083 original size:136 final size:136
Alignment explanation
Indices: 29905914--29906613 Score: 1221
Period size: 136 Copynumber: 5.2 Consensus size: 136
29905904 TACGTATGAT
* * *
29905914 CACTTATCAC-TTGTC-CCTGATCAGATAAATGTAGCT-AGGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
29905976 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
66 TGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
29906041 AGGCTAC
130 AGGCTAC
* *
29906048 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA-AATCTTATTACTTTGTCAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA-CTTATCACTTTGTCAC
*
29906112 TTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
65 TTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
29906177 AGGCTAC
130 AGGCTAC
*
29906184 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
29906249 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
66 TGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
29906314 AGGCTAC
130 AGGCTAC
29906321 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA-CATCTTATCACTTTGTCAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA-CTTATCACTTTGTCAC
* *
29906385 TTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGATCAAATAAGTGTAGCT
65 TTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT
29906450 AGGCTAC
130 AGGCTAC
29906457 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
* *
29906522 TGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGAACAGATAAGTGTAGCTA
66 TGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
29906587 GGCTAC
131 GGCTAC
*
29906593 CACTTATCACTTTTTCACTTG
1 CACTTATCACTTTGTCACTTG
29906614 GCTACCACTT
Statistics
Matches: 542, Mismatches: 16, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
134 10 0.02
135 5 0.01
136 353 0.65
137 174 0.32
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (136 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
GGCTAC
Found at i:29906623 original size:26 final size:26
Alignment explanation
Indices: 29906587--29906639 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
29906577 AGTGTAGCTA
29906587 GGCTACCACTTATCACTTTTTCACTT
1 GGCTACCACTTATCACTTTTTCACTT
29906613 GGCTACCACTTATCACTTTTTCACTT
1 GGCTACCACTTATCACTTTTTCACTT
29906639 G
1 G
29906640 ATCAAATAAG
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:0.19, C:0.30, G:0.09, T:0.42
Consensus pattern (26 bp):
GGCTACCACTTATCACTTTTTCACTT
Found at i:29906626 original size:71 final size:72
Alignment explanation
Indices: 29906542--29906685 Score: 236
Period size: 71 Copynumber: 2.0 Consensus size: 72
29906532 AGTGTAGCTA
* *
29906542 GGCTACCACTTATCACTTTGTCACTTGAACAGATAAGTGTAGCT-AGGCTACCACTTATCACTTT
1 GGCTACCACTTATCACTTTGTCACTTGAACAAATAAGTGTAGCTAAAGCTACCACTTATCACTTT
*
29906606 TTCACTT
66 GTCACTT
* *
29906613 GGCTACCACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 GGCTACCACTTATCACTTTGTCACTTGAACAAATAAGTGTAGCTAAAGCTACCACTTATCACTTT
29906678 GTCACTT
66 GTCACTT
29906685 G
1 G
29906686 ATCAGATAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 41 0.61
72 26 0.39
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (72 bp):
GGCTACCACTTATCACTTTGTCACTTGAACAAATAAGTGTAGCTAAAGCTACCACTTATCACTTT
GTCACTT
Found at i:29906736 original size:46 final size:46
Alignment explanation
Indices: 29906614--29906737 Score: 221
Period size: 46 Copynumber: 2.7 Consensus size: 46
29906604 TTTTCACTTG
* *
29906614 GCTACCACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAA
1 GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
29906660 GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
1 GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
*
29906706 GCTGCCACTTATCACTTTGTCACTTGATCAGA
1 GCTACCACTTATCACTTTGTCACTTGATCAGA
29906738 AGTACTCAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (46 bp):
GCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAA
Found at i:29910530 original size:55 final size:55
Alignment explanation
Indices: 29910438--29910547 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 55
29910428 AAATTATAGA
* * * * *
29910438 TTGCAAATTAATTATTCATGAGCACTATTCAAGTTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCATAAGCAATAATAAAATTAAAAGTGATGATTTATCATC
29910493 TTGCAAATTAATTATTCATAAGCAATAATAAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCATAAGCAATAATAAAATTAAAAGTGATGATTTATCATC
29910548 CAATGAATAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (55 bp):
TTGCAAATTAATTATTCATAAGCAATAATAAAATTAAAAGTGATGATTTATCATC
Found at i:29915368 original size:55 final size:55
Alignment explanation
Indices: 29915308--29915417 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
29915298 AAATTACAGA
* *
29915308 TTGCAAATTAATTATTAATGAGCACTATTCAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTAATAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
*
29915363 TTGCAAATTAATTATTCATAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTAATAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
29915418 CAACGAATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (55 bp):
TTGCAAATTAATTATTAATAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
Found at i:29920222 original size:16 final size:17
Alignment explanation
Indices: 29920192--29920224 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
29920182 TTTCAAATAT
*
29920192 AATTTCCCCACAACCAA
1 AATTTCCCCAAAACCAA
29920209 AATTT-CCCAAAACCAA
1 AATTTCCCCAAAACCAA
29920225 CCAATTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (17 bp):
AATTTCCCCAAAACCAA
Found at i:29920354 original size:38 final size:39
Alignment explanation
Indices: 29920309--29920382 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
29920299 AAATTTTAAA
* * *
29920309 TCAACATATGCGTTT-ACCCCAACGGCTAAAAGAAATTT
1 TCAACATATCCATTTCACCCCAACAGCTAAAAGAAATTT
* *
29920347 TCAACATATCCATTTCATCCCAACAGTTAAAAGAAA
1 TCAACATATCCATTTCACCCCAACAGCTAAAAGAAA
29920383 ATTCCAAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 13 0.43
39 17 0.57
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (39 bp):
TCAACATATCCATTTCACCCCAACAGCTAAAAGAAATTT
Found at i:29924188 original size:32 final size:32
Alignment explanation
Indices: 29924139--29924206 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
29924129 TCCTAATTGG
* * *
29924139 TTTAGTTGTTTGTTTATTTTATTTTTATTTCT
1 TTTAGTTATTTGTTTATTTTATATTTATCTCT
29924171 TTTAGTTATTTAG-TTATTTTATATTTATCTCT
1 TTTAGTTATTT-GTTTATTTTATATTTATCTCT
29924203 TTTA
1 TTTA
29924207 TGATTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 31 0.97
33 1 0.03
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (32 bp):
TTTAGTTATTTGTTTATTTTATATTTATCTCT
Found at i:29924205 original size:15 final size:14
Alignment explanation
Indices: 29924155--29924215 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 14
29924145 TGTTTGTTTA
*
29924155 TTTTATTTTTATTTC
1 TTTTATATTTA-TTC
*
29924170 TTTTAGTTATTTAGTTA
1 TTTTA--TATTTA-TTC
29924187 TTTTATATTTATCTC
1 TTTTATATTTAT-TC
29924202 TTTTATGATTTATT
1 TTTTAT-ATTTATT
29924216 ATAATATAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 1 0.03
15 19 0.50
16 6 0.16
17 12 0.32
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (14 bp):
TTTTATATTTATTC
Found at i:29932009 original size:18 final size:18
Alignment explanation
Indices: 29931986--29932028 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
29931976 ACCCAATCTA
**
29931986 AACCCAACTATTCAACCC
1 AACCCAACTACCCAACCC
*
29932004 AACCCAATTACCCAACCC
1 AACCCAACTACCCAACCC
29932022 AACCCAA
1 AACCCAA
29932029 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.47, G:0.00, T:0.12
Consensus pattern (18 bp):
AACCCAACTACCCAACCC
Found at i:29932146 original size:9 final size:9
Alignment explanation
Indices: 29932132--29932189 Score: 75
Period size: 9 Copynumber: 6.4 Consensus size: 9
29932122 GTAGTGATTC
29932132 AATTCGGTT
1 AATTCGGTT
29932141 AATTCGAG-T
1 AATTCG-GTT
29932150 AATTCGGTT
1 AATTCGGTT
29932159 AATTCAGG-T
1 AATTC-GGTT
*
29932168 AATTAGGTT
1 AATTCGGTT
29932177 AATTCGGTT
1 AATTCGGTT
29932186 AATT
1 AATT
29932190 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 3 0.07
9 37 0.86
10 3 0.07
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:29932266 original size:25 final size:25
Alignment explanation
Indices: 29932238--29932286 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
29932228 TCGGTTAACC
29932238 AACCGAATTAACCAAAAAAATTTCA
1 AACCGAATTAACCAAAAAAATTTCA
*
29932263 AACCGAATTAACCGAAAAAATTTC
1 AACCGAATTAACCAAAAAAATTTC
29932287 GGTTTGGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.53, C:0.20, G:0.06, T:0.20
Consensus pattern (25 bp):
AACCGAATTAACCAAAAAAATTTCA
Found at i:29943437 original size:17 final size:18
Alignment explanation
Indices: 29943417--29943452 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
29943407 CACACTCATT
29943417 TTCTCAATGTTTTT-TTC
1 TTCTCAATGTTTTTCTTC
*
29943434 TTCTCCATGTTTTTCTTC
1 TTCTCAATGTTTTTCTTC
29943452 T
1 T
29943453 ATTGCTTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.08, C:0.22, G:0.06, T:0.64
Consensus pattern (18 bp):
TTCTCAATGTTTTTCTTC
Found at i:29952075 original size:5 final size:5
Alignment explanation
Indices: 29952065--29952089 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
29952055 TTGTATACGA
29952065 ATCAT ATCAT ATCAT ATCAT ATCAT
1 ATCAT ATCAT ATCAT ATCAT ATCAT
29952090 GTCCTACCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
ATCAT
Found at i:29954912 original size:34 final size:35
Alignment explanation
Indices: 29954868--29954934 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
29954858 CAGTAAAATA
*
29954868 TTTTCCGTAAAATGATTT-CAGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
* *
29954902 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACAGGAAAATATTTT
29954935 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACAGGAAAATATTTTAC
Found at i:29956122 original size:16 final size:16
Alignment explanation
Indices: 29956103--29956136 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
29956093 TTTTTTTAAA
29956103 TTTCCTTTATTTCATT
1 TTTCCTTTATTTCATT
*
29956119 TTTCCTTTGTTTCATT
1 TTTCCTTTATTTCATT
29956135 TT
1 TT
29956137 CTATGTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTCCTTTATTTCATT
Found at i:29960260 original size:11 final size:11
Alignment explanation
Indices: 29960241--29960288 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
29960231 TTATATCAAC
29960241 AAATGATTTTA
1 AAATGATTTTA
*
29960252 AAATTATTTTTA
1 AAATGA-TTTTA
29960264 AAA--ATTATTA
1 AAATGATT-TTA
29960274 AAATGATTTTA
1 AAATGATTTTA
29960285 AAAT
1 AAAT
29960289 CATCATCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 2 0.06
10 7 0.22
11 12 0.38
12 11 0.34
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (11 bp):
AAATGATTTTA
Found at i:29960482 original size:20 final size:20
Alignment explanation
Indices: 29960454--29960493 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
29960444 CTGTATTAAA
*
29960454 GAAATCTGTTCTTAAAATTC
1 GAAACCTGTTCTTAAAATTC
29960474 GAAACCTGTTCTTAAAATTC
1 GAAACCTGTTCTTAAAATTC
29960494 TTACACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (20 bp):
GAAACCTGTTCTTAAAATTC
Found at i:29961705 original size:22 final size:22
Alignment explanation
Indices: 29961680--29961771 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
29961670 AAATTCAATA
* *
29961680 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
29961702 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
*
29961724 TCAATTCCCTTCAAAATTTC-C
1 TCAATTCCCTTCAAAAATTCTC
* *
29961745 ATCAATTTCCTTCCAAAATTCTC
1 -TCAATTCCCTTCAAAAATTCTC
29961768 TCAA
1 TCAA
29961772 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:29961737 original size:44 final size:44
Alignment explanation
Indices: 29961680--29961771 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
29961670 AAATTCAATA
* * *
29961680 TCAATTTCTTTCAAAAATTCTC-TCAA-TTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTC-CATCAATTTCCTTCCAAAA-TTCTC
*
29961724 TCAATTCCCTTCAAAATTTCCATCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
29961768 TCAA
1 TCAA
29961772 ACTCTCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 30 0.71
45 11 0.26
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (44 bp):
TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
Found at i:29961787 original size:52 final size:52
Alignment explanation
Indices: 29961721--29961820 Score: 125
Period size: 52 Copynumber: 1.9 Consensus size: 52
29961711 TTCAAAATTT
* *
29961721 CTCTCAATTCCCTT-CAAAATTTCC-ATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA--TCCTATCAATTTCCTTCAAAAAATCTCTCAAA
*
29961773 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCT
29961821 AAATCCATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
51 3 0.07
52 30 0.71
53 9 0.21
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (52 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCTCAAA
Found at i:29961820 original size:22 final size:22
Alignment explanation
Indices: 29961773--29961814 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29961763 TTCTCTCAAA
*
29961773 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCAAAAATC
*
29961795 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCAAAAA
29961815 ATCTCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCAAAAATC
Found at i:29961919 original size:29 final size:30
Alignment explanation
Indices: 29961856--29961919 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
29961846 ATTAAATTTC
*
29961856 ATTTTTTAAGAAAATTTTAAAATTTTTTAT
1 ATTTTTTAAGAAAATTTTAAAATTTTTAAT
* *
29961886 TTTTTTTAA-ATAATTTTAAAATTTTTAAT
1 ATTTTTTAAGAAAATTTTAAAATTTTTAAT
29961915 ATTTT
1 ATTTT
29961920 CAACAATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
ATTTTTTAAGAAAATTTTAAAATTTTTAAT
Found at i:29964219 original size:23 final size:24
Alignment explanation
Indices: 29964183--29964272 Score: 76
Period size: 23 Copynumber: 3.8 Consensus size: 24
29964173 ACATTATTTG
* *
29964183 ATTAAAATCTCTAACCCTACTT-A
1 ATTAAAAACCCTAACCCTACTTAA
* ** *
29964206 CTTAAAAACCCTAA-TTTAATTAA
1 ATTAAAAACCCTAACCCTACTTAA
29964229 ATTAAAAACCCTAAACCCTACTTAA
1 ATTAAAAACCCT-AACCCTACTTAA
* * *
29964254 TTTTATAACCCTAACCCTA
1 ATTAAAAACCCTAACCCTA
29964273 ACCTAATTTA
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
22 4 0.08
23 23 0.45
24 9 0.18
25 15 0.29
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (24 bp):
ATTAAAAACCCTAACCCTACTTAA
Found at i:29964301 original size:28 final size:28
Alignment explanation
Indices: 29964266--29964631 Score: 438
Period size: 28 Copynumber: 13.4 Consensus size: 28
29964256 TTATAACCCT
**
29964266 AACCCTAACCTAATTTAATTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
*
29964294 AACCCTAACCTAACCTAATTTAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
* *
29964322 AAACCTAACCTAACCTACTTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
*
29964350 ACCCCTAACCTAACCTAATTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
***
29964378 AACCCTAACCTTATTTTAATTAAATTAAA
1 AACCCTAACC-TAACCTAATTAAATTAAA
*
29964407 AACCCTAACCTAACCTACTTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
*
29964435 AACCCTAACCTAACCTAATTTAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
29964463 AACCCTAACCTAA--T--TT-AATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
29964486 AACCCTAACCTAACCTAATTAAATTAAAAA
1 AACCCTAACCTAACCTAATTAAATT--AAA
*
29964516 CCCTAACCCTAACCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAACCTAATTAAATTAAA
29964548 AACCCTAACCTAA--T--TT-AATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
* *
29964571 AACCCTAACCTAACCTAATTTAATTCAA
1 AACCCTAACCTAACCTAATTAAATTAAA
29964599 AACCCTAACCTAA--T--TT-AATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
29964622 AACCCTAACC
1 AACCCTAACC
29964632 CTATTTAATT
Statistics
Matches: 299, Mismatches: 22, Indels: 39
0.83 0.06 0.11
Matches are distributed among these distances:
23 56 0.19
24 6 0.02
25 2 0.01
26 3 0.01
27 4 0.01
28 173 0.58
29 25 0.08
30 3 0.01
32 3 0.01
34 24 0.08
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (28 bp):
AACCCTAACCTAACCTAATTAAATTAAA
Found at i:29964414 original size:113 final size:109
Alignment explanation
Indices: 29964266--29964621 Score: 474
Period size: 113 Copynumber: 3.2 Consensus size: 109
29964256 TTATAACCCT
*
29964266 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAAACCTAAC
1 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAAC
*
29964331 CTAACCTACTTAAATTAAAACCCCTAACCTAACCTAATTAAATTAAA
66 CTAACCTA-TT-AATTAAAAACCCTAACCTAACCTAATT-AATTAAA
* * *
29964378 AACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCTAACCTACTTAAATTAAAAACCCTAA
1 AACCCTAACC-TAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAA
29964443 CCTAACCTAATTTAATTAAAAACCCTAACCTAA--T--TTAATTAAA
65 CCTAACCT-A-TTAATTAAAAACCCTAACCTAACCTAATTAATTAAA
**
29964486 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCCTAACCTAACCTAATTTAATTAAAAAC
1 AACCCTAACCTAATTTAATTAAATT--AAA----AACCCTAACCTAACCTAATTTAATTAAAAAC
*
29964551 CCTAACCTAA--T-TTAATTAAAAACCCTAACCTAACCTAATTTAATTCAA
60 CCTAACCTAACCTATTAATTAAAAACCCTAACCTAACCTAA-TTAATTAAA
29964599 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
29964622 AACCCTAACC
Statistics
Matches: 217, Mismatches: 14, Indels: 25
0.85 0.05 0.10
Matches are distributed among these distances:
107 12 0.06
108 39 0.18
109 5 0.02
110 1 0.00
111 2 0.01
112 10 0.05
113 145 0.67
114 3 0.01
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (109 bp):
AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAAC
CTAACCTATTAATTAAAAACCCTAACCTAACCTAATTAATTAAA
Found at i:29964493 original size:18 final size:20
Alignment explanation
Indices: 29964447--29964489 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
29964437 CCCTAACCTA
29964447 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
29964468 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
29964490 CTAACCTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:29964578 original size:18 final size:20
Alignment explanation
Indices: 29964532--29964574 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
29964522 CCCTAACCTA
29964532 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
29964553 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
29964575 CTAACCTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:29964628 original size:18 final size:18
Alignment explanation
Indices: 29964607--29964659 Score: 52
Period size: 23 Copynumber: 2.7 Consensus size: 18
29964597 AAAACCCTAA
29964607 CCTAATTTAATTAAAAAC
1 CCTAATTTAATTAAAAAC
29964625 CCTAACCCTATTTAATTAAAAAC
1 CCT-A----ATTTAATTAAAAAC
*
29964648 CCTAATTAAATT
1 CCTAATTTAATT
29964660 GTAGTTTTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
18 10 0.34
19 1 0.03
22 1 0.03
23 17 0.59
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
CCTAATTTAATTAAAAAC
Found at i:29967989 original size:84 final size:85
Alignment explanation
Indices: 29967793--29967996 Score: 374
Period size: 84 Copynumber: 2.4 Consensus size: 85
29967783 CAAACTTGCT
*
29967793 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTACTCAGAAACGTCAAAAAAA
29967858 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
* *
29967878 ACTGTAGCGAAATCGCGTCCACAAGGGCGCGATTTGACTCTATTTACTCAGAAACGTC-AAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTACTCAGAAACGTCAAAAAAA
29967942 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
29967962 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
29967997 CACAATTTCT
Statistics
Matches: 115, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
84 60 0.52
85 55 0.48
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (85 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTACTCAGAAACGTCAAAAAAA
AATTATTTCCTACATGACCA
Found at i:29968127 original size:125 final size:124
Alignment explanation
Indices: 29967917--29968186 Score: 339
Period size: 125 Copynumber: 2.2 Consensus size: 124
29967907 CGATTTGACT
*
29967917 CTATTTACTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGTCC
1 CTATTTACTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCAAAATCGCGTCC
* * *
29967982 ACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGATTTTATA
66 ACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCAGCGATTTTATA
* * *
29968041 CTATTTCCTCAGAAATTGTCAAAAAATAATTATTT-CTCACATGACC-ACTGTAGCAAAATTGCG
1 CTATTTACTCAGAAA-CGTCAAAAAA-AATTATTTCCT-ACATGACCAACTGTAGCAAAATCGCG
* * * * ** ***
29968104 TCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATTCTAGTAGAAGCGATTTCCCA
63 TCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCAGCGATTTTATA
29968166 CTATTTAAC-CAGAAACGTCAA
1 CTATTT-ACTCAGAAACGTCAA
29968187 CTCGAAAAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
124 19 0.15
125 88 0.71
126 17 0.14
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (124 bp):
CTATTTACTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCAAAATCGCGTCC
ACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTATCAGCGATTTTATA
Found at i:29974704 original size:551 final size:551
Alignment explanation
Indices: 29973655--29974750 Score: 1836
Period size: 551 Copynumber: 2.0 Consensus size: 551
29973645 TTTCTGGTGG
* *
29973655 CTTGTCCACAATATTATGTATCTGGCAGTAAATCCATAATTTCTGGTGGTTGGACCACATTTTGG
1 CTTGTCCACAATATTATGTATCTGGCAGTAAATCCACAATTTCTAGTGGTTGGACCACATTTTGG
* *
29973720 TGTGTTATTGGTTGGATGAGTTATGAGGAACTCTGTATGGCGTGTAGCGGAGTTGGGTAGGATTT
66 TGTGTTATTGGTTGAATGAGTTATGAGGAACTCTATATGGCGTGTAGCGGAGTTGGGTAGGATTT
*
29973785 AAGTTCTAATATCTGTATTGTATTCTAAAAATGTTGTATTAAATACGTCATTACGCAATCTGCCA
131 AAGTTCTAATATCTGTATTGTATTCTAAAAATGTTGTATTAAATACGTCATTACACAATCTGCCA
29973850 TATTTGATTTATAATTGAGTAATTTATATATGTTATGGACTGATTAATATGATGTTATAATGAAT
196 TATTTGATTTATAATTGAGTAATTTATATATGTTATGGACTGATTAATATGATGTTATAATGAAT
* * ** *
29973915 TGTTTTTGTGAAATAATTGTTATTTAAGACCTACATTGAGCCTTTTTAATCTTACCTCCTTAAAC
261 TATTTTTGTGAAATAATTGTTACTTAAGACCTACATTGAGAATTTTTAAGCTTACCTCCTTAAAC
* * *
29973980 TTTGATTTTAGATAATCGGGACTAGGATGGGCTTGGCTACGAAGGTACTCTTGGTTATTTTTTGA
326 TTTGATTTCAGATAATCGAGACTAGGATGGGCTTGGCTACGAAGGTACTCTTGGTTATTTTTCGA
*
29974045 AAAACCTTGCAAGTAGTGGTATTGGAAATTTTAGTTTTTGTTCATGCTTTATGGACTTTAATTTT
391 AAAACCTTGCAAGTAGTGGTATTGGAAATTTTAGTTTGTGTTCATGCTTTATGGACTTTAATTTT
*** * *
29974110 GGGACTTTGGTTTGGATTTTTGATTTGCGAAATTTGTATAATGTTTTGGGGTTTTTCTTTTCTGC
456 GGGACTTTGGTTCAAATTTTTGATTTGCGAAATTTGGATAATGTTTTGGAGTTTTTCTTTTCTGC
29974175 ATGATTTGTTAGGTTAAATTATAATGTTTTT
521 ATGATTTGTTAGGTTAAATTATAATGTTTTT
* *
29974206 CTTGTCCACAATATTATGTATCTGGCAGTAAATCTACAATTTTTAGTGGTTGGACCACATTTTGG
1 CTTGTCCACAATATTATGTATCTGGCAGTAAATCCACAATTTCTAGTGGTTGGACCACATTTTGG
*
29974271 TGTGTTATTGGTTGAATGAGTTAT-AGGGAACTCTATGTGGCGTGTAGCGGAGTTGGGTAGGATT
66 TGTGTTATTGGTTGAATGAGTTATGA-GGAACTCTATATGGCGTGTAGCGGAGTTGGGTAGGATT
* *
29974335 TAAGTTCTAATATCTGTATTGTATTCTAAAAATGTTGTATTAATTACGTCATTACACGATCTGCC
130 TAAGTTCTAATATCTGTATTGTATTCTAAAAATGTTGTATTAAATACGTCATTACACAATCTGCC
* *
29974400 ATATTTGATTTATAATTGAGTAATTTATATATGTTATGGGCTGATTAATATGATGTTATAATGAG
195 ATATTTGATTTATAATTGAGTAATTTATATATGTTATGGACTGATTAATATGATGTTATAATGAA
* * *
29974465 TTATTTTTGTTAAATTATTGTTACTTAAGACCTACATTGGGAATTTTTAAGCTTACC-CTCTTAA
260 TTATTTTTGTGAAATAATTGTTACTTAAGACCTACATTGAGAATTTTTAAGCTTACCTC-CTTAA
*
29974529 ACTTTGATTTCAGATAATCGAGACTAGGATGGGCTTGGCTACGAAGGTACTCTTGGTTGTTTTTC
324 ACTTTGATTTCAGATAATCGAGACTAGGATGGGCTTGGCTACGAAGGTACTCTTGGTTATTTTTC
* * *
29974594 GGAAAACCTTGCAAGTAGTGGTATTGGACATTTTAGTTTGTGTTCATGCTTTATGGACTTTATTT
389 GAAAAACCTTGCAAGTAGTGGTATTGGAAATTTTAGTTTGTGTTCATGCTTTATGGACTTTAATT
* *
29974659 TTGGGACTTTGGTTCAAATTTTTGATTTGTGAACTTTGGATAATGTTTTGGAGTTTTTCTTTTCT
454 TTGGGACTTTGGTTCAAATTTTTGATTTGCGAAATTTGGATAATGTTTTGGAGTTTTTCTTTTCT
*
29974724 GCATGATTTGTTATGTTAAATTATAAT
519 GCATGATTTGTTAGGTTAAATTATAAT
29974751 TTAAATAATT
Statistics
Matches: 507, Mismatches: 36, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
550 2 0.00
551 505 1.00
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.43
Consensus pattern (551 bp):
CTTGTCCACAATATTATGTATCTGGCAGTAAATCCACAATTTCTAGTGGTTGGACCACATTTTGG
TGTGTTATTGGTTGAATGAGTTATGAGGAACTCTATATGGCGTGTAGCGGAGTTGGGTAGGATTT
AAGTTCTAATATCTGTATTGTATTCTAAAAATGTTGTATTAAATACGTCATTACACAATCTGCCA
TATTTGATTTATAATTGAGTAATTTATATATGTTATGGACTGATTAATATGATGTTATAATGAAT
TATTTTTGTGAAATAATTGTTACTTAAGACCTACATTGAGAATTTTTAAGCTTACCTCCTTAAAC
TTTGATTTCAGATAATCGAGACTAGGATGGGCTTGGCTACGAAGGTACTCTTGGTTATTTTTCGA
AAAACCTTGCAAGTAGTGGTATTGGAAATTTTAGTTTGTGTTCATGCTTTATGGACTTTAATTTT
GGGACTTTGGTTCAAATTTTTGATTTGCGAAATTTGGATAATGTTTTGGAGTTTTTCTTTTCTGC
ATGATTTGTTAGGTTAAATTATAATGTTTTT
Found at i:29982628 original size:51 final size:51
Alignment explanation
Indices: 29982569--29983004 Score: 436
Period size: 51 Copynumber: 8.6 Consensus size: 51
29982559 TATCGATGAA
* * *
29982569 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
** * * * * *
29982620 CAAATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAA-ATGTTGGT
* * * * *
29982671 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
* * * *
29982722 CACATGTGTAGTATTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATG--TTGGT
* * * * * * *
29982773 CACGTGTGTAATATTGTGTGAAGGCTATTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
* * * *
29982824 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGC
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATG--TTGGT
** *
29982875 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
* * ** *
29982925 CACGTGTGTAGTACTATGTAAAGGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
29982975 CACGTGTGTAGTACTATGTGAAGGCTACTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTA
29983005 CGTGTATCGA
Statistics
Matches: 315, Mismatches: 60, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
49 2 0.01
50 87 0.28
51 221 0.70
52 4 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
Found at i:29982745 original size:102 final size:102
Alignment explanation
Indices: 29982569--29983014 Score: 637
Period size: 102 Copynumber: 4.4 Consensus size: 102
29982559 TATCGATGAA
* * *
29982569 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGTCAAATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGATCACATGTGTAGTAC
* *
29982634 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
*
29982671 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGATCACATGTGTAGTAT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGATCACATGTGTAGTAC
29982736 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * * *
29982773 CACGTGTGTAATATTGTGTGAAGGCTATTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGATCACATGTGTAGTAC
*
29982838 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGC
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * * *** *
29982875 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGATCACATGTGTAGTAC
* * * * *
29982939 TATGTAAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
* *
29982975 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
29983015 ATGATAAAAG
Statistics
Matches: 310, Mismatches: 32, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
100 39 0.13
101 42 0.14
102 229 0.74
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGATCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:29989970 original size:16 final size:16
Alignment explanation
Indices: 29989937--29989982 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
29989927 TTATCACCCA
*
29989937 TTTCATCTT--CTTCC
1 TTTCATCTTCACTTCT
29989951 TTTCATCTTCACTTCT
1 TTTCATCTTCACTTCT
29989967 TTTCATCTTCACTTCT
1 TTTCATCTTCACTTCT
29989983 CTCTCTAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 9 0.31
16 20 0.69
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTCATCTTCACTTCT
Found at i:30001837 original size:16 final size:15
Alignment explanation
Indices: 30001805--30001845 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
30001795 ATAAATAATA
*
30001805 AAAAGAATAAA-CAG
1 AAAAGAAAAAACCAG
30001819 AAAACGAAAAAACCAG
1 AAAA-GAAAAAACCAG
30001835 AAAAGAAAAAA
1 AAAAGAAAAAA
30001846 GAGCAAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 13 0.54
16 7 0.29
ACGTcount: A:0.76, C:0.10, G:0.12, T:0.02
Consensus pattern (15 bp):
AAAAGAAAAAACCAG
Found at i:30002685 original size:22 final size:23
Alignment explanation
Indices: 30002651--30002694 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
30002641 ACCCTACCCC
30002651 TAAAATATTAAAAACCATAACCT
1 TAAAATATTAAAAACCATAACCT
*
30002674 TAAAA-ATTAAAAACCTTAACC
1 TAAAATATTAAAAACCATAACC
30002695 CTATAAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.57, C:0.18, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAAATATTAAAAACCATAACCT
Found at i:30009299 original size:19 final size:19
Alignment explanation
Indices: 30009258--30009299 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
30009248 GAATAAAACT
*
30009258 TAAAATTAAATTTAGTTAA
1 TAAAATTAAACTTAGTTAA
*
30009277 TAAAATTAGACTTA-TTAA
1 TAAAATTAAACTTAGTTAA
30009295 CTAAA
1 -TAAA
30009300 TTTTTTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
TAAAATTAAACTTAGTTAA
Found at i:30011421 original size:22 final size:23
Alignment explanation
Indices: 30011375--30011439 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 23
30011365 ATAAAATTGT
*
30011375 TAAATA-TTAAAATAATATAATA
1 TAAATATTTAAAATAATATAAAA
30011397 TAAATATTTAAAA-AAT-TAAAAA
1 TAAATATTTAAAATAATAT-AAAA
*
30011419 TAAATGAGTTTAAATTAATAT
1 TAAAT-A-TTTAAAATAATAT
30011440 GATAGGATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
21 1 0.03
22 17 0.49
23 7 0.20
24 6 0.17
25 3 0.09
26 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (23 bp):
TAAATATTTAAAATAATATAAAA
Found at i:30012244 original size:17 final size:18
Alignment explanation
Indices: 30012209--30012246 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
30012199 GGTACAAATT
*
30012209 ACATCTTTCCATAACAAA
1 ACATCTTTCCATAAAAAA
*
30012227 ACAT-TTTCCTTAAAAAA
1 ACATCTTTCCATAAAAAA
30012244 ACA
1 ACA
30012247 AATCATGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (18 bp):
ACATCTTTCCATAAAAAA
Found at i:30015609 original size:22 final size:22
Alignment explanation
Indices: 30015581--30015625 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
30015571 TCTGTGCCTC
30015581 AGTTGTTCATGCTTCCAATTAA
1 AGTTGTTCATGCTTCCAATTAA
30015603 AGTTGTTCATGCTTCCAATTAA
1 AGTTGTTCATGCTTCCAATTAA
30015625 A
1 A
30015626 ATCATTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (22 bp):
AGTTGTTCATGCTTCCAATTAA
Found at i:30015633 original size:22 final size:22
Alignment explanation
Indices: 30015586--30015636 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
30015576 GCCTCAGTTG
* **
30015586 TTCATGCTTCCAATTAAAGTTG
1 TTCATGCTTCCAATTAAAATCA
30015608 TTCATGCTTCCAATTAAAATCA
1 TTCATGCTTCCAATTAAAATCA
30015630 TTCATGC
1 TTCATGC
30015637 ATTAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (22 bp):
TTCATGCTTCCAATTAAAATCA
Done.