Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 51 of 105
Found at i:9750533 original size:18 final size:18
Alignment explanation
Indices: 9750512--9750559 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
9750502 TTCCATATTT
9750512 TAAAATAATAAAATTAAA
1 TAAAATAATAAAATTAAA
9750530 TAAAGAT--TAAAGATTAAA
1 TAAA-ATAATAAA-ATTAAA
9750548 T-AAATAATAAAA
1 TAAAATAATAAAA
9750560 AATGAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 2 0.08
17 7 0.27
18 15 0.58
19 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (18 bp):
TAAAATAATAAAATTAAA
Found at i:9751533 original size:26 final size:26
Alignment explanation
Indices: 9751455--9751533 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 26
9751445 ATTAAAATGC
* *
9751455 CATTGGTAAAAATGTAAATATTAATG
1 CATTGGTAAAAATATAAATATTGATG
* * *
9751481 CA-T-GTGACAAATA-ACAAAAATG-T-
1 CATTGGT-AAAAATATA-AATATTGATG
9751504 CATTGGTAAAAATATAAATATTGATG
1 CATTGGTAAAAATATAAATATTGATG
9751530 CATT
1 CATT
9751534 TGAGAAGTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
23 2 0.05
24 16 0.42
25 14 0.37
26 6 0.16
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.32
Consensus pattern (26 bp):
CATTGGTAAAAATATAAATATTGATG
Found at i:9751575 original size:49 final size:49
Alignment explanation
Indices: 9751448--9751578 Score: 181
Period size: 49 Copynumber: 2.7 Consensus size: 49
9751438 ATAAATAATT
* * *
9751448 AAAATGCCATTGGTAAAAATGTAAATATTAATGCATGTGACAAATAACA
1 AAAATGTCATTGGTAAAAATATAAATATTGATGCATGTGACAAATAACA
* * * * *
9751497 AAAATGTCATTGGTAAAAATATAAATATTGATGCATTTGAGAAGTAGCG
1 AAAATGTCATTGGTAAAAATATAAATATTGATGCATGTGACAAATAACA
*
9751546 AAAATGTTATTGGTAAAAATATAAATATTGATG
1 AAAATGTCATTGGTAAAAATATAAATATTGATG
9751579 AATGAAAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.31
Consensus pattern (49 bp):
AAAATGTCATTGGTAAAAATATAAATATTGATGCATGTGACAAATAACA
Found at i:9753195 original size:2 final size:2
Alignment explanation
Indices: 9753188--9753214 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9753178 ATTTCATGTT
9753188 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9753215 CTTTTTGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9759263 original size:4 final size:4
Alignment explanation
Indices: 9759254--9759292 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
9759244 ATCATTTATG
*
9759254 CATT CATT CATT CATT CATT CATT TATT CATT CATT CAT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT CAT
9759293 CTATTTATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (4 bp):
CATT
Found at i:9759305 original size:16 final size:16
Alignment explanation
Indices: 9759254--9759297 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
9759244 ATCATTTATG
9759254 CATTCAT-TCATTCATT
1 CATTCATCT-ATTCATT
*
9759270 CATTCATTTATTCATT
1 CATTCATCTATTCATT
9759286 CATTCATCTATT
1 CATTCATCTATT
9759298 TATCCATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 25 0.96
17 1 0.04
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (16 bp):
CATTCATCTATTCATT
Found at i:9761714 original size:40 final size:41
Alignment explanation
Indices: 9761670--9761746 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
9761660 CCTCAAATAG
9761670 GTTCATTCTATAT-ACATTATCTCATTCATTCCACATAGCC
1 GTTCATTCTATATGACATTATCTCATTCATTCCACATAGCC
* *
9761710 GTTCATTCTATATGACATTTTCTTATTCATTCCACAT
1 GTTCATTCTATATGACATTATCTCATTCATTCCACAT
9761747 GACCCTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 13 0.38
41 21 0.62
ACGTcount: A:0.26, C:0.25, G:0.05, T:0.44
Consensus pattern (41 bp):
GTTCATTCTATATGACATTATCTCATTCATTCCACATAGCC
Found at i:9761738 original size:24 final size:24
Alignment explanation
Indices: 9761711--9761759 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9761701 CACATAGCCG
* * *
9761711 TTCATTCTATATGACATTTTCTTA
1 TTCATTCCACATGACACTTTCTTA
*
9761735 TTCATTCCACATGACCCTTTCTTA
1 TTCATTCCACATGACACTTTCTTA
9761759 T
1 T
9761760 AATAACTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.04, T:0.49
Consensus pattern (24 bp):
TTCATTCCACATGACACTTTCTTA
Found at i:9761893 original size:11 final size:11
Alignment explanation
Indices: 9761857--9761892 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
9761847 AGGGCATGTC
9761857 AAAAA-AATCA
1 AAAAATAATCA
9761867 AAAAATAATCA
1 AAAAATAATCA
9761878 AAAAATAAT-A
1 AAAAATAATCA
9761888 AAAAA
1 AAAAA
9761893 AAAAATATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 11 0.44
11 14 0.56
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAATAATCA
Found at i:9764739 original size:96 final size:96
Alignment explanation
Indices: 9764574--9764843 Score: 328
Period size: 96 Copynumber: 2.8 Consensus size: 96
9764564 ACCCAGATAT
* * * *** * * *
9764574 ATTTCCAAGACCTCTGGGTAAAACATTTTAAATTTTCAAAGTTTTAGCACCTTTATTACGATGAA
1 ATTTCTAAGACCTCTAGGTAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTATTACGAGGAG
*
9764639 CATTCAAATATTTCAAAGA-CTTCTACG-CATA
66 CATTCAAAGATTTCAAAGACCTT-T-CGACATA
* * * *
9764670 ATTTCTAAGGCCTCTAGATAAAATATTTTAAATTTTCAAAGTTTCAATGCCACTATTACGAGGAG
1 ATTTCTAAGACCTCTAGGTAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTATTACGAGGAG
*
9764735 CATTCAAAGATTTCAAAGACCTTTGGACATA
66 CATTCAAAGATTTCAAAGACCTTTCGACATA
* * * * *
9764766 ATTTCTAAGACTTCCAGGCAAAACATTTTAAATTTTTAAAGTTTCAATGCCTCTATTACAAGGAG
1 ATTTCTAAGACCTCTAGGTAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTATTACGAGGAG
9764831 CATTCAAAGATTT
66 CATTCAAAGATTT
9764844 TTAAGATCAT
Statistics
Matches: 148, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
95 1 0.01
96 144 0.97
97 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (96 bp):
ATTTCTAAGACCTCTAGGTAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTATTACGAGGAG
CATTCAAAGATTTCAAAGACCTTTCGACATA
Found at i:9764881 original size:22 final size:22
Alignment explanation
Indices: 9764853--9764901 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
9764843 TTTAAGATCA
9764853 TAAGACCTTTGAGCATAATCTC
1 TAAGACCTTTGAGCATAATCTC
* *
9764875 TAAGACCTTTGGGCATAATTTC
1 TAAGACCTTTGAGCATAATCTC
9764897 TAAGA
1 TAAGA
9764902 TCTCCTGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (22 bp):
TAAGACCTTTGAGCATAATCTC
Found at i:9764975 original size:126 final size:126
Alignment explanation
Indices: 9764750--9764976 Score: 339
Period size: 126 Copynumber: 1.8 Consensus size: 126
9764740 AAAGATTTCA
* * *
9764750 AAGACCTTTGGACATAATTTCTAAGACTTCCAGGCAAAACATTTTAAATTTTTAAAGTTTCAATG
1 AAGACCTTTGGACATAATTTCTAAGACTTCCAGGCAAAACATTTTAAAATTTCAAAGTTTCAACG
*
9764815 CCTCTATTACAAGGAGCATTCAAAGATTTTTAAGATCATAAGACCTTTGAGCATAATCTCT
66 CCTCTATTACAAGGAACATTCAAAGATTTTTAAGATCATAAGACCTTTGAGCATAATCTCT
* * * *
9764876 AAGACCTTTGGGCATAATTTCTAAGA-TCTCCTGGTAAAATATTTTAAAATTTCAAAGTTTCAAC
1 AAGACCTTTGGACATAATTTCTAAGACT-TCCAGGCAAAACATTTTAAAATTTCAAAGTTTCAAC
* * *
9764940 GCCTCTATTACGATGAACATTTAAAGATTTTTAAGAT
65 GCCTCTATTACAAGGAACATTCAAAGATTTTTAAGAT
9764977 TTGTAAGACC
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
125 1 0.01
126 88 0.99
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (126 bp):
AAGACCTTTGGACATAATTTCTAAGACTTCCAGGCAAAACATTTTAAAATTTCAAAGTTTCAACG
CCTCTATTACAAGGAACATTCAAAGATTTTTAAGATCATAAGACCTTTGAGCATAATCTCT
Found at i:9765097 original size:8 final size:8
Alignment explanation
Indices: 9765086--9765123 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
9765076 ATAAAACAAC
9765086 AAAAAAAG
1 AAAAAAAG
*
9765094 AAAAAAAAT
1 -AAAAAAAG
9765103 AAAAAAAG
1 AAAAAAAG
9765111 AAAAAAAG
1 AAAAAAAG
9765119 AAAAA
1 AAAAA
9765124 CCTTTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.89, C:0.00, G:0.08, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:9765114 original size:25 final size:25
Alignment explanation
Indices: 9765048--9765123 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 25
9765038 AATTCACAAA
*
9765048 AAAAAAACAAAAACAATACAAAAGCAATAT
1 AAAAAAACAAAAA-AAGA-AAAA--AA-AT
*
9765078 AAAACAACAAAAAAAGAAAAAAAAT
1 AAAAAAACAAAAAAAGAAAAAAAAT
*
9765103 AAAAAAAGAAAAAAAGAAAAA
1 AAAAAAACAAAAAAAGAAAAA
9765124 CCTTTCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 21 0.50
26 2 0.05
28 4 0.10
29 3 0.07
30 12 0.29
ACGTcount: A:0.82, C:0.08, G:0.05, T:0.05
Consensus pattern (25 bp):
AAAAAAACAAAAAAAGAAAAAAAAT
Found at i:9766106 original size:147 final size:144
Alignment explanation
Indices: 9765593--9766285 Score: 597
Period size: 145 Copynumber: 4.8 Consensus size: 144
9765583 TTTGCTGAGG
* * * * * * * * * **
9765593 AAGTATGAAACTAGCAAAATACCCCTAT-AAGGTATTTTCATAATTTGGTCTTTC-CAAGGTTGA
1 AAGTGTGAAATTACCAAAATACCCTTATAAAGGTATTTTCGTAATTT-GACATTCTCGAGCTCAA
* * *
9765656 ATTTTTATGAAACTTTTTAG-T-TTCAATTTCATAATATTTCATAATTTTTGGTGCATTTGAAAT
65 ATTTTCATGAAACTTTCTAGATCTT-AATTTCATAATATTTCATGATTTTTGGTGCA-TTGAAAT
* *
9765719 CACAGCAGTACCATTAA
128 CACAGCAGTACCCTGAA
* * * ** *
9765736 AAGTGTGAAATTACTAAAATACCCTTATAAAGGTATTTTCGTAATTTGCCATTTTTTAGCTTAAA
1 AAGTGTGAAATTACCAAAATACCCTTATAAAGGTATTTTCGTAATTTGACATTCTCGAGCTCAAA
* * * * *
9765801 TTTTCATGAAACTTTCCATATCTTGATTTCATAATATTTCATGATTTTTGGCGTAGTTGAAATCA
66 TTTTCATGAAACTTTCTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCA-TTGAAATCA
* * * **
9765866 CAACAATACCTTGGG
130 CAGCAGTACCCTGAA
* * * * *
9765881 AAGTGTAAAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATGT-ATCCTTCTCGAGCTCAA
1 AAGTGTGAAATTACCAAAATACCCTTATAAAGGTATTTTCGTAATTTGA-CATTCTCGAGCTCAA
** *
9765945 ATTTTTGTGAAACTTTCTAGATCTTAATTTCATAATATTTCATCATTTTTGGTGCATTGTAAATC
65 ATTTTCATGAAACTTTCTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTG-AAATC
*
9766010 ATAGCAGTACCCTCGAA
129 ACAGCAGTACCCT-GAA
* * * * *
9766027 AAGTATGAAATTACCAAAACACCTTTTATAAAGGTATTTTCGTAATTTGACATTCTCGAGCTTAG
1 AAGTGTGAAATTACCAAAATACC-CTTATAAAGGTATTTTCGTAATTTGACATTCTCGAGCTCAA
* * * *
9766092 ATTTACATGAAACTTTCAAGACCTTAATTCCATAATATTTCATGA--TTT--TGCATATGAAAT-
65 ATTTTCATGAAACTTTCTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCAT-TGAAATC
* * * *
9766152 AGTAGTAGTA-CCTTAGG
129 A-CAGCAGTACCCTGA-A
* * * * * *
9766169 AAGTGTGAAATTATCAAAGTA-CCTCTATAAAGGTATTTTCATAATTTGACCTT-TTGAGCTCAG
1 AAGTGTGAAATTACCAAAATACCCT-TATAAAGGTATTTTCGTAATTTGACATTCTCGAGCTCAA
* *
9766232 ATTTTCATAAAACTTT-TCAGATCTCAA-TTCTATAATATTTCATGATTTTTGGTG
65 ATTTTCATGAAACTTTCT-AGATCTTAATTTC-ATAATATTTCATGATTTTTGGTG
9766286 TTTTAAAATC
Statistics
Matches: 443, Mismatches: 88, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
139 2 0.00
140 44 0.10
141 28 0.06
142 24 0.05
143 43 0.10
144 45 0.10
145 163 0.37
146 23 0.05
147 70 0.16
148 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (144 bp):
AAGTGTGAAATTACCAAAATACCCTTATAAAGGTATTTTCGTAATTTGACATTCTCGAGCTCAAA
TTTTCATGAAACTTTCTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTGAAATCAC
AGCAGTACCCTGAA
Found at i:9771823 original size:39 final size:41
Alignment explanation
Indices: 9771780--9771858 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
9771770 TCTAAGAATT
9771780 AAGGAT-AAA-AACA-AGATAAATAATAA-AAATAAAATAAAC
1 AAGGATAAAAGAACATAGATAAAT-ATAATAAA-AAAATAAAC
*
9771819 AAGGATAAAAGAATATAGATAAATATAATAAAAAAATAAA
1 AAGGATAAAAGAACATAGATAAATATAATAAAAAAATAAA
9771859 AAAAAATCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
39 6 0.17
40 3 0.09
41 15 0.43
42 11 0.31
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.18
Consensus pattern (41 bp):
AAGGATAAAAGAACATAGATAAATATAATAAAAAAATAAAC
Found at i:9772070 original size:4 final size:4
Alignment explanation
Indices: 9772061--9772086 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9772051 TTGTTATTTG
9772061 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
9772087 TTGCAATGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:9772688 original size:101 final size:102
Alignment explanation
Indices: 9772481--9772691 Score: 230
Period size: 101 Copynumber: 2.1 Consensus size: 102
9772471 TTATGCTCGG
* * * *
9772481 AGGTTTTACAAATTGAATTTTGAAAAAGCTCCTTCCATACGAAGGCTCTATACCTTTAAAATTTA
1 AGGTCTTACAAATTGAATTTTGAAAAAGCTCCTTCCATAAGAAGGCTCTACAACTTTAAAATTTA
* *** * **
9772546 AAAAGACACCTGGAGGTTTTAAAAAGATTATGCCCGG
66 AAAAAACACCCAAAGGTTTTAAAAAGATTATACCCAA
** *
9772583 AGGTCTTACAAATTGAATTTTGAAAAAG-TTTTTCCATAAGAAGG-TTTCACAACTTTAAAATTT
1 AGGTCTTACAAATTGAATTTTGAAAAAGCTCCTTCCATAAGAAGGCTCT-ACAACTTTAAAATTT
* * *
9772646 AAAAAAATACCCAAAGGTTTTAGAAAGATCT-TACCTAA
65 AAAAAAACACCCAAAGGTTTTAAAAAGAT-TATACCCAA
9772684 AGGTCTTA
1 AGGTCTTA
9772692 TAGATCATGC
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
100 2 0.02
101 60 0.67
102 28 0.31
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (102 bp):
AGGTCTTACAAATTGAATTTTGAAAAAGCTCCTTCCATAAGAAGGCTCTACAACTTTAAAATTTA
AAAAAACACCCAAAGGTTTTAAAAAGATTATACCCAA
Found at i:9774147 original size:22 final size:20
Alignment explanation
Indices: 9774106--9774164 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 20
9774096 CCTTTACATC
*
9774106 TCTTTCATTATTTTTTTTCTT
1 TCTTTC-TTTTTTTTTTTCTT
*
9774127 TTTTTCTTATTTTATTTTTCTT
1 TCTTTCTT-TTTT-TTTTTCTT
9774149 TCTTTCTTTTTTTTTT
1 TCTTTCTTTTTTTTTT
9774165 GCATGAGTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 6 0.18
21 12 0.36
22 15 0.45
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (20 bp):
TCTTTCTTTTTTTTTTTCTT
Found at i:9780157 original size:2 final size:2
Alignment explanation
Indices: 9780150--9780184 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9780140 TAAAGATCAT
9780150 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9780185 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9780189 original size:2 final size:2
Alignment explanation
Indices: 9780184--9780221 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9780174 TCTCTCTCTC
9780184 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9780222 CACAAGGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9781312 original size:2 final size:2
Alignment explanation
Indices: 9781305--9781339 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9781295 GAACCGCCAT
9781305 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9781340 TATTACTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9782932 original size:8 final size:8
Alignment explanation
Indices: 9782891--9782934 Score: 56
Period size: 7 Copynumber: 5.6 Consensus size: 8
9782881 ATTGATGGAG
9782891 TTTTTCTT
1 TTTTTCTT
*
9782899 TTTTCCTT
1 TTTTTCTT
9782907 TTTTTCATT
1 TTTTTC-TT
9782916 TTTTT-TT
1 TTTTTCTT
9782923 TTTTT-TT
1 TTTTTCTT
9782930 TTTTT
1 TTTTT
9782935 GCATACACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 14 0.42
8 12 0.36
9 7 0.21
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTCTT
Found at i:9785604 original size:144 final size:144
Alignment explanation
Indices: 9785387--9785787 Score: 440
Period size: 144 Copynumber: 2.8 Consensus size: 144
9785377 GAGAAAGGCA
* *
9785387 AAATTA-TCAAAATACCCTTATAAGGGGTATTTTTGTAATTTGACCTT-TCTGAGCTCAGATTTT
1 AAATTACT-AAAATACCCTTATAA-GGATATTTTTGTAATTTGACCTTCTC-GAGCTCGGATTTT
* * * * *
9785450 TTTGAAACTTTTCATATCTCAATTTTATAACATTTCATGATTTTTGGTGCATTTAAAATCACAGC
63 TGT-AAACTTTTCAAATCTCAATTTCATAATATTTCATGATTTTTGGTGCATCTAAAATCACAGC
9785515 AAT-CCTTC-GAGAA-TGTG
127 AATACC-TCAGA-AAGTGTG
*
9785532 AAATTACTAAAATACCCTTATAAGGATATTTTTGTAATTTGACCTTCTCGAGCTTGGATTTTTGT
1 AAATTACTAAAATACCCTTATAAGGATATTTTTGTAATTTGACCTTCTCGAGCTCGGATTTTTGT
* * * * *
9785597 ATAACTTTCCAAATCTTAATTTCATAATATTTCATGA-TTTTGGTGCATCTAAAATCATAGTAGT
66 A-AACTTTTCAAATCTCAATTTCATAATATTTCATGATTTTTGGTGCATCTAAAATCACAGCAAT
9785661 ACCTCAGAAAGTGTG
130 ACCTCAGAAAGTGTG
* ** ** * * *
9785676 AAATTACCAAAATATACTTATAA-GAGTATTTTCATAATTTGGCTTTCTCGAGCTCGAATTTATA
1 AAATTACTAAAATACCCTTATAAGGA-TATTTTTGTAATTTGACCTTCTCGAGCTCGGATTT-T-
* * *
9785740 CG-AAACTTTTCAAATCTCAATTTCATAATATTTTATGATTGTTGGTGC
63 TGTAAACTTTTCAAATCTCAATTTCATAATATTTCATGATTTTTGGTGC
9785788 TTCCTGAAAA
Statistics
Matches: 219, Mismatches: 27, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
143 30 0.14
144 154 0.70
145 33 0.15
146 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (144 bp):
AAATTACTAAAATACCCTTATAAGGATATTTTTGTAATTTGACCTTCTCGAGCTCGGATTTTTGT
AAACTTTTCAAATCTCAATTTCATAATATTTCATGATTTTTGGTGCATCTAAAATCACAGCAATA
CCTCAGAAAGTGTG
Found at i:9790787 original size:12 final size:11
Alignment explanation
Indices: 9790770--9790826 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
9790760 CAAAGATTTA
9790770 ATTAATTTTATT
1 ATTAATTTT-TT
9790782 ATTAATTTTTT
1 ATTAATTTTTT
* *
9790793 AATACTTTTTT
1 ATTAATTTTTT
*
9790804 ATTTATTATATTT
1 ATTAATT-T-TTT
*
9790817 ATTACTTTTT
1 ATTAATTTTT
9790827 AAGTATTGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
11 17 0.47
12 11 0.31
13 8 0.22
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTAATTTTTT
Found at i:9790817 original size:24 final size:23
Alignment explanation
Indices: 9790765--9790826 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
9790755 ATCATCAAAG
*
9790765 ATTTAATTAATTTTATTATTAATTT
1 ATTTAA-TACTTTT-TTATTAATTT
*
9790790 -TTTAATACTTTTTTATTTATTAT
1 ATTTAATACTTTTTTATTAATT-T
*
9790813 ATTTATTACTTTTT
1 ATTTAATACTTTTT
9790827 AAGTATTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 8 0.25
23 7 0.22
24 17 0.53
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTAATACTTTTTTATTAATTT
Found at i:9805970 original size:48 final size:48
Alignment explanation
Indices: 9805912--9806012 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
9805902 CTTTTTTAAT
* * * *
9805912 TTATATCAAAATTTATC-AATATTTACTTATATTATACCAAAATCAAAA
1 TTATACCAAAAGTTATCAAAT-TTTACTTATAGTAAACCAAAATCAAAA
* *
9805960 TTATACCAAAAGTTATTAAATTTTACTTATAGTAAACTAAAATCAAAA
1 TTATACCAAAAGTTATCAAATTTTACTTATAGTAAACCAAAATCAAAA
9806008 TTATA
1 TTATA
9806013 TTATTATTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 43 0.93
49 3 0.07
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.39
Consensus pattern (48 bp):
TTATACCAAAAGTTATCAAATTTTACTTATAGTAAACCAAAATCAAAA
Found at i:9807188 original size:226 final size:226
Alignment explanation
Indices: 9806506--9807299 Score: 776
Period size: 226 Copynumber: 3.4 Consensus size: 226
9806496 AAGTTTATTA
* * *
9806506 AAAAAAATTTATCACAAATAAAATTTTAAATTGGTGACAAAATTATAACGTCACCTAAAATAAAA
1 AAAAAAATTTGTCACAGATAAAATTTTAAATTAGTGACAAAA-TAT-A--T---CTAAAATAAAA
* ** *
9806571 AATGT--CATAAAAATTTTCCTATTAAATAAATTTGATGGTAAAAGTTTGTGACATTTCAGTTA-
59 AATGTCACAAAAAAATTTTCC-ACCAAATAAATTTGATGGTAAAAGTTTGTGACATTT-ATTTAT
* *
9806633 -TCATATAACACTATATATTGACATGACGAAATTGCAATGTCATTAATAATTAACTAAAGTATTC
122 CTCATATAATACTATAAATTGACATGACGAAATTGCAATGTCATTAATAATTAACTAAAGTATTC
* * * *
9806697 AATTTGTGATAAAAATTAATAAC-ACACCTAAAATCTATG
187 AATTTATGACAAAAATTAATAACGTCACCTAAAATCTATC
* *
9806736 AAAAAAATTTATCACAGATAAAATTTTAAATTAGTGACAAAATTATAACGTCGATTAAAATACAA
1 AAAAAAATTTGTCACAGATAAAATTTTAAATTAGTGACAAAA-TAT-A--TC---TAAAATAAAA
* ** * * *** *
9806801 AATGTCACAAAAGAATTTTTTTACCAAATAAAATTAACAATAAAAATTTGTGACATTTATGTTAT
59 AATGTCACAAAA-AAATTTTCCACCAAATAAATTTGATGGTAAAAGTTTGTGACATTTAT-TTAT
* * * * * *
9806866 CATCATATAATACCATAAAAT-AAAGGTGACAAAATTGCAATGTCATTAATAGTTAACTAAAGCA
122 C-TCATATAATACTATAAATTGACA--TGACGAAATTGCAATGTCATTAATAATTAACTAAAGTA
* * * * *
9806930 CTCCATTTCTGACAAAAATTGATAACGTCACCTAAAATCTATT
184 TTCAATTTATGACAAAAATTAATAACGTCACCTAAAATCTATC
*
9806973 AGAAAAAATTTGTCATAGATAAAATTTTAAATTAGTGACAAAAT-T-TCTAAAATAAAAAATGTC
1 A-AAAAAATTTGTCACAGATAAAATTTTAAATTAGTGACAAAATATATCTAAAATAAAAAATGTC
* *
9807036 ACAAAAAAATTTTCCACCAATTAAATTTGGTGGTAAAAGTTTGTGACATTTATTTATCGTCATAT
65 ACAAAAAAATTTTCCACCAAATAAATTTGATGGTAAAAGTTTGTGACATTTATTTATC-TCATAT
* * * * * * * *
9807101 ATTACTATACATTGACTTGACGAAATTGCAATATCATTAATACTTGACTAAAATGTTCAATTTAT
129 AATACTATAAATTGACATGACGAAATTGCAATGTCATTAATAATTAACTAAAGTATTCAATTTAT
9807166 GACAAAAATTAATAACGTCACCTAAAATCTATC
194 GACAAAAATTAATAACGTCACCTAAAATCTATC
* ** *
9807199 AAAATAAAATTGTCACAGATAAAATTTTAAATTCCTGACGAAATTATAATGTCACCTAAAATAAA
1 AAAA-AAATTTGTCACAGATAAAATTTTAAATTAGTGAC-AAA--AT-A--T-ATCTAAAATAAA
* **
9807264 AAATGTCACAAAAATATTTTTTACCAAATAAATTTG
58 AAATGTCACAAAAAAATTTTCCACCAAATAAATTTG
9807300 TGACATTATC
Statistics
Matches: 466, Mismatches: 73, Indels: 45
0.80 0.12 0.08
Matches are distributed among these distances:
225 3 0.01
226 100 0.21
227 24 0.05
228 37 0.08
229 23 0.05
230 63 0.14
231 1 0.00
232 37 0.08
233 7 0.02
234 2 0.00
235 57 0.12
236 57 0.12
237 16 0.03
238 39 0.08
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (226 bp):
AAAAAAATTTGTCACAGATAAAATTTTAAATTAGTGACAAAATATATCTAAAATAAAAAATGTCA
CAAAAAAATTTTCCACCAAATAAATTTGATGGTAAAAGTTTGTGACATTTATTTATCTCATATAA
TACTATAAATTGACATGACGAAATTGCAATGTCATTAATAATTAACTAAAGTATTCAATTTATGA
CAAAAATTAATAACGTCACCTAAAATCTATC
Found at i:9813641 original size:19 final size:19
Alignment explanation
Indices: 9813604--9813641 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9813594 AAAACTGATC
9813604 TATTAATATCAAAAGATTA
1 TATTAATATCAAAAGATTA
*
9813623 TATTATATATTAAAA-ATTA
1 TATTA-ATATCAAAAGATTA
9813642 AAAAAATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (19 bp):
TATTAATATCAAAAGATTA
Found at i:9815544 original size:16 final size:17
Alignment explanation
Indices: 9815525--9815556 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9815515 AATGGTAAAT
9815525 TAAAAATT-AAAGAAAG
1 TAAAAATTAAAAGAAAG
9815541 TAAAAATTAAAAGAAA
1 TAAAAATTAAAAGAAA
9815557 AATTAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (17 bp):
TAAAAATTAAAAGAAAG
Found at i:9816952 original size:28 final size:28
Alignment explanation
Indices: 9816921--9816974 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
9816911 TATAGGGTTT
9816921 TTCTCTTCTTTTCCTTTGAATTTTTCAC
1 TTCTCTTCTTTTCCTTTGAATTTTTCAC
* ** *
9816949 TTCTCTTTTTTTTTTTTTAATTTTTC
1 TTCTCTTCTTTTCCTTTGAATTTTTC
9816975 CCAAAAGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (28 bp):
TTCTCTTCTTTTCCTTTGAATTTTTCAC
Found at i:9834085 original size:19 final size:19
Alignment explanation
Indices: 9834049--9834093 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
9834039 TTTTATTATG
*
9834049 ATATTTTTATTAGTAAAAT
1 ATATTTTTAATAGTAAAAT
9834068 ACTATTTTTAATAG-AAAAT
1 A-TATTTTTAATAGTAAAAT
9834087 ATATTTT
1 ATATTTT
9834094 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.25
19 7 0.29
20 11 0.46
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (19 bp):
ATATTTTTAATAGTAAAAT
Found at i:9834095 original size:17 final size:18
Alignment explanation
Indices: 9834049--9834095 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
9834039 TTTTATTATG
*
9834049 ATAT-TTTTATTAGTAAA
1 ATATATTTTAATAGTAAA
9834066 ATACTATTTTTAATAG-AAA
1 ATA-TA-TTTTAATAGTAAA
9834085 ATATATTTTAA
1 ATATATTTTAA
9834096 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 9 0.35
18 3 0.12
19 6 0.23
20 8 0.31
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (18 bp):
ATATATTTTAATAGTAAA
Found at i:9834752 original size:22 final size:22
Alignment explanation
Indices: 9834726--9834773 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9834716 AATAAAAAAT
* *
9834726 ATTTAACAAATA-AAATCTTATA
1 ATTTAAAAAATATAAA-ATTATA
9834748 ATTTAAAAAATATAAAATTATA
1 ATTTAAAAAATATAAAATTATA
9834770 ATTT
1 ATTT
9834774 TAAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTTAAAAAATATAAAATTATA
Found at i:9840396 original size:21 final size:19
Alignment explanation
Indices: 9840359--9840397 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
9840349 TGCATTTACA
*
9840359 TATTTTAAGGATTTCAAGC
1 TATTTTAAGGATATCAAGC
9840378 TATTTTAAATGGATATCAAG
1 TATTTT-AA-GGATATCAAG
9840398 AGTGCATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (19 bp):
TATTTTAAGGATATCAAGC
Found at i:9845761 original size:7 final size:8
Alignment explanation
Indices: 9845744--9845770 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9845734 TTTTACTATT
9845744 AAAAATAA
1 AAAAATAA
9845752 AAAAATAA
1 AAAAATAA
9845760 AAAAATAA
1 AAAAATAA
9845768 AAA
1 AAA
9845771 TTTTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:9846522 original size:19 final size:20
Alignment explanation
Indices: 9846488--9846529 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
9846478 AAATTTGATA
9846488 ATGTGTCCATTAACTTGCTG
1 ATGTGTCCATTAACTTGCTG
* *
9846508 ATGTGT-CATTGACTTGTTG
1 ATGTGTCCATTAACTTGCTG
9846527 ATG
1 ATG
9846530 AGGCAAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.19, C:0.14, G:0.24, T:0.43
Consensus pattern (20 bp):
ATGTGTCCATTAACTTGCTG
Found at i:9851469 original size:14 final size:15
Alignment explanation
Indices: 9851450--9851478 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9851440 ATTTAGGACT
9851450 TAATA-TAATTTTGA
1 TAATATTAATTTTGA
9851464 TAATATTAATTTTGA
1 TAATATTAATTTTGA
9851479 GAAATAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
TAATATTAATTTTGA
Found at i:9859193 original size:18 final size:18
Alignment explanation
Indices: 9859152--9859194 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9859142 AAAAAAAAGA
9859152 ATAAAATAATTTAAATAC
1 ATAAAATAATTTAAATAC
* *
9859170 A-AAAAAAATGTTAAATAT
1 ATAAAATAAT-TTAAATAC
9859188 ATAAAAT
1 ATAAAAT
9859195 CAAATATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAAAATAATTTAAATAC
Found at i:9865062 original size:32 final size:32
Alignment explanation
Indices: 9865026--9865088 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
9865016 GGAGGGCAAT
9865026 TTAAGAATAACCCCCACCTTACTCGTCTCCAC
1 TTAAGAATAACCCCCACCTTACTCGTCTCCAC
9865058 TTAAGAATAACCCCCACCTTACTCGTCTCCA
1 TTAAGAATAACCCCCACCTTACTCGTCTCCA
9865089 AAGACAGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.40, G:0.06, T:0.25
Consensus pattern (32 bp):
TTAAGAATAACCCCCACCTTACTCGTCTCCAC
Found at i:9869474 original size:26 final size:26
Alignment explanation
Indices: 9869445--9869499 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
9869435 CATGTTAAAA
9869445 ATAGCATGTTTGTGATCATCTTTGGC
1 ATAGCATGTTTGTGATCATCTTTGGC
*
9869471 ATAGCATGTTTGTGATCGTCTTTGGC
1 ATAGCATGTTTGTGATCATCTTTGGC
9869497 ATA
1 ATA
9869500 CTTTAATGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.42
Consensus pattern (26 bp):
ATAGCATGTTTGTGATCATCTTTGGC
Found at i:9871144 original size:38 final size:38
Alignment explanation
Indices: 9871101--9871182 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
9871091 TATTCAATAT
* *
9871101 TTAAATTATTAATACATAATTTTATTTTATTTTTACAA
1 TTAAATTATAAATACATAATTTTATTTTACTTTTACAA
* *
9871139 TTAAATTATAAATATATAATTTTATTTTACTTTTGCAA
1 TTAAATTATAAATACATAATTTTATTTTACTTTTACAA
*
9871177 TGAAAT
1 TTAAAT
9871183 GTGGACTTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (38 bp):
TTAAATTATAAATACATAATTTTATTTTACTTTTACAA
Found at i:9871460 original size:23 final size:23
Alignment explanation
Indices: 9871434--9871478 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9871424 TTTTTGAAAT
*
9871434 AAAAAAATTAAAAAATATAAAAC
1 AAAAAAATTAAAAAATAAAAAAC
* *
9871457 AAAAACATTCAAAAATAAAAAA
1 AAAAAAATTAAAAAATAAAAAA
9871479 AATGGAAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAAAAATTAAAAAATAAAAAAC
Found at i:9872101 original size:14 final size:14
Alignment explanation
Indices: 9872078--9872110 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9872068 TTGAAAGGTC
9872078 AATT-AATATTATA
1 AATTAAATATTATA
9872091 AATTAAATATTATA
1 AATTAAATATTATA
*
9872105 TATTAA
1 AATTAA
9872111 TATAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTAAATATTATA
Found at i:9874061 original size:66 final size:66
Alignment explanation
Indices: 9873971--9874138 Score: 185
Period size: 66 Copynumber: 2.5 Consensus size: 66
9873961 ACAATCCAGG
* * * * * *
9873971 AAAAATAAAATGATATAGACTGAGCTAAGATCAAAACTAAATGA-TCGGAATCAAATTGCAAGTC
1 AAAAATAAAATGATATAGATTGAGCCAAGATCAAAAATAAACGACTAGG-ATCAAACTGCAAGTC
9874035 AA
65 AA
* * * * * *
9874037 AAAAATAAAATGATATTGATTGAGCCGAGATAAAAAATAAGCGACTAGGATCGAACTGTAAGTCA
1 AAAAATAAAATGATATAGATTGAGCCAAGATCAAAAATAAACGACTAGGATCAAACTGCAAGTCA
*
9874102 G
66 A
* *
9874103 ACAAATAAAATGATATGGATTGAGCCAAGATCAAAA
1 AAAAATAAAATGATATAGATTGAGCCAAGATCAAAA
9874139 TTTGAGTGAT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
66 81 0.96
67 3 0.04
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.21
Consensus pattern (66 bp):
AAAAATAAAATGATATAGATTGAGCCAAGATCAAAAATAAACGACTAGGATCAAACTGCAAGTCA
A
Found at i:9890256 original size:155 final size:155
Alignment explanation
Indices: 9890067--9890379 Score: 583
Period size: 155 Copynumber: 2.0 Consensus size: 155
9890057 CCTAAATGAA
9890067 TAAGTTCACTTTAAAAACAACAATTGGACTTTCATTTAAGCTCAAATAAATAATGTTTAAAGATA
1 TAAGTTCACTTTAAAAACAACAATTGGACTTTCATTTAAGCTCAAATAAATAATGTTTAAAGATA
9890132 GTTTTGATTTGAGAAATAAGAGAAA-CATAAAGAAAGGTTTGTTTAAACTTTGAGAATCATATTA
66 GTTTTGATTTGAGAAATAAGA-AAAGCATAAAGAAAGGTTTGTTTAAACTTTGAGAATCATATTA
9890196 TTTATTTAGTACCAAAATATAAAACT
130 TTTATTTAGTACCAAAATATAAAACT
* * *
9890222 TAAGTTCATTTTAAAAACAACAATTGGACTTTCATTTAATCTTAAATAAATAATGTTTAAAGATA
1 TAAGTTCACTTTAAAAACAACAATTGGACTTTCATTTAAGCTCAAATAAATAATGTTTAAAGATA
9890287 GTTTTGATTTGAGAAATAAGAAAAGCATAAAGAAAGGTTTGTTTAAACTTTGAGAATCATATTAT
66 GTTTTGATTTGAGAAATAAGAAAAGCATAAAGAAAGGTTTGTTTAAACTTTGAGAATCATATTAT
9890352 TTATTTAGTACCAAAATATAAAACT
131 TTATTTAGTACCAAAATATAAAACT
9890377 TAA
1 TAA
9890380 AAACATGTAC
Statistics
Matches: 154, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
154 3 0.02
155 151 0.98
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (155 bp):
TAAGTTCACTTTAAAAACAACAATTGGACTTTCATTTAAGCTCAAATAAATAATGTTTAAAGATA
GTTTTGATTTGAGAAATAAGAAAAGCATAAAGAAAGGTTTGTTTAAACTTTGAGAATCATATTAT
TTATTTAGTACCAAAATATAAAACT
Found at i:9893276 original size:21 final size:22
Alignment explanation
Indices: 9893252--9893302 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
9893242 CATGTTATGC
* *
9893252 ATATGAAAGTGAAT-GACAAAT
1 ATATAAAAATGAATAGACAAAT
*
9893273 ATATAAAAATGAATAGATAAAT
1 ATATAAAAATGAATAGACAAAT
*
9893295 AAATAAAA
1 ATATAAAA
9893303 TACAAACAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.24
Consensus pattern (22 bp):
ATATAAAAATGAATAGACAAAT
Found at i:9894281 original size:15 final size:15
Alignment explanation
Indices: 9894263--9894297 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9894253 TTTAACTTAA
*
9894263 AATAACATCAACAAC
1 AATAACAACAACAAC
*
9894278 AATAATAACAACAAC
1 AATAACAACAACAAC
9894293 AATAA
1 AATAA
9894298 TAATAATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.20, G:0.00, T:0.14
Consensus pattern (15 bp):
AATAACAACAACAAC
Found at i:9894286 original size:18 final size:18
Alignment explanation
Indices: 9894263--9894303 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
9894253 TTTAACTTAA
*
9894263 AATAACATCAACAACAAT
1 AATAACAACAACAACAAT
*
9894281 AATAACAACAACAATAAT
1 AATAACAACAACAACAAT
9894299 AATAA
1 AATAA
9894304 TAAGCCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (18 bp):
AATAACAACAACAACAAT
Found at i:9894298 original size:15 final size:15
Alignment explanation
Indices: 9894271--9894300 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9894261 AAAATAACAT
9894271 CAACAACAATAATAA
1 CAACAACAATAATAA
9894286 CAACAACAATAATAA
1 CAACAACAATAATAA
9894301 TAATAAGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.20, G:0.00, T:0.13
Consensus pattern (15 bp):
CAACAACAATAATAA
Found at i:9900217 original size:12 final size:12
Alignment explanation
Indices: 9900200--9900237 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
9900190 TTTTATATTA
9900200 AAAAATAATAAG
1 AAAAATAATAAG
9900212 AAAAATAATAA-
1 AAAAATAATAAG
9900223 AAATAAT-ATAAG
1 AAA-AATAATAAG
9900235 AAA
1 AAA
9900238 GAAAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (12 bp):
AAAAATAATAAG
Found at i:9900890 original size:19 final size:21
Alignment explanation
Indices: 9900848--9900890 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
9900838 TAGAATAACA
*
9900848 AAAATAAAATAAAATTTTAAT
1 AAAATAAAATAAAATTCTAAT
*
9900869 AAAA-AAAA-AAAATTCTACT
1 AAAATAAAATAAAATTCTAAT
9900888 AAA
1 AAA
9900891 CGTAAGAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 4 0.20
21 4 0.20
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATAAAATAAAATTCTAAT
Found at i:9910046 original size:2 final size:2
Alignment explanation
Indices: 9910039--9910079 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9910029 TCTTTTACGT
9910039 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9910080 GTAGTTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9911062 original size:23 final size:23
Alignment explanation
Indices: 9911010--9911055 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9911000 AAACACCTCA
9911010 CTATAAATTTTTCTAGCCATAAG
1 CTATAAATTTTTCTAGCCATAAG
*
9911033 CTATAAATTTTTCTAGCTATAAG
1 CTATAAATTTTTCTAGCCATAAG
9911056 TTTTAAAAAC
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:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (23 bp):
CTATAAATTTTTCTAGCCATAAG
Found at i:9912162 original size:15 final size:15
Alignment explanation
Indices: 9912108--9912159 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
9912098 AATAAAAATA
9912108 AAATTAATT-AATTT
1 AAATTAATTCAATTT
9912122 -AATTAATTCAATTT
1 AAATTAATTCAATTT
* *
9912136 TAGTTAATTCAATTT
1 AAATTAATTCAATTT
9912151 AAAATTAAT
1 -AAATTAAT
9912160 CAAATCGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 8 0.25
14 5 0.16
15 13 0.41
16 6 0.19
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (15 bp):
AAATTAATTCAATTT
Found at i:9913724 original size:10 final size:10
Alignment explanation
Indices: 9913709--9913757 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
9913699 TATTAAAAAG
*
9913709 TAAAATATTA
1 TAAAATATTT
9913719 TAAAATATTT
1 TAAAATATTT
* *
9913729 TTATAT-TTT
1 TAAAATATTT
9913738 TAAATATATTT
1 TAAA-ATATTT
9913749 TAAAATATT
1 TAAAATATT
9913758 AATAAAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 5 0.16
10 20 0.62
11 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TAAAATATTT
Found at i:9918027 original size:50 final size:50
Alignment explanation
Indices: 9917934--9918037 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
9917924 ACATTATTCC
* **
9917934 CATGCATCAAAGTTTGCAATTTTATCAATGACAATTTGGTAATTTTGTTA
1 CATGCATCAAAGTTTGCAATTTTATCAAAGACAATTTAATAATTTTGTTA
*
9917984 CATGCATCAAAGTTTGC-ATTTCTATCAACAG-C-ATTTCAATAATTTTGTTT
1 CATGCATCAAAGTTTGCAATTT-TATCAA-AGACAATTT-AATAATTTTGTTA
9918034 CATG
1 CATG
9918038 AATTCCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
49 8 0.17
50 38 0.81
51 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (50 bp):
CATGCATCAAAGTTTGCAATTTTATCAAAGACAATTTAATAATTTTGTTA
Found at i:9918076 original size:12 final size:13
Alignment explanation
Indices: 9918049--9918170 Score: 67
Period size: 13 Copynumber: 9.5 Consensus size: 13
9918039 ATTCCAAAAG
*
9918049 CCTAAATCTAAAAC
1 CCTAAATC-CAAAC
9918063 CC-AAATCCAAAC
1 CCTAAATCCAAAC
*
9918075 CCTAAATCCTAAAT
1 CCTAAATCC-AAAC
*
9918089 CCT-AAGCCAAAC
1 CCTAAATCCAAAC
*
9918101 CTTAAA-CCTAAAC
1 CCTAAATCC-AAAC
9918114 CCTGAAA--CAAAC
1 CCT-AAATCCAAAC
* ** *
9918126 CCTAAAACTTAAG
1 CCTAAATCCAAAC
* *
9918139 CCTAAACCCAAGC
1 CCTAAATCCAAAC
9918152 CCTAAA-CCTAAAC
1 CCTAAATCC-AAAC
9918165 CCTAAA
1 CCTAAA
9918171 CCTAACCATA
Statistics
Matches: 85, Mismatches: 15, Indels: 17
0.73 0.13 0.15
Matches are distributed among these distances:
11 3 0.04
12 22 0.26
13 49 0.58
14 11 0.13
ACGTcount: A:0.46, C:0.34, G:0.03, T:0.16
Consensus pattern (13 bp):
CCTAAATCCAAAC
Found at i:9918081 original size:13 final size:12
Alignment explanation
Indices: 9918059--9918184 Score: 85
Period size: 12 Copynumber: 10.0 Consensus size: 12
9918049 CCTAAATCTA
9918059 AAACCC-AAATCC
1 AAACCCTAAA-CC
9918071 AAACCCTAAATCC
1 AAACCCTAAA-CC
* *
9918084 TAAATCCTAAGCC
1 -AAACCCTAAACC
*
9918097 AAACCTTAAACC
1 AAACCCTAAACC
9918109 TAAACCCTGAAA-C
1 -AAACCCT-AAACC
*
9918122 AAACCCTAAAACT
1 AAACCCT-AAACC
* *
9918135 TAAGCCTAAACCC
1 AAACCCTAAA-CC
*
9918148 AAGCCCTAAACC
1 AAACCCTAAACC
9918160 TAAACCCTAAACC
1 -AAACCCTAAACC
* *
9918173 TAACCATAAACC
1 AAACCCTAAACC
9918185 TTAAACATAA
Statistics
Matches: 90, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
12 40 0.44
13 39 0.43
14 11 0.12
ACGTcount: A:0.46, C:0.36, G:0.03, T:0.15
Consensus pattern (12 bp):
AAACCCTAAACC
Found at i:9918098 original size:26 final size:25
Alignment explanation
Indices: 9918069--9918190 Score: 102
Period size: 25 Copynumber: 4.8 Consensus size: 25
9918059 AAACCCAAAT
*
9918069 CCAAACCCTAAATCCTAAATCCT-AA
1 CCAAACCCTAAA-CCTAAACCCTGAA
*
9918094 GCCAAACCTTAAACCTAAACCCTGAA
1 -CCAAACCCTAAACCTAAACCCTGAA
* * * * *
9918120 ACAAACCCTAAAACTTAAGCCTAAA
1 CCAAACCCTAAACCTAAACCCTGAA
* *
9918145 CCCAAGCCCTAAACCTAAACCCTAAA
1 -CCAAACCCTAAACCTAAACCCTGAA
* *
9918171 CCTAACCATAAACCTTAAAC
1 CCAAACCCTAAACC-TAAAC
9918191 ATAAGACCTT
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
25 39 0.51
26 38 0.49
ACGTcount: A:0.45, C:0.35, G:0.03, T:0.16
Consensus pattern (25 bp):
CCAAACCCTAAACCTAAACCCTGAA
Found at i:9918107 original size:7 final size:6
Alignment explanation
Indices: 9918075--9918245 Score: 71
Period size: 7 Copynumber: 26.3 Consensus size: 6
9918065 AAATCCAAAC
*
9918075 CCTAAA TCCTAAA TCCTAAG CC-AAA CCTTAAA CCTAAA CCCTGAAA -C-AAA
1 CCTAAA -CCTAAA -CCTAAA CCTAAA CC-TAAA CCTAAA -CCT-AAA CCTAAA
* * * *
9918125 CCCTAAAA CTTAAG CCTAAA CCCAAGC CCTAAA CCTAAA CCCTAAA CCT-AA
1 -CCT-AAA CCTAAA CCTAAA CCTAA-A CCTAAA CCTAAA -CCTAAA CCTAAA
* * *
9918176 CCATAAA CCTTAAA CATAAGA CCTTAAA TCCTAGA CCTTAAA CCAAAA
1 CC-TAAA CC-TAAA CCTAA-A CC-TAAA -CCTAAA CC-TAAA CCTAAA
* *
9918224 TCCTAAC CCTATAC CCTAAA CC
1 -CCTAAA CCTA-AA CCTAAA CC
9918246 AAAATCTTAA
Statistics
Matches: 127, Mismatches: 19, Indels: 37
0.69 0.10 0.20
Matches are distributed among these distances:
4 3 0.02
5 8 0.06
6 43 0.34
7 62 0.49
8 11 0.09
ACGTcount: A:0.44, C:0.34, G:0.04, T:0.19
Consensus pattern (6 bp):
CCTAAA
Found at i:9918125 original size:51 final size:50
Alignment explanation
Indices: 9918070--9918171 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 50
9918060 AACCCAAATC
* * * *
9918070 CAAACCCTAAATCCTAAATCCT-AAGCCAAACCTTAAACCTAAACCCTGAAA
1 CAAACCCTAAA-ACTAAAGCCTAAACCCAAACCCTAAACCTAAACCCT-AAA
* *
9918121 CAAACCCTAAAACTTAAGCCTAAACCCAAGCCCTAAACCTAAACCCTAAA
1 CAAACCCTAAAACTAAAGCCTAAACCCAAACCCTAAACCTAAACCCTAAA
9918171 C
1 C
9918172 CTAACCATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 11 0.25
51 33 0.75
ACGTcount: A:0.45, C:0.35, G:0.04, T:0.16
Consensus pattern (50 bp):
CAAACCCTAAAACTAAAGCCTAAACCCAAACCCTAAACCTAAACCCTAAA
Found at i:9918193 original size:13 final size:13
Alignment explanation
Indices: 9918154--9918218 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
9918144 ACCCAAGCCC
*
9918154 TAAACC-TAAACCC
1 TAAACCTTAAA-CA
*
9918167 TAAACC-TAACCA
1 TAAACCTTAAACA
9918179 TAAACCTTAAACA
1 TAAACCTTAAACA
*
9918192 TAAGACCTTAAATCC
1 TAA-ACCTTAAA-CA
*
9918207 TAGACCTTAAAC
1 TAAACCTTAAAC
9918219 CAAAATCCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
12 7 0.16
13 18 0.41
14 16 0.36
15 3 0.07
ACGTcount: A:0.46, C:0.29, G:0.03, T:0.22
Consensus pattern (13 bp):
TAAACCTTAAACA
Found at i:9918301 original size:11 final size:11
Alignment explanation
Indices: 9918285--9918322 Score: 76
Period size: 11 Copynumber: 3.5 Consensus size: 11
9918275 CCTAGGCCCT
9918285 AAACCAACCAC
1 AAACCAACCAC
9918296 AAACCAACCAC
1 AAACCAACCAC
9918307 AAACCAACCAC
1 AAACCAACCAC
9918318 AAACC
1 AAACC
9918323 CTAAAACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (11 bp):
AAACCAACCAC
Found at i:9918924 original size:66 final size:67
Alignment explanation
Indices: 9918841--9918974 Score: 207
Period size: 66 Copynumber: 2.0 Consensus size: 67
9918831 TCAATAAAAG
* * * * *
9918841 TAGGACTATTTTTACCAAAATCTAAGGATAATATGCCATTAATTAGTACCATCTTTGACGGGTGT
1 TAGGACTATTTTTACCAAAATCTAAAGATAACATGCAATTAATTAGTACCATCCTTGACAGGTGT
9918906 TA
66 TA
*
9918908 TAGGAC-ATTTTTACCAAAATTTAAAGATAACATGCAATTAATTAGTACCATCCTTGACAGGTGT
1 TAGGACTATTTTTACCAAAATCTAAAGATAACATGCAATTAATTAGTACCATCCTTGACAGGTGT
9918972 TA
66 TA
9918974 T
1 T
9918975 GAGCTACTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
66 55 0.90
67 6 0.10
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (67 bp):
TAGGACTATTTTTACCAAAATCTAAAGATAACATGCAATTAATTAGTACCATCCTTGACAGGTGT
TA
Found at i:9919958 original size:18 final size:17
Alignment explanation
Indices: 9919935--9919968 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9919925 TCCAACAAAA
9919935 CCAAAAAAGAAAAAAATC
1 CCAAAAAA-AAAAAAATC
*
9919953 CCAAAATAAAAAAAAT
1 CCAAAAAAAAAAAAAT
9919969 AAAAAAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.15, G:0.03, T:0.09
Consensus pattern (17 bp):
CCAAAAAAAAAAAAATC
Found at i:9920254 original size:37 final size:37
Alignment explanation
Indices: 9920213--9920298 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
9920203 TTTTTTTATT
* *
9920213 TCATGTACATCTTAATAGATAATGCATACATTCCATC
1 TCATGCACATCTTAATAGATAATACATACATTCCATC
* * *
9920250 TCATGCAAATCTTAATAGATAGTACATGCATTCCATC
1 TCATGCACATCTTAATAGATAATACATACATTCCATC
9920287 TCATGCACATCT
1 TCATGCACATCT
9920299 AAATGGTAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (37 bp):
TCATGCACATCTTAATAGATAATACATACATTCCATC
Found at i:9925645 original size:17 final size:17
Alignment explanation
Indices: 9925625--9925661 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9925615 CTTGAAAACA
* *
9925625 AAAGGGAAAGAAAAAAG
1 AAAGAGAAAAAAAAAAG
9925642 AAAGAGAAAAAAAAAAG
1 AAAGAGAAAAAAAAAAG
9925659 AAA
1 AAA
9925662 AAAGAAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAGAGAAAAAAAAAAG
Found at i:9925649 original size:13 final size:13
Alignment explanation
Indices: 9925633--9925671 Score: 57
Period size: 11 Copynumber: 3.2 Consensus size: 13
9925623 CAAAAGGGAA
9925633 AGAAAAAAGAAAG
1 AGAAAAAAGAAAG
9925646 AGAAAAAA-AAA-
1 AGAAAAAAGAAAG
9925657 AGAAAAAAG-AAG
1 AGAAAAAAGAAAG
9925669 AGA
1 AGA
9925672 GTTTTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.42
12 6 0.25
13 8 0.33
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AGAAAAAAGAAAG
Found at i:9926870 original size:21 final size:20
Alignment explanation
Indices: 9926832--9926871 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9926822 ACTTAAAAAA
9926832 AGAAAAGAAAAAGAAAAAGG
1 AGAAAAGAAAAAGAAAAAGG
*
9926852 AGAAAATGAGAAAGTAAAAA
1 AGAAAA-GAAAAAG-AAAAA
9926872 AAATGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (20 bp):
AGAAAAGAAAAAGAAAAAGG
Found at i:9926911 original size:19 final size:19
Alignment explanation
Indices: 9926889--9926927 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9926879 AGAATGAAGG
9926889 AAAAAAAGAACA-AAAAAAA
1 AAAAAAAGAA-AGAAAAAAA
9926908 AAAAAAAGAAAGAAAAAAA
1 AAAAAAAGAAAGAAAAAAA
9926927 A
1 A
9926928 GGGGAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.90, C:0.03, G:0.08, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAGAAAAAAA
Found at i:9929774 original size:40 final size:40
Alignment explanation
Indices: 9929730--9929861 Score: 112
Period size: 39 Copynumber: 3.3 Consensus size: 40
9929720 GAGAGGTGTT
*
9929730 TTAAATTTTTGAAAAAATTT-TAAGACTTTCAAATG-AAATC
1 TTAAATTTTTGAAAAAATTTCTAAGACTTTC--AGGCAAATC
** * *
9929770 TTAAATTTTT-AAATGATTTCTAAGGCTTTCGGGCAAATC
1 TTAAATTTTTGAAAAAATTTCTAAGACTTTCAGGCAAATC
* * *
9929809 TTAAATTTTTG-AAAAATTTCCAAGACCTT-AGGGCAAAATT
1 TTAAATTTTTGAAAAAATTTCTAAGACTTTCA-GGC-AAATC
*
9929849 TTAAAATTTTGAA
1 TTAAATTTTTGAA
9929862 TTTCTAAAGC
Statistics
Matches: 73, Mismatches: 13, Indels: 11
0.75 0.13 0.11
Matches are distributed among these distances:
38 1 0.01
39 38 0.52
40 33 0.45
41 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.39
Consensus pattern (40 bp):
TTAAATTTTTGAAAAAATTTCTAAGACTTTCAGGCAAATC
Found at i:9929828 original size:39 final size:41
Alignment explanation
Indices: 9929730--9929938 Score: 122
Period size: 40 Copynumber: 5.3 Consensus size: 41
9929720 GAGAGGTGTT
**
9929730 TTAAATTTTTGAAAAAATTT-TAAGACTTTCAAATG--AAATC
1 TTAAATTTTTG-AAAAATTTCTAAGACTTTC-AGGGCAAAATC
* *
9929770 TTAAATTTTT-AAATGATTTCTAAGGCTTTC-GGGC-AAATC
1 TTAAATTTTTGAAA-AATTTCTAAGACTTTCAGGGCAAAATC
* * *
9929809 TTAAATTTTTGAAAAATTTCCAAGACCTT-AGGGCAAAATT
1 TTAAATTTTTGAAAAATTTCTAAGACTTTCAGGGCAAAATC
* * * *
9929849 TTAAAATTTTG---AATTTCTAA-AGC-CTCTGGACAAAATC
1 TTAAATTTTTGAAAAATTTCTAAGA-CTTTCAGGGCAAAATC
* * * * *
9929886 TTAAATTTTTGAAAGATTT-TCAAGTCCTT-ACGGCAAAATT
1 TTAAATTTTTGAAAAATTTCT-AAGACTTTCAGGGCAAAATC
*
9929926 TTAAAATTTTGAA
1 TTAAATTTTTGAA
9929939 TTTTAAAGAC
Statistics
Matches: 131, Mismatches: 24, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
36 2 0.02
37 27 0.21
38 4 0.03
39 35 0.27
40 62 0.47
41 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (41 bp):
TTAAATTTTTGAAAAATTTCTAAGACTTTCAGGGCAAAATC
Found at i:9929883 original size:37 final size:36
Alignment explanation
Indices: 9929840--9929975 Score: 123
Period size: 37 Copynumber: 3.6 Consensus size: 36
9929830 AAGACCTTAG
9929840 GGCAAAATTTTAAAATTTTGAATTTCTAAAG-CCTCT
1 GGCAAAATTTTAAAATTTTGAATTT-TAAAGACCTCT
* * * *
9929876 GGACAAAATCTTAAATTTTTGAAAGATTTTCAAGTCCT-T
1 GG-CAAAATTTTAAAATTTTG--A-ATTTTAAAGACCTCT
*
9929915 ACGGCAAAATTTTAAAATTTTGAATTTTAAAGACCTCC
1 --GGCAAAATTTTAAAATTTTGAATTTTAAAGACCTCT
* *
9929953 GGTCAAAACTTTAAATTTTTGAA
1 GG-CAAAATTTTAAAATTTTGAA
9929976 AAATTCCCAA
Statistics
Matches: 81, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
36 4 0.05
37 45 0.56
38 1 0.01
39 6 0.07
40 23 0.28
41 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.38
Consensus pattern (36 bp):
GGCAAAATTTTAAAATTTTGAATTTTAAAGACCTCT
Found at i:9929915 original size:77 final size:77
Alignment explanation
Indices: 9929804--9929991 Score: 272
Period size: 77 Copynumber: 2.4 Consensus size: 77
9929794 GCTTTCGGGC
*
9929804 AAATCTTAAATTTTTGAAAAATTTCCAAGACCTTAGGGCAAAATTTTAAAATTTTGAATTTCTAA
1 AAATCTTAAATTTTTGAAAAATTTCCAAGACCTTACGGCAAAATTTTAAAATTTTGAATTT-TAA
*
9929869 AG-CCTCTGGACA
65 AGACCTCCGGACA
* * *
9929881 AAATCTTAAATTTTTGAAAGATTTTCAAGTCCTTACGGCAAAATTTTAAAATTTTGAATTTTAAA
1 AAATCTTAAATTTTTGAAAAATTTCCAAGACCTTACGGCAAAATTTTAAAATTTTGAATTTTAAA
*
9929946 GACCTCCGGTCA
66 GACCTCCGGACA
* *
9929958 AAA-CTTTAAATTTTTGAAAAATTCCCAAGGCCTT
1 AAATC-TTAAATTTTTGAAAAATTTCCAAGACCTT
9929992 TGGGCGAAAC
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
76 6 0.06
77 93 0.94
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (77 bp):
AAATCTTAAATTTTTGAAAAATTTCCAAGACCTTACGGCAAAATTTTAAAATTTTGAATTTTAAA
GACCTCCGGACA
Found at i:9933810 original size:161 final size:160
Alignment explanation
Indices: 9933405--9934447 Score: 1039
Period size: 161 Copynumber: 6.5 Consensus size: 160
9933395 ATTTGTTATC
* * * *
9933405 AACAATTTAGATAGTTTCAATACGTGATATTAAACTTGTCCGAATGATTGAACTTGATTTTCAC-
1 AACAATTTGGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTGATTTTCACA
* * *
9933469 GATTGATATATGTGAAAAAA-TTGATGCCTTT--ATCTGTTTAAGACTTTTTGTGCCGTTAAAAG
66 G-TTGATATGTGT-AAAAAAGTT-ATG--TTTACATCTGTTTAGGACTTTTTATGCCGTTAAAAG
* *
9933531 GCAAAAATACAAATTTGCTGTCATTGTACTATTTT
126 GCAAAAATACAAATTTGCTGTTATTGTTCTATTTT
* * * * *
9933566 AAC-AGTTGGATAGCTTCAATACATGACATTAAACTTGT-TCAAATGATTGAA-TTTAGTTTCCA
1 AACAATTTGGATAGCTTCAATACATGATATTAAACTTGTCT-GAATGATTGAACTTGA-TTTTCA
* * * * * * *
9933628 TAGTTGATATATGTGAAAAAGTTACTGTTTACTTCTGTTTA-GAATATTTTGTGTCGTTAAAAGG
64 CAGTTGATATGTGTAAAAAAGTTA-TGTTTACATCTGTTTAGGACT-TTTTATGCCGTTAAAAGG
* * *
9933692 CAAAAATACAAATTTGCTATTATTGTTTTGTTTT
127 CAAAAATACAAATTTGCTGTTATTGTTCTATTTT
* * * **
9933726 GACAATTTGGATAGCTTCATTACATGATATTAAACTTGTATGAATGATTGAACTTGATTTTCATG
1 AACAATTTGGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTGATTTTCACA
* ** ** *
9933791 GTTGATATGTGTAAAAAAGTTGCTACTTACATCCATTTAGGACTTTTTATGCCGCTAAAAGGCAA
66 GTTGATATGTGTAAAAAAGTT-ATGTTTACATCTGTTTAGGACTTTTTATGCCGTTAAAAGGCAA
* * * *
9933856 AAATGCAAAATTGATGTCATTGTTCTATTTT
130 AAATACAAATTTGCTGTTATTGTTCTATTTT
* * * * **
9933887 AACAATTTGAATAGCTTTAAGACATGATATTAAACTTGTCCGAATGATTGAACTTGATTTTCATG
1 AACAATTTGGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTGATTTTCACA
* * ** * * *
9933952 GTTGATATGTCTGAAAAAA-ATACCTCTTACGTTTGTTTAGGACTTTTTATGTCGTTAAAAGGCA
66 GTTGATATGTGT-AAAAAAGTTATGT-TTACATCTGTTTAGGACTTTTTATGCCGTTAAAAGGCA
* ** * *
9934016 AAAATAAAAATTAACTGTTACTGTTCTATTTG
129 AAAATACAAATTTGCTGTTATTGTTCTATTTT
* * * *
9934048 AA-AAGTTTGGATAG-TATCAATAAATGATACTAAATTTATCTGAATGATTGAACTT-AGTTTTC
1 AACAA-TTTGGATAGCT-TCAATACATGATATTAAACTTGTCTGAATGATTGAACTTGA-TTTTC
* * * * * *
9934110 ACAGTTGATATATGTGAAAAAGTTATCATTTACATCTATTTAGGACTTTTTGTACCGTTAAAAGG
63 ACAGTTGATATGTGTAAAAAAGTTAT-GTTTACATCTGTTTAGGACTTTTTATGCCGTTAAAAGG
* *
9934175 CAAAAATGCAAATTTGCTGTTATTGTTCTGTTTT
127 CAAAAATACAAATTTGCTGTTATTGTTCTATTTT
* * * * * *
9934209 AATAATTTGGATAACTTCAATACATGAAATTAAACTTCTCTGAATGATTGAACTTGGTTTCCACA
1 AACAATTTGGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTGATTTTCACA
* * * * * *
9934274 GTTGATATGTGTTAAAAAGTTATCGTTTACGTCTGTTTAGGACTTTTTATACTGCTAAAAATGCA
66 GTTGATATGTGTAAAAAAGTTAT-GTTTACATCTGTTTAGGACTTTTTATGCCG-TTAAAAGGCA
* *
9934339 AAAATACAAATTTGCTATTATTTTTCTATTTT
129 AAAATACAAATTTGCTGTTATTGTTCTATTTT
* * ** *
9934371 AATAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCAAATTATTGAACTTGATTTTCACA
1 AACAATTTGGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTGATTTTCACA
*
9934436 ATTGATATGTGT
66 GTTGATATGTGT
9934448 GAAAGGGCAA
Statistics
Matches: 724, Mismatches: 134, Indels: 47
0.80 0.15 0.05
Matches are distributed among these distances:
158 3 0.00
159 12 0.02
160 125 0.17
161 464 0.64
162 120 0.17
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (160 bp):
AACAATTTGGATAGCTTCAATACATGATATTAAACTTGTCTGAATGATTGAACTTGATTTTCACA
GTTGATATGTGTAAAAAAGTTATGTTTACATCTGTTTAGGACTTTTTATGCCGTTAAAAGGCAAA
AATACAAATTTGCTGTTATTGTTCTATTTT
Found at i:9934094 original size:322 final size:322
Alignment explanation
Indices: 9933414--9934443 Score: 1177
Period size: 322 Copynumber: 3.2 Consensus size: 322
9933404 CAACAATTTA
* * *
9933414 GATAGTTTCAATACGTGATATTAAACTTGTCCGAATGATTGAACTTGATTTTCACGATTGATATA
1 GATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGATTTTCACAATTGATATA
* * * *
9933479 TGTGAAAAAA-TTGATGC-CTT-TATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGCAAAAATAC
66 TGT-AAAAAAGTTGAT-CACTTACATCTATTTAGGACTTTTTGTGCCGTTAAAAGGCAAAAATGC
* * * *
9933541 AAATTTGCTGTCATTGTACTATTTTAAC-AGTTGGATAGCTTCAATACATGACATTAAACTTGTT
129 AAATTTGCTGTCATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGAAATTAAACTTGTC
* * * *
9933605 CAAATGATTGAA-TTTAGTTTCCATAGTTGATATATGTGAAAAAGTTACTGTTTAC-TTCTGTTT
194 CGAATGATTGAACTTGA-TTTCCATAGTTGATATGTGTGAAAAAGTTAC-CTTTACGTT-TGTTT
* * * * *
9933668 A-GAATATTTTGTGTCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTTTGTTTTGACAA-
256 AGGACT-TTTTATGTCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCT-ATTTGAAAAG
9933731 TTTG
319 TTTG
* ** *** *
9933735 GATAGCTTCATTACATGATATTAAACTTGTATGAATGATTGAACTTGATTTTCATGGTTGATATG
1 GATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGATTTTCACAATTGATATA
* * * *
9933800 TGTAAAAAAGTTGCT-ACTTACATCCATTTAGGACTTTTTATGCCGCTAAAAGGCAAAAATGCAA
66 TGTAAAAAAGTTGATCACTTACATCTATTTAGGACTTTTTGTGCCGTTAAAAGGCAAAAATGCAA
* * * * * *
9933864 AATTGATGTCATTGTTCTATTTTAACAATTTGAATAGCTTTAAGACATGATATTAAACTTGTCCG
131 ATTTGCTGTCATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGAAATTAAACTTGTCCG
* * * **
9933929 AATGATTGAACTTGATTTTCATGGTTGATATGTCTGAAAAAAATACCTCTTACGTTTGTTTAGGA
196 AATGATTGAACTTGATTTCCATAGTTGATATGTGTGAAAAAGTTACCT-TTACGTTTGTTTAGGA
* ** * *
9933994 CTTTTTATGTCGTTAAAAGGCAAAAATAAAAATTAACTGTTACTGTTCTATTTGAAAAGTTTG
260 CTTTTTATGTCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTGAAAAGTTTG
* * * * * *
9934057 GATAG-TATCAATAAATGATACTAAATTTATCTGAATGATTGAACTT-AGTTTTCACAGTTGATA
1 GATAGCT-TCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGA-TTTTCACAATTGATA
* * *
9934120 TATGTGAAAAAGTT-ATCATTTACATCTATTTAGGACTTTTTGTACCGTTAAAAGGCAAAAATGC
64 TATGTAAAAAAGTTGATCACTTACATCTATTTAGGACTTTTTGTGCCGTTAAAAGGCAAAAATGC
* * * * *
9934184 AAATTTGCTGTTATTGTTCTGTTTTAATAATTTGGATAACTTCAATACATGAAATTAAACTTCTC
129 AAATTTGCTGTCATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGAAATTAAACTTGTC
* * * * * *
9934249 TGAATGATTGAACTTGGTTTCCACAGTTGATATGTGTTAAAAAGTTATCGTTTACGTCTGTTTAG
194 CGAATGATTGAACTTGATTTCCATAGTTGATATGTGTGAAAAAGTTA-CCTTTACGTTTGTTTAG
* * * * * *
9934314 GACTTTTTAT-ACTGCTAAAAATGCAAAAATACAAATTTGCTATTATTTTTCTATTTTAATAGTT
258 GACTTTTTATGTC-G-TTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTGAAAAGTT
9934378 TG
321 TG
* *
9934380 GATAGCTTCAATACATGATATTAAACTTGTCCAAATTATTGAACTTGATTTTCACAATTGATAT
1 GATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGATTTTCACAATTGATAT
9934444 GTGTGAAAGG
Statistics
Matches: 591, Mismatches: 101, Indels: 32
0.82 0.14 0.04
Matches are distributed among these distances:
320 9 0.02
321 136 0.23
322 341 0.58
323 103 0.17
324 2 0.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (322 bp):
GATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGATTTTCACAATTGATATA
TGTAAAAAAGTTGATCACTTACATCTATTTAGGACTTTTTGTGCCGTTAAAAGGCAAAAATGCAA
ATTTGCTGTCATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGAAATTAAACTTGTCCG
AATGATTGAACTTGATTTCCATAGTTGATATGTGTGAAAAAGTTACCTTTACGTTTGTTTAGGAC
TTTTTATGTCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTATTTGAAAAGTTTG
Found at i:9934200 original size:483 final size:474
Alignment explanation
Indices: 9933137--9934451 Score: 1446
Period size: 483 Copynumber: 2.8 Consensus size: 474
9933127 TGAATTCATT
* * * * * **
9933137 TGAATGACTGAATTTGGTTTCCACAATTGATATGTGTGAAAAGGTTACCGTTTATGTCTATTTAA
1 TGAATGATTGAATTTAGTTTCCACAGTTGATATATGTGAAAAAGTTA-CGTTTACATCTATTT-A
* * *
9933202 GACATTTTGTGTTGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTGTTTTAATAGTTTG
64 GACTTTTTGTGTCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTGTTTTAATAATTTG
* * *
9933267 GATAGCTTCAATACATGATATTAAATTTATCTAAATGATTGAACTT-AGTTTTCACGATTGATAT
129 GATAGCTTCAATACATGATATTAAACTTATCTGAATGATTGAACTTGA-TTTTCACGGTTGATAT
* * * * * * *
9933331 GTGTGAAAGAGTTACTGCTTACATTTGTTTAAGACTTTTGTAT-TGTTAAAAGGTAAAAATG--T
193 GTGTAAAAAAGTT-CT-CTTACATCTGTTTAGGACTTTT-TATCTGCTAAAAGGCAAAAATGCAA
* *
9933393 AA---A-T-TTG-T-TA--TCAACAATTT-AGATAG-TTTCAATACGTGATATTAAACTTGTCCG
255 AATTGATTATTGTTCTATTTTAACAATTTGA-ATAGCTTT-AATACATGATATTAAACTTGTCCG
* *
9933447 AATGATTGAACTTGATTTTCACGATTGATATATGTGAAAAAATTGATGCCTTTATCTGTTTAAGA
318 AATGATTGAACTTGATTTTCACGATTGATATGTGTGAAAAAA-T-ATACCTTTATCTGTTTAAGA
* * ** * * *
9933512 CTTTTTGTGCCGTTAAAAGGCAAAAATACAAATTTGCTGTCATTGTACTATTTTAACAGTTGGAT
381 CTTTTTATGCCGTTAAAAGGCAAAAATAAAAATTAACTGTCACTGTACTATTTGAAAAGTTGGAT
* *
9933577 AGCTTCAATACATGACATTAAACTTGTTC
446 AGCTTCAATAAATGACACTAAACTTGTTC
* * * *
9933606 -AAATGATTGAATTTAGTTTCCATAGTTGATATATGTGAAAAAGTTACTGTTTACTTCTGTTTAG
1 TGAATGATTGAATTTAGTTTCCACAGTTGATATATGTGAAAAAGTTAC-GTTTACATCTATTTAG
* * * *
9933670 AATATTTTGTGTCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTTTGTTTTGACAATTTG
65 ACT-TTTTGTGTCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTGTTTTAATAATTTG
* * * *
9933735 GATAGCTTCATTACATGATATTAAACTTGTATGAATGATTGAACTTGATTTTCATGGTTGATATG
129 GATAGCTTCAATACATGATATTAAACTTATCTGAATGATTGAACTTGATTTTCACGGTTGATATG
** *
9933800 TGTAAAAAAGTTGCTACTTACATCCATTTAGGACTTTTTATGCCGCTAAAAGGCAAAAATGCAAA
194 TGTAAAAAAGTT-CT-CTTACATCTGTTTAGGACTTTTTAT-CTGCTAAAAGGCAAAAATGCAAA
*
9933865 ATTGATGTCATTGTTCTATTTTAACAATTTGAATAGCTTTAAGACATGATATTAAACTTGTCCGA
256 ATTGAT-T-ATTGTTCTATTTTAACAATTTGAATAGCTTTAATACATGATATTAAACTTGTCCGA
* * * * *
9933930 ATGATTGAACTTGATTTTCATGGTTGATATGTCTGAAAAAA-ATACCTCTTACGTTTGTTTAGGA
319 ATGATTGAACTTGATTTTCACGATTGATATGTGTGAAAAAATATACCT-TTA--TCTGTTTAAGA
* * *
9933994 CTTTTTATGTCGTTAAAAGGCAAAAATAAAAATTAACTGTTACTGTTCTATTTGAAAAGTTTGGA
381 CTTTTTATGCCGTTAAAAGGCAAAAATAAAAATTAACTGTCACTGTACTATTTGAAAAG-TTGGA
*
9934059 TAG-TATCAATAAATGATACTAAA-TT-TATC
445 TAGCT-TCAATAAATGACACTAAACTTGT-TC
* * *
9934088 TGAATGATTGAACTTAGTTTTCACAGTTGATATATGTGAAAAAGTTATCATTTACATCTATTTAG
1 TGAATGATTGAATTTAGTTTCCACAGTTGATATATGTGAAAAAGTTA-CGTTTACATCTATTTA-
** * *
9934153 GACTTTTTGTACCGTTAAAAGGCAAAAATGCAAATTTGCTGTTATTGTTCTGTTTTAATAATTTG
64 GACTTTTTGTGTCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTGTTTTAATAATTTG
* * * * * *
9934218 GATAACTTCAATACATGAAATTAAACTTCTCTGAATGATTGAACTTGGTTTCCACAGTTGATATG
129 GATAGCTTCAATACATGATATTAAACTTATCTGAATGATTGAACTTGATTTTCACGGTTGATATG
* * * * *
9934283 TGTTAAAAAGTTATCGTTTACGTCTGTTTAGGACTTTTTATACTGCTAAAAATGCAAAAATACAA
194 TGTAAAAAAGTTCTC--TTACATCTGTTTAGGACTTTTTAT-CTGCT-AAAAGGCAAAAATGCAA
* * * * * * *
9934348 ATTTGCTATTATTTTTCTATTTTAATAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCCA
255 AATTG--ATTATTGTTCTATTTTAACAATTTGAATAGCTTTAATACATGATATTAAACTTGTCCG
* *
9934413 AATTATTGAACTTGATTTTCACAATTGATATGTGTGAAA
318 AATGATTGAACTTGATTTTCACGATTGATATGTGTGAAA
9934452 GGGCAAAATG
Statistics
Matches: 707, Mismatches: 105, Indels: 53
0.82 0.12 0.06
Matches are distributed among these distances:
467 7 0.01
468 192 0.27
469 16 0.02
471 2 0.00
474 1 0.00
476 1 0.00
478 3 0.00
479 6 0.01
480 5 0.01
481 2 0.00
482 137 0.19
483 227 0.32
484 105 0.15
485 1 0.00
486 2 0.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (474 bp):
TGAATGATTGAATTTAGTTTCCACAGTTGATATATGTGAAAAAGTTACGTTTACATCTATTTAGA
CTTTTTGTGTCGTTAAAAGGCAAAAATACAAATTTGCTATTATTGTTCTGTTTTAATAATTTGGA
TAGCTTCAATACATGATATTAAACTTATCTGAATGATTGAACTTGATTTTCACGGTTGATATGTG
TAAAAAAGTTCTCTTACATCTGTTTAGGACTTTTTATCTGCTAAAAGGCAAAAATGCAAAATTGA
TTATTGTTCTATTTTAACAATTTGAATAGCTTTAATACATGATATTAAACTTGTCCGAATGATTG
AACTTGATTTTCACGATTGATATGTGTGAAAAAATATACCTTTATCTGTTTAAGACTTTTTATGC
CGTTAAAAGGCAAAAATAAAAATTAACTGTCACTGTACTATTTGAAAAGTTGGATAGCTTCAATA
AATGACACTAAACTTGTTC
Found at i:9936002 original size:34 final size:34
Alignment explanation
Indices: 9935949--9936013 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
9935939 CCACTAAATG
* *
9935949 CTAAATTTAATGGTATTTTTAGGCACAAATGCCT
1 CTAAATTTAATGATATTTTTAGACACAAATGCCT
* * *
9935983 CTAAATTTAGTGATGTTTTTAGATACAAATG
1 CTAAATTTAATGATATTTTTAGACACAAATG
9936014 ATGTTAAGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (34 bp):
CTAAATTTAATGATATTTTTAGACACAAATGCCT
Found at i:9937571 original size:61 final size:61
Alignment explanation
Indices: 9937412--9937549 Score: 258
Period size: 61 Copynumber: 2.3 Consensus size: 61
9937402 CATATATGGT
*
9937412 CCATGCATTAAAGTTTGCATTTTCATTAATGGCATTTTTTGTAATTTTTGTTACATTATTC
1 CCATGCATTAAAGTTTGCATTTTCATTAATGGCATTTTTTGTAATTTTTATTACATTATTC
9937473 CCATGCATTAAAGTTTGCATTTTCATTAATGGCATTTTTTGTAATTTTTATTACATTATTC
1 CCATGCATTAAAGTTTGCATTTTCATTAATGGCATTTTTTGTAATTTTTATTACATTATTC
*
9937534 CCATGCATCAAAGTTT
1 CCATGCATTAAAGTTT
9937550 ACAATTTTAT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 75 1.00
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (61 bp):
CCATGCATTAAAGTTTGCATTTTCATTAATGGCATTTTTTGTAATTTTTATTACATTATTC
Found at i:9937589 original size:50 final size:50
Alignment explanation
Indices: 9937535--9937641 Score: 153
Period size: 50 Copynumber: 2.1 Consensus size: 50
9937525 ACATTATTCC
* * *
9937535 CATGCATCAAAGTTTACAATTTTATCAAT-AGTATTTTGATAATTTTGTTA
1 CATGCATCAAAGTCTACAATTTTATCAATGA-CATTTCGATAATTTTGTTA
* *
9937585 CATGCATCAAAGTCTACATTTTTATCAATGACATTTCGATAATTTTGTTT
1 CATGCATCAAAGTCTACAATTTTATCAATGACATTTCGATAATTTTGTTA
9937635 CATGCAT
1 CATGCAT
9937642 TCCAAAATTC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 50 0.98
51 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (50 bp):
CATGCATCAAAGTCTACAATTTTATCAATGACATTTCGATAATTTTGTTA
Found at i:9937681 original size:7 final size:6
Alignment explanation
Indices: 9937667--9937776 Score: 67
Period size: 7 Copynumber: 16.7 Consensus size: 6
9937657 TCCAAACACT
* * *
9937667 AACCTA AATCCTA AACCCA AATCCTTA AACCTA AACCTTA AACCCA AATCATA
1 AACCTA AA-CCTA AACCTA AA-CC-TA AACCTA AACC-TA AACCTA AA-CCTA
* * * *
9937720 AACCTA AATCTTA AACTCTA AACCCTA AACACAA AACTTA AACCTTA AACCAA
1 AACCTA AA-CCTA AAC-CTA AA-CCTA AAC-CTA AACCTA AACC-TA AACCTA
9937773 AACC
1 AACC
9937777 CTATACTTTA
Statistics
Matches: 81, Mismatches: 13, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
6 32 0.40
7 45 0.56
8 4 0.05
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (6 bp):
AACCTA
Found at i:9937683 original size:13 final size:13
Alignment explanation
Indices: 9937667--9937749 Score: 87
Period size: 13 Copynumber: 6.2 Consensus size: 13
9937657 TCCAAACACT
9937667 AACCTAAATCCTA
1 AACCTAAATCCTA
*
9937680 AACCCAAATCCTTA
1 AACCTAAATCC-TA
9937694 AACCTAAA-CCTTA
1 AACCTAAATCC-TA
* *
9937707 AACCCAAATCATA
1 AACCTAAATCCTA
*
9937720 AACCTAAATCTTA
1 AACCTAAATCCTA
*
9937733 AACTCTAAACCCTA
1 AAC-CTAAATCCTA
9937747 AAC
1 AAC
9937750 ACAAAACTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
13 38 0.64
14 21 0.36
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (13 bp):
AACCTAAATCCTA
Found at i:9937721 original size:20 final size:19
Alignment explanation
Indices: 9937697--9937770 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 19
9937687 ATCCTTAAAC
9937697 CTAAACCTTAAACCCAAAT
1 CTAAACCTTAAACCCAAAT
**
9937716 CATAAACC-TAAATCTTAAACT
1 C-TAAACCTTAAA-CCCAAA-T
* * *
9937737 CTAAACCCTAAACACAAAA
1 CTAAACCTTAAACCCAAAT
9937756 CTTAAACCTTAAACC
1 C-TAAACCTTAAACC
9937771 AAAACCCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
19 6 0.14
20 31 0.72
21 6 0.14
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.22
Consensus pattern (19 bp):
CTAAACCTTAAACCCAAAT
Found at i:9937732 original size:26 final size:27
Alignment explanation
Indices: 9937667--9937735 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
9937657 TCCAAACACT
* *
9937667 AACCTAAATCCTAAACCCAAATCCTTA
1 AACCTAAATCTTAAACCCAAATCCATA
*
9937694 AACCTAAACCTTAAACCCAAAT-CATA
1 AACCTAAATCTTAAACCCAAATCCATA
9937720 AACCTAAATCTTAAAC
1 AACCTAAATCTTAAAC
9937736 TCTAAACCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
26 18 0.47
27 20 0.53
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (27 bp):
AACCTAAATCTTAAACCCAAATCCATA
Found at i:9937741 original size:40 final size:40
Alignment explanation
Indices: 9937667--9937764 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
9937657 TCCAAACACT
* * * *
9937667 AACCTAAATCCTAAACCCAAATCCTTAAACCTAAACCTTA
1 AACCCAAATCATAAACCTAAATCCTTAAACCTAAACCCTA
9937707 AACCCAAATCATAAACCTAAAT-CTTAAACTCTAAACCCTA
1 AACCCAAATCATAAACCTAAATCCTTAAAC-CTAAACCCTA
* * *
9937747 AACACAAAACTTAAACCT
1 AACCCAAATCATAAACCT
9937765 TAAACCAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 7 0.14
40 43 0.86
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (40 bp):
AACCCAAATCATAAACCTAAATCCTTAAACCTAAACCCTA
Found at i:9937776 original size:13 final size:13
Alignment explanation
Indices: 9937667--9937770 Score: 86
Period size: 13 Copynumber: 7.8 Consensus size: 13
9937657 TCCAAACACT
9937667 AACCTAAATCC-TA
1 AACCTAAA-CCTTA
*
9937680 AACCCAAATCCTTA
1 AACCTAAA-CCTTA
9937694 AACCTAAACCTTA
1 AACCTAAACCTTA
* * *
9937707 AACCCAAATCATA
1 AACCTAAACCTTA
*
9937720 AACCTAAATCTTA
1 AACCTAAACCTTA
*
9937733 AACTCTAAACCCTA
1 AAC-CTAAACCTTA
*
9937747 AACAC-AAAACTTA
1 AAC-CTAAACCTTA
9937760 AACCTTAAACC
1 AACC-TAAACC
9937771 AAAACCCTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
12 1 0.01
13 48 0.65
14 25 0.34
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (13 bp):
AACCTAAACCTTA
Found at i:9937904 original size:18 final size:18
Alignment explanation
Indices: 9937861--9937904 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
9937851 TCTAACGTAG
*
9937861 ACTCTAAACTAACCCCAA
1 ACTCTAAACTAACCACAA
*
9937879 AC-CTTAAACTAACCATAA
1 ACTC-TAAACTAACCACAA
9937897 ACTCTAAA
1 ACTCTAAA
9937905 ACCAACATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (18 bp):
ACTCTAAACTAACCACAA
Found at i:9939127 original size:17 final size:18
Alignment explanation
Indices: 9939105--9939138 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9939095 GTGACATTGC
9939105 CTTTTCTC-TTTTCTCTT
1 CTTTTCTCTTTTTCTCTT
9939122 CTTTTCTCTTTTTCTCT
1 CTTTTCTCTTTTTCTCT
9939139 CCCCCCCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
CTTTTCTCTTTTTCTCTT
Found at i:9944035 original size:13 final size:14
Alignment explanation
Indices: 9944017--9944068 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
9944007 CAAGAGAGTG
*
9944017 TTTTTTATATATAT
1 TTTTTTATATATAA
9944031 TTTTTTCATATATAA
1 TTTTTT-ATATATAA
* *
9944046 TTGTTTTAGAAATAA
1 TT-TTTTATATATAA
9944061 TTTTTTAT
1 TTTTTTAT
9944069 GCAAGTTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 11 0.34
15 17 0.53
16 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (14 bp):
TTTTTTATATATAA
Found at i:9944041 original size:15 final size:14
Alignment explanation
Indices: 9944017--9944068 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
9944007 CAAGAGAGTG
9944017 TTTTTTATATATAT
1 TTTTTTATATATAT
9944031 TTTTTTCATATATAAT
1 TTTTTT-ATATAT-AT
* * * *
9944047 TGTTTTAGAAATAA
1 TTTTTTATATATAT
9944061 TTTTTTAT
1 TTTTTTAT
9944069 GCAAGTTCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 13 0.43
15 10 0.33
16 7 0.23
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (14 bp):
TTTTTTATATATAT
Found at i:9944170 original size:45 final size:45
Alignment explanation
Indices: 9944111--9944205 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
9944101 TCTAAGATGT
* * *
9944111 CATAATTAATTAAATTCATTCTACAAGGAATGATAAAATGTGTCA
1 CATAATTAAATAAATTCATTCTACAAGCAATGATAAAATATGTCA
* *
9944156 CATAATTAAATAAATTTATTCTACAAGCAGTGATAAAATATGTCA
1 CATAATTAAATAAATTCATTCTACAAGCAATGATAAAATATGTCA
9944201 CATAA
1 CATAA
9944206 CTTCTAAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (45 bp):
CATAATTAAATAAATTCATTCTACAAGCAATGATAAAATATGTCA
Found at i:9945529 original size:26 final size:26
Alignment explanation
Indices: 9945495--9945560 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 26
9945485 ATTGATCTAA
*
9945495 TTTTGATTTTTAATTGGAATTTTAAT
1 TTTTAATTTTTAATTGGAATTTTAAT
* * ** **
9945521 TTTTAATTTATAAGTGGGTTTTTTGT
1 TTTTAATTTTTAATTGGAATTTTAAT
9945547 TTTTAA-TTTTAATT
1 TTTTAATTTTTAATT
9945561 TTGTTTTTCT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
25 6 0.19
26 25 0.81
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (26 bp):
TTTTAATTTTTAATTGGAATTTTAAT
Found at i:9946558 original size:5 final size:5
Alignment explanation
Indices: 9946539--9946613 Score: 53
Period size: 5 Copynumber: 13.8 Consensus size: 5
9946529 TCTTTTTCTT
* *
9946539 TTTTCA TTTTAA TTTTA TTTTTAA TTTCTA TTTTA TTTTC TTTCTA TTTTC
1 TTTT-A TTTT-A TTTTA -TTTT-A TTT-TA TTTTA TTTTA TTT-TA TTTTA
*
9946590 TAATT- TTTTA TTTTA TTTTA TTTT
1 T-TTTA TTTTA TTTTA TTTTA TTTT
9946614 TTGTTTTGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
4 2 0.04
5 27 0.47
6 26 0.46
7 2 0.04
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:9946594 original size:42 final size:41
Alignment explanation
Indices: 9946548--9946648 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
9946538 TTTTTCATTT
*
9946548 TAATTTTATTTTTAATTTCTATTTTATTTTCTTTCTATTTTC
1 TAATTTTATTTTTAATTTATATTTTATTTTCTTT-TATTTTC
* * * * *
9946590 TAATTTTTTATTTTATTTTATTTTTTGTTTTGTTTTATTTTC
1 TAATTTTAT-TTTTAATTTATATTTTATTTTCTTTTATTTTC
* *
9946632 TATTTTTAATTTTAATT
1 TAATTTTATTTTTAATT
9946649 GTGTGATTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 7 0.15
42 21 0.44
43 20 0.42
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (41 bp):
TAATTTTATTTTTAATTTATATTTTATTTTCTTTTATTTTC
Found at i:9946596 original size:48 final size:46
Alignment explanation
Indices: 9946533--9946648 Score: 126
Period size: 48 Copynumber: 2.5 Consensus size: 46
9946523 ACATTTTCTT
*
9946533 TTTCT-TTTTTCATTTTAATTTTATTTTTAATTTCTATTTTATTTTC
1 TTTCTATTTTTAATTTTAATTTTA-TTTTAATTTCTATTTTATTTTC
* * * * * *
9946579 TTTCTATTTTCTAATTTTTTATTTTATTTTATTTTTTGTTTTGTTTTAT
1 TTTCTATTTT-TAA-TTTTAATTTTATTTTAATTTCTATTTTATTTT-C
9946628 TTTCTATTTTTAATTTTAATT
1 TTTCTATTTTTAATTTTAATT
9946649 GTGTGATTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
46 5 0.09
47 11 0.19
48 22 0.38
49 20 0.34
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (46 bp):
TTTCTATTTTTAATTTTAATTTTATTTTAATTTCTATTTTATTTTC
Found at i:9946791 original size:24 final size:22
Alignment explanation
Indices: 9946771--9946874 Score: 96
Period size: 21 Copynumber: 4.9 Consensus size: 22
9946761 GTAATTAATA
*
9946771 TATTTGCATGATTATTTATTA-
1 TATTTGCATGATTATATATTAT
* *
9946792 TATTT-CATGA-T-TACA-CAT
1 TATTTGCATGATTATATATTAT
9946810 TATTTGCATGATTAT-TAATATATT
1 TATTTGCATGATTATAT-AT-TA-T
9946834 TATTTGCATGATT-TATATTAT
1 TATTTGCATGATTATATATTAT
*
9946855 TAATTGCATGATTATATATT
1 TATTTGCATGATTATATATT
9946875 TAATTGCATG
Statistics
Matches: 67, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
17 1 0.01
18 7 0.10
19 6 0.09
20 6 0.09
21 20 0.30
22 8 0.12
23 4 0.06
24 15 0.22
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.53
Consensus pattern (22 bp):
TATTTGCATGATTATATATTAT
Found at i:9946877 original size:20 final size:20
Alignment explanation
Indices: 9946774--9946889 Score: 85
Period size: 20 Copynumber: 5.6 Consensus size: 20
9946764 ATTAATATAT
*
9946774 TTGCATGATTATTTA-TTATA
1 TTGCATGATTATATATTTA-A
* * * *
9946794 TTTCATGATTACACA-TTAT
1 TTGCATGATTATATATTTAA
*
9946813 TTGCATGATTATTAATATATTTAT
1 TTGCATG---ATT-ATATATTTAA
9946837 TTGCATGATT-TATATTATTAA
1 TTGCATGATTATATA-T-TTAA
9946858 TTGCATGATTATATATTTAA
1 TTGCATGATTATATATTTAA
*
9946878 TTGCATGGTTAT
1 TTGCATGATTAT
9946890 TTGCATTATT
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
19 10 0.13
20 30 0.38
21 17 0.22
22 7 0.09
23 3 0.04
24 11 0.14
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (20 bp):
TTGCATGATTATATATTTAA
Found at i:9946983 original size:24 final size:23
Alignment explanation
Indices: 9946956--9947010 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
9946946 TTGCATATTC
9946956 TATATTTATCGAATGATATGATAT
1 TATATTTATCGAATGAT-TGATAT
* *
9946980 TATATATTATTGCATGATTGATAT
1 TATAT-TTATCGAATGATTGATAT
9947004 TATATTT
1 TATATTT
9947011 GCATGATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 16 0.57
25 10 0.36
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
TATATTTATCGAATGATTGATAT
Found at i:9947211 original size:51 final size:51
Alignment explanation
Indices: 9947088--9947235 Score: 167
Period size: 51 Copynumber: 2.9 Consensus size: 51
9947078 AATCGTAATT
9947088 GAGAGATTTTT-AGGATTTAATTTCAGAATCAATT-AGCATTAAAAATGATGTA
1 GAGAGATTTTTGA-GATTTAATTTCAGAATCAATTCA-CATT-AAAATGATGTA
* * * * * *
9947140 GAGGGATTGTCGGGATTTAATTTCATAATCAATTCACATTAAAATGATAG-G
1 GAGAGATTTTTGAGATTTAATTTCAGAATCAATTCACATTAAAATGAT-GTA
* *
9947191 GAGAGATTTTTGAAATTTAATTTCAGAATCAATTCTCATTAAAAT
1 GAGAGATTTTTGAGATTTAATTTCAGAATCAATTCACATTAAAAT
9947236 TGAAATCAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
51 46 0.57
52 33 0.41
53 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (51 bp):
GAGAGATTTTTGAGATTTAATTTCAGAATCAATTCACATTAAAATGATGTA
Found at i:9947755 original size:20 final size:17
Alignment explanation
Indices: 9947725--9947764 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
9947715 TTTCACTCCA
9947725 TTTTCTATTTTGATTCTAT
1 TTTTCTATTTTG-TT-TAT
9947744 TTTTCTTATTTTGTTTAT
1 TTTTC-TATTTTGTTTAT
9947762 TTT
1 TTT
9947765 ATTTCGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 7 0.35
20 7 0.35
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (17 bp):
TTTTCTATTTTGTTTAT
Found at i:9947768 original size:14 final size:15
Alignment explanation
Indices: 9947749--9947783 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
9947739 TCTATTTTTC
*
9947749 TTATTTTGTTTATT-
1 TTATTTCGTTTATTG
9947763 TTATTTCGTTTATTG
1 TTATTTCGTTTATTG
9947778 TTATTT
1 TTATTT
9947784 ACTTTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.74
Consensus pattern (15 bp):
TTATTTCGTTTATTG
Found at i:9948771 original size:42 final size:42
Alignment explanation
Indices: 9948703--9948808 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
9948693 TTATCCTAGC
*
9948703 CTTGCTTAATAAATTTGATATTTTTACTTCTTTTCATTGCTTACA
1 CTTGCTTAAT-TATTT-AT-TTTTTACTTCTTTTCATTGCTTACA
* * * *
9948748 TTTGTTTAATTATTTATTTTTTACTTTTTTTCATTGCTTATA
1 CTTGCTTAATTATTTATTTTTTACTTCTTTTCATTGCTTACA
9948790 CTTGCTTAATTATTTATTT
1 CTTGCTTAATTATTTATTT
9948809 ATTATATATC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 40 0.74
43 2 0.04
44 4 0.07
45 8 0.15
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (42 bp):
CTTGCTTAATTATTTATTTTTTACTTCTTTTCATTGCTTACA
Found at i:9951671 original size:18 final size:17
Alignment explanation
Indices: 9951641--9951680 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
9951631 AATTTTCATG
9951641 AAAAAAAATAAAGAAAA
1 AAAAAAAATAAAGAAAA
9951658 CAAAAACAAA-AAAGAAAA
1 -AAAAA-AAATAAAGAAAA
9951676 AAAAA
1 AAAAA
9951681 TTGATGGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 13 0.62
19 3 0.14
ACGTcount: A:0.88, C:0.05, G:0.05, T:0.03
Consensus pattern (17 bp):
AAAAAAAATAAAGAAAA
Found at i:9951777 original size:59 final size:56
Alignment explanation
Indices: 9951659--9951769 Score: 132
Period size: 59 Copynumber: 1.9 Consensus size: 56
9951649 TAAAGAAAAC
* * **
9951659 AAAAACAAAAAAGAAAAAAAAATTGATGGGGCAAAATGCCAATGTGCTTCATCCAAA
1 AAAAACAAAAAAGAAAAAAAAATTGATAGGGCAAAATGCCAAAGTGCCCCA-CCAAA
* **
9951716 AAAAAGCAAAAAAGAAAAAAAATATTGATAGGGTAAAATGTTAAAGTGCCCCAC
1 AAAAA-CAAAAAAGAAAAAAAA-ATTGATAGGGCAAAATGCCAAAGTGCCCCAC
9951770 ATGAAAAATG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
57 5 0.11
58 17 0.38
59 23 0.51
ACGTcount: A:0.55, C:0.13, G:0.16, T:0.16
Consensus pattern (56 bp):
AAAAACAAAAAAGAAAAAAAAATTGATAGGGCAAAATGCCAAAGTGCCCCACCAAA
Found at i:9952058 original size:32 final size:33
Alignment explanation
Indices: 9952022--9952088 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
9952012 AAAAGTGTGC
*
9952022 AAAAAAATGCAA-AAAAAAGATAA-AAAAACAA
1 AAAAAAATACAAGAAAAAAGATAAGAAAAACAA
* *
9952053 AAAAAATTACAAGAAAAAAGTTAAGAAAAACAA
1 AAAAAAATACAAGAAAAAAGATAAGAAAAACAA
9952086 AAA
1 AAA
9952089 GAAGAAAGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 10 0.32
32 10 0.32
33 11 0.35
ACGTcount: A:0.78, C:0.06, G:0.07, T:0.09
Consensus pattern (33 bp):
AAAAAAATACAAGAAAAAAGATAAGAAAAACAA
Found at i:9952932 original size:17 final size:17
Alignment explanation
Indices: 9952912--9952964 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
9952902 TCTTTCATTC
9952912 TTGCAAACCTGAAATCT
1 TTGCAAACCTGAAATCT
* * * *
9952929 TTGCGAATCTAAAACCT
1 TTGCAAACCTGAAATCT
*
9952946 TTGCAAAACTTGAAATCT
1 TTGC-AAACCTGAAATCT
9952964 T
1 T
9952965 GTGAATCTTT
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (17 bp):
TTGCAAACCTGAAATCT
Found at i:9952938 original size:34 final size:33
Alignment explanation
Indices: 9952899--9952986 Score: 79
Period size: 34 Copynumber: 2.6 Consensus size: 33
9952889 GGAATCTTAT
9952899 GAATCTTTCATTCTTGCAAACCTGAAATCTTTGC
1 GAATCTTTCATTCTTGCAAACCTGAAATC-TTGC
** ** * *
9952933 GAATC-TAAAACCTTTGCAAAACTTGAAATCTTGT
1 GAATCTTTCATTC-TTGC-AAACCTGAAATCTTGC
*
9952967 GAATCTTTCTTTCTTGCAAA
1 GAATCTTTCATTCTTGCAAA
9952987 TTTGAAAGTC
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
33 6 0.15
34 21 0.52
35 13 0.32
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (33 bp):
GAATCTTTCATTCTTGCAAACCTGAAATCTTGC
Found at i:9953071 original size:34 final size:34
Alignment explanation
Indices: 9953033--9953129 Score: 99
Period size: 34 Copynumber: 2.9 Consensus size: 34
9953023 CTAGAACCTT
*
9953033 TGTGAAACTTGGAATCTTGTGAATCTTTCA-TTCC
1 TGTGAAACTTGAAATCTTGTGAATCTTTCACTT-C
* * * * * *
9953067 TGTGAATC-TAAAATCTTTGTAAATCTATAACTTT
1 TGTGAAACTTGAAATC-TTGTGAATCTTTCACTTC
9953101 TGTGAAACTTGAAATCTTGTGAATCTTTC
1 TGTGAAACTTGAAATCTTGTGAATCTTTC
9953130 TTTTTTATGA
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
33 5 0.10
34 35 0.73
35 8 0.17
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (34 bp):
TGTGAAACTTGAAATCTTGTGAATCTTTCACTTC
Found at i:9953141 original size:68 final size:69
Alignment explanation
Indices: 9953011--9953150 Score: 192
Period size: 68 Copynumber: 2.0 Consensus size: 69
9953001 CAAACCTTGT
* * * *
9953011 ATCTTTGTGAATCTAGAACCTTTGTGAAACTTGGAATCTTGTGAATCTTTCATTCCTGTGAATCT
1 ATCTTTGTAAATCTAGAACCTTTGTGAAACTTGAAATCTTGTGAATCTTTCATTCCTATGAATAT
9953076 -AAA
66 GAAA
* * * **
9953079 ATCTTTGTAAATCTATAACTTTTGTGAAACTTGAAATCTTGTGAATCTTTCTTTTTTATGAATAT
1 ATCTTTGTAAATCTAGAACCTTTGTGAAACTTGAAATCTTGTGAATCTTTCATTCCTATGAATAT
9953144 GAAA
66 GAAA
9953148 ATC
1 ATC
9953151 CTTGCGAACC
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
68 56 0.90
69 6 0.10
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (69 bp):
ATCTTTGTAAATCTAGAACCTTTGTGAAACTTGAAATCTTGTGAATCTTTCATTCCTATGAATAT
GAAA
Found at i:9953153 original size:154 final size:154
Alignment explanation
Indices: 9952873--9953241 Score: 470
Period size: 154 Copynumber: 2.4 Consensus size: 154
9952863 TCATTTTTCT
* * *
9952873 AACCTTTGTGAAACTTGGAATCTTATGAATCTTTCATTCTTGCAAACCTGAAATCTTTGCGAATC
1 AACCTTTGTGAAACTTGGAATCTTATGAATCTTTCATTCCTGCAAACCTAAAATCTTTGCAAATC
* * *
9952938 TAAAACCTTTGCAAAACTTGAAATCTTGTGAATCTTTCTTTCTTGCAAATTTGAAAGTCCTTGCA
66 TAAAACCTTTGCAAAACTTGAAATCTTGTGAATCTTTCTTTCTTACAAATATGAAAATCCTTGCA
* *
9953003 AACCTTGTATCTTTGTGAATCTAG
131 AACCTTGCATCTTTATGAATCTAG
* ** * *
9953027 AACCTTTGTGAAACTTGGAATCTTGTGAATCTTTCATTCCTGTGAATCTAAAATCTTTGTAAATC
1 AACCTTTGTGAAACTTGGAATCTTATGAATCTTTCATTCCTGCAAACCTAAAATCTTTGCAAATC
* * ** * ** *
9953092 TATAACTTTTGTGAAACTTGAAATCTTGTGAATCTTTCTTTTTTATGAATATGAAAATCCTTGCG
66 TAAAACCTTTGCAAAACTTGAAATCTTGTGAATCTTTCTTTCTTACAAATATGAAAATCCTTGCA
*
9953157 AACCTTGCATCTTTATGAATCTAT
131 AACCTTGCATCTTTATGAATCTAG
* * * * *
9953181 AACCTTTGTGAAACGTGAAATCTTATGAATCTTTC-TCTCTTGCAAATCTATAAGTCTTTGC
1 AACCTTTGTGAAACTTGGAATCTTATGAATCTTTCAT-TCCTGCAAACCTA-AAATCTTTGC
9953242 GAACCTGAAA
Statistics
Matches: 183, Mismatches: 30, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
153 1 0.01
154 174 0.95
155 8 0.04
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (154 bp):
AACCTTTGTGAAACTTGGAATCTTATGAATCTTTCATTCCTGCAAACCTAAAATCTTTGCAAATC
TAAAACCTTTGCAAAACTTGAAATCTTGTGAATCTTTCTTTCTTACAAATATGAAAATCCTTGCA
AACCTTGCATCTTTATGAATCTAG
Found at i:9953189 original size:86 final size:87
Alignment explanation
Indices: 9953077--9953358 Score: 297
Period size: 86 Copynumber: 3.3 Consensus size: 87
9953067 TGTGAATCTA
* * *
9953077 AAATCTTTGTAAATCTATAACTTTTGTGAAACTTGAAATCTTGTGAATCTTTCTTTTTTATGAAT
1 AAATCTTTGTGAATCTATAACTTTTGTGAAACTTGAAATCTTATGAATCTTTCTTTTTTGTGAAT
*
9953142 ATGAAAATCCTTGCGAACCTTG
66 ATGAAAGTCCTTGCGAACCTTG
* * * * * * **
9953164 -CATCTTTATGAATCTATAACCTTTGTGAAACGTGAAATCTTATGAATCTTTCTCTCTTGCAAAT
1 AAATCTTTGTGAATCTATAACTTTTGTGAAACTTGAAATCTTATGAATCTTTCTTTTTTGTGAAT
* *
9953228 CT-ATAAGTCTTTGCGAACC-TG
66 ATGA-AAGTCCTTGCGAACCTTG
* * * *
9953249 AAATCTTTGCGAATCTAGAACTTTTGTGAAACTTGGAATCTTACGAATCTTT-TTTTCTTGTGAA
1 AAATCTTTGTGAATCTATAACTTTTGTGAAACTTGAAATCTTATGAATCTTTCTTTT-TTGTGAA
* *
9953313 TATGAAAGTTCTTGAGAACC-T-
65 TATGAAAGTCCTTGCGAACCTTG
* * *
9953334 AAACCTTTGCGAATCTAAAACTTTT
1 AAATCTTTGTGAATCTATAACTTTT
9953359 CCAAATCTTA
Statistics
Matches: 159, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
85 28 0.18
86 130 0.82
87 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (87 bp):
AAATCTTTGTGAATCTATAACTTTTGTGAAACTTGAAATCTTATGAATCTTTCTTTTTTGTGAAT
ATGAAAGTCCTTGCGAACCTTG
Found at i:9953836 original size:114 final size:114
Alignment explanation
Indices: 9953628--9953941 Score: 271
Period size: 114 Copynumber: 2.8 Consensus size: 114
9953618 AACATCATTC
* * * * *
9953628 CAGTCATCCAATCTCGGTTCAGGTCAGATCATTTTTTAACCCGCGACATCGTTTCCATCATTCAT
1 CAGTCATCCAATCTCAGCTCAGCTCAGATCATTTTTCAACCCGCAACATCGTTTCCATCATTCAT
* * *
9953693 CTTTGACTTTAACTCAGTCTTAACTACTTTTAAACTCATGGCATTATCT
66 CTTTCACCTTAACTCAGTCTTAACTACTTTTAAACTCATGACATTATCT
* * *
9953742 CAGTCATCCAATCTCAGCTCAGCTTAGATCATTTTTCAACCTGCAACATCGTCTT-GATCATTCA
1 CAGTCATCCAATCTCAGCTCAGCTCAGATCATTTTTCAACCCGCAACATCGT-TTCCATCATTCA
* ** ** * * *
9953806 TCTTTCACCTTGACTTGGTCTT-GGTCACTTTTAGATTCATGACATTTTCT
65 TCTTTCACCTTAACTCAGTCTTAACT-ACTTTTAAACTCATGACATTATCT
* ** * * * * ** * *
9953856 TAGTCATCTGATCTCGGCTCATG-TCAAATCATTTTT-GACCTGCGGCATCG-TCCCAGTCAATC
1 CAGTCATCCAATCTCAGCTCA-GCTCAGATCATTTTTCAACCCGCAACATCGTTTCCA-TCATTC
9953918 ATC-TTCGACCTTAACTCAGTCTTA
64 ATCTTTC-ACCTTAACTCAGTCTTA
9953942 GTCGTTTTTA
Statistics
Matches: 159, Mismatches: 34, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
111 1 0.01
112 4 0.03
113 33 0.21
114 118 0.74
115 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (114 bp):
CAGTCATCCAATCTCAGCTCAGCTCAGATCATTTTTCAACCCGCAACATCGTTTCCATCATTCAT
CTTTCACCTTAACTCAGTCTTAACTACTTTTAAACTCATGACATTATCT
Found at i:9954401 original size:49 final size:51
Alignment explanation
Indices: 9954284--9954412 Score: 145
Period size: 50 Copynumber: 2.5 Consensus size: 51
9954274 GATTTTTAGA
* ** * * *
9954284 ATTTAATTCCAGAATCAATTGGCATTAAAAATGATATGGAGGGATTGTCGGG
1 ATTTAATTCCAAAATCAATTCACATT-AACATGATAGGGAGAGATTGTCGGG
* *
9954336 ATTTAATTCCATAATCAA-TCACATTAACATGATAGGGAGAGATT-TTGGG
1 ATTTAATTCCAAAATCAATTCACATTAACATGATAGGGAGAGATTGTCGGG
* *
9954385 ATTTAATTTCAAAATCAATTCTCATTAA
1 ATTTAATTCCAAAATCAATTCACATTAA
9954413 AATGGAAATT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
49 20 0.30
50 24 0.36
51 5 0.08
52 17 0.26
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (51 bp):
ATTTAATTCCAAAATCAATTCACATTAACATGATAGGGAGAGATTGTCGGG
Found at i:9954969 original size:29 final size:29
Alignment explanation
Indices: 9954910--9954971 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
9954900 CTCCATTTTC
**
9954910 TATTTTGATTCTATTTTTATTATTTTGTT
1 TATTTTGATTCTATTTTTATTATTTACTT
* *
9954939 TATTTT-ATTTTATTTATTTTTATTTACTT
1 TATTTTGATTCTATTT-TTATTATTTACTT
9954968 TATT
1 TATT
9954972 GGTTCTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (29 bp):
TATTTTGATTCTATTTTTATTATTTACTT
Found at i:9954971 original size:15 final size:15
Alignment explanation
Indices: 9954910--9954963 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 15
9954900 CTCCATTTTC
* *
9954910 TATTTTGATTCTATT
1 TATTTTTATTTTATT
* *
9954925 T-TTATTATTTTGTT
1 TATTTTTATTTTATT
9954939 TA-TTTTATTTTATT
1 TATTTTTATTTTATT
9954953 TATTTTTATTT
1 TATTTTTATTT
9954964 ACTTTATTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 22 0.71
15 9 0.29
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.76
Consensus pattern (15 bp):
TATTTTTATTTTATT
Found at i:9955936 original size:18 final size:18
Alignment explanation
Indices: 9955903--9955937 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9955893 TTATATTTGA
* *
9955903 TTGCATGATTATATATTT
1 TTGCATGAATAGATATTT
9955921 TTGCATGAATAGATATT
1 TTGCATGAATAGATATT
9955938 AATATTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (18 bp):
TTGCATGAATAGATATTT
Found at i:9955974 original size:21 final size:21
Alignment explanation
Indices: 9955950--9956004 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 21
9955940 TATTTTTATG
9955950 TGATATTTTTATATTATTGCA
1 TGATATTTTTATATTATTGCA
9955971 TGATATTATTTTATATTATTGCA
1 TGATA-T-TTTTATATTATTGCA
9955994 TGATAATTTTT
1 TGAT-ATTTTT
9956005 GCATGATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.16
22 5 0.16
23 20 0.65
24 1 0.03
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.58
Consensus pattern (21 bp):
TGATATTTTTATATTATTGCA
Found at i:9955976 original size:13 final size:13
Alignment explanation
Indices: 9955960--9956011 Score: 56
Period size: 14 Copynumber: 4.2 Consensus size: 13
9955950 TGATATTTTT
9955960 ATATTATTGCATG
1 ATATTATTGCATG
*
9955973 ATATTATT---TT
1 ATATTATTGCATG
9955983 ATATTATTGCATG
1 ATATTATTGCATG
*
9955996 ATAATTTTTGCATG
1 AT-ATTATTGCATG
9956010 AT
1 AT
9956012 GTTTTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
10 9 0.28
13 11 0.34
14 12 0.38
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.52
Consensus pattern (13 bp):
ATATTATTGCATG
Found at i:9956007 original size:37 final size:34
Alignment explanation
Indices: 9955966--9956035 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
9955956 TTTTATATTA
* *
9955966 TTGCATGATATTATTTTATATTATTGCATGATAATTT
1 TTGCATGATATT-TTATATA-T-TTGCATAATAATTT
*
9956003 TTGCATGATGTTTTATATATTTGCATAATAATT
1 TTGCATGATATTTTATATATTTGCATAATAATT
9956036 GCATGATTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 12 0.40
35 1 0.03
36 6 0.20
37 11 0.37
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (34 bp):
TTGCATGATATTTTATATATTTGCATAATAATTT
Done.