Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 40 of 316
Found at i:11537493 original size:32 final size:32
Alignment explanation
Indices: 11537454--11537521 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
11537444 TTTGGTTCGC
11537454 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
11537486 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
11537518 TGTA
1 TGTA
11537522 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:11537847 original size:157 final size:157
Alignment explanation
Indices: 11537658--11537960 Score: 534
Period size: 157 Copynumber: 1.9 Consensus size: 157
11537648 CATAAATTTA
*
11537658 TTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAATAATAAA
1 TTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAA
* *
11537723 TATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAATTTAATA
66 TAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATA
11537788 AAATTCTTAATAATTACCAAAAAATTG
131 AAATTCTTAATAATTACCAAAAAATTG
* * *
11537815 TTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAATAATAAA
1 TTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAA
* *
11537880 TAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAATTTAATA
66 TAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATA
11537945 AAATTCTTAATAATTA
131 AAATTCTTAATAATTA
11537961 ATATTCTTAT
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 138 1.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
TTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAA
TAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAATTTAATA
AAATTCTTAATAATTACCAAAAAATTG
Found at i:11538857 original size:13 final size:13
Alignment explanation
Indices: 11538839--11538868 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
11538829 CAATCAGCTA
11538839 AATTCAGAAAAAC
1 AATTCAGAAAAAC
11538852 AATTCAGAAAAAC
1 AATTCAGAAAAAC
11538865 AATT
1 AATT
11538869 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:11541939 original size:5 final size:5
Alignment explanation
Indices: 11541929--11541954 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11541919 ATATGCCGGG
11541929 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
11541955 ATTATGTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:11542777 original size:17 final size:17
Alignment explanation
Indices: 11542732--11542777 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
11542722 TAAAACTATA
11542732 AAAAATCATTAAAAATGT
1 AAAAATCA-TAAAAATGT
** *
11542750 AAAAAAAATAAAATTGT
1 AAAAATCATAAAAATGT
11542767 AAAAATCATAA
1 AAAAATCATAA
11542778 CAAGTTATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (17 bp):
AAAAATCATAAAAATGT
Found at i:11555836 original size:51 final size:51
Alignment explanation
Indices: 11555776--11555877 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
11555766 CCTCCTTCTC
11555776 AATTAAGTAATTTCATCCAATTAG-GTAACTGGGGATTGGTTTTATGGTAGG
1 AATTAAGTAATTTCATCCAATT-GCGTAACTGGGGATTGGTTTTATGGTAGG
* *
11555827 AATTAAGTAATTTCTTCCAATTGCGTAATTGGGGATTGGTTTTATGGTAGG
1 AATTAAGTAATTTCATCCAATTGCGTAACTGGGGATTGGTTTTATGGTAGG
11555878 TATAGAGAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 1 0.02
51 47 0.98
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.39
Consensus pattern (51 bp):
AATTAAGTAATTTCATCCAATTGCGTAACTGGGGATTGGTTTTATGGTAGG
Found at i:11556832 original size:12 final size:12
Alignment explanation
Indices: 11556796--11556833 Score: 55
Period size: 10 Copynumber: 3.4 Consensus size: 12
11556786 ATAAAATGAT
11556796 ATTATATTTATA
1 ATTATATTTATA
11556808 A-TAT-TTTAT-
1 ATTATATTTATA
11556817 ATTATATTTATA
1 ATTATATTTATA
11556829 ATTAT
1 ATTAT
11556834 GACAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.04
10 8 0.35
11 8 0.35
12 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTATATTTATA
Found at i:11558997 original size:26 final size:26
Alignment explanation
Indices: 11558961--11559010 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
11558951 AGTAGGTTAA
11558961 TTTTGAAAAATCACCATAAATTTTAG
1 TTTTGAAAAATCACCATAAATTTTAG
11558987 TTTTGAAAAATCACCATAAATTTT
1 TTTTGAAAAATCACCATAAATTTT
11559011 GGAAATCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (26 bp):
TTTTGAAAAATCACCATAAATTTTAG
Found at i:11560256 original size:12 final size:12
Alignment explanation
Indices: 11560241--11560271 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11560231 TGGAAAGAGA
*
11560241 ATGATATTTATC
1 ATGACATTTATC
11560253 ATGACATTTATC
1 ATGACATTTATC
11560265 ATGACAT
1 ATGACAT
11560272 GTAAATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (12 bp):
ATGACATTTATC
Found at i:11578781 original size:40 final size:40
Alignment explanation
Indices: 11578686--11578783 Score: 133
Period size: 40 Copynumber: 2.5 Consensus size: 40
11578676 CTTTTCAGGT
* * * *
11578686 CAAATCCTATCCGCCTTAAGTTACCGTAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* * *
11578726 TAAATCCTATTCACTTTAAATTACTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
11578766 CAAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
11578784 TATTCTCGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:11581980 original size:23 final size:22
Alignment explanation
Indices: 11581939--11581981 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11581929 CTTTAGCTAT
*
11581939 TTTTATTTTTATTGCAATTTAA
1 TTTTATTTTTATTACAATTTAA
*
11581961 TTTTGTTTTTATTACTAATTT
1 TTTTATTTTTATTAC-AATTT
11581982 TTCTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTATTACAATTTAA
Found at i:11581981 original size:18 final size:19
Alignment explanation
Indices: 11581958--11581996 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
11581948 TATTGCAATT
11581958 TAATTTTGT-TTTTA-TTAC
1 TAATTTT-TCTTTTATTTAC
11581976 TAATTTTTCTTTTATTTAC
1 TAATTTTTCTTTTATTTAC
11581995 TA
1 TA
11581997 CTGGCAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.05
18 12 0.63
19 6 0.32
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (19 bp):
TAATTTTTCTTTTATTTAC
Found at i:11582635 original size:25 final size:25
Alignment explanation
Indices: 11582601--11582648 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
11582591 CGGAAAAGTT
11582601 AAGGAATGATATCTCTTCTTTTGCG
1 AAGGAATGATATCTCTTCTTTTGCG
11582626 AAGGAATGATATCTCTTCTTTTG
1 AAGGAATGATATCTCTTCTTTTG
11582649 TGCAAATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (25 bp):
AAGGAATGATATCTCTTCTTTTGCG
Found at i:11585543 original size:35 final size:35
Alignment explanation
Indices: 11585492--11585562 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
11585482 GCTTTTTAGG
*
11585492 TCATACTGGATTTTATAGAAGGTTTATTAAAGATT
1 TCATACTGGATTTTATAGAAGATTTATTAAAGATT
*
11585527 TCATGCTGGATTTTATAGAAGATTTATTAAAGATT
1 TCATACTGGATTTTATAGAAGATTTATTAAAGATT
11585562 T
1 T
11585563 TTCTAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.44
Consensus pattern (35 bp):
TCATACTGGATTTTATAGAAGATTTATTAAAGATT
Found at i:11593035 original size:13 final size:13
Alignment explanation
Indices: 11593017--11593042 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11593007 GTATGAACTT
11593017 AGTGGTATTTCTA
1 AGTGGTATTTCTA
11593030 AGTGGTATTTCTA
1 AGTGGTATTTCTA
11593043 TAAACCGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
AGTGGTATTTCTA
Found at i:11594828 original size:22 final size:22
Alignment explanation
Indices: 11594772--11594828 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
11594762 TTCTTCACTG
* *
11594772 TTTCTTTTGCTTTGTTTCTCTT
1 TTTCATTTGTTTTGTTTCTCTT
*
11594794 TTTCATTTCTTTTGTTTCAT-TT
1 TTTCATTTGTTTTGTTTC-TCTT
11594816 ATTT-ATTTGTTTT
1 -TTTCATTTGTTTT
11594829 TATTATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (22 bp):
TTTCATTTGTTTTGTTTCTCTT
Found at i:11596754 original size:20 final size:21
Alignment explanation
Indices: 11596729--11596772 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
11596719 ACACCTATTA
*
11596729 TTTATTTTTA-CTTTTTTTAT
1 TTTATTTTTATCTTTATTTAT
11596749 TTTATTTTTATCTTTATTTAT
1 TTTATTTTTATCTTTATTTAT
11596770 TTT
1 TTT
11596773 TTGAAATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTATTTTTATCTTTATTTAT
Found at i:11596764 original size:12 final size:12
Alignment explanation
Indices: 11596729--11596767 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
11596719 ACACCTATTA
11596729 TTTATTTTTA-C
1 TTTATTTTTATC
11596740 -TT-TTTTTAT-
1 TTTATTTTTATC
11596749 TTTATTTTTATC
1 TTTATTTTTATC
11596761 TTTATTT
1 TTTATTT
11596768 ATTTTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.25
10 4 0.17
11 7 0.29
12 7 0.29
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTATTTTTATC
Found at i:11599176 original size:13 final size:13
Alignment explanation
Indices: 11599158--11599188 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11599148 TTACCAAAGG
11599158 GACACGACCATGT
1 GACACGACCATGT
*
11599171 GACACGGCCATGT
1 GACACGACCATGT
11599184 GACAC
1 GACAC
11599189 ACCCGTGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.13
Consensus pattern (13 bp):
GACACGACCATGT
Found at i:11607379 original size:11 final size:11
Alignment explanation
Indices: 11607363--11607387 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11607353 TGTGAGAAGA
11607363 CAAAATTTTCT
1 CAAAATTTTCT
11607374 CAAAATTTTCT
1 CAAAATTTTCT
11607385 CAA
1 CAA
11607388 TTCTATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (11 bp):
CAAAATTTTCT
Found at i:11608187 original size:46 final size:46
Alignment explanation
Indices: 11608127--11608446 Score: 489
Period size: 46 Copynumber: 7.0 Consensus size: 46
11608117 TTTGACATGA
* * * * * *
11608127 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
11608173 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11608219 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
11608265 TGCCATGGTATCTTTCAACCATGGTCTTACAAATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11608311 TGCCATGGTATCTTTCAACCATGGTATTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
11608357 TGCCATGGTATCTTTCAACCATGGTCTTAAACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11608403 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11608447 AGAGCACACT
Statistics
Matches: 254, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 250 0.98
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:11610144 original size:46 final size:46
Alignment explanation
Indices: 11610094--11610357 Score: 404
Period size: 46 Copynumber: 5.7 Consensus size: 46
11610084 TGCCACAGTG
* * * * *
11610094 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTA
*** * *
11610140 TCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
* *
11610186 TCTTTCAACCATGGTCTTACAAATTTCATATCATGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11610232 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11610278 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11610324 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
11610358 AGAGCACACT
Statistics
Matches: 204, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 200 0.98
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
Found at i:11621291 original size:27 final size:29
Alignment explanation
Indices: 11621230--11621294 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
11621220 ATATATTTTT
* * *
11621230 TATTTTTAATCATATTTACATTTTTTTTA
1 TATTTTTAATCATAATCACATTTTTATTA
*
11621259 -AATTTTAAT-ATAATCAC-TTTTTATTA
1 TATTTTTAATCATAATCACATTTTTATTA
11621285 TATTTTTAAT
1 TATTTTTAAT
11621295 TTGTGTATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 8 0.27
27 14 0.47
28 8 0.27
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (29 bp):
TATTTTTAATCATAATCACATTTTTATTA
Found at i:11621338 original size:41 final size:40
Alignment explanation
Indices: 11621277--11621363 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
11621267 TATAATCACT
* *
11621277 TTTTATTATATTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTTAATTTGTGTATTATTTTAAGAATTG
* * * * *
11621317 TTTTAATATAGTTTTTTATTTGTTTCTTATTTTAATATTTG
1 TTTTAATATA-TTTTTAATTTGTGTATTATTTTAAGAATTG
11621358 TTTTAA
1 TTTTAA
11621364 ATGTATTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 9 0.23
41 30 0.77
ACGTcount: A:0.24, C:0.01, G:0.09, T:0.66
Consensus pattern (40 bp):
TTTTAATATATTTTTAATTTGTGTATTATTTTAAGAATTG
Found at i:11623919 original size:37 final size:37
Alignment explanation
Indices: 11623874--11624012 Score: 224
Period size: 37 Copynumber: 3.8 Consensus size: 37
11623864 TTTGAGTACT
11623874 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
* *
11623911 TCTAATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
11623948 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
11623985 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
11624013 TAGCTTCAGC
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 95 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:11624028 original size:46 final size:44
Alignment explanation
Indices: 11623975--11624098 Score: 178
Period size: 46 Copynumber: 2.8 Consensus size: 44
11623965 GTGATAAGTG
*
11623975 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGA-AAAGTGATAAGTGGTAGCCT-A
* *
11624021 GCTACACTTATCTGATTAAGTGGCAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGT-GAAAAGTGATAAGTGGTAGCCTA
*
11624066 GCTACACTTATCTGATCAAG-GACAAGTGATAAG
1 GCTACACTTATCTGATCAAGTGAAAAGTGATAAG
11624099 AGGTCATATG
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
43 11 0.15
45 20 0.28
46 39 0.55
47 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (44 bp):
GCTACACTTATCTGATCAAGTGAAAAGTGATAAGTGGTAGCCTA
Found at i:11628115 original size:9 final size:9
Alignment explanation
Indices: 11628101--11628126 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11628091 TTGTGTTGAA
11628101 GTTATTTAG
1 GTTATTTAG
11628110 GTTATTTAG
1 GTTATTTAG
11628119 GTTATTTA
1 GTTATTTA
11628127 ATACTTGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (9 bp):
GTTATTTAG
Found at i:11629452 original size:16 final size:16
Alignment explanation
Indices: 11629428--11629461 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11629418 ATTACATACC
11629428 ATTGAATCAGTCAGTT
1 ATTGAATCAGTCAGTT
* *
11629444 ATTGCATCATTCAGTT
1 ATTGAATCAGTCAGTT
11629460 AT
1 AT
11629462 CTTTCTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (16 bp):
ATTGAATCAGTCAGTT
Found at i:11633617 original size:18 final size:19
Alignment explanation
Indices: 11633577--11633617 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
11633567 TGTTTACCTT
*
11633577 TATTTTTTTAAAAAATTAA
1 TATTATTTTAAAAAATTAA
*
11633596 -ATTATTTTAAAAGA-TAA
1 TATTATTTTAAAAAATTAA
11633613 TATTA
1 TATTA
11633618 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TATTATTTTAAAAAATTAA
Found at i:11636502 original size:23 final size:21
Alignment explanation
Indices: 11636445--11636503 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
11636435 AAATATTAGT
*
11636445 TTATATAAAATATTTTAATTT
1 TTATATAAAATATTTTAATTA
* *
11636466 TTCATGTAAGAATATTTTTATTAA
1 TT-ATATAA-AATATTTTAATT-A
11636490 TTATATAATAATAT
1 TTATATAA-AATAT
11636504 ATATCTGACT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.07
22 5 0.17
23 21 0.70
24 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (21 bp):
TTATATAAAATATTTTAATTA
Found at i:11639713 original size:17 final size:18
Alignment explanation
Indices: 11639680--11639716 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11639670 AAAGATAAGA
11639680 TTAAATACAAATAAAAAT
1 TTAAATACAAATAAAAAT
11639698 TTAAA-ACAATATAAAAAT
1 TTAAATACAA-ATAAAAAT
11639716 T
1 T
11639717 ATACTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAAATACAAATAAAAAT
Found at i:11639949 original size:29 final size:29
Alignment explanation
Indices: 11639890--11639959 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
11639880 ACATAGTGAT
*
11639890 AAATAA-ATAATAATATAATATATAATGA
1 AAATAATATAATAATAAAATATATAATGA
* *
11639918 AAATGATATAATGAATAAAATATAT-ATTA
1 AAATAATATAAT-AATAAAATATATAATGA
11639947 AAATAATATAATA
1 AAATAATATAATA
11639960 TATATATGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.17
29 19 0.53
30 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (29 bp):
AAATAATATAATAATAAAATATATAATGA
Found at i:11659139 original size:13 final size:13
Alignment explanation
Indices: 11659123--11659155 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11659113 TTTAATTAAA
*
11659123 TTAGTTAATTAGT
1 TTAGATAATTAGT
11659136 TTAGATAATTAGT
1 TTAGATAATTAGT
11659149 TTA-ATAA
1 TTAGATAA
11659156 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:11665973 original size:6 final size:6
Alignment explanation
Indices: 11665962--11666041 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 6
11665952 AATCCTCCTA
* * * *
11665962 TTTTAT TTTTA- -TTTAT TCTTAT TCTTAT TCTTAT TTTATTT ATTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT -TTTTAT
* * * *
11666010 TCTTAT TTTTCT TTTGAT TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
11666042 CAATTTTCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
4 4 0.07
6 48 0.81
7 4 0.07
8 3 0.05
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:11666021 original size:9 final size:10
Alignment explanation
Indices: 11665963--11666035 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 10
11665953 ATCCTCCTAT
*
11665963 TTTATTTTTA
1 TTTATTCTTA
11665973 TTTATTCTTA
1 TTTATTCTTA
11665983 TTCTTATTCTTA
1 -T-TTATTCTTA
11665995 TTT-TAT-TTA
1 TTTAT-TCTTA
11666004 TTTTATTCTTA
1 -TTTATTCTTA
11666015 TTT-TTCTT-
1 TTTATTCTTA
* *
11666023 TTGATTTTTA
1 TTTATTCTTA
11666033 TTT
1 TTT
11666036 TCATTTCAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
8 2 0.04
9 13 0.25
10 21 0.41
11 6 0.12
12 9 0.18
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.75
Consensus pattern (10 bp):
TTTATTCTTA
Found at i:11666034 original size:38 final size:43
Alignment explanation
Indices: 11665960--11666041 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 43
11665950 TGAATCCTCC
* *
11665960 TATTTTATTTTTATTTATTCTTATTCTTATTCTTATTTT-ATT
1 TATTTTATTCTTATTTATTCTTATTCTGATTCTTATTTTCATT
*
11666002 TATTTTATTCTTATTT-TTC-T-TT-TGATTTTTATTTTCATT
1 TATTTTATTCTTATTTATTCTTATTCTGATTCTTATTTTCATT
11666041 T
1 T
11666042 CAATTTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 11 0.31
39 6 0.17
40 1 0.03
41 3 0.08
42 15 0.42
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.74
Consensus pattern (43 bp):
TATTTTATTCTTATTTATTCTTATTCTGATTCTTATTTTCATT
Found at i:11667831 original size:21 final size:22
Alignment explanation
Indices: 11667791--11667831 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11667781 TACTTAGCAT
11667791 ATTTATGGATGTTTACTGCTAG
1 ATTTATGGATGTTTACTGCTAG
* *
11667813 ATTTGTGGAT-TTTAGTGCT
1 ATTTATGGATGTTTACTGCT
11667832 TTTAATCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.20, C:0.07, G:0.24, T:0.49
Consensus pattern (22 bp):
ATTTATGGATGTTTACTGCTAG
Found at i:11668957 original size:13 final size:13
Alignment explanation
Indices: 11668941--11668973 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11668931 TTTAATTAAA
*
11668941 TTAGTTAATTAGT
1 TTAGATAATTAGT
11668954 TTAGATAATTAGT
1 TTAGATAATTAGT
11668967 TTA-ATAA
1 TTAGATAA
11668974 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:11673645 original size:20 final size:21
Alignment explanation
Indices: 11673598--11673645 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
11673588 CCCTTATTTG
*
11673598 TTATT-TTAGTTATTTTATCA
1 TTATTATTAGTTATTTAATCA
*
11673618 TTA-AATTAGTTATTTAAT-A
1 TTATTATTAGTTATTTAATCA
11673637 TTATTATTA
1 TTATTATTA
11673646 CTATTATTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTATTAGTTATTTAATCA
Found at i:11673661 original size:14 final size:14
Alignment explanation
Indices: 11673642--11673668 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11673632 TAATATTATT
11673642 ATTACTATTATTAC
1 ATTACTATTATTAC
11673656 ATTACTATTATTA
1 ATTACTATTATTA
11673669 TTGTTATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTACTATTATTAC
Found at i:11673690 original size:26 final size:24
Alignment explanation
Indices: 11673622--11673690 Score: 57
Period size: 26 Copynumber: 2.6 Consensus size: 24
11673612 TTATCATTAA
11673622 ATTAGTTATTTAATATTATTATTACT
1 ATTA-TTATTT-ATATTATTATTACT
* **
11673648 ATTATTACATTACTATTATTATTGTT
1 ATTATTA-TTTA-TATTATTATTACT
11673674 ATCTATTTATTTATATT
1 AT-TA-TTATTTATATT
11673691 TATATTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
25 4 0.11
26 23 0.66
27 5 0.14
28 3 0.09
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (24 bp):
ATTATTATTTATATTATTATTACT
Found at i:11676269 original size:42 final size:42
Alignment explanation
Indices: 11676210--11676293 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
11676200 TTCTCTTTTT
11676210 TTTTTCTTCTTTTGTTTATATTCGGCTATGGTGATATTATAA
1 TTTTTCTTCTTTTGTTTATATTCGGCTATGGTGATATTATAA
11676252 TTTTTCTTCTTTTGTTTATATTCGGCTATGGTGATATTATAA
1 TTTTTCTTCTTTTGTTTATATTCGGCTATGGTGATATTATAA
11676294 GAGCACTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.19, C:0.10, G:0.14, T:0.57
Consensus pattern (42 bp):
TTTTTCTTCTTTTGTTTATATTCGGCTATGGTGATATTATAA
Found at i:11676465 original size:14 final size:14
Alignment explanation
Indices: 11676446--11676496 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
11676436 CATAACTTAT
11676446 ATTATATACATATA
1 ATTATATACATATA
* *
11676460 ATTATATACATTTT
1 ATTATATACATATA
11676474 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
11676490 TATTATA
1 -ATTATA
11676497 CATATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 16 0.53
15 3 0.10
16 7 0.23
17 4 0.13
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:11676493 original size:17 final size:17
Alignment explanation
Indices: 11676445--11676495 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
11676435 TCATAACTTA
11676445 TATTATATACATATA-AT
1 TATTATA-ACATATATAT
*
11676462 TA-TAT-ACAT-TTTAT
1 TATTATAACATATATAT
11676476 TATTATAACATATATAT
1 TATTATAACATATATAT
11676493 TAT
1 TAT
11676496 ACATATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.04
14 8 0.29
15 3 0.11
16 7 0.25
17 9 0.32
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTATAACATATATAT
Found at i:11678440 original size:26 final size:26
Alignment explanation
Indices: 11678411--11678518 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
11678401 TGGTACAAAT
11678411 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11678437 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11678463 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11678489 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11678515 TGAT
1 TGAT
11678519 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11696079 original size:60 final size:62
Alignment explanation
Indices: 11696008--11696151 Score: 199
Period size: 60 Copynumber: 2.4 Consensus size: 62
11695998 ATATCTCAAC
11696008 TTGTAATAGGGCTACGGCCCAGATTAATACTGATATGGGCT-AGGCCCAG-TATACTCTGATA
1 TTGTAATAGGGCTACGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGTTA-ACTCTGATA
* *
11696069 TTGTAA-AGGGCTATGGCCCAGATTAATATTGATATGGGCTAAGGCCCAGTTAACTCTGAT-
1 TTGTAATAGGGCTACGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGTTAACTCTGATA
*
11696129 TTCTGAATAGGGCTTA-GGCCCAG
1 TTGT-AATAGGGC-TACGGCCCAG
11696152 TAAAGCTTGA
Statistics
Matches: 75, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
60 35 0.47
61 24 0.32
62 14 0.19
63 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (62 bp):
TTGTAATAGGGCTACGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGTTAACTCTGATA
Found at i:11696107 original size:28 final size:27
Alignment explanation
Indices: 11696016--11696121 Score: 90
Period size: 28 Copynumber: 3.7 Consensus size: 27
11696006 ACTTGTAATA
*
11696016 GGGCTACGGCCCAGATTAATACTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
* *
11696044 GGGCTAGGCCCAGTATACTCTGATATTG-TAAA
1 GGGCTAGGCCCAG---A-T-TAATATTGAT-AT
11696076 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
11696104 GGGCTAAGGCCCAG-TTAA
1 GGGCT-AGGCCCAGATTAA
11696122 CTCTGATTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 19
0.73 0.06 0.22
Matches are distributed among these distances:
27 11 0.17
28 26 0.41
29 3 0.05
30 2 0.03
31 2 0.03
32 13 0.20
33 7 0.11
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTAATATTGATAT
Found at i:11699094 original size:26 final size:26
Alignment explanation
Indices: 11699058--11699117 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
11699048 GAAGCTCTGG
*
11699058 AGAGCCATTAATTAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * * *
11699084 GGAGCCTTTAATCGGGAAGTTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
11699110 AGAGCCAT
1 AGAGCCAT
11699118 ATATCGAGAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:11699773 original size:53 final size:53
Alignment explanation
Indices: 11699709--11699814 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
11699699 ATTAAATTTA
11699709 ATCCTTATTCCAAGTAACATTTGCAGCTCATGTAATTCATAAAATTCAAAATT
1 ATCCTTATTCCAAGTAACATTTGCAGCTCATGTAATTCATAAAATTCAAAATT
11699762 ATCCTTATTCCAAGTAACATTTGCAGCTCATGTAATTCATAAAATTCAAAATT
1 ATCCTTATTCCAAGTAACATTTGCAGCTCATGTAATTCATAAAATTCAAAATT
11699815 TTTCATGAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (53 bp):
ATCCTTATTCCAAGTAACATTTGCAGCTCATGTAATTCATAAAATTCAAAATT
Found at i:11701038 original size:21 final size:21
Alignment explanation
Indices: 11701003--11701057 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
11700993 AAATTAGTAT
*
11701003 AAAAAATTTTG-GGGGAAT-A
1 AAAAAATTATGAGGGGAATCA
* *
11701022 GCAAAAATTATGAGGGGTATCA
1 -AAAAAATTATGAGGGGAATCA
11701044 AAAAAATTATGAGG
1 AAAAAATTATGAGG
11701058 AAGTACAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 9 0.31
21 19 0.66
22 1 0.03
ACGTcount: A:0.47, C:0.04, G:0.25, T:0.24
Consensus pattern (21 bp):
AAAAAATTATGAGGGGAATCA
Found at i:11701071 original size:20 final size:21
Alignment explanation
Indices: 11701024--11701069 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11701014 GGGGAATAGC
*
11701024 AAAAATTATGAGGGGTATCAA
1 AAAAATTATGAGGAGTATCAA
11701045 AAAAATTATGAGGAAGTA-CAA
1 AAAAATTATGAGG-AGTATCAA
11701066 AAAA
1 AAAA
11701070 TTTCTAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.57, C:0.04, G:0.20, T:0.20
Consensus pattern (21 bp):
AAAAATTATGAGGAGTATCAA
Found at i:11703857 original size:29 final size:29
Alignment explanation
Indices: 11703815--11703871 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
11703805 TTTCTGGATT
11703815 ATGACCATTGGTGCCATCTCTACTCCAAA
1 ATGACCATTGGTGCCATCTCTACTCCAAA
11703844 ATGACCATTGGTGCCATCTCTACTCCAA
1 ATGACCATTGGTGCCATCTCTACTCCAA
11703872 CTTCATTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
ATGACCATTGGTGCCATCTCTACTCCAAA
Found at i:11706148 original size:33 final size:32
Alignment explanation
Indices: 11706111--11706175 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
11706101 TACCCAAATG
* *
11706111 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTAC-ACTTGAAAAGGTTAGGTACACTTAGTGT
* * *
11706144 GTACACTTGGAAATGTTAGGTATACTTAGTGT
1 GTACACTTGAAAAGGTTAGGTACACTTAGTGT
11706176 CTACTATATG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (32 bp):
GTACACTTGAAAAGGTTAGGTACACTTAGTGT
Found at i:11706221 original size:33 final size:33
Alignment explanation
Indices: 11706135--11706223 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
11706125 GGTTATGTAC
* **
11706135 ACTTTGTGTGTA-CACTTGGAAATGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* * * *
11706167 ACTTAGTGTCTACTA-TATGGAAAGGAAAGTTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
11706200 ACTTTGTGTGTACCACTTGGAAAG
1 ACTTTGTGTGTACCACTTGGAAAG
11706224 AAATGTACAC
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
32 11 0.25
33 32 0.73
34 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
Found at i:11710477 original size:3 final size:3
Alignment explanation
Indices: 11710471--11710517 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
11710461 TATGTAAATA
* *
11710471 AAT AAT AAT AGAT AA- AAT AAT AAT AAT GAT AGT AAT AAT AAAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
11710517 A
1 A
11710518 TATATACAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11710486 original size:18 final size:17
Alignment explanation
Indices: 11710466--11710516 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
11710456 AAAAATATGT
11710466 AAATAAATAATAATAGATA
1 AAAT-AATAATAAT-GATA
11710485 AAATAATAATAATGATA
1 AAATAATAATAATGATA
*
11710502 GTAATAATAAATAAT
1 -AAATAAT-AATAAT
11710517 ATATATACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.14
18 15 0.52
19 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AAATAATAATAATGATA
Found at i:11713807 original size:27 final size:27
Alignment explanation
Indices: 11713777--11713830 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
11713767 CATTCATGTC
11713777 CCATGTACCCTTCTAATGCTCATTTCT
1 CCATGTACCCTTCTAATGCTCATTTCT
11713804 CCATGTACCCTTCTAATGCTCATTTCT
1 CCATGTACCCTTCTAATGCTCATTTCT
11713831 TACTTACCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.33, G:0.07, T:0.41
Consensus pattern (27 bp):
CCATGTACCCTTCTAATGCTCATTTCT
Found at i:11715474 original size:7 final size:7
Alignment explanation
Indices: 11715462--11715490 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
11715452 AGATTGACAA
11715462 AGAACAG
1 AGAACAG
11715469 AGAACAG
1 AGAACAG
11715476 AGAACAG
1 AGAACAG
11715483 AGAACAG
1 AGAACAG
11715490 A
1 A
11715491 AAGAAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.28, T:0.00
Consensus pattern (7 bp):
AGAACAG
Found at i:11718134 original size:46 final size:46
Alignment explanation
Indices: 11718081--11718252 Score: 290
Period size: 46 Copynumber: 3.7 Consensus size: 46
11718071 TTGGGCATCT
* *
11718081 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTAC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
11718127 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
11718173 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
11718219 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11718253 GCGGGTTACA
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 119 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:11720443 original size:17 final size:18
Alignment explanation
Indices: 11720421--11720456 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11720411 GATATGATAC
*
11720421 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
11720438 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
11720456 T
1 T
11720457 CGGGAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:11720824 original size:36 final size:36
Alignment explanation
Indices: 11720748--11720825 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
11720738 CATATCTTCT
*
11720748 AAGATTGCATATCATATCTAAGATTGTATCATATCT
1 AAGATTGCATATCATATCTAAGATTGTATCATATCG
11720784 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCTAAGATTG--TATCATATCG
11720820 AAGATT
1 AAGATT
11720826 ATATTTCCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 32 0.82
37 1 0.03
38 6 0.15
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (36 bp):
AAGATTGCATATCATATCTAAGATTGTATCATATCG
Found at i:11720825 original size:17 final size:19
Alignment explanation
Indices: 11720745--11720817 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
11720735 AACCATATCT
11720745 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11720764 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11720781 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11720800 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11720818 TGAAGATTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.33
19 35 0.67
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11720973 original size:21 final size:20
Alignment explanation
Indices: 11720936--11720974 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11720926 TTGGACTTCG
**
11720936 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
11720956 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
11720975 TCTGGGCCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:11721222 original size:45 final size:45
Alignment explanation
Indices: 11721167--11721440 Score: 295
Period size: 45 Copynumber: 6.1 Consensus size: 45
11721157 GGAAGGTGAT
* *
11721167 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
11721212 ATCTGTTATCTTCGATCTGCTCCTCGTCTAATATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
11721257 ATCTGCT-TCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
11721301 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * *
11721346 ATCTGTCATCTTAGATCTGCT--TCGATGTAA-ACACATGAAGGTCAA
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* * *
11721391 ATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
11721438 ATC
1 ATC
11721441 ATCTTGGATC
Statistics
Matches: 185, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
43 6 0.03
44 43 0.23
45 106 0.57
46 1 0.01
47 19 0.10
48 5 0.03
49 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:11721289 original size:89 final size:90
Alignment explanation
Indices: 11721167--11721366 Score: 289
Period size: 89 Copynumber: 2.2 Consensus size: 90
11721157 GGAAGGTGAT
** *
11721167 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
* *
11721232 TCCTCGTCTAATATAGAGACGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
* *
11721257 ATCTGCT-TCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
*
11721321 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
11721346 ATCTG-TCATCTT-AGATCTGCT
1 ATCTGCT-ATCTTCA-ATCTGCT
11721367 TCGATGTAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
88 1 0.01
89 80 0.81
90 18 0.18
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATCTGC
TCCCCGTCTAATACAGAGACGCCAA
Found at i:11721509 original size:78 final size:78
Alignment explanation
Indices: 11721380--11721674 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 78
11721370 ATGTAAACAC
* * *
11721380 ATGAAGGTCAAATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
11721445 TGGATCTGCTTTA
66 TGGATCTGCTTCA
* ** *
11721458 ATGAAGGTCCA-ATCTGTTATGTCTTTAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATT
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
11721522 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
11721536 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
11721601 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * **
11721614 ATGAAGGTTAGATCTGCTATGTCTTCGATCTGTTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
11721675 TGTTTCTTTG
Statistics
Matches: 194, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
77 2 0.01
78 190 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:11730867 original size:18 final size:18
Alignment explanation
Indices: 11730846--11730886 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
11730836 TTCTCAATCC
*
11730846 TCTTTTCAATCTCTGACT
1 TCTTTTCAATCTCTGAAT
11730864 TCTTTTCAATCTCTGAAT
1 TCTTTTCAATCTCTGAAT
11730882 TCTTT
1 TCTTT
11730887 CTCTCGAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.05, T:0.54
Consensus pattern (18 bp):
TCTTTTCAATCTCTGAAT
Found at i:11733487 original size:17 final size:17
Alignment explanation
Indices: 11733457--11733490 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11733447 GATATGATAC
* *
11733457 TAAAATTATTAAAAAAT
1 TAAAAATATAAAAAAAT
11733474 TAAAAATATAAAAAAAT
1 TAAAAATATAAAAAAAT
11733491 CCGGGAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATATAAAAAAAT
Found at i:11733717 original size:23 final size:22
Alignment explanation
Indices: 11733673--11733730 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
11733663 AAAAGGTATC
* *
11733673 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
11733694 TACAAAATCATATCTTCTATGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11733717 TGCATATCATATCT
1 TACAAATCATATCT
11733731 AAGATTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.60
23 9 0.30
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11733736 original size:19 final size:19
Alignment explanation
Indices: 11733709--11733781 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
11733699 AATCATATCT
*
11733709 TCTATGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11733728 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
11733745 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
11733764 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11733782 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.34
19 33 0.66
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11733788 original size:36 final size:36
Alignment explanation
Indices: 11733714--11733789 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
11733704 TATCTTCTAT
*
11733714 GATTGCATATCATATCTAAGATTGTATCATATCTAA
1 GATTGCATATCATATCTAAGATTGTATCATATCGAA
*
11733750 GATTGTATATCATATCTAAGATTGCATATCAT-T-GAA
1 GATTGCATATCATATCTAAGATTG--TATCATATCGAA
11733786 GATT
1 GATT
11733790 ATATTTCCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
36 29 0.81
37 1 0.03
38 6 0.17
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (36 bp):
GATTGCATATCATATCTAAGATTGTATCATATCGAA
Found at i:11733789 original size:17 final size:19
Alignment explanation
Indices: 11733714--11733789 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 19
11733704 TATCTTCTAT
*
11733714 GATTGCATATCATATCTAA
1 GATTGCATATCATATCGAA
*
11733733 GATTG--TATCATATCTAA
1 GATTGCATATCATATCGAA
* *
11733750 GATTGTATATCATATCTAA
1 GATTGCATATCATATCGAA
11733769 GATTGCATATCAT-T-GAA
1 GATTGCATATCATATCGAA
11733786 GATT
1 GATT
11733790 ATATTTCCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 23 0.43
18 1 0.02
19 29 0.55
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (19 bp):
GATTGCATATCATATCGAA
Found at i:11733938 original size:21 final size:20
Alignment explanation
Indices: 11733900--11733939 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11733890 TTGGACTTCG
* *
11733900 TTTTTTTTTTGGGTTTATTA
1 TTTTTGTTTTGGGCTTATTA
11733920 TTTTTGTTTTGGGACTTATT
1 TTTTTGTTTTGGG-CTTATT
11733940 TCTGGGCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.03, G:0.17, T:0.70
Consensus pattern (20 bp):
TTTTTGTTTTGGGCTTATTA
Found at i:11734134 original size:17 final size:18
Alignment explanation
Indices: 11734101--11734135 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11734091 TTGAATTCTA
11734101 TTTGAAAAGAAACATCAT
1 TTTGAAAAGAAACATCAT
*
11734119 TTTGAATAGAAA-ATCAT
1 TTTGAAAAGAAACATCAT
11734136 GAAGTTGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
TTTGAAAAGAAACATCAT
Found at i:11734196 original size:104 final size:104
Alignment explanation
Indices: 11734010--11734199 Score: 249
Period size: 104 Copynumber: 1.8 Consensus size: 104
11734000 CAAAGTAATT
*
11734010 ATCATTTTGAAAAGAAAATCAGAAAGTTGAAGCCTAATTATTTCAAGAGAAATGAAAATAGTATT
1 ATCATTTTGAAAAGAAAATCAGAAAGTTGAAGCCTAATTATTTCAAGAGAAATGAAAATAGTATA
*
11734075 AAAATAACTTTAGATTTTGAATTCTATTTGAAAAGAAAC
66 AAAATAACTCTAGATTTTGAATTCTATTTGAAAAGAAAC
* * * ** ** *
11734114 ATCATTTTGAATAGAAAATCATG-AAGTTGAGGCTTGTTTATTTCATTAGGAATGAAAATAGTAT
1 ATCATTTTGAAAAGAAAATCA-GAAAGTTGAAGCCTAATTATTTCAAGAGAAATGAAAATAGTAT
*
11734178 AAAAATAA-TACTATATTTTGAA
65 AAAAATAACT-CTAGATTTTGAA
11734200 GTCCATTTCA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
103 1 0.01
104 71 0.97
105 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (104 bp):
ATCATTTTGAAAAGAAAATCAGAAAGTTGAAGCCTAATTATTTCAAGAGAAATGAAAATAGTATA
AAAATAACTCTAGATTTTGAATTCTATTTGAAAAGAAAC
Found at i:11737425 original size:12 final size:11
Alignment explanation
Indices: 11737401--11737430 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
11737391 CATTTTGTTC
11737401 TTTAGTTTCTTT
1 TTTA-TTTCTTT
11737413 TTTATTTCTTT
1 TTTATTTCTTT
11737424 TTTATTT
1 TTTATTT
11737431 TTGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTATTTCTTT
Found at i:11738318 original size:61 final size:61
Alignment explanation
Indices: 11738223--11738356 Score: 259
Period size: 61 Copynumber: 2.2 Consensus size: 61
11738213 AGAAATAAGA
11738223 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTTTTTTTTATGT
1 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTTTTTTTTATGT
11738284 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTTTTTTTTATGT
1 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTTTTTTTTATGT
*
11738345 GCATATTTTTTT
1 GCATATTATTTT
11738357 TTCTTTTTTC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 72 1.00
ACGTcount: A:0.19, C:0.07, G:0.14, T:0.60
Consensus pattern (61 bp):
GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTTTTTTTTATGT
Found at i:11741077 original size:24 final size:21
Alignment explanation
Indices: 11741050--11741122 Score: 78
Period size: 24 Copynumber: 3.3 Consensus size: 21
11741040 TTTCTTTCCT
11741050 TTGCATTCATCCCATGCATTTGCA
1 TTGCATTCAT--CATGCA-TTGCA
11741074 TTGCATTGCATCATGTGCATTGCA
1 TTGCATT-CATCA--TGCATTGCA
11741098 TTGCA-TCAT-ATGCATTGCA
1 TTGCATTCATCATGCATTGCA
11741117 TTGCAT
1 TTGCAT
11741123 CATGTGCATT
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
19 14 0.31
21 1 0.02
22 3 0.07
23 3 0.07
24 17 0.38
25 7 0.16
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (21 bp):
TTGCATTCATCATGCATTGCA
Found at i:11741079 original size:5 final size:5
Alignment explanation
Indices: 11741064--11741122 Score: 63
Period size: 5 Copynumber: 12.0 Consensus size: 5
11741054 ATTCATCCCA
11741064 TGCATT TGCAT TGCAT TGCA- T-CAT GTGCAT TGCAT TGCA- T-CAT ATGCAT
1 TGCA-T TGCAT TGCAT TGCAT TGCAT -TGCAT TGCAT TGCAT TGCAT -TGCAT
11741113 TGCAT TGCAT
1 TGCAT TGCAT
11741123 CATGTGCATT
Statistics
Matches: 47, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
3 4 0.09
4 2 0.04
5 31 0.66
6 10 0.21
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (5 bp):
TGCAT
Found at i:11741092 original size:19 final size:19
Alignment explanation
Indices: 11741070--11741132 Score: 117
Period size: 19 Copynumber: 3.3 Consensus size: 19
11741060 CCCATGCATT
11741070 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
*
11741089 TGCATTGCATTGCATCATA
1 TGCATTGCATTGCATCATG
11741108 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
11741127 TGCATT
1 TGCATT
11741133 AGCTTTTCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:11745233 original size:138 final size:138
Alignment explanation
Indices: 11745054--11746501 Score: 2316
Period size: 138 Copynumber: 10.6 Consensus size: 138
11745044 CGGTGAATTC
* *
11745054 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCATATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
*
11745119 GTTGCAGTGGAATAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11745184 TCGAAGTT
131 TCGAAGTT
* * * * *
11745192 ACAAGTCATATCTCCCTGAAGTTGCAGTAGAGCATATTGAAGATAGCAAATCTTATTTTCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
* *
11745257 GTTGCAGTGGAACATATTGAAGCTAAATTACAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
*
11745322 TCAAAGTT
131 TCGAAGTT
* * *
11745330 ACAAGTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAATATAGCAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
*
11745395 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAACAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11745460 TCGAAGTT
131 TCGAAGTT
* * *
11745468 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGTAAATCATATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
*
11745533 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGAAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11745598 TCGAAGTT
131 TCGAAGTT
* *
11745606 ACCAGTCTTATCTCCCTGAAGTTGCAGT-GAGCAGATTGAAGATAG-AAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
*
11745669 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
*
11745734 TCAAAGTT
131 TCGAAGTT
* *
11745742 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
*
11745807 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
*
11745872 TCAAAGTT
131 TCGAAGTT
*
11745880 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
* *
11745945 GTTGCAGTGGAACAGATTGAAGCT-AATTACA-AGTCTTATCTCTCTGAAATTGCAATAGAGCAG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGA-TCTTATCTCTCTGAAGTTGCAGTAGAGCAG
11746008 GTCGAAGTT
130 GTCGAAGTT
* * *
11746017 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTAAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
* *
11746082 GTTGCAGTGGAATAGATTTAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11746147 TCGAAGTT
131 TCGAAGTT
*
11746155 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAG-AAATC-TATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
11746218 GTT-CAGT-GAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCA-TAGAG-AGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11746279 TCGAAGTT
131 TCGAAGTT
*
11746287 ACGAAGTTAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAGATAG-AAATCATATTTC
1 AC------AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTC
11746350 CCT-AAGTTGCAGTGGAACA-ATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAG
60 CCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAG
11746413 AGCAGGTCGAAGTT
125 AGCAGGTCGAAGTT
* * * * * * *
11746427 ACAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAG-GTCGAAGTTA-TAAGTCTTATCTCCCTGA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAGCAAATCTTATTTCCCTGA
11746490 AGTTGCAGTGGA
65 AGTTGCAGTGGA
11746502 GTAGACTGAA
Statistics
Matches: 1221, Mismatches: 69, Indels: 42
0.92 0.05 0.03
Matches are distributed among these distances:
132 13 0.01
133 5 0.00
134 56 0.05
135 41 0.03
136 140 0.11
137 202 0.17
138 740 0.61
139 11 0.01
140 13 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (138 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
TCGAAGTT
Found at i:11745820 original size:412 final size:413
Alignment explanation
Indices: 11745033--11746501 Score: 2378
Period size: 412 Copynumber: 3.6 Consensus size: 413
11745023 CAGAGAACAG
*
11745033 TGCAGTAGAATC-GGT-GAA-TTCACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAA
1 TGCAGTAGAA-CAGGTCGAAGTT-ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
*
11745095 GATAGCAAATCATATTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTAAATTACAGATCTTATC
64 GATAGCAAATCATATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATC
*
11745160 TCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCATATCTCCCTGAAGTTGCAGTAGAGC
129 TCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGC
* * *
11745225 ATATTGAAGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAACATATTGAAGCTAAATTACAG
194 AGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAG
*
11745290 ATTTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGT
259 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGT
*
11745355 AGTGGAGCAGACTGAATATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
324 AGTGGAGCAGACTGAAGATAG-AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
11745420 AATTACAGATCTTATCTCTCTGAAGT
388 AATTACAGATCTTATCTCTCTGAAGT
*
11745446 TGCAGTAGAACAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGA
1 TGCAGTAGAACAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
*
11745511 TAGTAAATCATATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTC
66 TAGCAAATCATATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTC
* *
11745576 TCTGAAGTTGCAGTAGAGAAGGTCGAAGTTACCAGTCTTATCTCCCTGAAGTTGCAGT-GAGCAG
131 TCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAG
11745640 ATTGAAGATAG-AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGAT
196 ATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGAT
* *
11745704 CTTATCTCTCTGAAGTTGTAGTAGAGCAGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAG
261 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGTAG
11745769 TGGAGCAGACTGAAGATAGAAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAA
326 TGGAGCAGACTGAAGATAG-AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAA
11745834 TTACAGATCTTATCTCTCTGAAGT
390 TTACAGATCTTATCTCTCTGAAGT
* * * *
11745858 TACAGTAGAGCAGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGA
1 TGCAGTAGAACAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
*
11745923 TAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT-AATTACA-AGTCTTATCT
66 TAGCAAATCATATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGA-TCTTATCT
* * *
11745986 CTCTGAAATTGCAATAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
130 CTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCA
* * * * * *
11746051 GACTGAAGATAGTAAATCTTATTTTCCTAAAGTTGCAGTGGAATAGATTTAAGCTAAATTACAGA
195 GATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGA
* *
11746116 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGTA
260 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGTA
11746181 GTGGAGCAGACTGAAGATAGAAATC-TATTTCCCTGAAGTT-CAGT-GAACAGATTGAAGCTAAA
325 GTGGAGCAGACTGAAGATAGAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAA
11746243 TTACAGATCTTATCTCTCTGAAGT
390 TTACAGATCTTATCTCTCTGAAGT
*
11746267 TGCA-TAG-AGAGGTCGAAGTTACGAAGTTAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGAC
1 TGCAGTAGAACAGGTCGAAGTTAC------AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
11746329 TGAAGATAG-AAATCATATTTCCCT-AAGTTGCAGTGGAACA-ATTGAAGCTAAATTACAGATCT
60 TGAAGATAGCAAATCATATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCT
*
11746391 TATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTA
125 TATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTA
* * * * * *
11746456 GAGCAGGTCGAAGTTA-TAAGTCTTATCTCCCTGAAGTTGCAGTGGA
190 GAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGA
11746502 GTAGACTGAA
Statistics
Matches: 989, Mismatches: 53, Indels: 32
0.92 0.05 0.03
Matches are distributed among these distances:
407 12 0.01
408 3 0.00
409 80 0.08
410 104 0.11
411 100 0.10
412 357 0.36
413 169 0.17
414 162 0.16
415 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (413 bp):
TGCAGTAGAACAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
TAGCAAATCATATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTC
TCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAG
ATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGAT
CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGTAG
TGGAGCAGACTGAAGATAGAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAAT
TACAGATCTTATCTCTCTGAAGT
Found at i:11746190 original size:550 final size:547
Alignment explanation
Indices: 11745054--11746501 Score: 2351
Period size: 550 Copynumber: 2.6 Consensus size: 547
11745044 CGGTGAATTC
*
11745054 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCATATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG-AAATC-TATTTCCCTGAA
*
11745119 GTTGCAGTGGAATAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
64 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
* * * *
11745184 TCGAAGTTACAAGTCATATCTCCCTGAAGTTGCAGTAGAGCATATTGAAGATAGCAAATCTTATT
129 TCGAAGTTACAAGTCTTATCT-CCTGAAGTTGCAGTGGAGCAGACTGAAGATAG-AAATCTTATT
* *
11745249 TTCCTGAAGTTGCAGTGGAACATATTGAAGCTAAATTACAGATTTTATCTCTCTGAAGTTGCAGT
192 TCCCTGAAGTTGCAGTGGAACA-ATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGT
* *
11745314 AGAGCAGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAATATAGCAA
256 AGAGCAGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAA
11745379 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAA
321 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAA
* * *
11745444 GTTGCAGTAGAACAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAA
386 ATTGCAATAGAACAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
*
11745509 GATAGTAAATCATATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATC
451 GATAGTAAATCATATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATC
11745574 TCTCTGAAGTTGCAGTAGAGAAGGTCGAAGTT
516 TCTCTGAAGTTGCAGTAGAGAAGGTCGAAGTT
* *
11745606 ACCAGTCTTATCTCCCTGAAGTTGCAGT-GAGCAGATTGAAGATAGAAATCTTATTTCCCTGAAG
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAATC-TATTTCCCTGAAG
*
11745670 TTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGGT
65 TTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGT
*
11745735 CAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAAATCTTATTT
130 CGAAGTTACAAGTCTTATCTCC-TGAAGTTGCAGTGGAGCAGACTGAAGATAG-AAATCTTATTT
*
11745800 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTACAGTA
193 CCCTGAAGTTGCAGTGGAACA-ATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTA
11745865 GAGCAGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
257 GAGCAGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
11745930 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCT-AATTACA-AGTCTTATCTCTCTGAA
322 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGA-TCTTATCTCTCTGAA
*
11745993 ATTGCAATAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
386 ATTGCAATAGAACAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
* * * *
11746058 GATAGTAAATCTTATTTTCCTAAAGTTGCAGTGGAATAGATTTAAGCTAAATTACAGATCTTATC
451 GATAGTAAATCATATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATC
*
11746123 TCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTT
516 TCTCTGAAGTTGCAGTAGAGAAGGTCGAAGTT
*
11746155 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGAAATCTATTTCCCTGAAGT
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAATCTATTTCCCTGAAGT
11746220 T-CAGT-GAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCA-TAGAG-AGGTC
66 TGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTC
*
11746281 GAAGTTACGAAGTTAAGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAATCATA
131 GAAGTTAC------AAGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAATCTTA
11746346 TTTCCCT-AAGTTGCAGTGGAACAATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAG
190 TTTCCCTGAAGTTGCAGTGGAACAATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAG
* * * *
11746410 TAGAGCAGGTCGAAGTTACAAGTCTTATCT-CTCTGAAGTTGCAGTAGAGCAG-GTCGAAGTTA-
255 TAGAGCAGGTCAAAGTTACAAGTCTTATCTCCT-TGAAGTTGCAGTGGAGCAGACT-GAAGATAG
* * *
11746472 TAAGTCTTATCTCCCTGAAGTTGCAGTGGA
318 CAAATCTTATTTCCCTGAAGTTGCAGTGGA
11746502 GTAGACTGAA
Statistics
Matches: 843, Mismatches: 42, Indels: 28
0.92 0.05 0.03
Matches are distributed among these distances:
545 12 0.01
546 35 0.04
547 138 0.16
548 21 0.02
549 231 0.27
550 351 0.42
551 29 0.03
552 26 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (547 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAATCTATTTCCCTGAAGT
TGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTC
GAAGTTACAAGTCTTATCTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGAAATCTTATTTCCC
TGAAGTTGCAGTGGAACAATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
AGGTCAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTT
ATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAATTGC
AATAGAACAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
TAAATCATATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCT
GAAGTTGCAGTAGAGAAGGTCGAAGTT
Found at i:11746593 original size:138 final size:135
Alignment explanation
Indices: 11746432--11746756 Score: 544
Period size: 138 Copynumber: 2.4 Consensus size: 135
11746422 AAGTTACAAG
* *
11746432 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTATAAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTAAAAGTCTTATCTCCCTGAAGTTACA
* *
11746497 GTGGAGTAGACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGTAGTGGAACAGATTGAAGCTAA
66 GTGGAGTAAACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATT---GCTAA
11746562 ATTACAGA
128 ATTACAGA
* * *
11746570 TCTTATCTCTCTCAAGTTACAGTAGAGCAGGTCGAAGTTAAAAGTCTTATCTCCTTGAAGTTACA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTAAAAGTCTTATCTCCCTGAAGTTACA
11746635 GTGGAGTAAACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGCTAAATT
66 GTGGAGTAAACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGCTAAATT
11746700 ACAGA
131 ACAGA
*
11746705 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGT-GAAGTTACAAGTCTTATCTC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTAAAAGTCTTATCTC
11746757 TTGTGCTTAC
Statistics
Matches: 177, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
134 19 0.11
135 43 0.24
138 115 0.65
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (135 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTAAAAGTCTTATCTCCCTGAAGTTACA
GTGGAGTAAACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGCTAAATT
ACAGA
Found at i:11746896 original size:87 final size:82
Alignment explanation
Indices: 11746769--11746952 Score: 264
Period size: 87 Copynumber: 2.2 Consensus size: 82
11746759 GTGCTTACAA
*
11746769 GGAGCAGATCG-AGACAAGCTGATTTGCTTTCACGTGTTTAC-TTCGAAGCAGATCCAAGATGAT
1 GGAGCAGATCGAAGACAAGCTGATTTGCTTTCACGTGTTTACGTT-GAAGCAAATCCAAGATGA-
*
11746832 TTGGCATCTCTGTATCAGGCG
64 TTGGCATCT-TGTAGC-GGCG
11746853 GGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATGA
1 GGAGCAGATCGAAGACA-AGCTGATTT-GCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATGA
*
11746918 TTGGCGTCTTGTAGCGGCG
64 TTGGCATCTTGTAGCGGCG
11746937 GAGAGCAGATCGAAGA
1 G-GAGCAGATCGAAGA
11746953 TAACAGATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
84 16 0.17
85 24 0.26
86 17 0.18
87 33 0.36
88 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (82 bp):
GGAGCAGATCGAAGACAAGCTGATTTGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATGATT
GGCATCTTGTAGCGGCG
Found at i:11746985 original size:44 final size:43
Alignment explanation
Indices: 11746918--11747004 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 43
11746908 TCCAAGATGA
* *
11746918 TTGGCGTCTTGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
1 TTGGCATCTTGTAGCAGCGGAGAGCAGATCGAAGATAACAGAT
* *
11746961 TTGGCATCTCTGTAGCAGCTGAGAGTAGATCGAAGATAACAGAT
1 TTGGCATCT-TGTAGCAGCGGAGAGCAGATCGAAGATAACAGAT
11747005 GGCGGCGGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 8 0.21
44 31 0.79
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (43 bp):
TTGGCATCTTGTAGCAGCGGAGAGCAGATCGAAGATAACAGAT
Found at i:11747222 original size:44 final size:43
Alignment explanation
Indices: 11747154--11747252 Score: 128
Period size: 44 Copynumber: 2.3 Consensus size: 43
11747144 GAGCAAATCG
* *
11747154 AAGATAACGGATTTGGCGTTTCTGTA-TTGTCAAGAGAACAGATA
1 AAGATAACAGATTTGGCGTCTCTGTATTTG-C-AGAGAACAGATA
* *
11747198 AAGATGACAGATTTGGCGTCTCTGTATTTGCAGAGAGCAGATA
1 AAGATAACAGATTTGGCGTCTCTGTATTTGCAGAGAACAGATA
*
11747241 AAAATAACAGAT
1 AAGATAACAGAT
11747253 CGGTGTTCTG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 21 0.44
44 24 0.50
45 3 0.06
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (43 bp):
AAGATAACAGATTTGGCGTCTCTGTATTTGCAGAGAACAGATA
Found at i:11750568 original size:25 final size:26
Alignment explanation
Indices: 11750540--11750688 Score: 143
Period size: 25 Copynumber: 5.9 Consensus size: 26
11750530 AGGAAGCGTT
*
11750540 TGGTGGCTATGCCA-ATTATCTGATC
1 TGGTGGCTCTGCCACATTATCTGATC
* *
11750565 TGGTGGCTCTG-CATATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGATC
*
11750591 TGGTGGCTATGCCACGATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGATC
11750618 TGGTGGCTCTG-CACATATATCTG-TC
1 TGGTGGCTCTGCCACAT-TATCTGATC
*
11750643 TGGTGGCTCTG-CACAATAT-TGCATC
1 TGGTGGCTCTGCCACATTATCTG-ATC
* *
11750668 TGGTGACTC-GTCACA-TATCTG
1 TGGTGGCTCTGCCACATTATCTG
11750689 GCAGCCTCGC
Statistics
Matches: 107, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
23 2 0.02
24 9 0.08
25 47 0.44
26 27 0.25
27 20 0.19
28 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATC
Found at i:11750620 original size:53 final size:50
Alignment explanation
Indices: 11750540--11750685 Score: 190
Period size: 53 Copynumber: 2.9 Consensus size: 50
11750530 AGGAAGCGTT
*
11750540 TGGTGGCTATGCCAATTATCTGATCTGGTGGCTCTGCATATATATCTGTTC
1 TGGTGGCTATGCCAATTATCTGATCTGGTGGCTCTGCACATATATCTG-TC
11750591 TGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCACATATATCTGTC
1 TGGTGGCTATGCCA--ATTATCTGATCTGGTGGCTCTGCACATATATCTGTC
* *
11750643 TGGTGGCTCTGCACAA-TAT-TGCATCTGGTGACTC-GTCACATAT
1 TGGTGGCTATGC-CAATTATCTG-ATCTGGTGGCTCTG-CACATAT
11750686 CTGGCAGCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
49 3 0.03
50 21 0.24
51 15 0.17
52 13 0.15
53 35 0.40
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (50 bp):
TGGTGGCTATGCCAATTATCTGATCTGGTGGCTCTGCACATATATCTGTC
Found at i:11750661 original size:26 final size:27
Alignment explanation
Indices: 11750540--11750661 Score: 148
Period size: 25 Copynumber: 4.7 Consensus size: 27
11750530 AGGAAGCGTT
*
11750540 TGGTGGCTATGC-CAAT-TATCTGATC
1 TGGTGGCTCTGCACAATATATCTGATC
* *
11750565 TGGTGGCTCTGCA-TATATATCTGTTC
1 TGGTGGCTCTGCACAATATATCTGATC
* *
11750591 TGGTGGCTATGCCACGAT-TATCTGATC
1 TGGTGGCTCTG-CACAATATATCTGATC
11750618 TGGTGGCTCTGCAC-ATATATCTG-TC
1 TGGTGGCTCTGCACAATATATCTGATC
11750643 TGGTGGCTCTGCACAATAT
1 TGGTGGCTCTGCACAATAT
11750662 TGCATCTGGT
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
25 31 0.37
26 31 0.37
27 20 0.24
28 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (27 bp):
TGGTGGCTCTGCACAATATATCTGATC
Found at i:11757736 original size:26 final size:26
Alignment explanation
Indices: 11757707--11757775 Score: 111
Period size: 26 Copynumber: 2.7 Consensus size: 26
11757697 GACTTGGAGA
11757707 TGCAGTAGGGTAATTGGCTTCGAGGC
1 TGCAGTAGGGTAATTGGCTTCGAGGC
11757733 TGCAGTAGGGTAATTGGCTTCGAGGC
1 TGCAGTAGGGTAATTGGCTTCGAGGC
* * *
11757759 TACAGCAGGGGAATTGG
1 TGCAGTAGGGTAATTGG
11757776 TGGTTGCTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.22, C:0.14, G:0.39, T:0.25
Consensus pattern (26 bp):
TGCAGTAGGGTAATTGGCTTCGAGGC
Found at i:11772471 original size:21 final size:21
Alignment explanation
Indices: 11772446--11772488 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11772436 GCCTAATTAT
*
11772446 TTCAATAGTTAGATTATTAGG
1 TTCAATAGATAGATTATTAGG
* *
11772467 TTCAATTGATAGATTGTTAGG
1 TTCAATAGATAGATTATTAGG
11772488 T
1 T
11772489 AAATTCAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
TTCAATAGATAGATTATTAGG
Found at i:11788489 original size:23 final size:22
Alignment explanation
Indices: 11788446--11788503 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11788436 AAAAGGTATC
* *
11788446 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11788467 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11788490 TGCATATCATATCT
1 TACAAATCATATCT
11788504 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11788506 original size:19 final size:19
Alignment explanation
Indices: 11788482--11788553 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
11788472 AATCATATCT
11788482 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11788501 TCTAAGATTGCAT-TTATA
1 TCTAAGATTGCATATCATA
11788519 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11788536 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11788554 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.02
17 14 0.29
18 14 0.29
19 19 0.40
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11788710 original size:21 final size:20
Alignment explanation
Indices: 11788672--11788711 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11788662 TTGGACTTCG
**
11788672 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
11788692 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
11788712 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:11790856 original size:22 final size:22
Alignment explanation
Indices: 11790831--11790874 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11790821 ACATGAACAA
11790831 AGCAAGTGCAACCAAACACTCT
1 AGCAAGTGCAACCAAACACTCT
11790853 AGCAAGTGCAACCAAACACTCT
1 AGCAAGTGCAACCAAACACTCT
11790875 TAGGTGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.32, G:0.14, T:0.14
Consensus pattern (22 bp):
AGCAAGTGCAACCAAACACTCT
Found at i:11793102 original size:3 final size:3
Alignment explanation
Indices: 11793094--11793333 Score: 169
Period size: 3 Copynumber: 81.0 Consensus size: 3
11793084 ATAAACAAGA
* * * *
11793094 AAT AAT AAT AGT AA- AA- AAT AAT AGT AAT AAT AAT GAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
11793140 AGA- AAT AGA- AAT AGA- AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 A-AT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
11793185 GAA- AAT AAT AA- AAT AAGG AAT AAT AAT AAT AAC AAC AAT AAT -AT
1 -AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
11793229 AAAT AAT AA- AAA AAC AAT AAT AGT AAT AAT AAT AAT AAT GAT AGT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
11793274 AA- AAT AAT AGT AAT AAT AGAA AAT AAT AGT AAT AGT AA- AATT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT
*
11793319 AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT
11793334 TAATTAATTA
Statistics
Matches: 187, Mismatches: 32, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
2 19 0.10
3 155 0.83
4 13 0.07
ACGTcount: A:0.63, C:0.01, G:0.08, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:11793257 original size:32 final size:30
Alignment explanation
Indices: 11793221--11793301 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 30
11793211 TAATAACAAC
11793221 AATAATATAAATAATAAAAAAACAATAATAGT
1 AATAATA-AAATAATAAAAAAA-AATAATAGT
* **
11793253 AATAATAATAATAATGATAGTAAAATAATAGT
1 AATAATAA-AATAAT-AAAAAAAAATAATAGT
11793285 AATAATAGAAAATAATA
1 AATAAT--AAAATAATA
11793302 GTAATAGTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
31 1 0.02
32 29 0.69
33 10 0.24
34 2 0.05
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.27
Consensus pattern (30 bp):
AATAATAAAATAATAAAAAAAAATAATAGT
Found at i:11794864 original size:45 final size:46
Alignment explanation
Indices: 11794792--11795110 Score: 151
Period size: 45 Copynumber: 7.1 Consensus size: 46
11794782 TTTCAGGGAG
* *
11794792 AAGAGATTTGTAACTTCGATCTACTCCACTG-AATCTTCAAGGAGAT
1 AAGAGATTGGTAACTTCGACCTACTCCACTGCAA-CTTCAAGGAGAT
* * *
11794838 AAGA-ATTGGTAATTTCGACCTGCTCCACTGCAACTTCAGGGAGAT
1 AAGAGATTGGTAACTTCGACCTACTCCACTGCAACTTCAAGGAGAT
* * ** * *
11794883 AAG-GTTTGTGT-ATTTTTATCCTGCTCTACTGCAACTTC-AGAGAGAT
1 AAGAGATTG-GTAACTTCGA-CCTACTCCACTGCAACTTCAAG-GAGAT
** * ** * ** ** *
11794929 AAG-GATT-GTGGCTTCGATCTGTTCCAATATAA-TTTTAGG-GAG
1 AAGAGATTGGTAACTTCGACCTACTCCACTGCAACTTCAAGGAGAT
* * * * *
11794971 AAGAGATTTGTAACTTCGATCTACTCTACTGGAACTTCATA-GAGGT
1 AAGAGATTGGTAACTTCGACCTACTCCACTGCAACTTCA-AGGAGAT
* ** *
11795017 AAGA-ATTGGTAATTTTAACCTGCTCCACTGCAACTTCAAGGAGAT
1 AAGAGATTGGTAACTTCGACCTACTCCACTGCAACTTCAAGGAGAT
* * ** * *
11795062 AA-AGTTTGTGT-ATTTTTATCCTACTCTACTGCAACTTCAAAGAGAT
1 AAGAGATTG-GTAACTTCGA-CCTACTCCACTGCAACTTCAAGGAGAT
11795108 AAG
1 AAG
11795111 GATGGTGCTG
Statistics
Matches: 207, Mismatches: 49, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
42 5 0.02
43 7 0.03
44 32 0.15
45 92 0.44
46 71 0.34
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (46 bp):
AAGAGATTGGTAACTTCGACCTACTCCACTGCAACTTCAAGGAGAT
Found at i:11794916 original size:46 final size:46
Alignment explanation
Indices: 11794856--11795111 Score: 157
Period size: 46 Copynumber: 5.7 Consensus size: 46
11794846 GTAATTTCGA
* *
11794856 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTAT
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
* * * **
11794902 CCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTG-GCTTCGAT
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
* * ** * * * * * **
11794947 -CTGTTCCAATATAATTTTAGGGAGA-AGAGATTTGT-AACTTCGAT
1 CCTGCTCCACTGCAACTTCAGAGAGATA-AGGTTTGTGTACTTTTAT
* * * * * ** * *
11794991 -CTACTCTACTGGAACTTCATAGAGGTAAGAATTG-GTAATTTTAA
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
* *
11795035 CCTGCTCCACTGCAACTTCA-AGGAGATAAAGTTTGTGTATTTTTAT
1 CCTGCTCCACTGCAACTTCAGA-GAGATAAGGTTTGTGTACTTTTAT
* * *
11795081 CCTACTCTACTGCAACTTCAAAGAGATAAGG
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGG
11795112 ATGGTGCTGC
Statistics
Matches: 155, Mismatches: 47, Indels: 16
0.71 0.22 0.07
Matches are distributed among these distances:
43 1 0.01
44 55 0.35
45 30 0.19
46 68 0.44
47 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (46 bp):
CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
Found at i:11795040 original size:179 final size:178
Alignment explanation
Indices: 11794756--11795199 Score: 613
Period size: 179 Copynumber: 2.5 Consensus size: 178
11794746 GTATAGGAAT
* *
11794756 TGGTGCTTCGATCCGTTCCAATATAATTTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
1 TGGTGCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
* * *
11794821 TGAATCTTCAAGGAGATAAGAATTGGTAATTTCGACCTGCTCCACTGCAACTTCAGGGAGATAAG
66 TGAATCTTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAA
* *
11794886 GTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGA
131 GTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAAAGAGATAAGGA
* * *
11794934 TTGTGGCTTCGATCTGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCTA
1 TGGT-GCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCA
* *
11794999 CTGGAA-CTTCATA-GAGGTAAGAATTGGTAATTTTAACCTGCTCCACTGCAACTTCAAGGAGAT
65 CT-GAATCTTCA-AGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAAGGAGAT
11795062 AAAGTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAAAGAGATAAGGA
128 AAAGTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAAAGAGATAAGGA
* * ** * * * * * *
11795113 TGGTGCTGCGGTCAACTCTAATGTAATTTTAGGAAGAAGAGATTTGTAGCTTCGATCTATTCCGC
1 TGGTGCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
* * * *
11795178 CGAAACTTCATGAAGATAAGAA
66 TGAATCTTCAAGGAGATAAGAA
11795200 CCACTGTCTT
Statistics
Matches: 233, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
177 3 0.01
178 65 0.28
179 161 0.69
180 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (178 bp):
TGGTGCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
TGAATCTTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAA
GTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAAAGAGATAAGGA
Found at i:11795347 original size:88 final size:89
Alignment explanation
Indices: 11795181--11795376 Score: 252
Period size: 88 Copynumber: 2.2 Consensus size: 89
11795171 ATTCCGCCGA
* * ** * *
11795181 AACTTCATGAAGATAAGAACCACTGTCTTCAGTCTACTTCAATGTAACTTTAGGGAAATAGGGCT
1 AACTTCAAGAAGATAAGATCCACCATCTTCAGTCTACTCCAATGTAACTTTAGGGAAATAAGGCT
* * *
11795246 GGTGGCTTTAATCTGCTCCACTGC
66 AGTGGCTTCAATCTGATCCACTGC
* * *
11795270 AACTTCAAGAAGATAAGATCCACCATCTT-TGATCTACTCCACTG-AACTTTAGGGAGATAAGGC
1 AACTTCAAGAAGATAAGATCCACCATCTTCAG-TCTACTCCAATGTAACTTTAGGGAAATAAGGC
11795333 TAGTGGCTTCAATCTGATCCACTGC
65 TAGTGGCTTCAATCTGATCCACTGC
*
11795358 AACTTCAAGGAGATAAGAT
1 AACTTCAAGAAGATAAGAT
11795377 TCGCCATAAT
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
88 58 0.62
89 35 0.38
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (89 bp):
AACTTCAAGAAGATAAGATCCACCATCTTCAGTCTACTCCAATGTAACTTTAGGGAAATAAGGCT
AGTGGCTTCAATCTGATCCACTGC
Found at i:11795508 original size:44 final size:44
Alignment explanation
Indices: 11795444--11795716 Score: 181
Period size: 44 Copynumber: 5.7 Consensus size: 44
11795434 CTATTTTTAG
** *
11795444 TCTGCTCCGGTGCAATTTCAGGGAGATAAGACTTGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAA
* *
11795488 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATAATTTGTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG----A-C-----TTGTGGCTTCAA
* *
11795542 TCTGTTCCACTGCAACTTCAGGGATATAAGACTTGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAA
* * *
11795586 TCT--ACCACTGCAACTTCAGGGAGATAAGATTCGTCATAATTTGTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-----C-----TTGTGGCTTCAA
* * * *
11795638 TTTGTTCCACTCCGCTGCAACTTTAGGGAGATAAGACTTATGGCTTCAA
1 TCTGCTCCA-----CTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAA
11795687 TCTGCTCCACTGCAACTTCAGGGAGATAAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG
11795717 TTTCGCCATG
Statistics
Matches: 180, Mismatches: 22, Indels: 54
0.70 0.09 0.21
Matches are distributed among these distances:
42 24 0.13
44 60 0.33
47 1 0.01
48 1 0.01
49 18 0.10
50 1 0.01
52 12 0.07
54 42 0.23
59 21 0.12
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGGCTTCAA
Found at i:11795571 original size:54 final size:53
Alignment explanation
Indices: 11795476--11795716 Score: 171
Period size: 54 Copynumber: 4.8 Consensus size: 53
11795466 GAGATAAGAC
* *
11795476 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATAAT
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCA-CATAAT
* *
11795530 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGATATAAG----AC-----
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCACATAAT
* * *
11795574 TTGTGGCTTCAATC--TACCACTGCAACTTCAGGGAGATAAGATTCGTCATAAT
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTC-ACATAAT
* * *
11795626 TTGTAGCTTTAATTTGTTCCACTCCGCTGCAACTTTAGGGAGATAAG----AC-T--T
1 TTGTAGCTTCAATCTGTTCCA-----CTGCAACTTCAGGGAGATAAGATTCACATAAT
* *
11795677 ATG--GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAG
11795717 TTTCGCCATG
Statistics
Matches: 150, Mismatches: 20, Indels: 44
0.70 0.09 0.21
Matches are distributed among these distances:
42 24 0.16
44 32 0.21
47 1 0.01
49 14 0.09
50 1 0.01
51 3 0.02
52 11 0.07
53 1 0.01
54 43 0.29
59 20 0.13
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (53 bp):
TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTCACATAAT
Found at i:11795626 original size:96 final size:98
Alignment explanation
Indices: 11795454--11795725 Score: 395
Period size: 96 Copynumber: 2.7 Consensus size: 98
11795444 TCTGCTCCGG
*
11795454 TGCAATTTCAGGGAGATAAGACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCT-CTCCACTGCAACTTCAGGGAGATAAGA
*
11795519 TTCACCATAATTTGTAGCTTTAATCTGTTCCA-C
65 TTCGCCATAATTTGTAGCTTTAATCTGTTCCACC
* *
11795552 TGCAACTTCAGGGATATAAGACTTGTGGCTTCAATCT-ACCACTGCAACTTCAGGGAGATAAGAT
1 TGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTCTCCACTGCAACTTCAGGGAGATAAGAT
* *
11795616 TCGTCATAATTTGTAGCTTTAATTTGTTCCACTCCGC
66 TCGCCATAATTTGTAGCTTTAATCTGTTCCA---C-C
* * *
11795653 TGCAACTTTAGGGAGATAAGACTTATGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGT
1 TGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCT-CTCCACTGCAACTTCAGGGAGATAAGA
11795718 TTCGCCAT
65 TTCGCCAT
11795726 GATGACTTAA
Statistics
Matches: 155, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
96 54 0.35
98 35 0.23
101 35 0.23
103 31 0.20
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (98 bp):
TGCAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTCTCCACTGCAACTTCAGGGAGATAAGAT
TCGCCATAATTTGTAGCTTTAATCTGTTCCACC
Found at i:11796180 original size:46 final size:46
Alignment explanation
Indices: 11796117--11796258 Score: 167
Period size: 46 Copynumber: 3.1 Consensus size: 46
11796107 ATTTGTGGTT
* *
11796117 TCTTCCATCCATTCCACTGCAACTCAAGGGTATAAGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
* * * * *
11796163 TCTTCAATCTATCCCACTGCAACTCAGGGGTATGAGATTTCTATCG
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
* ** * * *
11796209 TCTTCAATCCATCCCATTTTAACTCAAGGGTACAGGATTTGTATCT
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
11796255 TCTT
1 TCTT
11796259 TAATTCACTG
Statistics
Matches: 79, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTGCAACTCAAGGGTATAAGATTTGTATCA
Found at i:11796746 original size:53 final size:53
Alignment explanation
Indices: 11796662--11796765 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
11796652 GGGAGCATAG
*
11796662 CTCGAAATGAATAAGTTAATCAAAGACAGCAAATGCAATAAGAAGGAAATTAA
1 CTCGAAATGAATAAGTTAATCAAAGACAGCAAATGCAATAAAAAGGAAATTAA
* *
11796715 CTCGAAATGAATAAGTTAATCGAAA-ATAGCAAATGTAATAAAAAGGAAATT
1 CTCGAAATGAATAAGTTAATC-AAAGACAGCAAATGCAATAAAAAGGAAATT
11796766 GATTGAAAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 44 0.94
54 3 0.06
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.21
Consensus pattern (53 bp):
CTCGAAATGAATAAGTTAATCAAAGACAGCAAATGCAATAAAAAGGAAATTAA
Found at i:11797148 original size:15 final size:15
Alignment explanation
Indices: 11797128--11797158 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11797118 TCTCTTCCTT
11797128 TTTTGTTTTTTTTTG
1 TTTTGTTTTTTTTTG
11797143 TTTTGTTTTTTTTTG
1 TTTTGTTTTTTTTTG
11797158 T
1 T
11797159 AAAACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
TTTTGTTTTTTTTTG
Found at i:11800533 original size:19 final size:20
Alignment explanation
Indices: 11800509--11800553 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
11800499 TTGTGACATT
*
11800509 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
11800528 CAATGCAGATGCATGAAATG
1 CAATGCAGATGCATGAAATG
11800548 -AATGCA
1 CAATGCA
11800554 AAAAGAGACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:11802503 original size:3 final size:3
Alignment explanation
Indices: 11802495--11802769 Score: 183
Period size: 3 Copynumber: 92.7 Consensus size: 3
11802485 ATAAACAAGA
* * * * *
11802495 AAT AAT AAT AGT AA- AAA AAT AGT AAT AAT AAT AAT GAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
11802542 AGT AAT AGA- AAT AAT AAT AAT AAT AGT AAT AAT AAT GAA- AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * * *
11802587 AAT AAT AA- AAT AAGG AAT AAT AAC AAT AAC AAC AAT AAT -AT AAAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * *
11802632 AAT AA- AA- AAC AAT AAT AGT AAT AAT AAT AAT GAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * ** *
11802678 AGT AAT AAT AGAA AAT AAT AGT AAT TGT AAT AAT AAT AAT AAT AGT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * **
11802724 TAT AAT AA- ATT AATT AACT AGT TTT AAT AAT AA- AAT AAT AA- AAT
1 AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
11802768 AA
1 AA
11802770 CTAAAAAAAG
Statistics
Matches: 209, Mismatches: 48, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
2 18 0.09
3 177 0.85
4 14 0.07
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11802645 original size:22 final size:22
Alignment explanation
Indices: 11802537--11802658 Score: 71
Period size: 22 Copynumber: 5.7 Consensus size: 22
11802527 AATGATAATG
*
11802537 ATAATAGTAATAGA-AATAATAATA
1 ATAATAGTAATA-ATAA-AA-AACA
**
11802561 ATAATAGTAATAATAATGAA-A
1 ATAATAGTAATAATAAAAAACA
*
11802582 AT-A-A-TAATAATAAAATA-A
1 ATAATAGTAATAATAAAAAACA
** * * *
11802600 GGAATAATAACAAT-AACAACA
1 ATAATAGTAATAATAAAAAACA
11802621 ATAATA-TAAATAATAAAAAACA
1 ATAATAGT-AATAATAAAAAACA
11802643 ATAATAGTAATAATAA
1 ATAATAGTAATAATAA
11802659 TAATGATAGT
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
18 11 0.14
19 2 0.03
20 6 0.08
21 19 0.25
22 22 0.29
23 2 0.03
24 14 0.18
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (22 bp):
ATAATAGTAATAATAAAAAACA
Found at i:11802752 original size:43 final size:42
Alignment explanation
Indices: 11802668--11802763 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 42
11802658 ATAATGATAG
11802668 TAATAATAATAGTAATAATAGAAAATAATAGTAATTGTAATAA
1 TAATAATAATAGTAATAATAGAAAATAATAGT-ATTGTAATAA
*
11802711 TAATAATAATAGTTATAATA-AATTAATTAACTAGT-TT-TAATAA
1 TAATAATAATAGTAATAATAGAA--AA-TAA-TAGTATTGTAATAA
11802754 TAA-AATAATA
1 TAATAATAATA
11802764 AAATAACTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
42 9 0.19
43 28 0.58
44 4 0.08
45 3 0.06
46 4 0.08
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (42 bp):
TAATAATAATAGTAATAATAGAAAATAATAGTATTGTAATAA
Found at i:11805654 original size:18 final size:19
Alignment explanation
Indices: 11805607--11805657 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
11805597 TAAGCTCAAT
*
11805607 AAAAGTTGCGAGCTCGATA
1 AAAAGATGCGAGCTCGATA
* *
11805626 AAAAAATGCGAGCTC-ATT
1 AAAAGATGCGAGCTCGATA
*
11805644 CAAAGATGCGAGCT
1 AAAAGATGCGAGCT
11805658 TAATCCAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (19 bp):
AAAAGATGCGAGCTCGATA
Found at i:11809050 original size:76 final size:76
Alignment explanation
Indices: 11808910--11809063 Score: 256
Period size: 76 Copynumber: 2.0 Consensus size: 76
11808900 TTTAAGGTTT
**
11808910 TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATGTATCTTTGTTGATAAATA
1 TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATCAATCTTTGTTGATAAATA
11808975 AACAAGTTTTG
66 AACAAGTTTTG
*
11808986 TACCATTGATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAAATCAATCTTTGTTGA-AAAT
1 TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAG-AAATCAATCTTTGTTGATAAAT
*
11809050 AAATAAGTTTTG
65 AAACAAGTTTTG
11809062 TA
1 TA
11809064 AAGTGATTTT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 58 0.79
77 15 0.21
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.42
Consensus pattern (76 bp):
TACCATTCATGAATGTGTATGTGTTTTGATGTTTGATGGAAGAAATCAATCTTTGTTGATAAATA
AACAAGTTTTG
Found at i:11810931 original size:12 final size:12
Alignment explanation
Indices: 11810914--11810944 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11810904 CTCCAGTTTT
11810914 CACACGGCCTAG
1 CACACGGCCTAG
*
11810926 CACACGGCCTGG
1 CACACGGCCTAG
11810938 CACACGG
1 CACACGG
11810945 ACGTGTGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:11821259 original size:21 final size:21
Alignment explanation
Indices: 11821235--11821297 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
11821225 TGCTTAAAAT
11821235 GGCACACGAAGTGCCTGATAC
1 GGCACACGAAGTGCCTGATAC
* *
11821256 GGCACACGAGGTGCCAGAAATAC
1 GGCACACGAAGTGCCTG--ATAC
* **
11821279 GACACATAAAGTGCCTGAT
1 GGCACACGAAGTGCCTGAT
11821298 CAGTAAAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 17 0.52
23 16 0.48
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.14
Consensus pattern (21 bp):
GGCACACGAAGTGCCTGATAC
Found at i:11841786 original size:29 final size:28
Alignment explanation
Indices: 11841738--11841795 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
11841728 AACTTTGGAG
* *
11841738 TTGGTTGACGTCCAGTTCACAAGAAGGT
1 TTGGTTGACATCCAGTTCACAAAAAGGT
11841766 TTGGTTGACATACCAGTTCACAAAAAGGT
1 TTGGTTGACAT-CCAGTTCACAAAAAGGT
11841795 T
1 T
11841796 ATTGGAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (28 bp):
TTGGTTGACATCCAGTTCACAAAAAGGT
Found at i:11842703 original size:3 final size:3
Alignment explanation
Indices: 11842690--11842735 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
11842680 TTTAAGTAAA
11842690 TAT TAT T-T TAT TAT T-T TAT TAT TA- TAT TAT TA- TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11842733 TAT
1 TAT
11842736 ATCAATTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 10 0.26
3 28 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11842703 original size:8 final size:8
Alignment explanation
Indices: 11842689--11842735 Score: 76
Period size: 8 Copynumber: 5.9 Consensus size: 8
11842679 ATTTAAGTAA
11842689 ATATTATT
1 ATATTATT
*
11842697 TTATTATT
1 ATATTATT
*
11842705 TTATTATT
1 ATATTATT
11842713 ATATTATT
1 ATATTATT
11842721 ATATTATT
1 ATATTATT
11842729 ATATTAT
1 ATATTAT
11842736 ATCAATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATATTATT
Found at i:11842870 original size:5 final size:5
Alignment explanation
Indices: 11842849--11842903 Score: 87
Period size: 5 Copynumber: 11.4 Consensus size: 5
11842839 TACGTAAAAG
*
11842849 ATATT ATGTT ATA-- ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
11842897 ATATT AT
1 ATATT AT
11842904 TATAAACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 3 0.07
5 43 0.93
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
ATATT
Done.