Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 70 of 125
Found at i:13848575 original size:35 final size:35
Alignment explanation
Indices: 13848467--13848580 Score: 106
Period size: 35 Copynumber: 3.3 Consensus size: 35
13848457 CAAGAAGAAA
* * * * * *
13848467 TTAAACCTAGCTTAGCTGGCACCTTACGAAATGAT
1 TTAAGCCTAACTTAGTTGGCACCTCATGAAAAGAT
** * * *
13848502 TTAAGCCTAGTTTATTTGGCA-CTCATGACAAGAA
1 TTAAGCCTAACTTAGTTGGCACCTCATGAAAAGAT
13848536 TTAAGCAC-AACTTAGTTGGCACCTCATGAAAAGAT
1 TTAAGC-CTAACTTAGTTGGCACCTCATGAAAAGAT
13848571 TTAAGCCTAA
1 TTAAGCCTAA
13848581 TTTGGCTAGC
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
34 25 0.40
35 37 0.60
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (35 bp):
TTAAGCCTAACTTAGTTGGCACCTCATGAAAAGAT
Found at i:13848606 original size:32 final size:33
Alignment explanation
Indices: 13848565--13848641 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 33
13848555 CACCTCATGA
13848565 AAAGATTTAAGCCTAATTTGGCTAGCACCAA-T
1 AAAGATTTAAGCCTAATTTGGCTAGCACCAATT
* **
13848597 AAAGATTTAAGCCTAGTTTGGCTAGCATTAATT
1 AAAGATTTAAGCCTAATTTGGCTAGCACCAATT
*
13848630 AAACATTTAAGC
1 AAAGATTTAAGC
13848642 TTAGCTTGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 28 0.70
33 12 0.30
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (33 bp):
AAAGATTTAAGCCTAATTTGGCTAGCACCAATT
Found at i:13848865 original size:33 final size:33
Alignment explanation
Indices: 13848822--13848933 Score: 129
Period size: 33 Copynumber: 3.3 Consensus size: 33
13848812 ATTTGGCATC
13848822 AAAGATTTAAGCCTAGATTACCTAACATCAATG-
1 AAAGATTTAAGCCTAGATTACCTAACATC-ATGA
* * * *
13848855 AAAGGTTTAAGCCTAGTTTAGCTAGCATCATGA
1 AAAGATTTAAGCCTAGATTACCTAACATCATGA
*
13848888 AAAGATTTAAGCCTA-ATTTAGCTAGCACATCATGA
1 AAAGATTTAAGCCTAGA-TTACCTA--ACATCATGA
13848923 AAAGATTTAAG
1 AAAGATTTAAG
13848934 TCTAATTTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
32 3 0.04
33 46 0.68
35 19 0.28
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (33 bp):
AAAGATTTAAGCCTAGATTACCTAACATCATGA
Found at i:13849030 original size:33 final size:33
Alignment explanation
Indices: 13848986--13849133 Score: 170
Period size: 33 Copynumber: 4.5 Consensus size: 33
13848976 GTTGGCATTT
*
13848986 AATGAAGATTTAAGCCTAGATTAGCTAACACCC
1 AATGAAGATTTAAGCCTAGATTATCTAACACCC
* * * * *
13849019 AGTGAAAATTTAAGCCTAGATTATTTAGCACAC
1 AATGAAGATTTAAGCCTAGATTATCTAACACCC
* *
13849052 AATGAAGATTTAAGCCTAGATTATTTGACACCC
1 AATGAAGATTTAAGCCTAGATTATCTAACACCC
* * ***
13849085 AATGAAGATTTAAACCTAGATTAACTAACAATT
1 AATGAAGATTTAAGCCTAGATTATCTAACACCC
*
13849118 AATGAAAATTTAAGCC
1 AATGAAGATTTAAGCC
13849134 CAATTTAGCT
Statistics
Matches: 95, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 95 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
AATGAAGATTTAAGCCTAGATTATCTAACACCC
Found at i:13849298 original size:36 final size:35
Alignment explanation
Indices: 13849244--13849369 Score: 135
Period size: 35 Copynumber: 3.6 Consensus size: 35
13849234 ATTCTGATTC
*
13849244 TTTGACTTGTGATGTTGTCTTGATCGTTCTTTATTT
1 TTTGACTTGTGATATTGTCTTGATCGTTCTTTA-TT
* * * *
13849280 TTTGACTTGTGGTATTGTCCTAATCATTCTTTATT
1 TTTGACTTGTGATATTGTCTTGATCGTTCTTTATT
** * * *
13849315 TTTGACTTGCAATATTATCTTGGTCGTGCTTTATT
1 TTTGACTTGTGATATTGTCTTGATCGTTCTTTATT
* *
13849350 TTTGACTTGTGGTGTTGTCT
1 TTTGACTTGTGATATTGTCT
13849370 CGGTTGTCCC
Statistics
Matches: 71, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
35 43 0.61
36 28 0.39
ACGTcount: A:0.13, C:0.13, G:0.19, T:0.55
Consensus pattern (35 bp):
TTTGACTTGTGATATTGTCTTGATCGTTCTTTATT
Found at i:13849299 original size:71 final size:70
Alignment explanation
Indices: 13849224--13849368 Score: 184
Period size: 71 Copynumber: 2.1 Consensus size: 70
13849214 CCTGTGGTGC
** * * *
13849224 TGTCCCAATCATTC-TGATTCTTTGACTTGTGATGTTGTCTTGATCGTTCTTTATTTTTTGACTT
1 TGTCCCAATCATTCTTGATT-TTTGACTTGCAATATTATCTTGATCGTGCTTTA-TTTTTGACTT
13849288 GTGGTAT
64 GTGGTAT
* * *
13849295 TGTCCTAATCATTCTTTATTTTTGACTTGCAATATTATCTTGGTCGTGCTTTATTTTTGACTTGT
1 TGTCCCAATCATTCTTGATTTTTGACTTGCAATATTATCTTGATCGTGCTTTATTTTTGACTTGT
*
13849360 GGTGT
66 GGTAT
13849365 TGTC
1 TGTC
13849369 TCGGTTGTCC
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
70 20 0.31
71 40 0.62
72 4 0.06
ACGTcount: A:0.14, C:0.15, G:0.18, T:0.52
Consensus pattern (70 bp):
TGTCCCAATCATTCTTGATTTTTGACTTGCAATATTATCTTGATCGTGCTTTATTTTTGACTTGT
GGTAT
Found at i:13852496 original size:18 final size:19
Alignment explanation
Indices: 13852461--13852498 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13852451 AATAGAGGCT
13852461 TTGAAACTTTGAAAATAGC
1 TTGAAACTTTGAAAATAGC
13852480 TTGAAACTTTG-AAATAGC
1 TTGAAACTTTGAAAATAGC
13852498 T
1 T
13852499 CCCCCCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (19 bp):
TTGAAACTTTGAAAATAGC
Found at i:13852621 original size:38 final size:38
Alignment explanation
Indices: 13852480--13852637 Score: 193
Period size: 37 Copynumber: 4.2 Consensus size: 38
13852470 TGAAAATAGC
*
13852480 TTGAAAC-TTTG-AAATAGCTCCCCCCCAAACAAAGGCT
1 TTGAAACTTTTGAAAATAGCT-CTCCCCAAACAAAGGCT
13852517 TTGAAACTTTTGAAAA-AGGCT-TCCCCAAACAAAGGCT
1 TTGAAACTTTTGAAAATA-GCTCTCCCCAAACAAAGGCT
* * * * *
13852554 TTTAGAC-TTTAAAAATGGCTCTCCCCAAACAGAGGCT
1 TTGAAACTTTTGAAAATAGCTCTCCCCAAACAAAGGCT
13852591 TTGAAACTTTTGAAAATAGCT-TCCCTCAAACAAAGGCT
1 TTGAAACTTTTGAAAATAGCTCTCCC-CAAACAAAGGCT
13852629 TTGAAACTT
1 TTGAAACTT
13852638 AAAATATTGC
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
36 10 0.10
37 51 0.50
38 36 0.35
39 6 0.06
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (38 bp):
TTGAAACTTTTGAAAATAGCTCTCCCCAAACAAAGGCT
Found at i:13852640 original size:74 final size:75
Alignment explanation
Indices: 13852480--13852669 Score: 237
Period size: 74 Copynumber: 2.6 Consensus size: 75
13852470 TGAAAATAGC
* *
13852480 TTGAAACTTTGAAATA--GCTCCCCCCCAAACAAAGGCTTTGAAACTTTTGAAAAAGGCTTCCCC
1 TTGAAACTTTAAAATATGGCT-CCCCCCAAACAGAGGCTTTGAAACTTTTGAAAAAGGCTTCCCC
13852543 AAACAAAGGCT
65 AAACAAAGGCT
* * *
13852554 TTTAGACTTTAAAA-ATGGCTCTCCCCAAACAGAGGCTTTGAAACTTTTGAAAATA-GCTTCCCT
1 TTGAAACTTTAAAATATGGCTCCCCCCAAACAGAGGCTTTGAAACTTTTGAAAA-AGGCTTCCC-
13852617 CAAACAAAGGCT
64 CAAACAAAGGCT
* * * *
13852629 TTGAAAC-TTAAAATATTGCTCCCCCCCAATAGTGGCTTTGA
1 TTGAAACTTTAAAATATGGCTCCCCCCAAACAGAGGCTTTGA
13852670 GACAGAGGCT
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
73 1 0.01
74 55 0.56
75 43 0.43
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (75 bp):
TTGAAACTTTAAAATATGGCTCCCCCCAAACAGAGGCTTTGAAACTTTTGAAAAAGGCTTCCCCA
AACAAAGGCT
Found at i:13853140 original size:126 final size:126
Alignment explanation
Indices: 13852751--13853141 Score: 520
Period size: 126 Copynumber: 3.1 Consensus size: 126
13852741 ATCTTTTGCC
*
13852751 CGAAGGTCTTAAAGATTATGCCTAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCCCAA
1 CGAAGGTCTTAGAGATTATGCCTAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCT-CCAA
13852816 TCAAAGGCATTGAAACTTTAAAAAATTTAAAATGTTTTGC-CTAGAGGTCTTGAAAATTGTGCTT
65 TCAAAGGCATTGAAACTTT-AAAAATTTAAAATGTTTTGCTC-AGAGGTCTTGAAAATTGTG-TT
* * *
13852880 -AAAGGTCTTAGAGATTATGCCCAGATGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCCAAT
1 CGAAGGTCTTAGAGATTATGCCTAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCCAAT
* * * * **
13852944 CATAGGCATTGAAACTTTAAAAATTTAAAATGTTTTACTC-GAAGGTCTTGAAAACTATGCC
66 CAAAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGCTCAG-AGGTCTTGAAAATTGTGTT
* * * *
13853005 CAGAA-GTCTTAGAGATTATGACTGGAGGTCTTACAAATCTCAAAATTTTTGAATGCTCCTTCAA
1 C-GAAGGTCTTAGAGATTATGCCTAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCCAA
* * * * **
13853069 TCAAAAGCATTGAAAGTTTACAAATTTGAAACATTTTGCTCAGAGGTCTTGAAAATTGTGTT
65 TCAAAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGCTCAGAGGTCTTGAAAATTGTGTT
13853131 CGAAGGTCTTA
1 CGAAGGTCTTA
13853142 CAAATCTCAA
Statistics
Matches: 227, Mismatches: 29, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
125 4 0.02
126 142 0.63
127 26 0.11
128 55 0.24
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (126 bp):
CGAAGGTCTTAGAGATTATGCCTAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCCAAT
CAAAGGCATTGAAACTTTAAAAATTTAAAATGTTTTGCTCAGAGGTCTTGAAAATTGTGTT
Found at i:13859290 original size:3 final size:3
Alignment explanation
Indices: 13859278--13859333 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
13859268 TTATACAAAC
* *
13859278 ATA A-A ATA ATA ATA ATA ATA ATA ACA ATA ACA ATA ATA AT- ATCA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
13859322 ATA ATA ATA ATA
1 ATA ATA ATA ATA
13859334 CAGTCTTGGC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 40 0.87
4 2 0.04
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:13859312 original size:18 final size:18
Alignment explanation
Indices: 13859285--13859333 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
13859275 AACATAAAAT
13859285 AATAATAATAATAATAAC
1 AATAATAATAATAATAAC
* *
13859303 AATAACAATAATAATATC
1 AATAATAATAATAATAAC
13859321 AATAATAATAATA
1 AATAATAATAATA
13859334 CAGTCTTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAATAATAATAATAAC
Found at i:13862331 original size:19 final size:19
Alignment explanation
Indices: 13862277--13862331 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
13862267 CAATGTATCT
*
13862277 CTAGGTAAAAACTGAAACC
1 CTAGGTAAAAACTAAAACC
*
13862296 CTAGGTGAAAA-TCAAAACC
1 CTAGGTAAAAACT-AAAACC
* *
13862315 TTAGGTAAAACCTAAAA
1 CTAGGTAAAAACTAAAA
13862332 GTTTGAGGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 1 0.03
19 27 0.93
20 1 0.03
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (19 bp):
CTAGGTAAAAACTAAAACC
Found at i:13867743 original size:30 final size:30
Alignment explanation
Indices: 13867707--13867800 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 30
13867697 GGTTGACTTA
13867707 TAGGGTTTAAGGTTTGGTTTAGGGTTTGGT
1 TAGGGTTTAAGGTTTGGTTTAGGGTTTGGT
* * ** *
13867737 TAGGGTTTAGGGTTCGAATTAGGGTTGGGGTT
1 TAGGGTTTAAGGTTTGGTTTAGGGTT-TGG-T
13867769 TA-GG-TT-AGAGTTTGGTTTAGGGTTTGAGT
1 TAGGGTTTAAG-GTTTGGTTTAGGGTTTG-GT
13867798 TAG
1 TAG
13867801 TTTGTGGGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
29 5 0.10
30 37 0.76
31 4 0.08
32 3 0.06
ACGTcount: A:0.16, C:0.01, G:0.40, T:0.43
Consensus pattern (30 bp):
TAGGGTTTAAGGTTTGGTTTAGGGTTTGGT
Found at i:13867745 original size:18 final size:18
Alignment explanation
Indices: 13867722--13867781 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
13867712 TTTAAGGTTT
13867722 GGTTTAGGGTTTGGTTAG
1 GGTTTAGGGTTTGGTTAG
* *
13867740 GGTTTAGGGTTCGAATTAG
1 GGTTTAGGGTTTG-GTTAG
*
13867759 GG-TTGGGGTTTAGGTTAG
1 GGTTTAGGGTTT-GGTTAG
*
13867777 AGTTT
1 GGTTT
13867782 GGTTTAGGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 24 0.73
19 9 0.27
ACGTcount: A:0.15, C:0.02, G:0.42, T:0.42
Consensus pattern (18 bp):
GGTTTAGGGTTTGGTTAG
Found at i:13867916 original size:20 final size:20
Alignment explanation
Indices: 13867891--13867929 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13867881 GTCAATTGAA
13867891 AGGATT-GGTTTAGGGTTTAT
1 AGGATTAGG-TTAGGGTTTAT
13867911 AGGATTAGGTTAGGGTTTA
1 AGGATTAGGTTAGGGTTTA
13867930 AGGGTTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (20 bp):
AGGATTAGGTTAGGGTTTAT
Found at i:13867943 original size:20 final size:19
Alignment explanation
Indices: 13867895--13867953 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
13867885 ATTGAAAGGA
*
13867895 TTGGTTTAGGGTTTATAGGAT
1 TTGG-TTAGGGTTTA-AGGGT
*
13867916 TAGGTTAGGGTTTAAGGGT
1 TTGGTTAGGGTTTAAGGGT
*
13867935 TTGGATTAGGATTT-AGGGT
1 TTGG-TTAGGGTTTAAGGGT
13867954 ATAAGGTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 12 0.36
20 18 0.55
21 3 0.09
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.42
Consensus pattern (19 bp):
TTGGTTAGGGTTTAAGGGT
Found at i:13867950 original size:27 final size:26
Alignment explanation
Indices: 13867912--13867988 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
13867902 AGGGTTTATA
*
13867912 GGATTAGG-TTAGGGTTTAAGGGTTT-
1 GGATTAGGTTTAGGGTATAA-GGTTTG
13867937 GGATTAGGATTTAGGGTATAAGGTTTG
1 GGATTAGG-TTTAGGGTATAAGGTTTG
* **
13867964 GGATTTGGTTTAGGGTCCAAGGTTT
1 GGATTAGGTTTAGGGTATAAGGTTT
13867989 TAGTTTAGGG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
25 8 0.18
26 20 0.44
27 17 0.38
ACGTcount: A:0.21, C:0.03, G:0.38, T:0.39
Consensus pattern (26 bp):
GGATTAGGTTTAGGGTATAAGGTTTG
Found at i:13868051 original size:20 final size:20
Alignment explanation
Indices: 13868018--13868070 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
13868008 TTGGTATGAG
* *
13868018 GTTTGTTTTGGGGTCTAAGA
1 GTTTGGTTTGGGGTCCAAGA
* *
13868038 GTTTGGTTTAGGGTCCAATA
1 GTTTGGTTTGGGGTCCAAGA
13868058 -TTTGGTTTGGGGT
1 GTTTGGTTTGGGGT
13868071 TTTGTTTAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.13, C:0.06, G:0.36, T:0.45
Consensus pattern (20 bp):
GTTTGGTTTGGGGTCCAAGA
Found at i:13868083 original size:19 final size:19
Alignment explanation
Indices: 13868061--13868108 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
13868051 TCCAATATTT
13868061 GGTTTGGGGTTTTGTTTAG
1 GGTTTGGGGTTTTGTTTAG
13868080 GGTTTGGGGTTTTGTTTAG
1 GGTTTGGGGTTTTGTTTAG
*
13868099 GGTTTAGGGT
1 GGTTTGGGGT
13868109 CCATGGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.06, C:0.00, G:0.44, T:0.50
Consensus pattern (19 bp):
GGTTTGGGGTTTTGTTTAG
Found at i:13869968 original size:141 final size:145
Alignment explanation
Indices: 13869623--13870103 Score: 462
Period size: 144 Copynumber: 3.4 Consensus size: 145
13869613 TTTTGTACAA
* * ** * * * ***
13869623 TTTTAATGCA-CTAAAATTAATAAAATAATATTTAACCATGATTTGGAGCTTTTTGTGAAAAACT
1 TTTTAATGCATC-AAAATTCATGAAATAATATAAAAACATGATCTAGAGCTTTTTCCAAAAAACT
* *
13869687 AACTTTAGA-AAGGTCAAATTATAAAAATACCTCTAAAGCGCATTTTGGTAATTTCAATC-TTTT
65 AACATCA-ATAAGGTCAAATTATAAAAATACCTCTAAAGCGCATTTTGGTAATTTCAA-CATTTT
*
13869750 CG-AGATGCAATCAAGGT
128 TGAAGATGCAATCAAGGT
* * * * * * ** *
13869767 TTTTAATACTTAAAAATTCATGAAATAATATTAAAACATAATTTAGATATTTTCCCAAAAAACTA
1 TTTTAATGCATCAAAATTCATGAAATAATATAAAAACATGATCTAGAGCTTTTTCCAAAAAACTA
* * * * * * *
13869832 ACAT-GAT-A-GTCAAATTATGAAAATACTTTTAAAGCACATTGTGATAATTTCAACATTTTTGA
66 ACATCAATAAGGTCAAATTATAAAAATACCTCTAAAGCGCATTTTGGTAATTTCAACATTTTTGA
13869894 AG-TGCAAT-AAGGGT
131 AGATGCAATCAA-GGT
* * *
13869908 TTTTAATGCATCAAAATTCATG-AATAATATAAAAACATGATCTAGAGCTTTTTGCAAAAAATTG
1 TTTTAATGCATCAAAATTCATGAAATAATATAAAAACATGATCTAGAGCTTTTTCCAAAAAACTA
* * * * * * *
13869972 ACCTCAATAAGGTCAAATTACAAAAATACCACTAAAGGGTATTTTGGTAATTTTAACATTTCT-A
66 ACATCAATAAGGTCAAATTATAAAAATACCTCTAAAGCGCATTTTGGTAATTTCAACATTTTTGA
* *
13870036 AGTTGCCATCAAGGT
131 AGATGCAATCAAGGT
* *
13870051 TTTTAATGCATCAAAATTAATGAAATAATATCAAAACATGATCTAGAGCTTTT
1 TTTTAATGCATCAAAATTCATGAAATAATATAAAAACATGATCTAGAGCTTTT
13870104 CGTGAAAAAC
Statistics
Matches: 273, Mismatches: 53, Indels: 22
0.78 0.15 0.06
Matches are distributed among these distances:
140 39 0.14
141 74 0.27
142 8 0.03
143 69 0.25
144 83 0.30
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (145 bp):
TTTTAATGCATCAAAATTCATGAAATAATATAAAAACATGATCTAGAGCTTTTTCCAAAAAACTA
ACATCAATAAGGTCAAATTATAAAAATACCTCTAAAGCGCATTTTGGTAATTTCAACATTTTTGA
AGATGCAATCAAGGT
Found at i:13870031 original size:143 final size:144
Alignment explanation
Indices: 13869696--13870104 Score: 456
Period size: 141 Copynumber: 2.9 Consensus size: 144
13869686 TAACTTTAGA
*
13869696 AAGGTCAAATTATAAAAATACCTCTAAAGCGCATTTTGGTAATTTCAATC-TTTTCG-AGATGCA
1 AAGGTCAAATTATAAAAATACCTCTAAAGCGCATTTTGGTAATTTCAA-CATTTTTGAAGATGCA
* * * * * * **
13869759 ATCAAGGTTTTTAATACTTAAAAATTCATGAAATAATATTAAAACATAATTTAGATATTTTCCCA
65 ATCAAGGTTTTTAATGCATCAAAATTCATGAAATAATATAAAAACATGATCTAGAGCTTTTCCCA
*
13869824 AAAAACTAACATGAT
130 AAAAACTAACATAAT
* * * * * *
13869839 -A-GTCAAATTATGAAAATACTTTTAAAGCACATTGTGATAATTTCAACATTTTTGAAG-TGCAA
1 AAGGTCAAATTATAAAAATACCTCTAAAGCGCATTTTGGTAATTTCAACATTTTTGAAGATGCAA
**
13869901 T-AAGGGTTTTTAATGCATCAAAATTCATG-AATAATATAAAAACATGATCTAGAGCTTTTTGCA
66 TCAA-GGTTTTTAATGCATCAAAATTCATGAAATAATATAAAAACATGATCTAGAGCTTTTCCCA
* * *
13869964 AAAAATTGACCTCAAT
130 AAAAACTAACAT-AAT
* * * * * * * *
13869980 AAGGTCAAATTACAAAAATACCACTAAAGGGTATTTTGGTAATTTTAACATTTCT-AAGTTGCCA
1 AAGGTCAAATTATAAAAATACCTCTAAAGCGCATTTTGGTAATTTCAACATTTTTGAAGATGCAA
* *
13870044 TCAAGGTTTTTAATGCATCAAAATTAATGAAATAATATCAAAACATGATCTAGAGCTTTTC
66 TCAAGGTTTTTAATGCATCAAAATTCATGAAATAATATAAAAACATGATCTAGAGCTTTTC
13870105 GTGAAAAACC
Statistics
Matches: 220, Mismatches: 37, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
140 39 0.18
141 74 0.34
142 7 0.03
143 69 0.31
144 31 0.14
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (144 bp):
AAGGTCAAATTATAAAAATACCTCTAAAGCGCATTTTGGTAATTTCAACATTTTTGAAGATGCAA
TCAAGGTTTTTAATGCATCAAAATTCATGAAATAATATAAAAACATGATCTAGAGCTTTTCCCAA
AAAACTAACATAAT
Found at i:13870141 original size:143 final size:142
Alignment explanation
Indices: 13869905--13870210 Score: 352
Period size: 143 Copynumber: 2.1 Consensus size: 142
13869895 GTGCAATAAG
* * *
13869905 GGTTTTTAATGCATCAAAATTCATGAATAATATAAAAACATGATCTAGAGCTTTTTGCAAAAAAT
1 GGTTTTTAATGCATCAAAATTAATGAATAATATAAAAACATGATCTAGAGCTTTTCGCAAAAAAC
** * *
13869970 TGACCTCAATAAGGTCAAATTACAAAAATA-CCACTAAAGGGTATTT-TGGTAATTTTA-ACATT
66 CAACCTCAAGAAAGTCAAA-TACAAAAATATCCA-TAAAGGGTATTTAT-GTAATTTTATACATT
*
13870032 TCTAAGTTGCCA-TCAA
128 TC-AAGGTG-CAGTCAA
* **
13870048 GGTTTTTAATGCATCAAAATTAATGAAATAATATCAAAACATGATCTAGAGCTTTTCGTGAAAAA
1 GGTTTTTAATGCATCAAAATTAATG-AATAATATAAAAACATGATCTAGAGCTTTTCGCAAAAAA
** * * *
13870113 CCAACCTTGAGAAAGTCAAGA-ACGAAAATATCCATAAAGGGTATTTATGTAATTTTATTCTTTT
65 CCAACCTCAAGAAAGTCAA-ATACAAAAATATCCATAAAGGGTATTTATGTAATTTTATACATTT
*
13870177 CAAGGTGCAGTCAT
129 CAAGGTGCAGTCAA
*
13870191 TGTTTTTAATGCATCAAAAT
1 GGTTTTTAATGCATCAAAAT
13870211 CACAATTCTA
Statistics
Matches: 139, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
142 2 0.01
143 80 0.58
144 56 0.40
145 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (142 bp):
GGTTTTTAATGCATCAAAATTAATGAATAATATAAAAACATGATCTAGAGCTTTTCGCAAAAAAC
CAACCTCAAGAAAGTCAAATACAAAAATATCCATAAAGGGTATTTATGTAATTTTATACATTTCA
AGGTGCAGTCAA
Found at i:13871205 original size:11 final size:12
Alignment explanation
Indices: 13871184--13871217 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
13871174 AAATAGAGAT
13871184 ACAACAAAAAATG
1 ACAA-AAAAAATG
13871197 A-AAAAAAAATG
1 ACAAAAAAAATG
13871208 ACAAAAAAAA
1 ACAAAAAAAA
13871218 AAGAAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 10 0.50
13 1 0.05
ACGTcount: A:0.79, C:0.09, G:0.06, T:0.06
Consensus pattern (12 bp):
ACAAAAAAAATG
Found at i:13871722 original size:50 final size:50
Alignment explanation
Indices: 13871629--13872012 Score: 265
Period size: 50 Copynumber: 7.6 Consensus size: 50
13871619 TGCAATGTTA
* * * ** **
13871629 AGATTTTTAAAGTTTCAAAACCTCTATTTAAG-AGAAGCATTTCAAAAATG
1 AGATTTTTAAAGTTTCAAAGCCTTTATTTAGGAAG-AGTTTTTCAAAGTTG
* * * ***
13871679 AGACTTTTAAAGTTTTAAAGCCTTTGTTTAGGAAGAGTTTTTCAAAGACA
1 AGATTTTTAAAGTTTCAAAGCCTTTATTTAGGAAGAGTTTTTCAAAGTTG
* * * *
13871729 AGATTTTTAACA-TTTGAGAGCCTCTATTTAGGAA-AATCCCTTTT-AAAGTTG
1 AGATTTTTAA-AGTTTCAAAGCCTTTATTTAGGAAGAGT---TTTTCAAAGTTG
* * *
13871780 AGATTTTTAAAGTTTCAAAGCCTTTATTTAGGAAAAGCTTTTCAATGTTG
1 AGATTTTTAAAGTTTCAAAGCCTTTATTTAGGAAGAGTTTTTCAAAGTTG
* * * * *
13871830 AGATTTTTAAAGTTTGAAAGCCTCTGTTTAGGAGGAGCCTTTT-AAAGTTG
1 AGATTTTTAAAGTTTCAAAGCCTTTATTTAGGAAGAG-TTTTTCAAAGTTG
* * * * * * * * **
13871880 AAATTTTTATAGTTTCAAAGACTATGTTTAAGAGGAGTTTTTTAAAAATG
1 AGATTTTTAAAGTTTCAAAGCCTTTATTTAGGAAGAGTTTTTCAAAGTTG
* ** *
13871930 AGATTTTTAAAGTTTCAAAGCCTTTATTTTGGCGGAGCCTTTTTTAAAGTTG
1 AGATTTTTAAAGTTTCAAAGCCTTTATTTAGGAAGAG--TTTTTCAAAGTTG
* * * *
13871982 ATACTTTTAAAGTTTTAAAGCTTTTTATTTA
1 AGATTTTTAAAGTTTCAAAGC-CTTTATTTA
13872013 TAAGGAGTTT
Statistics
Matches: 265, Mismatches: 56, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
49 10 0.04
50 173 0.65
51 41 0.15
52 34 0.13
53 7 0.03
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (50 bp):
AGATTTTTAAAGTTTCAAAGCCTTTATTTAGGAAGAGTTTTTCAAAGTTG
Found at i:13871932 original size:100 final size:100
Alignment explanation
Indices: 13871629--13872002 Score: 372
Period size: 100 Copynumber: 3.7 Consensus size: 100
13871619 TGCAATGTTA
* * * * **
13871629 AGATTTTTAAAGTTTCAAAACCTCTATTTAAGAGAAGCATTTCAAAAATGAGACTTTTAAAGTTT
1 AGATTTTTAAAGTTTCAAAGCCTCTATTTAGGAGAAGCCTTTTAAAGTTGAGACTTTTAAAGTTT
* **
13871694 TAAAGCCTTTGTTTAGGAAGAGTTTTTCAAAGACA
66 CAAAGCCTTTGTTTAGGAAGAGTTTTTCAAAGATG
* * * * *
13871729 AGATTTTTAACA-TTTGAGAGCCTCTATTTAGGAAAATCCCTTTTAAAGTTGAGATTTTTAAAGT
1 AGATTTTTAA-AGTTTCAAAGCCTCTATTTAGGAGAA-GCCTTTTAAAGTTGAGACTTTTAAAGT
* * * * *
13871793 TTCAAAGCCTTTATTTAGGAAAAGCTTTTCAATGTTG
64 TTCAAAGCCTTTGTTTAGGAAGAGTTTTTCAAAGATG
* * * * * *
13871830 AGATTTTTAAAGTTTGAAAGCCTCTGTTTAGGAGGAGCCTTTTAAAGTTGAAATTTTTATAGTTT
1 AGATTTTTAAAGTTTCAAAGCCTCTATTTAGGAGAAGCCTTTTAAAGTTGAGACTTTTAAAGTTT
* * * * * *
13871895 CAAAGACTATGTTTAAGAGGAGTTTTTTAAAAATG
66 CAAAGCCTTTGTTTAGGAAGAGTTTTTCAAAGATG
* * * * *
13871930 AGATTTTTAAAGTTTCAAAGCCTTTATTTTGGCGGAGCCTTTTTTAAAGTTGATACTTTTAAAGT
1 AGATTTTTAAAGTTTCAAAGCCTCTATTTAGGAGAAGCC--TTTTAAAGTTGAGACTTTTAAAGT
*
13871995 TTTAAAGC
64 TTCAAAGC
13872003 TTTTTATTTA
Statistics
Matches: 222, Mismatches: 47, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
100 114 0.51
101 81 0.36
102 27 0.12
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (100 bp):
AGATTTTTAAAGTTTCAAAGCCTCTATTTAGGAGAAGCCTTTTAAAGTTGAGACTTTTAAAGTTT
CAAAGCCTTTGTTTAGGAAGAGTTTTTCAAAGATG
Found at i:13872521 original size:20 final size:20
Alignment explanation
Indices: 13872496--13872561 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
13872486 TGCCCTATGG
13872496 TCAAACATAGTCAAATGTGA
1 TCAAACATAGTCAAATGTGA
*
13872516 TCAAACAAAGTCAAACTAGT--
1 TCAAACATAGTCAAA-T-GTGA
*
13872536 TCAAA-ATTAGTCAAATTTGA
1 TCAAACA-TAGTCAAATGTGA
13872556 TCAAAC
1 TCAAAC
13872562 TCAAGTCAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
18 1 0.03
19 2 0.05
20 31 0.84
21 1 0.03
22 2 0.05
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.26
Consensus pattern (20 bp):
TCAAACATAGTCAAATGTGA
Found at i:13877029 original size:19 final size:17
Alignment explanation
Indices: 13877016--13877068 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
13877006 TTTTTTTTCG
13877016 TTTTTCTTTCTTTTGATTT
1 TTTTTCTTTCTTTT--TTT
*
13877035 TTTTTCTTTCTTTTTGT
1 TTTTTCTTTCTTTTTTT
** *
13877052 TTTCCCATTCTTTTTTT
1 TTTTTCTTTCTTTTTTT
13877069 AGGCTCCACC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 15 0.52
19 14 0.48
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTTTCTTTCTTTTTTT
Found at i:13881637 original size:21 final size:20
Alignment explanation
Indices: 13881611--13881660 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
13881601 AAACCCTAAA
*
13881611 TGAAACCATTAGGCCCCAAAT
1 TGAAACC-TTAGACCCCAAAT
*
13881632 TGAAACCTTTGACCCCAAAT
1 TGAAACCTTAGACCCCAAAT
13881652 TGAAACCTT
1 TGAAACCTT
13881661 TAAGCCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (20 bp):
TGAAACCTTAGACCCCAAAT
Found at i:13881661 original size:20 final size:20
Alignment explanation
Indices: 13881624--13881661 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13881614 AACCATTAGG
13881624 CCCCAAATTGAAACCTTTGA
1 CCCCAAATTGAAACCTTTGA
13881644 CCCCAAATTGAAACCTTT
1 CCCCAAATTGAAACCTTT
13881662 AAGCCTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.32, G:0.08, T:0.26
Consensus pattern (20 bp):
CCCCAAATTGAAACCTTTGA
Found at i:13881690 original size:20 final size:20
Alignment explanation
Indices: 13881665--13881751 Score: 108
Period size: 20 Copynumber: 4.4 Consensus size: 20
13881655 AACCTTTAAG
*
13881665 CCTAAACCAAACTCTTAAAC
1 CCTAAACCAAACCCTTAAAC
13881685 CCTAAACCAAACCCTTAAAC
1 CCTAAACCAAACCCTTAAAC
*
13881705 CCT-AACCTAAGTCCC--AAAC
1 CCTAAACC-AA-ACCCTTAAAC
13881724 CCTAAACCAAACCCTTAAAC
1 CCTAAACCAAACCCTTAAAC
*
13881744 CATAAACC
1 CCTAAACC
13881752 CCAAACCTCA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
18 3 0.05
19 13 0.22
20 39 0.67
21 3 0.05
ACGTcount: A:0.44, C:0.39, G:0.01, T:0.16
Consensus pattern (20 bp):
CCTAAACCAAACCCTTAAAC
Found at i:13881692 original size:7 final size:7
Alignment explanation
Indices: 13881680--13881758 Score: 55
Period size: 7 Copynumber: 11.9 Consensus size: 7
13881670 ACCAAACTCT
13881680 TAAACCC
1 TAAACCC
13881687 TAAA-CC
1 TAAACCC
13881693 -AAACCC
1 TAAACCC
13881699 TTAAACCC
1 -TAAACCC
13881707 T-AA-CC
1 TAAACCC
*
13881712 TAAGTCCC
1 TAA-ACCC
13881720 -AAACCC
1 TAAACCC
13881726 TAAA-CC
1 TAAACCC
13881732 -AAACCC
1 TAAACCC
*
13881738 TTAAACCA
1 -TAAACCC
13881746 TAAACCC
1 TAAACCC
*
13881753 CAAACC
1 TAAACC
13881759 TCAAATCCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
5 9 0.16
6 14 0.25
7 21 0.37
8 13 0.23
ACGTcount: A:0.44, C:0.41, G:0.01, T:0.14
Consensus pattern (7 bp):
TAAACCC
Found at i:13881703 original size:13 final size:12
Alignment explanation
Indices: 13881681--13881745 Score: 60
Period size: 12 Copynumber: 5.1 Consensus size: 12
13881671 CCAAACTCTT
13881681 AAACCCTAAACC
1 AAACCCTAAACC
13881693 AAACCCTTAAACCC
1 AAACCC-TAAA-CC
* *
13881707 TAA-CCTAAGTCCC
1 AAACCCTAA--ACC
13881720 AAACCCTAAACC
1 AAACCCTAAACC
13881732 AAACCCTTAAACC
1 AAACCC-TAAACC
13881745 A
1 A
13881746 TAAACCCCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
12 17 0.40
13 17 0.40
14 9 0.21
ACGTcount: A:0.45, C:0.40, G:0.02, T:0.14
Consensus pattern (12 bp):
AAACCCTAAACC
Found at i:13881952 original size:20 final size:19
Alignment explanation
Indices: 13881914--13881958 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
13881904 CCTAAGTTCC
*
13881914 AAACCCTAAACGAAACCTT
1 AAACCCTAAAAGAAACCTT
*
13881933 AAACCCTAAAAGCCAACCTT
1 AAACCCTAAAAG-AAACCTT
*
13881953 AGACCC
1 AAACCC
13881959 CTTCTCATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.44, C:0.36, G:0.07, T:0.13
Consensus pattern (19 bp):
AAACCCTAAAAGAAACCTT
Found at i:13891474 original size:19 final size:19
Alignment explanation
Indices: 13891450--13891517 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
13891440 ATATTACATA
13891450 TTTTAT-TTATACATATATT
1 TTTTATCTTATA-ATATATT
13891469 TTTTATCTT-TAATATCATT
1 TTTTATCTTATAATAT-ATT
*
13891488 ATTCTT-TTTTATAAT-TATT
1 -TT-TTATCTTATAATATATT
13891507 TTTTATCTTAT
1 TTTTATCTTAT
13891518 CAAATTTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
17 2 0.05
18 11 0.27
19 14 0.34
20 8 0.20
21 6 0.15
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATCTTATAATATATT
Found at i:13891908 original size:15 final size:16
Alignment explanation
Indices: 13891890--13891922 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13891880 AAGTGCATTT
*
13891890 AAAAAGTGTGA-TAAA
1 AAAAAGTATGATTAAA
13891905 AAAAAGTATGATTAAA
1 AAAAAGTATGATTAAA
13891921 AA
1 AA
13891923 TTTTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (16 bp):
AAAAAGTATGATTAAA
Found at i:13896186 original size:11 final size:10
Alignment explanation
Indices: 13896156--13896180 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13896146 AGCTTAAAAC
13896156 AAAAATTTTG
1 AAAAATTTTG
13896166 AAAAATTTTG
1 AAAAATTTTG
13896176 AAAAA
1 AAAAA
13896181 AATTTGCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (10 bp):
AAAAATTTTG
Found at i:13900046 original size:10 final size:10
Alignment explanation
Indices: 13899998--13900046 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
13899988 CATAATATGA
*
13899998 TCAAGAATCA
1 TCAAGAATCT
*
13900008 TCTAAGAAACT
1 TC-AAGAATCT
*
13900019 TCAAGAAACT
1 TCAAGAATCT
*
13900029 TTAAGAATCT
1 TCAAGAATCT
13900039 TCAAGAAT
1 TCAAGAAT
13900047 TACCAAGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
10 25 0.76
11 8 0.24
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (10 bp):
TCAAGAATCT
Found at i:13909892 original size:18 final size:19
Alignment explanation
Indices: 13909857--13909894 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13909847 TAATGCATAA
**
13909857 TTAAAAAAAAATTTCAATG
1 TTAAAAAAAAATAGCAATG
13909876 TTAAAAAAAAA-AGCAATG
1 TTAAAAAAAAATAGCAATG
13909894 T
1 T
13909895 GTCGCCATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (19 bp):
TTAAAAAAAAATAGCAATG
Found at i:13916433 original size:12 final size:12
Alignment explanation
Indices: 13916406--13916470 Score: 62
Period size: 12 Copynumber: 5.4 Consensus size: 12
13916396 CACAGGTTTT
13916406 TTTTCTTTTTTC-
1 TTTT-TTTTTTCA
13916418 TTTTTTTTTTCA
1 TTTTTTTTTTCA
**
13916430 TTTTCATTTTCA
1 TTTTTTTTTTCA
**
13916442 TTTTCATTTTCA
1 TTTTTTTTTTCA
13916454 TTTTTTATTTT-A
1 TTTTTT-TTTTCA
13916466 TTTTT
1 TTTTT
13916471 AGATTTTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
11 7 0.15
12 36 0.77
13 4 0.09
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTTCA
Found at i:13916439 original size:18 final size:18
Alignment explanation
Indices: 13916402--13916469 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
13916392 TAATCACAGG
*
13916402 TTTTTTTTCTTTTTTC-TT
1 TTTTTTTTC-ATTTTCATT
13916420 TTTTTTTTCATTTTCATT
1 TTTTTTTTCATTTTCATT
**
13916438 TTCATTTTCATTTTCATT
1 TTTTTTTTCATTTTCATT
13916456 TTTTATTTT-ATTTT
1 TTTT-TTTTCATTTT
13916470 TAGATTTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
17 5 0.12
18 34 0.79
19 4 0.09
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTTCATTTTCATT
Found at i:13917981 original size:18 final size:17
Alignment explanation
Indices: 13917953--13917994 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
13917943 CTTTATGTTG
13917953 TTTTT-TATATAT-ATT
1 TTTTTGTATATATCATT
13917968 ATTCTTTGTATATATCATT
1 -TT-TTTGTATATATCATT
13917987 TTTTTGTA
1 TTTTTGTA
13917995 CCAGCCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 2 0.09
17 9 0.39
18 9 0.39
19 3 0.13
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTTTGTATATATCATT
Found at i:13920829 original size:21 final size:21
Alignment explanation
Indices: 13920805--13920845 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13920795 ATGGAAAGTT
* * *
13920805 AAAACAAAATAAACAAAAAGC
1 AAAAAAAAAGAAAAAAAAAGC
13920826 AAAAAAAAAGAAAAAAAAAG
1 AAAAAAAAAGAAAAAAAAAG
13920846 GATGACTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.83, C:0.07, G:0.07, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAAAAAGC
Found at i:13927707 original size:15 final size:16
Alignment explanation
Indices: 13927689--13927720 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
13927679 AAAACACTTC
13927689 ACAAAAAAAAA-AAAA
1 ACAAAAAAAAACAAAA
13927704 ACAAAAAAAAACAAAA
1 ACAAAAAAAAACAAAA
13927720 A
1 A
13927721 AATGATTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (16 bp):
ACAAAAAAAAACAAAA
Found at i:13927709 original size:10 final size:10
Alignment explanation
Indices: 13927691--13927722 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
13927681 AACACTTCAC
13927691 AAAAA-AAAA
1 AAAAACAAAA
13927700 AAAAACAAAA
1 AAAAACAAAA
13927710 AAAAACAAAA
1 AAAAACAAAA
13927720 AAA
1 AAA
13927723 TGATTTGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:13930945 original size:82 final size:82
Alignment explanation
Indices: 13930846--13931082 Score: 224
Period size: 83 Copynumber: 2.9 Consensus size: 82
13930836 AGACAAGTTA
* * * * *
13930846 TTTTAAATTTCCAAAGTTTCAATACCTTTGATTA-AAGGAGCACTCAAAAATATCGAGATTTGTA
1 TTTTAAATTTTC-AAGTTTCAATGCCTATGATTACGAGGAGCATTCAAAAATATCGAGATTT-TA
* **
13930910 AGACCTTTAGGCAAATTAT
64 AGACCTCTAGGCAAAACAT
* * * * * * * * *
13930929 TTTTAAATTTTCAAGTTCCCATGCCTCTGATTAGGAGGAGTATTAAAAAATTTTGAAATCTTTAA
1 TTTTAAATTTTCAAGTTTCAATGCCTATGATTACGAGGAGCATTCAAAAATATCGAGAT-TTTAA
13930994 GACCTCTAGGCAAAACAT
65 GACCTCTAGGCAAAACAT
* * * * * *
13931012 TTTAAAATTTTAAAGTTTCAATGCCTATAATTACGAGGAGCATTCAAAGATGTCAAGATTTATAA
1 TTTTAAATTTTCAAGTTTCAATGCCTATGATTACGAGGAGCATTCAAAAATATCGAGATTT-TAA
13931077 GACCTC
65 GACCTC
13931083 CATACATAAT
Statistics
Matches: 122, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
82 19 0.16
83 101 0.83
84 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.35
Consensus pattern (82 bp):
TTTTAAATTTTCAAGTTTCAATGCCTATGATTACGAGGAGCATTCAAAAATATCGAGATTTTAAG
ACCTCTAGGCAAAACAT
Found at i:13931241 original size:83 final size:82
Alignment explanation
Indices: 13931110--13931367 Score: 295
Period size: 83 Copynumber: 3.0 Consensus size: 82
13931100 ACCTTCGGGT
*
13931110 AAAACATTTTAAATTTTCAAAGTTTTAGTGCCTTTGATTGAGAAGAGCATTCAAAGATGTTGAGA
1 AAAACATTTTAAATTTTCAAAGTTTTAATGCCTTTGATT-AGAAGAGCATTCAAAGATGTTGAGA
13931175 TTTGTAAGACCTCCAAGC
65 TTTGTAAGACCTCCAAGC
* * * *
13931193 AAAACATTTTAAATTTTCAAAGTTTCAATACCTTTGATTAGAAGGAGCATTCAAAGCTAG-CGAG
1 AAAACATTTTAAATTTTCAAAGTTTTAATGCCTTTGATTAGAA-GAGCATTCAAAGAT-GTTGAG
* *
13931257 ATTTGTAATCTCTAAAACCTCCAGGC
64 ATTTG-------TAAGACCTCCAAGC
* * *
13931283 AAAACATTTTAAATTTTTAAAGTTTTAATGCCTTTGATTAGGAAGAGCATTCAAAAGATTTTGAA
1 AAAACATTTTAAATTTTCAAAGTTTTAATGCCTTTGATTA-GAAGAGCATTC-AAAGATGTTGAG
13931348 ATCTT-TAAGACCTCCAAGC
64 AT-TTGTAAGACCTCCAAGC
13931367 A
1 A
13931368 TAATATTCAA
Statistics
Matches: 146, Mismatches: 16, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
82 4 0.03
83 57 0.39
84 14 0.10
90 57 0.39
91 12 0.08
92 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (82 bp):
AAAACATTTTAAATTTTCAAAGTTTTAATGCCTTTGATTAGAAGAGCATTCAAAGATGTTGAGAT
TTGTAAGACCTCCAAGC
Found at i:13931460 original size:49 final size:49
Alignment explanation
Indices: 13931399--13931503 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 49
13931389 AAAACATTTT
* * * * *
13931399 AGATTTTTAAGTTTCCAAGCCTCTATTTAGGGGGAGCAATTTCCAAACA
1 AGATTTTAAAGTTTCAAAACCTCAATTTAGAGGGAGCAATTTCCAAACA
* **
13931448 AGATTTTAAAGTTTCAAAACCTCAATTTAGAGGGAGCCATTTTTAAACA
1 AGATTTTAAAGTTTCAAAACCTCAATTTAGAGGGAGCAATTTCCAAACA
13931497 AGATTTT
1 AGATTTT
13931504 TTTTTCAAGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (49 bp):
AGATTTTAAAGTTTCAAAACCTCAATTTAGAGGGAGCAATTTCCAAACA
Found at i:13931884 original size:3 final size:3
Alignment explanation
Indices: 13931872--13931901 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
13931862 CAAATAAATA
13931872 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13931902 CAATTAAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:13935662 original size:16 final size:16
Alignment explanation
Indices: 13935601--13935661 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
13935591 AAAACATCTA
* *
13935601 ATTCAAATTTGAAATG
1 ATTCAAATTTAAAATT
13935617 ATTCAAATTTAAAA-T
1 ATTCAAATTTAAAATT
* * *
13935632 AATCTAAACTCAAAATT
1 ATTC-AAATTTAAAATT
13935649 ATTCAAA-TTAAAA
1 ATTCAAATTTAAAA
13935662 AACTACTAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
15 8 0.22
16 24 0.67
17 4 0.11
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTCAAATTTAAAATT
Found at i:13936412 original size:24 final size:24
Alignment explanation
Indices: 13936353--13936434 Score: 64
Period size: 24 Copynumber: 3.4 Consensus size: 24
13936343 TTATATAAAT
*
13936353 ATAA-ATA-AATAA-AAATAATTC
1 ATAATATATAATAACAAATAATTA
* *
13936374 ATATATCATACTAATCACAAATTAGTTA
1 ATA-AT-ATA-TAATAACAAA-TAATTA
*
13936402 A-AATATATAATAATAAATAATTA
1 ATAATATATAATAACAAATAATTA
13936425 ATAATATATA
1 ATAATATATA
13936435 TGTGTGTGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
21 3 0.06
22 1 0.02
23 6 0.13
24 19 0.40
25 3 0.06
26 6 0.13
27 4 0.09
28 5 0.11
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (24 bp):
ATAATATATAATAACAAATAATTA
Found at i:13941981 original size:10 final size:10
Alignment explanation
Indices: 13941843--13941986 Score: 60
Period size: 10 Copynumber: 13.7 Consensus size: 10
13941833 TAATTAGATA
*
13941843 ATTAATTAAT
1 ATTAAATAAT
*
13941853 ATTAATTTAAT
1 ATTAA-ATAAT
*
13941864 A--AAATAAA
1 ATTAAATAAT
* *
13941872 ATAAAATACT
1 ATTAAATAAT
*
13941882 ATTAAATTA-
1 ATTAAATAAT
13941891 ATTAAATAAT
1 ATTAAATAAT
* *
13941901 TTTAAAATATT
1 ATT-AAATAAT
* *
13941912 AATAATTAAT
1 ATTAAATAAT
13941922 ATTTAGCAATATATT
1 A-TTA--AATA-A-T
*
13941937 ATTAAAATACT
1 ATT-AAATAAT
*
13941948 ATTCAAATATT
1 ATT-AAATAAT
13941959 ATTAAAGTAAT
1 ATTAAA-TAAT
*
13941970 ATGAAATAAT
1 ATTAAATAAT
13941980 ATTAAAT
1 ATTAAAT
13941987 TTAAAGAATT
Statistics
Matches: 100, Mismatches: 22, Indels: 24
0.68 0.15 0.16
Matches are distributed among these distances:
8 4 0.04
9 10 0.10
10 37 0.37
11 36 0.36
13 7 0.07
14 3 0.03
15 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (10 bp):
ATTAAATAAT
Found at i:13942180 original size:38 final size:36
Alignment explanation
Indices: 13942111--13942232 Score: 106
Period size: 38 Copynumber: 3.3 Consensus size: 36
13942101 TAAGTTAATT
* *
13942111 AATTAATATTTATTAAATTATTATTTTATATTATTA
1 AATTAATATTAATTAAATTATTATTTAATATTATTA
13942147 AATTAATATTAATTAAAAATTGA-TATTTAATATTATT-
1 AATTAATATTAATT--AAATT-ATTATTTAATATTATTA
* * * *
13942184 AGTGTAATATTAGTT-AATTAATATTTAAATTTATATTA
1 AAT-TAATATTAATTAAATTATTATTT-AATAT-TATTA
*
13942222 AATTATTATTA
1 AATTAATATTA
13942233 CTTTTATCAT
Statistics
Matches: 71, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
34 1 0.01
35 9 0.13
36 17 0.24
37 13 0.18
38 30 0.42
39 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (36 bp):
AATTAATATTAATTAAATTATTATTTAATATTATTA
Found at i:13946932 original size:24 final size:23
Alignment explanation
Indices: 13946888--13946932 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
13946878 ATTCAAATCT
*
13946888 TAAATTTCATAATCCATATATCA
1 TAAATTTCATAATCCAAATATCA
13946911 TAAACTTTCATAAGT-CAAATAT
1 TAAA-TTTCATAA-TCCAAATAT
13946933 AGTCTTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 14 0.74
25 1 0.05
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (23 bp):
TAAATTTCATAATCCAAATATCA
Found at i:13947048 original size:150 final size:151
Alignment explanation
Indices: 13946793--13947075 Score: 469
Period size: 150 Copynumber: 1.9 Consensus size: 151
13946783 TCAAATGGTC
*
13946793 CAAAAAACTGCCTAGATCATCTCTTAAGTCAAATATAGTATAGGATTTCAGCTTAAGGGTTAAGT
1 CAAAAAACTGCCTAGATCATCTCTTAAGTCAAATATAGTATAGGATTTCAGCTCAAGGGTTAAGT
* *
13946858 AGGTGAATTTTAGGGCACTTATTCAAATCTTAAATTTCAT-AATCCATATATCATAAACTTTCAT
66 AGGTGAATTTTAGAGCACTTATTCAAATCTTAAATTTCATAAATCCATATATCACAAACTTTCAT
13946922 AAGTCAAATATAGTCTTAAGT
131 AAGTCAAATATAGTCTTAAGT
* * *
13946943 CAAATAACTGCCTAGATCATCTCTTAAGTCAAATATAGTTTAGGATTTCATCTCAAGGGTTAAGT
1 CAAAAAACTGCCTAGATCATCTCTTAAGTCAAATATAGTATAGGATTTCAGCTCAAGGGTTAAGT
* *
13947008 AGGTGAATTTTAGAGCATTTATTGAAATCTTAAATTTCATACAAATCCATATATCACAAACTTTC
66 AGGTGAATTTTAGAGCACTTATTCAAATCTTAAATTTCAT--AAATCCATATATCACAAACTTTC
13947073 ATA
129 ATA
13947076 GAAATTATAG
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
150 98 0.80
153 24 0.20
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (151 bp):
CAAAAAACTGCCTAGATCATCTCTTAAGTCAAATATAGTATAGGATTTCAGCTCAAGGGTTAAGT
AGGTGAATTTTAGAGCACTTATTCAAATCTTAAATTTCATAAATCCATATATCACAAACTTTCAT
AAGTCAAATATAGTCTTAAGT
Found at i:13960967 original size:22 final size:22
Alignment explanation
Indices: 13960942--13960983 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13960932 AAAGGCAATG
* *
13960942 AAAGTAAATTTTGTTGGAAAAT
1 AAAGGAAATTTTGTTCGAAAAT
*
13960964 AAAGGCAATTTTGTTCGAAA
1 AAAGGAAATTTTGTTCGAAA
13960984 TAGCCCTCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (22 bp):
AAAGGAAATTTTGTTCGAAAAT
Found at i:13962538 original size:7 final size:7
Alignment explanation
Indices: 13962526--13962551 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13962516 TTTTTCATTC
13962526 TTTTTCT
1 TTTTTCT
13962533 TTTTTCT
1 TTTTTCT
13962540 TTTTTCT
1 TTTTTCT
13962547 TTTTT
1 TTTTT
13962552 GCAAGCTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:13970795 original size:20 final size:19
Alignment explanation
Indices: 13970746--13970795 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
13970736 CGAAAGGGAA
13970746 AAAGAAGAAAATAACTAAAG
1 AAAGAA-AAAATAACTAAAG
13970766 AAA-ACTAAAAATAAACTAAAG
1 AAAGA--AAAAAT-AACTAAAG
13970787 AAAGAAAAA
1 AAAGAAAAA
13970796 TGCAAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 12 0.46
22 1 0.04
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (19 bp):
AAAGAAAAAATAACTAAAG
Found at i:13978665 original size:40 final size:40
Alignment explanation
Indices: 13978620--13978699 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
13978610 TTAGAGTTTA
*
13978620 GATAAAATGCTACTTATATTCTTAATCTTTAACTAACTTT
1 GATAAAATGCTACTTATATTCTTAAGCTTTAACTAACTTT
* *
13978660 GATAAAATGCTACTTATATTCTTTAGCTTTACCTAACTTT
1 GATAAAATGCTACTTATATTCTTAAGCTTTAACTAACTTT
13978700 TATCATTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (40 bp):
GATAAAATGCTACTTATATTCTTAAGCTTTAACTAACTTT
Found at i:13979432 original size:185 final size:184
Alignment explanation
Indices: 13979121--13979485 Score: 601
Period size: 185 Copynumber: 2.0 Consensus size: 184
13979111 CAATCATTGT
*
13979121 TACTTTTATGTTTCTACAAGTTTCAGCAATCACAAATCTTTTTTTTTTCAAGTTTCAATCTTTGA
1 TACTTTTATGTTTCTACAAGTTTCAGCAATCACAAATCTTTTTTCTTTCAAGTTTCAATCTTTGA
13979186 TTCTTTAGATCTAGTCTATTCGACCTTAACCCAAGATTCTTAATGATAGTTGGATATTGAGATCT
66 TTCTTTAGATCTAGTCTATTCGACCTTAACCCAAGATTCTTAATGATAGTTGGATATTGAGATCT
*
13979251 TGGCCTATATTAGTATTCTTTATATGTTCTTGATTTATTATTTTTGCAATCAAC
131 TGGCCTATATTAGTATTCTTTATATGTTCTTGATTTATTATTTTTACAATCAAC
*
13979305 TACTTTTATGTTT-TCACAAGTTTCGGCAATCACAAATCTTTCTTTCTTTCAAGTTTCAATCTTT
1 TACTTTTATGTTTCT-ACAAGTTTCAGCAATCACAAATCTTT-TTTCTTTCAAGTTTCAATCTTT
* * * *
13979369 TATTCTTTAGATGTAGTCTATTC-AGCCTTAACCCAAGGTT-TCTAGTGATAGTTGGATATTGAG
64 GATTCTTTAGATCTAGTCTATTCGA-CCTTAACCCAAGATTCT-TAATGATAGTTGGATATTGAG
*
13979432 ATCTTGGCCTATATTAGTGTTCTTTATATGTTCTTGATTTATTATTTTTACAAT
127 ATCTTGGCCTATATTAGTATTCTTTATATGTTCTTGATTTATTATTTTTACAAT
13979486 TAACCCAATA
Statistics
Matches: 169, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
183 1 0.01
184 40 0.24
185 128 0.76
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (184 bp):
TACTTTTATGTTTCTACAAGTTTCAGCAATCACAAATCTTTTTTCTTTCAAGTTTCAATCTTTGA
TTCTTTAGATCTAGTCTATTCGACCTTAACCCAAGATTCTTAATGATAGTTGGATATTGAGATCT
TGGCCTATATTAGTATTCTTTATATGTTCTTGATTTATTATTTTTACAATCAAC
Found at i:13980869 original size:146 final size:146
Alignment explanation
Indices: 13980658--13980943 Score: 371
Period size: 146 Copynumber: 2.0 Consensus size: 146
13980648 TGATTTTGTG
* *
13980658 AAGGTCAAATTACAAGAATACCCTTAAAAAGCATTTTGCTAATGTCAAACTTTTCAAGGTGTGAT
1 AAGGTCAAATTACAAAAATACCCTTAAAAAGCATTTTGCTAATGTCAAACTTTTCAAGGTATGAT
* * * * * *
13980723 CAAGGTTTTTACTATA-CCAAAAATCGTGAAATAATATCAAAACATGATATGGAGCTTCTCGCGA
66 CAAGGTTTTTAATACATCAAAAAATCATGAAATAATATCAAAACATGATATAGAGCTTCTC-CCA
*
13980787 AAAAACTAACCCCCAAA
130 AAAAACCAACCCCCAAA
* * * **
13980804 AAGGTCAAATTATAAAAATACCTTTAAAAAGCATTTTAG-TAATTTCAATA-TTTTTGAGGTATG
1 AAGGTCAAATTACAAAAATACCCTTAAAAAGCATTTT-GCTAATGTCAA-ACTTTTCAAGGTATG
* * *
13980867 ATCAAGGTTTTTAATACATTAAAAAATCATGAAATAATATCAAAACATGATTTAGAGCTTTTCCC
64 ATCAAGGTTTTTAATACATCAAAAAATCATGAAATAATATCAAAACATGATATAGAGCTTCTCCC
13980932 AAAAAACCAACC
129 AAAAAACCAACC
13980944 TTGGGAAAGT
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
146 80 0.67
147 40 0.33
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.30
Consensus pattern (146 bp):
AAGGTCAAATTACAAAAATACCCTTAAAAAGCATTTTGCTAATGTCAAACTTTTCAAGGTATGAT
CAAGGTTTTTAATACATCAAAAAATCATGAAATAATATCAAAACATGATATAGAGCTTCTCCCAA
AAAACCAACCCCCAAA
Found at i:13982054 original size:142 final size:141
Alignment explanation
Indices: 13981908--13982374 Score: 421
Period size: 143 Copynumber: 3.3 Consensus size: 141
13981898 ACTCGAAAAA
13981908 GTCAAATTA-AAGAATACCCTTTAAGGGCATTTTAGTAATTTTATACCTTTCAAAGTATGATCAA
1 GTCAAATTACAA-AATACCCTTTAAGGGCATTTTAGTAATTTTATACCTTTCAAAGTATGATCAA
* * * *
13981972 AGTTTTTAATGCACCAAAAATCATTAAATATTATAAAAAGATAATCTAAAAGTTTTCATGAAAAT
65 GGTTTTTAATGCACCAAAAATCATCAAATAATATAAAAACAT-ATCTAAAAGTTTTCATGAAAAT
*
13982037 CAACCTCAGGAAT
129 CAACCTCAGGAAG
* * * * *
13982050 GTCAAATTACAAAAATACCATTAAAGGGCATTTTAGTAA-TTT-CACCTTTCAAGGTATGAAT-G
1 GTCAAATTAC-AAAATACCCTTTAAGGGCATTTTAGTAATTTTATACCTTTCAAAGTATG-ATCA
* * * * * * *
13982112 AGGTTTTTAATACACAAAAAATCATCAAATAATATCAAATCATGATC-GAGAGCTTTTCA-AAAA
64 AGGTTTTTAATGCACCAAAAATCATCAAATAATATAAAAACAT-ATCTAAAAG-TTTTCATGAAA
* *
13982175 ATTTTAACCTTAGGAAG
127 A--TCAACCTCAGGAAG
* * ** * *
13982192 GTTAAATTACAAAAAAATCTTTAAGGGCATTTTAGTAATTTTATACCTCTT-GAAGTGTGATCAA
1 GTCAAATTACAAAATACCCTTTAAGGGCATTTTAGTAATTTTATACCT-TTCAAAGTATGATCAA
* * * * **
13982256 GGTTTCTAATGCATCAAAAATCATCAATTAATGTTCAAACATATCTAAAAGTTTTCATGAAGAAT
65 GGTTTTTAATGCACCAAAAATCATCAAATAATATAAAAACATATCTAAAAGTTTTCATGAA-AAT
** *
13982321 CAA-CTTTGAAAAG
129 CAACCTCAG-GAAG
* * *
13982334 GTTAAATTGCAAAAGTA-CCTTTAAAGGGCATTTTGGTAATT
1 GTCAAATTACAAAA-TACCCTTT-AAGGGCATTTTAGTAATT
13982375 CTATCATTCC
Statistics
Matches: 259, Mismatches: 50, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
140 7 0.03
141 85 0.33
142 71 0.27
143 90 0.35
144 6 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (141 bp):
GTCAAATTACAAAATACCCTTTAAGGGCATTTTAGTAATTTTATACCTTTCAAAGTATGATCAAG
GTTTTTAATGCACCAAAAATCATCAAATAATATAAAAACATATCTAAAAGTTTTCATGAAAATCA
ACCTCAGGAAG
Found at i:13983759 original size:62 final size:60
Alignment explanation
Indices: 13983583--13983759 Score: 187
Period size: 62 Copynumber: 2.9 Consensus size: 60
13983573 GGTATTTTCA
* ** * *
13983583 TAATTATGATAAGAAAAACATTTATGTAATTATGATAAAAGGGACATTATAATAATTTTAGC
1 TAATTATGATAGGAAAGGCATTTATGTAATTATG-TAAAAAGG-CATTATAGTAATTTTAGC
* * *
13983645 TAATTATGGTAGGAAAGGCATTTTTGTAATTATAGTAAAAAGGGCATCATAGTAATTTT-GAC
1 TAATTATGATAGGAAAGGCATTTATGTAATTAT-GTAAAAA-GGCATTATAGTAATTTTAG-C
*
13983707 TGATTATGATAGGAAAGGCATTTCAT-TAATTATGGTTAAAAAGGCATTATAGT
1 TAATTATGATAGGAAAGGCATTT-ATGTAATTAT-G-TAAAAAGGCATTATAGT
13983760 CTTTCAAGAT
Statistics
Matches: 97, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
61 1 0.01
62 86 0.89
63 10 0.10
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.36
Consensus pattern (60 bp):
TAATTATGATAGGAAAGGCATTTATGTAATTATGTAAAAAGGCATTATAGTAATTTTAGC
Found at i:13983858 original size:25 final size:25
Alignment explanation
Indices: 13983830--13983878 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
13983820 GATAGATTTG
13983830 TAATTTAATATGTAGTTAATTTTAA
1 TAATTTAATATGTAGTTAATTTTAA
13983855 TAATTTAATATGTAGTTAATTTTA
1 TAATTTAATATGTAGTTAATTTTA
13983879 TATTATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (25 bp):
TAATTTAATATGTAGTTAATTTTAA
Found at i:13983902 original size:17 final size:16
Alignment explanation
Indices: 13983858--13983912 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
13983848 ATTTTAATAA
*
13983858 TTTAATATGTAGTTAAT
1 TTTAATATAT-GTTAAT
13983875 TTT-ATATTATGTTAAAT
1 TTTAATA-TATGTT-AAT
13983892 TTTAATATATG-TAA-
1 TTTAATATATGTTAAT
13983906 TTTAATA
1 TTTAATA
13983913 AGGGTATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
14 7 0.21
15 2 0.06
16 7 0.21
17 15 0.44
18 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (16 bp):
TTTAATATATGTTAAT
Found at i:13984265 original size:62 final size:61
Alignment explanation
Indices: 13984188--13984321 Score: 171
Period size: 62 Copynumber: 2.2 Consensus size: 61
13984178 TTATGATTGG
* * **
13984188 AGGGTATTATAATAATTTTATCCAAGTAT-GATAGGAGAGGCATTTTTATAATCATGCTAAGA
1 AGGGTATTATAATAATTTTAACCAAGTATAG-TAAGAGAGGCATTTTTATAATCATAAT-AGA
* * * *
13984250 AGGGTATTATCATAATTTTAACTAATTATAGTAAGAGAGGCATTTTTATAATTATAATAGA
1 AGGGTATTATAATAATTTTAACCAAGTATAGTAAGAGAGGCATTTTTATAATCATAATAGA
13984311 AGGGTATTATA
1 AGGGTATTATA
13984322 GTGATTTAGG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
61 13 0.21
62 48 0.77
63 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (61 bp):
AGGGTATTATAATAATTTTAACCAAGTATAGTAAGAGAGGCATTTTTATAATCATAATAGA
Found at i:13984672 original size:18 final size:20
Alignment explanation
Indices: 13984625--13984675 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
13984615 AAATATTCAT
*
13984625 ATTATTAAAATAATAATATA
1 ATTAATAAAATAATAATATA
13984645 ATTATATAAAATAAT-AT-TA
1 ATTA-ATAAAATAATAATATA
*
13984664 ATTACTAAAATA
1 ATTAATAAAATA
13984676 TGAAGAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 6 0.21
20 6 0.21
21 9 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTAATAAAATAATAATATA
Found at i:13987000 original size:22 final size:20
Alignment explanation
Indices: 13986959--13987002 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
13986949 TTTTTTTTGG
*
13986959 CCAAAAACATTTAAAATAAT
1 CCAAAAAAATTTAAAATAAT
*
13986979 CCAAAAAAATCTTATAAGTAAT
1 CCAAAAAAAT-TTA-AAATAAT
13987001 CC
1 CC
13987003 CTAAGAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.55, C:0.18, G:0.02, T:0.25
Consensus pattern (20 bp):
CCAAAAAAATTTAAAATAAT
Found at i:13987398 original size:64 final size:64
Alignment explanation
Indices: 13987321--13987469 Score: 199
Period size: 64 Copynumber: 2.3 Consensus size: 64
13987311 TTAAGGCATT
** * * * *
13987321 AAAAATGCCTTAAATAATCCTTTCATATTTTTTAAATAACATTTATTTAAGGCATTTTTTGACC
1 AAAAATGCCTTAAATAATCCCCTCATATTTTTTAAACAACATTTATTTAAAGCACTTTTAGACC
** *
13987385 AAAAATGCCTTAAATAATCCCCTCATATTTTTTAAACGGCATTTATTTAAAGCACTTTTAGGCC
1 AAAAATGCCTTAAATAATCCCCTCATATTTTTTAAACAACATTTATTTAAAGCACTTTTAGACC
* *
13987449 AAAACTGTCTTAAATAATCCC
1 AAAAATGCCTTAAATAATCCC
13987470 TTTTAAAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 74 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.38
Consensus pattern (64 bp):
AAAAATGCCTTAAATAATCCCCTCATATTTTTTAAACAACATTTATTTAAAGCACTTTTAGACC
Found at i:13990162 original size:19 final size:20
Alignment explanation
Indices: 13990140--13990177 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13990130 TTTAATTAAA
13990140 ATTAA-ATAAAAATATTTTT
1 ATTAATATAAAAATATTTTT
*
13990159 ATTAATATAATAATATTTT
1 ATTAATATAAAAATATTTT
13990178 AAGTCAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAATATAAAAATATTTTT
Found at i:13993852 original size:11 final size:10
Alignment explanation
Indices: 13993835--13993867 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
13993825 AAAGAATAGC
13993835 TTTTCTTTTT
1 TTTTCTTTTT
13993845 TCTTTCTTTTT
1 T-TTTCTTTTT
13993856 TTTT-TTTTT
1 TTTTCTTTTT
13993865 TTT
1 TTT
13993868 AATAATTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.36
10 4 0.18
11 10 0.45
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:13995774 original size:19 final size:20
Alignment explanation
Indices: 13995740--13995777 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13995730 TCAATATTAG
13995740 CCTTTCTTTTGGTTTCTTTC
1 CCTTTCTTTTGGTTTCTTTC
*
13995760 CCTTT-TTTTGTTTTCTTT
1 CCTTTCTTTTGGTTTCTTT
13995778 TTATTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.00, C:0.21, G:0.08, T:0.71
Consensus pattern (20 bp):
CCTTTCTTTTGGTTTCTTTC
Found at i:13997785 original size:2 final size:2
Alignment explanation
Indices: 13997778--13997803 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13997768 GAGCTGGTTA
13997778 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13997804 CTAGTTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13999852 original size:96 final size:96
Alignment explanation
Indices: 13999684--14000053 Score: 521
Period size: 96 Copynumber: 3.8 Consensus size: 96
13999674 AGTTGGTGGC
* *
13999684 GGTGGTGAGGGTGGTGTATTATGGTAATGGCTT-GT--TGGTGGTGGTGTATTATAGTTATGGCC
1 GGTGGTGAAGGTGGTATATTATGGTAATGGCTTGGTGGTGGTGGTGGTGTATTATAGTTATGGCC
13999746 TGATGGAGTTGATGGAGGTGGTTGTACTATT
66 TGATGGAGTTGATGGAGGTGGTTGTACTATT
*
13999777 GGTGGTGAAGTTGGTATATTATGGTAATGGCTTGGTGGTGGTGGTGGTGTATTATAGTTATGGCC
1 GGTGGTGAAGGTGGTATATTATGGTAATGGCTTGGTGGTGGTGGTGGTGTATTATAGTTATGGCC
*
13999842 TAATGGAGTTGATGGAGGTGGTTGTACTATT
66 TGATGGAGTTGATGGAGGTGGTTGTACTATT
* *
13999873 GGTGGTGAAGGTGGTATGTTATGGTAATGGCTTGGCGGTGGTGGTGAAGGTGGTGGAGGTGTTTT
1 GGTGGTGAAGGTGGTATATTATGGTAATGGC-T-----TGGTGGT---GGTGGT---GGTGTATT
13999938 ATAGTTATGGCCTGATGGAGTTGATGGAGGTGGTTGTACTATT
54 ATAGTTATGGCCTGATGGAGTTGATGGAGGTGGTTGTACTATT
* * * *
13999981 GGTGGTGAAGGTGGTATATTATGGTAATGACCTGGTGGTGGTGGTGGTGTATTGTAGTAATGGCC
1 GGTGGTGAAGGTGGTATATTATGGTAATGGCTTGGTGGTGGTGGTGGTGTATTATAGTTATGGCC
14000046 TGATGGAG
66 TGATGGAG
14000054 GTGCTTGTGC
Statistics
Matches: 248, Mismatches: 14, Indels: 27
0.86 0.05 0.09
Matches are distributed among these distances:
93 30 0.12
94 2 0.01
96 111 0.45
97 1 0.00
99 6 0.02
102 14 0.06
105 6 0.02
108 78 0.31
ACGTcount: A:0.18, C:0.05, G:0.41, T:0.36
Consensus pattern (96 bp):
GGTGGTGAAGGTGGTATATTATGGTAATGGCTTGGTGGTGGTGGTGGTGTATTATAGTTATGGCC
TGATGGAGTTGATGGAGGTGGTTGTACTATT
Found at i:13999877 original size:57 final size:57
Alignment explanation
Indices: 13999815--13999987 Score: 166
Period size: 57 Copynumber: 3.1 Consensus size: 57
13999805 GGCTTGGTGG
13999815 TGGTGGTGGTGTATTATAGTTATGGCCTAATGGAGTTGATGGAGGTGGTTGTACTAT
1 TGGTGGTGGTGTATTATAGTTATGGCCTAATGGAGTTGATGGAGGTGGTTGTACTAT
** * ** * *
13999872 TGGTGGTGAAG-GTGGTAT-GTTATGG--TAATGG-CTTGGCGGTGGTGG-TG-A--AGG
1 TGGTGGTG--GTGTATTATAGTTATGGCCTAATGGAGTTGATGGAGGTGGTTGTACTA-T
* * *
13999923 TGGTGGAGGTGTTTTATAGTTATGGCCTGATGGAGTTGATGGAGGTGGTTGTACTAT
1 TGGTGGTGGTGTATTATAGTTATGGCCTAATGGAGTTGATGGAGGTGGTTGTACTAT
13999980 TGGTGGTG
1 TGGTGGTG
13999988 AAGGTGGTAT
Statistics
Matches: 87, Mismatches: 17, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
49 1 0.01
50 6 0.07
51 14 0.16
52 1 0.01
53 7 0.08
54 20 0.23
55 8 0.09
56 1 0.01
57 22 0.25
58 6 0.07
59 1 0.01
ACGTcount: A:0.17, C:0.05, G:0.42, T:0.36
Consensus pattern (57 bp):
TGGTGGTGGTGTATTATAGTTATGGCCTAATGGAGTTGATGGAGGTGGTTGTACTAT
Found at i:13999949 original size:108 final size:108
Alignment explanation
Indices: 13999813--14000026 Score: 365
Period size: 108 Copynumber: 2.0 Consensus size: 108
13999803 ATGGCTTGGT
*
13999813 GGTGGTGGTGGTGTATTATAGTTATGGCCTAATGGAGTTGATGGAGGTGGTTGTACTATTGGTGG
1 GGTGGTGGAGGTGTATTATAGTTATGGCCTAATGGAGTTGATGGAGGTGGTTGTACTATTGGTGG
* * *
13999878 TGAAGGTGGTATGTTATGGTAATGGCTTGGCGGTGGTGGTGAA
66 TGAAGGTGGTATATTATGGTAATGACCTGGCGGTGGTGGTGAA
* *
13999921 GGTGGTGGAGGTGTTTTATAGTTATGGCCTGATGGAGTTGATGGAGGTGGTTGTACTATTGGTGG
1 GGTGGTGGAGGTGTATTATAGTTATGGCCTAATGGAGTTGATGGAGGTGGTTGTACTATTGGTGG
*
13999986 TGAAGGTGGTATATTATGGTAATGACCTGGTGGTGGTGGTG
66 TGAAGGTGGTATATTATGGTAATGACCTGGCGGTGGTGGTG
14000027 GTGTATTGTA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 99 1.00
ACGTcount: A:0.17, C:0.05, G:0.43, T:0.36
Consensus pattern (108 bp):
GGTGGTGGAGGTGTATTATAGTTATGGCCTAATGGAGTTGATGGAGGTGGTTGTACTATTGGTGG
TGAAGGTGGTATATTATGGTAATGACCTGGCGGTGGTGGTGAA
Found at i:14000027 original size:33 final size:33
Alignment explanation
Indices: 13999980--14000056 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
13999970 GTTGTACTAT
** *
13999980 TGGTGGTGAAGGTGGTATATTATGGTAATGACC
1 TGGTGGTGGTGGTGGTATATTATAGTAATGACC
* * *
14000013 TGGTGGTGGTGGTGGTGTATTGTAGTAATGGCC
1 TGGTGGTGGTGGTGGTATATTATAGTAATGACC
* *
14000046 TGATGGAGGTG
1 TGGTGGTGGTG
14000057 CTTGTGCTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.18, C:0.05, G:0.43, T:0.34
Consensus pattern (33 bp):
TGGTGGTGGTGGTGGTATATTATAGTAATGACC
Found at i:14003278 original size:18 final size:19
Alignment explanation
Indices: 14003257--14003303 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
14003247 ATTAAATTCA
* *
14003257 TTTTTTTAAGTTTT-ATAT
1 TTTTTTTAAATTTTAACAT
*
14003275 TTTTTTCAAATTTTAACAT
1 TTTTTTTAAATTTTAACAT
14003294 TTTTATTTAA
1 TTTT-TTTAA
14003304 TCAAAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 12 0.52
19 7 0.30
20 4 0.17
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTTTAAATTTTAACAT
Found at i:14003767 original size:22 final size:23
Alignment explanation
Indices: 14003723--14003772 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
14003713 CATTAAATGT
* * *
14003723 TTTGATAAATAAAACTATTAAAA
1 TTTGAGAAAAAAAACTATAAAAA
14003746 TTTGAGAAAAAAAACT-TAAAAA
1 TTTGAGAAAAAAAACTATAAAAA
*
14003768 ATTGA
1 TTTGA
14003773 AATTAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (23 bp):
TTTGAGAAAAAAAACTATAAAAA
Found at i:14003820 original size:21 final size:21
Alignment explanation
Indices: 14003796--14003865 Score: 54
Period size: 24 Copynumber: 3.2 Consensus size: 21
14003786 ATAAGTTGAG
14003796 AAAAATAAATTTAATATTTTT
1 AAAAATAAATTTAATATTTTT
* * *
14003817 -AAAA-AAATCTAGAAAATTTT
1 AAAAATAAATTTA-ATATTTTT
*
14003837 AAAAATCGAAATATTAATTTTTTT
1 AAAAAT--AAAT-TTAATATTTTT
14003861 AAAAA
1 AAAAA
14003866 AATAAAATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
19 6 0.17
20 10 0.28
21 4 0.11
24 14 0.39
25 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (21 bp):
AAAAATAAATTTAATATTTTT
Found at i:14003883 original size:21 final size:22
Alignment explanation
Indices: 14003857--14003903 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
14003847 ATATTAATTT
14003857 TTTTAAAA-AAATAAAA-TATGA
1 TTTTAAAACAAA-AAAATTATGA
14003878 TTTTAAAACAAAAAAATTATGA
1 TTTTAAAACAAAAAAATTATGA
14003900 TTTT
1 TTTT
14003904 TTTTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
TTTTAAAACAAAAAAATTATGA
Found at i:14004209 original size:20 final size:19
Alignment explanation
Indices: 14004184--14004222 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
14004174 TTGTTATGTC
14004184 AACAAAATCAATACTACATG
1 AACAAAATCAATACT-CATG
*
14004204 AACAAAGTCAATACTCATG
1 AACAAAATCAATACTCATG
14004223 TCCAAGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.51, C:0.21, G:0.08, T:0.21
Consensus pattern (19 bp):
AACAAAATCAATACTCATG
Found at i:14026270 original size:30 final size:29
Alignment explanation
Indices: 14026214--14026346 Score: 115
Period size: 30 Copynumber: 4.5 Consensus size: 29
14026204 ATGATTTATG
* * *
14026214 TTAAAAATTTATTCACATAGAAATTAAAATT
1 TTAAGAATTTATTTA-ATATAAATTAAAA-T
* * **
14026245 TTACGAATTTATTTAGTATAAATTAAAGG
1 TTAAGAATTTATTTAATATAAATTAAAAT
* *
14026274 ATAAAAATTTATTTAAATATAAATTAAAAT
1 TTAAGAATTTATTT-AATATAAATTAAAAT
*
14026304 TTAAGAATTTATTTAA-ATATAATAAAAAT
1 TTAAGAATTTATTTAATATA-AATTAAAAT
* *
14026333 ATAAAAATTTATTT
1 TTAAGAATTTATTT
14026347 TTAAAAGTTA
Statistics
Matches: 82, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
28 3 0.04
29 33 0.40
30 34 0.41
31 12 0.15
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (29 bp):
TTAAGAATTTATTTAATATAAATTAAAAT
Found at i:14026286 original size:29 final size:28
Alignment explanation
Indices: 14026250--14026346 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 28
14026240 AAATTTTACG
**
14026250 AATTTATTTAGTATAAATTAAAGGATAAA
1 AATTTATTTA-TATAAATTAAAATATAAA
* *
14026279 AATTTATTTAAATATAAATTAAAATTTAAG
1 AATTTATTT--ATATAAATTAAAATATAAA
* *
14026309 AATTTATTTAAATATAATAAAAATATAAA
1 AATTTATTTATATA-AATTAAAATATAAA
14026338 AATTTATTT
1 AATTTATTT
14026347 TTAAAAGTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
28 4 0.07
29 29 0.51
30 23 0.40
31 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (28 bp):
AATTTATTTATATAAATTAAAATATAAA
Found at i:14026341 original size:59 final size:60
Alignment explanation
Indices: 14026215--14026346 Score: 169
Period size: 59 Copynumber: 2.2 Consensus size: 60
14026205 TGATTTATGT
* * * * * *
14026215 TAAAAATTTATTCACATAGAAATTAAAATTTTACGAATTTATTTAGTATAAATTAAAGGA
1 TAAAAATTTATTTAAATAGAAATTAAAATTTTAAGAATTTATTTAATATAAATAAAAAGA
* *
14026275 TAAAAATTTATTTAAATATAAATTAAAA-TTTAAGAATTTATTTAA-ATATAATAAAAATA
1 TAAAAATTTATTTAAATAGAAATTAAAATTTTAAGAATTTATTTAATATA-AATAAAAAGA
14026334 TAAAAATTTATTT
1 TAAAAATTTATTT
14026347 TTAAAAGTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
58 3 0.05
59 35 0.56
60 25 0.40
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (60 bp):
TAAAAATTTATTTAAATAGAAATTAAAATTTTAAGAATTTATTTAATATAAATAAAAAGA
Found at i:14026982 original size:18 final size:18
Alignment explanation
Indices: 14026961--14027009 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
14026951 AAGACAAAAG
14026961 ATAAAAAGAAGAAAAGAA
1 ATAAAAAGAAGAAAAGAA
* *
14026979 ATAAAAA-AAAAAAAGTA
1 ATAAAAAGAAGAAAAGAA
*
14026996 ATGAAAAG-AGAAAA
1 ATAAAAAGAAGAAAA
14027010 ATTTTTTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (18 bp):
ATAAAAAGAAGAAAAGAA
Found at i:14027676 original size:10 final size:10
Alignment explanation
Indices: 14027663--14027701 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
14027653 CTTTTAAAAA
14027663 CTTTCCTTTT
1 CTTTCCTTTT
14027673 CTTT-CTTTT
1 CTTTCCTTTT
*
14027682 CCTTTCATTTT
1 -CTTTCCTTTT
14027693 CTTTCCTTT
1 CTTTCCTTT
14027702 ATTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 5 0.20
10 16 0.64
11 4 0.16
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:14028119 original size:13 final size:13
Alignment explanation
Indices: 14028091--14028123 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14028081 ATGAAAAATA
*
14028091 TTATAAT-TATTT
1 TTATAATATATTC
14028103 TTATAATATATTC
1 TTATAATATATTC
14028116 TTATAATA
1 TTATAATA
14028124 GAATACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATAATATATTC
Found at i:14028477 original size:156 final size:157
Alignment explanation
Indices: 14028256--14028822 Score: 526
Period size: 156 Copynumber: 3.6 Consensus size: 157
14028246 AAACATTGTT
* * * *
14028256 TTTGTTAAAACTATAAAATTATGAAAAATAAAGTTTTTTTCATAGTATATTTTCAATAAAAATCA
1 TTTGTTGAAACTATAGAATTATGAAAAAT-AAGTTTTTTTCATAGTATATTTTCAACAAAGATCA
* * * * *
14028321 TAATTTTAATATTTAAAATGTTATTTTTGTTGTTATGAAAAATATAATTTTCAAAATTCAACAAA
65 TATTTTTAATATTAAAAATGTTATCTTTGTTGTTATAAAAAATAAAATTTTCAAAATTCAACAAA
*
14028386 AACCACGCTTTTAAACTT-AAATGTTATA
130 GACCACG-TTTTAAACTTAAAATGTTATA
* * * *
14028414 TTTGTTGACATTATATAATTTTGAAAAATAA-TTTTTTTCATAGTATATTTTCAACAAAGATCAT
1 TTTGTTGAAACTATAGAATTATGAAAAATAAGTTTTTTTCATAGTATATTTTCAACAAAGATCAT
* * * * ** *
14028478 GTTTTTAATCTTAAAAATGTTGTCATTGTT-TTGCAAAAAATAAAATTTCTCAAAATTTAACAAA
66 ATTTTTAATATTAAAAATGTTATCTTTGTTGTTATAAAAAATAAAATTT-TCAAAATTCAACAAA
* * * *
14028542 GATCGTA-TTTTTAATCTTTAAAATGTTGA-C
130 GA-C-CACGTTTTAAAC-TTAAAATGTT-ATA
* * * * *
14028572 TTTGTTGAAACTATAGAATTATGAAAAATAA-ATTTTTT-ATAATATATTTTTAACAAAGATTAC
1 TTTGTTGAAACTATAGAATTATGAAAAATAAGTTTTTTTCATAGTATATTTTCAACAAAGATCAT
** * * * * * * *
14028635 ATTTTTAAT-TTCAAAAACATTGTCTTTATTATTCTAAAAAATAAAATTTTCAGAATTCAATAAT
66 ATTTTTAATATT-AAAAATGTTATCTTTGTTGTTATAAAAAATAAAATTTTCAAAATTCAACAAA
* * *
14028699 GACCACGTTTTTAATTTAAAAATGTTTTA
130 GACCACGTTTTAAACTT-AAAATGTTATA
* * * *
14028728 TTTGTTGAAACTATAGAATTCTGAAAAATAATTTTTTTTCATACTACATTTTCAACAAAGA-CA-
1 TTTGTTGAAACTATAGAATTATGAAAAATAAGTTTTTTTCATAGTATATTTTCAACAAAGATCAT
* *
14028791 ATGGTTTTCATA-TAAAAATGTTATTTTTGTTG
66 AT--TTTTAATATTAAAAATGTTATCTTTGTTG
14028823 AAATATATAT
Statistics
Matches: 329, Mismatches: 64, Indels: 33
0.77 0.15 0.08
Matches are distributed among these distances:
155 17 0.05
156 124 0.38
157 81 0.25
158 106 0.32
159 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (157 bp):
TTTGTTGAAACTATAGAATTATGAAAAATAAGTTTTTTTCATAGTATATTTTCAACAAAGATCAT
ATTTTTAATATTAAAAATGTTATCTTTGTTGTTATAAAAAATAAAATTTTCAAAATTCAACAAAG
ACCACGTTTTAAACTTAAAATGTTATA
Found at i:14029228 original size:31 final size:32
Alignment explanation
Indices: 14029161--14029232 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
14029151 TTTCTTGTTA
* * * **
14029161 TTTAAATTCATGCAAATTTAATTTTTTTACTT
1 TTTAATTTTATGCAAATTTAATTTTCTTACAC
*
14029193 TTTAATTTTATGCAATTTTAA-TTTCTTACAC
1 TTTAATTTTATGCAAATTTAATTTTCTTACAC
14029224 TTTAATTTT
1 TTTAATTTT
14029233 CAAGTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 16 0.47
32 18 0.53
ACGTcount: A:0.29, C:0.10, G:0.03, T:0.58
Consensus pattern (32 bp):
TTTAATTTTATGCAAATTTAATTTTCTTACAC
Found at i:14034140 original size:22 final size:22
Alignment explanation
Indices: 14034105--14034146 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14034095 GAATATATCC
*
14034105 TATAAGTACAATGTGTATATGT
1 TATAAGTACAATGTATATATGT
14034127 TATAAGTA-ATATGTATATAT
1 TATAAGTACA-ATGTATATAT
14034147 AAATAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (22 bp):
TATAAGTACAATGTATATATGT
Found at i:14034153 original size:17 final size:17
Alignment explanation
Indices: 14034127--14034163 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14034117 GTGTATATGT
* *
14034127 TATAAGTAATATGTATA
1 TATAAATAATATGTACA
14034144 TATAAATAATATGTACA
1 TATAAATAATATGTACA
14034161 TAT
1 TAT
14034164 CTTATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (17 bp):
TATAAATAATATGTACA
Found at i:14039787 original size:24 final size:24
Alignment explanation
Indices: 14039760--14039808 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
14039750 TTTGATCATT
*
14039760 AATTGAAATTGTATTTGAGTTTTG
1 AATTGAAATTGTATATGAGTTTTG
*
14039784 AATTGAAATTGTATATGGGTTTTG
1 AATTGAAATTGTATATGAGTTTTG
14039808 A
1 A
14039809 TTGTTTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (24 bp):
AATTGAAATTGTATATGAGTTTTG
Found at i:14045604 original size:19 final size:19
Alignment explanation
Indices: 14045580--14045617 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14045570 CCCTAATAGA
14045580 TGGGTTTGTGCATAAATCG
1 TGGGTTTGTGCATAAATCG
14045599 TGGGTTTGTGCATAAATCG
1 TGGGTTTGTGCATAAATCG
14045618 CAATATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.32, T:0.37
Consensus pattern (19 bp):
TGGGTTTGTGCATAAATCG
Found at i:14051974 original size:6 final size:6
Alignment explanation
Indices: 14051957--14051987 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
14051947 TTTTTTCATC
*
14051957 TCAAAA TTAAAA TCAAAA TCAAAA TCAAAA T
1 TCAAAA TCAAAA TCAAAA TCAAAA TCAAAA T
14051988 TATTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.65, C:0.13, G:0.00, T:0.23
Consensus pattern (6 bp):
TCAAAA
Found at i:14053041 original size:19 final size:18
Alignment explanation
Indices: 14052997--14053044 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
14052987 TTTGATGCAA
* *
14052997 TAATAATTAATATTTTTG
1 TAATAATAAAAATTTTTG
* *
14053015 AAAGAATAAAAATTATTTG
1 TAATAATAAAAATT-TTTG
14053034 TAATAATAAAA
1 TAATAATAAAA
14053045 TGAAGAATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
TAATAATAAAAATTTTTG
Found at i:14055436 original size:52 final size:52
Alignment explanation
Indices: 14055332--14055436 Score: 115
Period size: 52 Copynumber: 2.0 Consensus size: 52
14055322 ATTAAGAATC
** * *
14055332 TTTTTCCTTTTAGAATTCTTCTTCTGTAAGTTAAACTTGTCTATTAAAAATA
1 TTTTTCCTTTTAGAATTCTTCTTCTACAAGTTAAACTTGTCCATCAAAAATA
* * *
14055384 TTTTTTCTTTTAGAATTCTTTTTCTACAAGTCT-TA-TTGTCCATCAAATAATA
1 TTTTTCCTTTTAGAATTCTTCTTCTACAAGT-TAAACTTGTCCATCAAA-AATA
14055436 T
1 T
14055437 CTAGCTAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
51 10 0.23
52 33 0.75
53 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (52 bp):
TTTTTCCTTTTAGAATTCTTCTTCTACAAGTTAAACTTGTCCATCAAAAATA
Found at i:14061234 original size:52 final size:52
Alignment explanation
Indices: 14061151--14061293 Score: 155
Period size: 53 Copynumber: 2.7 Consensus size: 52
14061141 TATAACTAGA
* * * *
14061151 CAAACTTGCCTATTTAGAATCCCTTTCCTCTTAGAATTCTGCT-TCCGTAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTTCTCTTAGAATTCTGCTCT-CGCAAGT
* * * * *
14061203 CAAACTTGTCTATTAAGAATCTCTTTTCTCTTAAACATTTTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCTCTTTTCTCTTAGA-ATTCTGCTCTCGCAAGT
*
14061256 CAAACTTACCTATTAAGAATCT-TCTTTCTCTTAGAATT
1 CAAACTTGCCTATTAAGAATCTCT-TTTCTCTTAGAATT
14061294 TTTCTTTTGC
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
52 34 0.45
53 41 0.54
54 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTCTTTTCTCTTAGAATTCTGCTCTCGCAAGT
Found at i:14061269 original size:53 final size:52
Alignment explanation
Indices: 14061199--14061304 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 52
14061189 CTGCTTCCGT
**
14061199 AAGTCAAACTTGTCTATTAAGAATC-TCTTTTCTCTTAAACATTTTTCTCTTGC
1 AAGTCAAACTTACCTATTAAGAATCTTC-TTTCTCTTAAA-ATTTTTCTCTTGC
* *
14061252 AAGTCAAACTTACCTATTAAGAATCTTCTTTCTCTTAGAATTTTTCTTTTGC
1 AAGTCAAACTTACCTATTAAGAATCTTCTTTCTCTTAAAATTTTTCTCTTGC
14061304 A
1 A
14061305 GGTCTTTTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
52 13 0.27
53 33 0.69
54 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (52 bp):
AAGTCAAACTTACCTATTAAGAATCTTCTTTCTCTTAAAATTTTTCTCTTGC
Found at i:14067704 original size:18 final size:18
Alignment explanation
Indices: 14067681--14067724 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
14067671 CAATTCAATT
14067681 AAACATCAAAACCAACAA
1 AAACATCAAAACCAACAA
*
14067699 AAACATCAAAACCAACAG
1 AAACATCAAAACCAACAA
14067717 AAACATCA
1 AAACATCA
14067725 TCAAACAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.64, C:0.27, G:0.02, T:0.07
Consensus pattern (18 bp):
AAACATCAAAACCAACAA
Found at i:14069925 original size:2 final size:2
Alignment explanation
Indices: 14069876--14069906 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14069866 AATTTGGACT
14069876 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14069907 TGGATAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14070147 original size:15 final size:16
Alignment explanation
Indices: 14070120--14070149 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14070110 AAAAAATTTT
14070120 AAATTATTCAAAAATA
1 AAATTATTCAAAAATA
14070136 AAATTATT-AAAAAT
1 AAATTATTCAAAAAT
14070150 TTAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATTATTCAAAAATA
Found at i:14070357 original size:35 final size:35
Alignment explanation
Indices: 14070309--14070384 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
14070299 ACTGTGCGTA
* * * * *
14070309 ACCATTTTGTTATTGTAACAAGAGTAGATATTGAT
1 ACCATTCTATTATTGTAACAAGAATAGATAATAAT
*
14070344 ACCATTCTATTATTGTAACAATAATAGATAATAAT
1 ACCATTCTATTATTGTAACAAGAATAGATAATAAT
14070379 ACCATT
1 ACCATT
14070385 TGTCTTGATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (35 bp):
ACCATTCTATTATTGTAACAAGAATAGATAATAAT
Found at i:14071632 original size:3 final size:3
Alignment explanation
Indices: 14071624--14071667 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
14071614 AATTTTCATT
14071624 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14071668 TTACGTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14075493 original size:15 final size:15
Alignment explanation
Indices: 14075456--14075499 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
14075446 ATTTAATCTC
*
14075456 TAATATTA-TTTTAA
1 TAATATTATTTTTTA
* *
14075470 AAATTTTATTTTTTA
1 TAATATTATTTTTTA
14075485 TAATATTATTTTTTA
1 TAATATTATTTTTTA
14075500 AAAATTTTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TAATATTATTTTTTA
Found at i:14075513 original size:29 final size:28
Alignment explanation
Indices: 14075456--14075514 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 28
14075446 ATTTAATCTC
*
14075456 TAATATTATTTTAAAAATTTTATTTTTTA
1 TAATATTATTTTAAAAATTTTA-TGTTTA
14075485 TAATATTATTTTTTAAAAATTTTA-GTTTA
1 TAATATTA--TTTTAAAAATTTTATGTTTA
14075514 T
1 T
14075515 TGGTTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 13 0.48
31 14 0.52
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
TAATATTATTTTAAAAATTTTATGTTTA
Found at i:14075626 original size:29 final size:29
Alignment explanation
Indices: 14075559--14075637 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
14075549 AATAATACTG
*
14075559 AGGATTAAATTTTTAAAAAATAATATTACA
1 AGGATTAAATTTTT-AAAAATAATATTATA
* * *
14075589 AGAACTAAATTTTTTAAAATAATATTATA
1 AGGATTAAATTTTTAAAAATAATATTATA
* *
14075618 AGGGTTAAATTCTTAAAAAT
1 AGGATTAAATTTTTAAAAAT
14075638 CAAAATTCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 28 0.70
30 12 0.30
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (29 bp):
AGGATTAAATTTTTAAAAATAATATTATA
Found at i:14079474 original size:2 final size:2
Alignment explanation
Indices: 14079461--14079495 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14079451 CTCTGATTTC
*
14079461 AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14079496 ATGGAGAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14079881 original size:16 final size:16
Alignment explanation
Indices: 14079860--14079893 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14079850 ACTTTATTTT
* *
14079860 TAAAATATTAATTTAA
1 TAAAATAATAATATAA
14079876 TAAAATAATAATATAA
1 TAAAATAATAATATAA
14079892 TA
1 TA
14079894 TAAAGAAATA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAATAATAATATAA
Found at i:14080698 original size:4 final size:4
Alignment explanation
Indices: 14080682--14080789 Score: 59
Period size: 4 Copynumber: 28.0 Consensus size: 4
14080672 TAGTATTACA
** *
14080682 TAAT TAAT T--T TAAT TAAT TATGAT TAAT TTTT TTAT TAAT TAAT TAA-
1 TAAT TAAT TAAT TAAT TAAT TA--AT TAAT TAAT TAAT TAAT TAAT TAAT
* * * * * *
14080729 TAAT TAA- TAA- TAA- GAAG AAAT GAAT GAAT GAAAT TAA- TAAT TAAT
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT -TAAT TAAT TAAT TAAT
14080774 TAAT TAAT TAAT TAAT
1 TAAT TAAT TAAT TAAT
14080790 ATTAACCAAG
Statistics
Matches: 86, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
2 2 0.02
3 14 0.16
4 63 0.73
5 3 0.03
6 4 0.05
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (4 bp):
TAAT
Found at i:14095960 original size:22 final size:22
Alignment explanation
Indices: 14095935--14095980 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
14095925 GATTACTTCA
14095935 TACATCTTCATATGCCTCATGT
1 TACATCTTCATATGCCTCATGT
*
14095957 TACATTTTCATATGCCTCATGT
1 TACATCTTCATATGCCTCATGT
14095979 TA
1 TA
14095981 TATGCAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.43
Consensus pattern (22 bp):
TACATCTTCATATGCCTCATGT
Found at i:14105634 original size:23 final size:23
Alignment explanation
Indices: 14105584--14105652 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
14105574 CCCACAAGTT
*
14105584 GGCCCATTTAGAGACCC-TAACAAA
1 GGCCCATTTAAAG-CCCATAA-AAA
14105608 -GCCCATTTAAAGCCCATAAAAA
1 GGCCCATTTAAAGCCCATAAAAA
* *
14105630 GGCCCCTTTAAGAGCTCATAAAA
1 GGCCCATTTAA-AGCCCATAAAA
14105653 TGCATTGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 6 0.15
23 23 0.59
24 10 0.26
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (23 bp):
GGCCCATTTAAAGCCCATAAAAA
Found at i:14106239 original size:24 final size:24
Alignment explanation
Indices: 14106194--14106239 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
14106184 AGTTTGAATT
*
14106194 TTCATAAAACTTTCTTGATTTTAA
1 TTCATAAAACTTTCATGATTTTAA
*
14106218 TTCATAATA-TTTCATGAGTTTT
1 TTCATAAAACTTTCATGA-TTTT
14106240 GGTGCATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (24 bp):
TTCATAAAACTTTCATGATTTTAA
Found at i:14106240 original size:143 final size:146
Alignment explanation
Indices: 14105990--14106395 Score: 361
Period size: 151 Copynumber: 2.8 Consensus size: 146
14105980 TGAAAAATAC
* * * * * *
14105990 AAAATTACCAAAATACCCTTTAAAGGTGTTTTGATAATTT-GCTCTT-TCCAAGCTT-AGATTTT
1 AAAATTACCAAAATACTC-TTAAGGGTATTTTCATAATTTGGC-CTTCT-TAAGTTTGA-ATTTT
* * * * *
14106052 TATGAAACTTT-TTAGATCTTAATTTCATAATATTTTATAATTTTTGGTGCATTTGAA-AT-CAC
62 CATAAAACTTTCTT-GATTTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAATATACAC
14106114 -AGCAG-ACCCCAAAAAGTGT
126 AAGCAGTACCCCAAAAAGTGT
* *
14106133 AAAATTACCAAAATA-TACATATAAGGGTATTTTCTTAATTTGGCCTTCTTGAGTTTGAATTTTC
1 AAAATTACCAAAATACT-C-T-TAAGGGTATTTTCATAATTTGGCCTTCTTAAGTTTGAATTTTC
*
14106197 ATAAAACTTTCTTGATTTTAA-TTCATAATATTTCATGAGTTTTGGTGCATTTGAATATACACAT
63 ATAAAACTTTCTTGATTTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAATATACAC--
* *
14106261 ATAAGCAGTACCCTAAAAGGTGT
126 --AAGCAGTACCCCAAAAAGTGT
* ** * *
14106284 GAAATTATGAAAATACCTCTTAGGGGTATTTTCATAATTTGGCCTTCTTAAGTTTGGATTTTCAT
1 AAAATTACCAAAATA-CTCTTAAGGGTATTTTCATAATTTGGCCTTCTTAAGTTTGAATTTTCAT
* * *
14106349 GAAAA-TTGTC-AG-TTCTAAATTTTATAATATTTCATGATTTTTGGTGC
65 -AAAACTT-TCTTGATT-TTAATTTCATAATATTTCATGATTTTTGGTGC
14106396 TTGAAAATCC
Statistics
Matches: 215, Mismatches: 28, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
143 48 0.22
144 46 0.21
145 9 0.04
149 2 0.01
150 52 0.24
151 56 0.26
152 1 0.00
153 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (146 bp):
AAAATTACCAAAATACTCTTAAGGGTATTTTCATAATTTGGCCTTCTTAAGTTTGAATTTTCATA
AAACTTTCTTGATTTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAATATACACAAGCA
GTACCCCAAAAAGTGT
Found at i:14106963 original size:16 final size:17
Alignment explanation
Indices: 14106942--14106974 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14106932 CTTTTATTGT
*
14106942 TTGATG-TTTTCATAAG
1 TTGATGATTTGCATAAG
14106958 TTGATGATTTGCATAAG
1 TTGATGATTTGCATAAG
14106975 CCCTAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.45
Consensus pattern (17 bp):
TTGATGATTTGCATAAG
Found at i:14108514 original size:18 final size:18
Alignment explanation
Indices: 14108487--14108521 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14108477 TTGAGAAGTC
*
14108487 TTTTAGATAAAATTATGT
1 TTTTAAATAAAATTATGT
*
14108505 TTTTAAATAAATTTATG
1 TTTTAAATAAAATTATG
14108522 GATAACAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTTAAATAAAATTATGT
Found at i:14113564 original size:130 final size:130
Alignment explanation
Indices: 14113025--14113589 Score: 660
Period size: 130 Copynumber: 4.4 Consensus size: 130
14113015 TGAAGGTATA
* * *
14113025 AGGC-AAAAGTGAATGAAGCTTCAGAAAAATAGAATTCAAGAAAGTTGATTATTCAAGATGAAGT
1 AGGCAAAAAGTGAATGAAGCTTCAGGAAAATAGAATTCAAGAAAGTTGATTGTTAAAGATGAAGT
* * *** * * * *
14113089 CAAATATTTCAAAAAAA-AAAAAACAACAAAGAAAGAAAGACATGCACCTCAAAGATGAAAGTCT
66 CAAATGTTCCAAAAAAAGAGGGAA-AGCAAGGAAAGAAAGAAATGCACCTCAAAAATGAAAGTCT
14113153 G
130 G
* * * * * *
14113154 AAGAAAAAAATGAATAAAGTTTCAGGAAAATATAATTCAAGAAAGTTGATTGTTAAAGATGAAGT
1 AGGCAAAAAGTGAATGAAGCTTCAGGAAAATAGAATTCAAGAAAGTTGATTGTTAAAGATGAAGT
* * * * * * *
14113219 CGAATGTTCTAAAAAAAGAGAGG-AAGCAA-GAAAGAAAGAAATGTACTTCGAAGAGGAAAGTCT
66 CAAATGTTCCAAAAAAAGAG-GGAAAGCAAGGAAAGAAAGAAATGCACCTCAAAAATGAAAGTCT
14113282 G
130 G
*
14113283 AGGCAAAAAGTGAATGAAGCATCAGGAAAATAGAATTCAAGAAAGTTGATTGTTAAAGATGAAGT
1 AGGCAAAAAGTGAATGAAGCTTCAGGAAAATAGAATTCAAGAAAGTTGATTGTTAAAGATGAAGT
* * *
14113348 CAAACGTTCTAAAAAAGGGAGGGAAAGCAAGGAAAGAAAGAAATGCACCTCAAAAATGAAAGTCT
66 CAAATGTTCCAAAAAA-AGAGGGAAAGCAAGGAAAGAAAGAAATGCACCTCAAAAATGAAAGTCT
14113413 -
130 G
* * * *
14113413 AGGGCAAAAATTGAATGAAGCTTCAGGAAAATGGAATTCAACAAAGTTGATTGTTAAAAATGAAG
1 A-GGCAAAAAGTGAATGAAGCTTCAGGAAAATAGAATTCAAGAAAGTTGATTGTTAAAGATGAAG
* * *
14113478 TCAAATGTTCCAAAAAAATG-GGGAAAGCAAGGAAAGAAAGAAATACACTTCAAAAATGAAA-AC
65 TCAAATGTTCCAAAAAAA-GAGGGAAAGCAAGGAAAGAAAGAAATGCACCTCAAAAATGAAAGTC
14113541 TCG
129 T-G
** *
14113544 AGGCAAAAAGTGAATGAAGCTTCAAAAAAATTA-AATTAAAGAAAGT
1 AGGCAAAAAGTGAATGAAGCTTCAGGAAAA-TAGAATTCAAGAAAGT
14113590 ATAATGCTAA
Statistics
Matches: 371, Mismatches: 54, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
129 108 0.29
130 156 0.42
131 107 0.29
ACGTcount: A:0.51, C:0.09, G:0.21, T:0.19
Consensus pattern (130 bp):
AGGCAAAAAGTGAATGAAGCTTCAGGAAAATAGAATTCAAGAAAGTTGATTGTTAAAGATGAAGT
CAAATGTTCCAAAAAAAGAGGGAAAGCAAGGAAAGAAAGAAATGCACCTCAAAAATGAAAGTCTG
Found at i:14114525 original size:83 final size:83
Alignment explanation
Indices: 14114384--14114619 Score: 321
Period size: 83 Copynumber: 2.8 Consensus size: 83
14114374 CAAGCTTTCA
* * * * * * *
14114384 TTGAAACATGCCTACTAATGAAAAAATTGAATTTTCAATCACCTTATCTATAAGCATTCCAAATA
1 TTGAAATATGCCCACTAGTGAAAAAATTGAATTATCAATCACCTCATCCACAAGCATTCCAAATA
* *
14114449 GTAATCATTGATCATTCC
66 GTAATCATCGAGCATTCC
*
14114467 TTGAAATATGCCCACTAGTGAAAAAATTGAATTATCAATCACCTCATCCACAAACATTCCAAATA
1 TTGAAATATGCCCACTAGTGAAAAAATTGAATTATCAATCACCTCATCCACAAGCATTCCAAATA
* *
14114532 GTAATCATCGAGCCTTTC
66 GTAATCATCGAGCATTCC
* * *
14114550 TTGAAATATGCCCACCAGTGAAAAAATTGAATTATCAATCATGC-CATCCACAAGCATTCTAAAT
1 TTGAAATATGCCCACTAGTGAAAAAATTGAATTATCAATCA-CCTCATCCACAAGCATTCCAAAT
14114614 AGTAAT
65 AGTAAT
14114620 AATCAATTTA
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
83 135 0.99
84 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (83 bp):
TTGAAATATGCCCACTAGTGAAAAAATTGAATTATCAATCACCTCATCCACAAGCATTCCAAATA
GTAATCATCGAGCATTCC
Found at i:14115707 original size:23 final size:22
Alignment explanation
Indices: 14115671--14115714 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14115661 TAGTTGGCAC
*
14115671 AACTAATATTTAAGCCCAAATT
1 AACTAACATTTAAGCCCAAATT
*
14115693 AACTAACACTTTAAGCCTAAAT
1 AACTAACA-TTTAAGCCCAAAT
14115715 CAGCTGGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (22 bp):
AACTAACATTTAAGCCCAAATT
Found at i:14115975 original size:48 final size:48
Alignment explanation
Indices: 14115922--14116038 Score: 146
Period size: 48 Copynumber: 2.4 Consensus size: 48
14115912 GGCAAAACAT
* *
14115922 TTTCACACAAGATCTTAATGTTTCAAAGCCTTTGTTTG-GAAGGAGCCA
1 TTTCACAAAAGATCTTAAAGTTTCAAAGCCTTTGTTTGAG-AGGAGCCA
* *
14115970 TTTCACAAAATATTTTAAAGTTTCAAAGCCTTTGTTTGAGAGGAGCCA
1 TTTCACAAAAGATCTTAAAGTTTCAAAGCCTTTGTTTGAGAGGAGCCA
* * *
14116018 TTTTCAGATAAGATTTTAAAG
1 -TTTCACAAAAGATCTTAAAG
14116039 CCTATGTTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
48 42 0.70
49 18 0.30
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (48 bp):
TTTCACAAAAGATCTTAAAGTTTCAAAGCCTTTGTTTGAGAGGAGCCA
Done.