Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 55 of 325
Found at i:14359078 original size:48 final size:46
Alignment explanation
Indices: 14359026--14359192 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 46
14359016 TATCAGACGC
* * * * *
14359026 CATGTTCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAAGGCCGATG
* *
14359074 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
* * ** *
14359120 CATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-GTGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAAGGCCGATG
* *
14359166 CATGTCCCGGACATGTCTTAGACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
14359193 ACACATATCA
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
46 73 0.72
47 3 0.03
48 25 0.25
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCGATG
Found at i:14360741 original size:20 final size:21
Alignment explanation
Indices: 14360711--14360754 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
14360701 TATATCAAGT
14360711 AATGAAGTTAAAAGTTAAAAA
1 AATGAAGTTAAAAGTTAAAAA
14360732 AATG-AGTTAAAAGTTAAAAA
1 AATGAAGTTAAAAGTTAAAAA
14360752 AAT
1 AAT
14360755 AAATAAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (21 bp):
AATGAAGTTAAAAGTTAAAAA
Found at i:14366456 original size:15 final size:14
Alignment explanation
Indices: 14366406--14366458 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
14366396 GGCATAGATG
* *
14366406 AGTACAAAATATTA
1 AGTAAAAAATAATA
*
14366420 AGTAATAAATAATA
1 AGTAAAAAATAATA
*
14366434 ATTCAAAAAATAATA
1 AGT-AAAAAATAATA
14366449 AGATAAAAAA
1 AG-TAAAAAA
14366459 AATTACATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 13 0.42
15 17 0.55
16 1 0.03
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.25
Consensus pattern (14 bp):
AGTAAAAAATAATA
Found at i:14367899 original size:16 final size:16
Alignment explanation
Indices: 14367880--14367910 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14367870 TTCTAAACAT
*
14367880 TTTATATATTTTTATA
1 TTTATATATTATTATA
14367896 TTTATATATTATTAT
1 TTTATATATTATTAT
14367911 TTCTATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATATATTATTATA
Found at i:14367903 original size:18 final size:19
Alignment explanation
Indices: 14367835--14367918 Score: 52
Period size: 18 Copynumber: 4.6 Consensus size: 19
14367825 ATATTCAATC
*
14367835 TATTTATATATTATATCTA-
1 TATTTATAT-TTATATATAT
*
14367854 T-TTTAT-TTTTTATATAT
1 TATTTATATTTATATATAT
* ** *
14367871 TCTAAACATTT-TATATAT
1 TATTTATATTTATATATAT
14367889 T-TTTATATTTATATATTAT
1 TATTTATATTTATATA-TAT
*
14367908 TATTTCTATTT
1 TATTTATATTT
14367919 TTTTGTATAC
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
16 7 0.14
17 8 0.16
18 19 0.38
19 8 0.16
20 8 0.16
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTATATTTATATATAT
Found at i:14391489 original size:40 final size:41
Alignment explanation
Indices: 14391445--14391523 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
14391435 GCTATATATA
* *
14391445 GCACTTAGTGTGCGA-ATTGAAATAGCTTCGGTTGAATGTG
1 GCACTAAGTGTGCGATACTGAAATAGCTTCGGTTGAATGTG
* * *
14391485 GCACTAAGTGTGCGATACTGAGATAGCTTTGGTTTAATG
1 GCACTAAGTGTGCGATACTGAAATAGCTTCGGTTGAATG
14391524 CGATTGTAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 14 0.42
41 19 0.58
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (41 bp):
GCACTAAGTGTGCGATACTGAAATAGCTTCGGTTGAATGTG
Found at i:14392187 original size:6 final size:6
Alignment explanation
Indices: 14392169--14392256 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
14392159 AAGAAACATT
*
14392169 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
14392218 ATCAAA ATCAGT ATCAG- GTGCCAGA ATCAGA ATAAGA AT
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA AT
14392257 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 3 0.05
6 54 0.82
7 7 0.11
8 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:14392190 original size:18 final size:18
Alignment explanation
Indices: 14392169--14392256 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
14392159 AAGAAACATT
14392169 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
14392187 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* *
14392204 GTGACAGAATCAGAATCAAA
1 AT--CAGAATCAGAATCAGA
* *
14392224 ATCAGTATCAG-GTGCCAGA
1 ATCAGAATCAGAAT--CAGA
*
14392243 ATCAGAATAAGAAT
1 ATCAGAATCAGAAT
14392257 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
17 2 0.04
18 23 0.43
19 27 0.50
20 2 0.04
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:14392216 original size:31 final size:31
Alignment explanation
Indices: 14392178--14392256 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
14392168 TATCAGAACT
14392178 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
14392209 AGAATCAGAATCAAAATCAGTATCAGGTGCC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
*
14392240 AGAATCAGAATAAGAAT
1 AGAATCAGAATCAGAAT
14392257 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:14392701 original size:27 final size:27
Alignment explanation
Indices: 14392671--14392816 Score: 193
Period size: 27 Copynumber: 5.4 Consensus size: 27
14392661 GGGGCAAAAT
* * *
14392671 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
14392698 GGTAATTCTAACCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
14392725 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
14392752 GGTAATTCTACCCTACAAGGGGTATTTC
1 GGTAATTCTACCCTACAA-GGGTATTTC
* *
14392780 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
14392807 AGTATTTCTA
1 GGTAATTCTA
14392817 TAGATAATTC
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 81 0.76
28 25 0.24
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:14392730 original size:54 final size:54
Alignment explanation
Indices: 14392672--14393122 Score: 596
Period size: 54 Copynumber: 8.1 Consensus size: 54
14392662 GGGCAAAATG
* * * * *
14392672 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTAACCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
14392726 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAC-AGGGGTATTTCA
*
14392781 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTATAGATAATTCTACCCTATAGGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC-G----------G-TAATTCTACCCTACAGGGGTATTTC
14392846 A
54 A
* * *
14392847 GTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
14392901 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
** *
14392955 GTAATTCTATTCTACAGGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
** **
14393009 GTAATTCTACCCTACAGGAATATTTCGGTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
14393063 GTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
14393117 GTAATT
1 GTAATT
14393123 TCACAAATTA
Statistics
Matches: 355, Mismatches: 29, Indels: 26
0.87 0.07 0.06
Matches are distributed among these distances:
54 265 0.75
55 38 0.11
56 1 0.00
66 38 0.11
67 13 0.04
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:14392764 original size:81 final size:81
Alignment explanation
Indices: 14392671--14393122 Score: 591
Period size: 81 Copynumber: 5.4 Consensus size: 81
14392661 GGGGCAAAAT
* * * * *
14392671 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTAACCTACAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
14392736 CCTACAAGGGTATTTC
66 CCTACAGGGGTATTTC
*
14392752 GGTAATTCTACCCTACAAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTA
1 GGTAATTCTACCCTACAA-GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC-G--------
*
14392817 TAGATAATTCTACCCTATAGGGGTATTTC
56 --G-TAATTCTACCCTACAGGGGTATTTC
* * * *
14392846 AGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
14392911 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
**
14392927 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATTCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
14392992 CCTACAGGAGTATTTC
66 CCTACAGGGGTATTTC
* * *
14393008 AGTAATTCTACCCTAC-AGGAATATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTA
1 GGTAATTCTACCCTACAAGG-GTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
*
14393072 CCCTACAGGGGTATTTT
65 CCCTACAGGGGTATTTC
*
14393089 GGTAATTCTACCCTACAGGGGTATTTCGGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATT
14393123 TCACAAATTA
Statistics
Matches: 327, Mismatches: 29, Indels: 30
0.85 0.08 0.08
Matches are distributed among these distances:
80 3 0.01
81 212 0.65
82 36 0.11
92 1 0.00
93 37 0.11
94 38 0.12
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:14392848 original size:66 final size:67
Alignment explanation
Indices: 14392754--14392882 Score: 224
Period size: 66 Copynumber: 1.9 Consensus size: 67
14392744 GGTATTTCGG
*
14392754 TAATTCTACCCTACAAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTATA
1 TAATTCTACCCTACAAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTATA
14392819 GA
66 GA
* *
14392821 TAATTCTACCCTA-TAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTA
1 TAATTCTACCCTACAAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTA
14392883 CCCTACAGGG
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
66 46 0.78
67 13 0.22
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (67 bp):
TAATTCTACCCTACAAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTATA
GA
Found at i:14392859 original size:27 final size:27
Alignment explanation
Indices: 14392821--14393122 Score: 487
Period size: 27 Copynumber: 11.2 Consensus size: 27
14392811 TTTCTATAGA
* *
14392821 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
14392848 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
14392875 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
14392902 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
14392929 TAATTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
**
14392956 TAATTCTATTCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
14392983 TAATTCTACCCTACAGGAGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
**
14393010 TAATTCTACCCTACAGGAATATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
14393037 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
14393064 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGG
14393091 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
14393118 TAATT
1 TAATT
14393123 TCACAAATTA
Statistics
Matches: 259, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 259 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:14393135 original size:27 final size:27
Alignment explanation
Indices: 14393105--14393177 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
14393095 TCTACCCTAC
*
14393105 AGGGGTATTTCGGTAATTTCACAAATT
1 AGGGGTATTTTGGTAATTTCACAAATT
*
14393132 AGGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTTGGTAATTTCACAAATT
*
14393159 AGGGGTATTTTAGTAATTT
1 AGGGGTATTTTGGTAATTT
14393178 GGTAAACTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.42
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTCACAAATT
Found at i:14397565 original size:17 final size:17
Alignment explanation
Indices: 14397514--14397566 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
14397504 ATTAATGAAT
*
14397514 CATATCTTTTAAGATTA
1 CATATCTTCTAAGATTA
*
14397531 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
14397550 CATATCTTCGAAGATTA
1 CATATCTTCTAAGATTA
14397567 TGTTTCTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 2 0.07
19 14 0.47
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:14399627 original size:29 final size:29
Alignment explanation
Indices: 14399572--14399628 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
14399562 TTTTCGAGCA
* *
14399572 TAGGGGTAAAATGGTCATTTTGCCAAAGT
1 TAGGGGCAAAATGGTCATTTTACCAAAGT
*
14399601 TAGGGGCAAAATGGTCATTTTATCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
14399629 ATGTAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (29 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:14404709 original size:40 final size:40
Alignment explanation
Indices: 14404607--14404758 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
14404597 AAATTGAATG
* * * * *
14404607 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* *
14404646 GATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 -ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* * *
14404687 ATATCCGGGCTAAGACCCGAAGG-AATTCGTGCCAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGAT
* *
14404727 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
14404759 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 86 0.90
41 6 0.06
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
Found at i:14404773 original size:40 final size:39
Alignment explanation
Indices: 14404605--14404790 Score: 144
Period size: 40 Copynumber: 4.7 Consensus size: 39
14404595 AGAAATTGAA
* * *
14404605 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAA-A
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * *
14404645 TGATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* * **
14404685 CT-ATATCCGGGCTAAGACCCGAAGGAATTCGTGCCAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTG-CAAATG
* *
14404725 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* * *
14404765 TGATATCCGGGTTAAGTCCCGTAGGC
1 TGATATCCGGGCTAAGACCCGAAGGC
14404791 CTTGGTGCGG
Statistics
Matches: 115, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 6 0.05
40 101 0.88
41 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:14410983 original size:46 final size:45
Alignment explanation
Indices: 14410916--14411085 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 45
14410906 TGCGTGAGCT
*
14410916 AGTGTAAGACATGTATGGGACAT-GCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CTCGAGA-GTAAGCC
* * * *
14410962 AGTGTAAGACATGTCTTGGACAT-GTATCGGCTACGAGATTATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCT-CGAGAGTA-AGCC
* ** * *
14411008 AGTGTAAGACCATGTCTGGGATATGGCATCAACTTGAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCTCGAGA-GTAAGCC
* *
14411055 AATGTAAGACTATGTCTGGAACATGGCATCG
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCG
14411086 ACACCTTACC
Statistics
Matches: 100, Mismatches: 18, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
45 4 0.04
46 45 0.45
47 44 0.44
48 7 0.07
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCTCGAGAGTAAGCC
Found at i:14417226 original size:5 final size:5
Alignment explanation
Indices: 14417207--14417239 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
14417197 ATATTTCCCC
*
14417207 TATTT T-TTA TATTT TATTT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATT
14417240 CCCTTCAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:14417701 original size:11 final size:11
Alignment explanation
Indices: 14417682--14417737 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
14417672 TTGCATTTTC
*
14417682 TATTCTATTAG
1 TATTATATTAG
14417693 TATTATATTAG
1 TATTATATTAG
* *
14417704 TATTCTATT-T
1 TATTATATTAG
14417714 TATTAATATTA-
1 TATT-ATATTAG
14417725 TATTAGTATTAG
1 TATTA-TATTAG
14417737 T
1 T
14417738 TAGTGATCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
10 5 0.14
11 31 0.84
12 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (11 bp):
TATTATATTAG
Found at i:14417707 original size:22 final size:22
Alignment explanation
Indices: 14417682--14417737 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
14417672 TTGCATTTTC
14417682 TATTCTATTAGTATT-ATATTA
1 TATTCTATTAGTATTAATATTA
*
14417703 GTATTCTATT-TTATTAATATTA
1 -TATTCTATTAGTATTAATATTA
*
14417725 TATTAGTATTAGT
1 TATT-CTATTAGT
14417738 TAGTGATCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 8 0.29
22 19 0.68
23 1 0.04
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (22 bp):
TATTCTATTAGTATTAATATTA
Found at i:14417709 original size:27 final size:27
Alignment explanation
Indices: 14417679--14417734 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
14417669 CTATTGCATT
*
14417679 TTCTATTCTATTAGTATTATATTAGTA
1 TTCTATTCTATTAATATTATATTAGTA
*
14417706 TTCTATTTTATTAATATTATATTAGTA
1 TTCTATTCTATTAATATTATATTAGTA
14417733 TT
1 TT
14417735 AGTTAGTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (27 bp):
TTCTATTCTATTAATATTATATTAGTA
Found at i:14417712 original size:16 final size:16
Alignment explanation
Indices: 14417687--14417737 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
14417677 TTTTCTATTC
14417687 TATTAGTATTATATTAG
1 TATTA-TATTATATTAG
* * *
14417704 TATTCTATTTTATTAA
1 TATTATATTATATTAG
14417720 TATTATATTAGTATTAG
1 TATTATATTA-TATTAG
14417737 T
1 T
14417738 TAGTGATCCC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (16 bp):
TATTATATTATATTAG
Found at i:14421656 original size:12 final size:12
Alignment explanation
Indices: 14421639--14421672 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14421629 CGGCCCGCCC
14421639 ATATTAATTTTT
1 ATATTAATTTTT
*
14421651 ATATTATTTTTT
1 ATATTAATTTTT
14421663 ATA-TAATTTT
1 ATATTAATTTT
14421673 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:14421841 original size:30 final size:30
Alignment explanation
Indices: 14421797--14421859 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
14421787 ACTTAACAAG
14421797 CAAATGCCTCTAAAAT-CATAACAAAATTAA
1 CAAATGCCTCTAAAATAC-TAACAAAATTAA
* *
14421827 CAAATGTCTTTAAAATACTAACAAAATTAA
1 CAAATGCCTCTAAAATACTAACAAAATTAA
14421857 CAA
1 CAA
14421860 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.54, C:0.17, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATACTAACAAAATTAA
Found at i:14426701 original size:41 final size:41
Alignment explanation
Indices: 14426592--14426703 Score: 188
Period size: 41 Copynumber: 2.7 Consensus size: 41
14426582 TTCGTCATAG
* **
14426592 CTTCGGCTATATATGGCACTTAGTGTGCAAGAATGAGATAA
1 CTTCGGCTACATATGGCACTTAGTGTGTGAGAATGAGATAA
14426633 CTTCGGCTACATATGGCACTTAGTGTGTGAGAATGAGATAA
1 CTTCGGCTACATATGGCACTTAGTGTGTGAGAATGAGATAA
*
14426674 CTTCAGCTACATATGGCACTTAGTGTGTGA
1 CTTCGGCTACATATGGCACTTAGTGTGTGA
14426704 TTTTAAATAG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (41 bp):
CTTCGGCTACATATGGCACTTAGTGTGTGAGAATGAGATAA
Found at i:14428423 original size:24 final size:24
Alignment explanation
Indices: 14428374--14428436 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
14428364 AAATTAGTTT
14428374 TTTATTTAATCTTTA-AAATGAATAA
1 TTTATTT-A-CTTTATAAATGAATAA
*
14428399 TTTATTTACTTTATAATTGAATAA
1 TTTATTTACTTTATAAATGAATAA
14428423 TTTATTTACTTTAT
1 TTTATTTACTTTAT
14428437 TGTATATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 5 0.14
24 24 0.67
25 7 0.19
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.56
Consensus pattern (24 bp):
TTTATTTACTTTATAAATGAATAA
Found at i:14428561 original size:21 final size:21
Alignment explanation
Indices: 14428515--14428570 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
14428505 TATTTAAATG
* *
14428515 TATATTTAAA-TAATATTTTT
1 TATATTTAAATTATTAATTTT
14428535 TATATTTAAATGTATTAATTTT
1 TATATTTAAAT-TATTAATTTT
14428557 T-TATTTAAATTATT
1 TATATTTAAATTATT
14428571 TTACTTTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.44
21 9 0.28
22 9 0.28
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATATTTAAATTATTAATTTT
Found at i:14429615 original size:15 final size:16
Alignment explanation
Indices: 14429588--14429629 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
14429578 AAACATCTAT
14429588 AAATTTATAAAAAAAC
1 AAATTTATAAAAAAAC
*
14429604 AAATTT-TAAAAATAC
1 AAATTTATAAAAAAAC
*
14429619 AAACTTATAAA
1 AAATTTATAAA
14429630 TCTTGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTTATAAAAAAAC
Found at i:14432279 original size:89 final size:91
Alignment explanation
Indices: 14432134--14432310 Score: 254
Period size: 89 Copynumber: 2.0 Consensus size: 91
14432124 TTAAGTCCCC
** * *
14432134 CCCAATCCCAAAAATTAATTTTTTTTAAACCTGGCACAATCATCAAGTGATTATTGGGTCAAAAA
1 CCCAATCCCAAAAATTAATTTTTTTTAAACCTAACACAATCATCAAGTAATAATTGGGTCAAAAA
14432199 TCAAGGTGGTGCCA-GCCATTAAGTCT
66 TCAAGGTGGTG-CAGGCCATTAAGTCT
* *
14432225 CCCAA-CCCAAAAAATT-A-TTTTTTTAAGCCTAACACAATCATCAGGTAATAATTGGGTCAAAA
1 CCCAATCCC-AAAAATTAATTTTTTTTAAACCTAACACAATCATCAAGTAATAATTGGGTCAAAA
14432287 ATCAAGGTGGTGCAGGCCATTAAG
65 ATCAAGGTGGTGCAGGCCATTAAG
14432311 GGTTAGTTTG
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
88 2 0.03
89 60 0.77
90 4 0.05
91 12 0.15
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (91 bp):
CCCAATCCCAAAAATTAATTTTTTTTAAACCTAACACAATCATCAAGTAATAATTGGGTCAAAAA
TCAAGGTGGTGCAGGCCATTAAGTCT
Found at i:14432364 original size:13 final size:13
Alignment explanation
Indices: 14432327--14432375 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
14432317 TTTGGCAATA
14432327 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
14432340 CTATGGAAAAGTG
1 CTTTTGAAAAGTG
* *
14432353 CTTTTGAGAAGTA
1 CTTTTGAAAAGTG
14432366 CTTTTGAAAA
1 CTTTTGAAAA
14432376 ATTTGGTTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:14437937 original size:33 final size:32
Alignment explanation
Indices: 14437884--14437995 Score: 118
Period size: 33 Copynumber: 3.4 Consensus size: 32
14437874 TTGAGCCGAG
* *
14437884 AGGAGTAGAATATGGAGGTGGATATGGGCCGGA
1 AGGAGTAGAGTACGGAGGTGGATA-GGGCCGGA
* *
14437917 AGGAGTAGAGTACGGCGGTGGATACGGCTCTGG-
1 AGGAGTAGAGTACGGAGGTGGATAGGGC-C-GGA
* **
14437950 AGGAGTTGAGTACATAGGTGGATACGGGCCGGA
1 AGGAGTAGAGTACGGAGGTGGATA-GGGCCGGA
14437983 AGGAGTAGAGTAC
1 AGGAGTAGAGTAC
14437996 TGAGATGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
32 5 0.08
33 55 0.85
34 5 0.08
ACGTcount: A:0.28, C:0.11, G:0.44, T:0.18
Consensus pattern (32 bp):
AGGAGTAGAGTACGGAGGTGGATAGGGCCGGA
Found at i:14438027 original size:66 final size:66
Alignment explanation
Indices: 14437898--14438036 Score: 156
Period size: 66 Copynumber: 2.1 Consensus size: 66
14437888 GTAGAATATG
* * * * * * *
14437898 GAGGTGGATATGGGCCGGAAGGAGTAGAGTACGGCGGTGGATACGGCTCTGGAGGAGTTGAGTAC
1 GAGGTGGATACGGGCCGGAAGGAGTAGAGTACGGAGATGAATACGGCTCGGGAGGACTGGAGTAC
14437963 AT
66 -T
* * *
14437965 -AGGTGGATACGGGCCGGAAGGAGTAGAGTACTGAGATGAATATGAGC-CGGGATGACTGGAGTA
1 GAGGTGGATACGGGCCGGAAGGAGTAGAGTACGGAGATGAATACG-GCTCGGGAGGACTGGAGTA
14438028 CT
65 CT
14438030 GAGGTGG
1 GAGGTGG
14438037 TAGTGGGCTG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
65 1 0.02
66 57 0.95
67 2 0.03
ACGTcount: A:0.26, C:0.12, G:0.44, T:0.19
Consensus pattern (66 bp):
GAGGTGGATACGGGCCGGAAGGAGTAGAGTACGGAGATGAATACGGCTCGGGAGGACTGGAGTAC
T
Found at i:14440041 original size:22 final size:22
Alignment explanation
Indices: 14440007--14440070 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
14439997 TCAACATTTT
*
14440007 AATAAATCA-ATAAAAATTATCA
1 AATAAAT-ATATAAAAATTATAA
*
14440029 AATAAATATATAATAA-TATAA
1 AATAAATATATAAAAATTATAA
*
14440050 AATTACATTATATAAAAATTA
1 AA-TA-AATATATAAAAATTA
14440071 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 15 0.44
23 10 0.29
24 2 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAATATATAAAAATTATAA
Found at i:14440067 original size:16 final size:15
Alignment explanation
Indices: 14440044--14440085 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
14440034 ATATATAATA
14440044 ATATAAAATTACATT
1 ATATAAAATTACATT
14440059 ATATAAAAATTACATT
1 ATAT-AAAATTACATT
14440075 A-A-AAAATTACA
1 ATATAAAATTACA
14440086 AAACACTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.35
15 5 0.19
16 12 0.46
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAAAATTACATT
Found at i:14440678 original size:111 final size:111
Alignment explanation
Indices: 14440133--14440906 Score: 1241
Period size: 112 Copynumber: 6.9 Consensus size: 111
14440123 ATACTAACAC
* * * * **
14440133 AAAATAACTATAAAATTATTTTTTTAAATACATTACTAAATAAAAATCACAATACATTAATACAC
1 AAAATAGCTATAAAATTATTTTTTAAAATATATTACT-AA-AAAAATTACAATACGCTAAT----
14440198 ACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAAT
60 ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* *
14440248 AAAATAGCTATAAAAATT-TTTTTT-AAATATATTACTAAAAAAATCACAATACACTAATACACT
1 AAAATAGCTAT-AAAATTATTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT--ACT
* *
14440311 AAACCACTAAACACTAATAATTTACATAACCTAATCTTAAATTACTAAT
63 AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
14440360 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATACTAA
1 AAAATAGCTATAAAATTA-TTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATACTAA
14440425 ACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
65 ACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
*
14440472 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATACTAA
1 AAAATAGCTATAAAATTA-TTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATACTAA
14440537 ACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
65 ACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
14440584 AAAATAGCTATAAAATTATTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATACTAAA
1 AAAATAGCTATAAAATTATTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATACTAAA
14440649 CCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 CCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
14440695 AAAATAGCTATAAAATTATTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATACTAAA
1 AAAATAGCTATAAAATTATTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATACTAAA
*
14440760 CCGCTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 CCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* *
14440806 AAAATAGCTATAAAATTATTTTTTAAAAATATATTACTAAAAAAATCACAATACACTAATACACT
1 AAAATAGCTATAAAATTATTTTTT-AAAATATATTACTAAAAAAATTACAATACGCTAAT--ACT
* *
14440871 AAACTACTAAACACTAACAATTTATATAACCAAATC
63 AAACCACTAAACACTAACAATTTATATAACCTAATC
14440907 AACTATAACT
Statistics
Matches: 633, Mismatches: 17, Indels: 19
0.95 0.03 0.03
Matches are distributed among these distances:
110 24 0.04
111 232 0.37
112 268 0.42
113 8 0.01
114 79 0.12
115 16 0.03
116 6 0.01
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.32
Consensus pattern (111 bp):
AAAATAGCTATAAAATTATTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAATACTAAA
CCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:14440807 original size:334 final size:336
Alignment explanation
Indices: 14440133--14440906 Score: 1283
Period size: 334 Copynumber: 2.3 Consensus size: 336
14440123 ATACTAACAC
* * *
14440133 AAAATAACTATAAAATTATTTTTTT-AAATACATTACTAAATAAAAATCACAATACATTAATACA
1 AAAATAGCTATAAAATTATTTTTTTAAAATATATTACT-AA-AAAAATCACAATACACTAAT--A
14440197 CACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAATTACTAATAAAATAGCTATA
62 -ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATA
14440260 AAAATTTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACAC
126 AAAATTTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATA-ACTAAACCACTAAACAC
*
14440325 TAATAATTTACATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTAAAAT
190 TAACAATTTACATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTAAAAT
14440390 ATATTACTAAAAAAATTACAATACGCTAATACTAAACCACTAAACACTAACAATTTATATAACCT
255 ATATTACTAAAAAAATTACAATACGCTAATACTAAACCACTAAACACTAACAATTTATATAACCT
14440455 AATCTTAAATTACTAAT
320 AATCTTAAATTACTAAT
* * *
14440472 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT-ACTA
1 AAAATAGCTATAAAATTATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATAACTA
14440536 AACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTAT-AAAAT
66 AACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAAT
* *
14440600 TATTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT-ACTAAACCACTAAACACTAAC
131 T-TTTTTT-AAATATATTACTAAAAAAATCACAATACACTAATAACTAAACCACTAAACACTAAC
* *
14440664 AATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAATTA-TTTTTTAAAATATAT
194 AATTTACATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTAAAATATAT
*
14440728 TACTAAAAAAATTACAATACGCTAATACTAAACCGCTAAACACTAACAATTTATATAACCTAATC
259 TACTAAAAAAATTACAATACGCTAATACTAAACCACTAAACACTAACAATTTATATAACCTAATC
14440793 TTAAATTACTAAT
324 TTAAATTACTAAT
*
14440806 AAAATAGCTATAAAATTATTTTTTAAAAATATATTACTAAAAAAATCACAATACACTAATACACT
1 AAAATAGCTATAAAATTATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATA-ACT
* *
14440871 AAACTACTAAACACTAACAATTTATATAACCAAATC
65 AAACCACTAAACACTAACAATTTATATAACCTAATC
14440907 AACTATAACT
Statistics
Matches: 410, Mismatches: 18, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
334 171 0.42
335 73 0.18
336 81 0.20
337 32 0.08
338 17 0.04
339 25 0.06
340 11 0.03
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.32
Consensus pattern (336 bp):
AAAATAGCTATAAAATTATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATAACTA
AACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAAT
TTTTTTTAAATATATTACTAAAAAAATCACAATACACTAATAACTAAACCACTAAACACTAACAA
TTTACATAACCTAATCTTAAATTACTAATAAAATAGCTATAAAAATATTTTTTTAAAATATATTA
CTAAAAAAATTACAATACGCTAATACTAAACCACTAAACACTAACAATTTATATAACCTAATCTT
AAATTACTAAT
Found at i:14441182 original size:3 final size:3
Alignment explanation
Indices: 14441176--14441236 Score: 59
Period size: 3 Copynumber: 19.3 Consensus size: 3
14441166 ACCTTTTTTT
* **
14441176 TTC TTC TTCC TTC TTC TTC TTTC TTC TTC TTC TCC TTC ACC TTCC TTC
1 TTC TTC TT-C TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TT-C TTC
*
14441224 TTC TTC TCC TTC T
1 TTC TTC TTC TTC T
14441237 CCTTTCTCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
3 38 0.81
4 9 0.19
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (3 bp):
TTC
Found at i:14441191 original size:10 final size:10
Alignment explanation
Indices: 14441176--14441229 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
14441166 ACCTTTTTTT
14441176 TTCTTCTTCC
1 TTCTTCTTCC
14441186 TTCTTCTT-C
1 TTCTTCTTCC
14441195 -T-TTCTT-C
1 TTCTTCTTCC
14441202 TTCTTC-TCC
1 TTCTTCTTCC
**
14441211 TTCACCTTCC
1 TTCTTCTTCC
14441221 TTCTTCTTC
1 TTCTTCTTC
14441230 TCCTTCTCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
7 6 0.17
8 3 0.08
9 9 0.25
10 18 0.50
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:14441252 original size:22 final size:22
Alignment explanation
Indices: 14441176--14441243 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
14441166 ACCTTTTTTT
* *
14441176 TTCTTCTTCCTTCTTCTTCTTTC
1 TTCTTCTT-CTCCTTCTCCTTTC
* *
14441199 TTCTTCTTCTCCTTCACCTTCC
1 TTCTTCTTCTCCTTCTCCTTTC
14441221 TTCTTCTTCTCCTTCTCCTTTC
1 TTCTTCTTCTCCTTCTCCTTTC
14441243 T
1 T
14441244 CTCCTTTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
22 31 0.79
23 8 0.21
ACGTcount: A:0.01, C:0.40, G:0.00, T:0.59
Consensus pattern (22 bp):
TTCTTCTTCTCCTTCTCCTTTC
Found at i:14448320 original size:19 final size:20
Alignment explanation
Indices: 14448284--14448321 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14448274 ATGATATTTA
*
14448284 TTAAAAAATTAAAGTATTAT
1 TTAAAAAAATAAAGTATTAT
14448304 TTAAAAAAATAAA-TATTA
1 TTAAAAAAATAAAGTATTA
14448322 AATAAATGCA
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:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
TTAAAAAAATAAAGTATTAT
Found at i:14448327 original size:19 final size:20
Alignment explanation
Indices: 14448285--14448327 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
14448275 TGATATTTAT
* **
14448285 TAAAAAATTAAAGTATTATT
1 TAAAAAAATAAAGTATTAAA
14448305 TAAAAAAATAAA-TATTAAA
1 TAAAAAAATAAAGTATTAAA
14448324 TAAA
1 TAAA
14448328 TGCATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAAAATAAAGTATTAAA
Found at i:14449971 original size:38 final size:37
Alignment explanation
Indices: 14449929--14450001 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
14449919 TTAGATTAAA
* *
14449929 TTTAATATTAAATCTCATTAAAAT-AATAAGATAATCAC
1 TTTAACATTAAAT-T-AATAAAATAAATAAGATAATCAC
14449967 TTTAACATTAAATTAATAAAATACAATAAGATAAT
1 TTTAACATTAAATTAATAAAATA-AATAAGATAAT
14450002 TATTAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 1 0.03
38 23 0.74
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (37 bp):
TTTAACATTAAATTAATAAAATAAATAAGATAATCAC
Found at i:14460992 original size:26 final size:26
Alignment explanation
Indices: 14460956--14461007 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
14460946 CATATCTGAG
14460956 ATTGTGAGATTAAAAGGGCTACCGTT
1 ATTGTGAGATTAAAAGGGCTACCGTT
* *
14460982 ATTGTGAGATTACAAGGGGTACCGTT
1 ATTGTGAGATTAAAAGGGCTACCGTT
14461008 GTCGATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (26 bp):
ATTGTGAGATTAAAAGGGCTACCGTT
Found at i:14466101 original size:13 final size:13
Alignment explanation
Indices: 14466080--14466109 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14466070 TCTAAATTCG
*
14466080 TTGATTGAAAATC
1 TTGAGTGAAAATC
14466093 TTGAGTGAAAATC
1 TTGAGTGAAAATC
14466106 TTGA
1 TTGA
14466110 TTCAAGAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (13 bp):
TTGAGTGAAAATC
Found at i:14469075 original size:10 final size:10
Alignment explanation
Indices: 14469060--14469092 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
14469050 AAGAATTAAT
14469060 TTTGAAATAA
1 TTTGAAATAA
14469070 TTTG-AATAA
1 TTTGAAATAA
14469079 TTT-AAATAA
1 TTTGAAATAA
14469088 TTTGA
1 TTTGA
14469093 GAAAGTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (10 bp):
TTTGAAATAA
Found at i:14473333 original size:31 final size:32
Alignment explanation
Indices: 14473292--14473354 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
14473282 TTATTTATAA
*
14473292 AAGATATTTAT-TAATTAAATAT-TTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
14473323 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
14473355 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:14473442 original size:2 final size:2
Alignment explanation
Indices: 14473431--14473464 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14473421 TTAAGTTAAC
14473431 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14473465 AAGTGAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14475183 original size:53 final size:51
Alignment explanation
Indices: 14475125--14475242 Score: 138
Period size: 47 Copynumber: 2.4 Consensus size: 51
14475115 TATTGTTACC
14475125 GTTACTGTTACTATTTCGAATTTGTTCCGATGAGGTACTCTATGTACCGTACT
1 GTTACTGTTACTATTTCG-ATTTGTTCCGATGAGGTACTCTATGTACCGTA-T
* *
14475178 GTTACTGTT-CCA----GATTTGTTCCGATGAGGTACTCTGTGTACCGTAT
1 GTTACTGTTACTATTTCGATTTGTTCCGATGAGGTACTCTATGTACCGTAT
* *
14475224 TTCTACTGTTACTGTTTCG
1 GT-TACTGTTACTATTTCG
14475243 GTGTGACAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
46 2 0.04
47 38 0.70
48 2 0.04
52 3 0.06
53 9 0.17
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.42
Consensus pattern (51 bp):
GTTACTGTTACTATTTCGATTTGTTCCGATGAGGTACTCTATGTACCGTAT
Found at i:14475233 original size:47 final size:47
Alignment explanation
Indices: 14475121--14475222 Score: 152
Period size: 47 Copynumber: 2.1 Consensus size: 47
14475111 CTGTTATTGT
* *
14475121 TACCGTTACTGTTACTATTTC-GAATTTGTTCCGATGAGGTACTCTATG
1 TACCG-TACTGTTACTGTTCCAG-ATTTGTTCCGATGAGGTACTCTATG
*
14475169 TACCGTACTGTTACTGTTCCAGATTTGTTCCGATGAGGTACTCTGTG
1 TACCGTACTGTTACTGTTCCAGATTTGTTCCGATGAGGTACTCTATG
14475216 TACCGTA
1 TACCGTA
14475223 TTTCTACTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (47 bp):
TACCGTACTGTTACTGTTCCAGATTTGTTCCGATGAGGTACTCTATG
Found at i:14476613 original size:41 final size:41
Alignment explanation
Indices: 14476568--14476685 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
14476558 TGAAAGATAA
14476568 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
14476609 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
14476639 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
14476680 ATGTAG
1 ATGTAG
14476686 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:14476624 original size:71 final size:71
Alignment explanation
Indices: 14476536--14476699 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
14476526 GAGATGTATC
14476536 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
14476601 AGGACA
66 AGGACA
14476607 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
14476672 AGGACA
66 AGGACA
14476678 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
14476700 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:14484179 original size:41 final size:41
Alignment explanation
Indices: 14484134--14484251 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
14484124 TGAAAGATAA
14484134 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
14484175 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
14484205 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
14484246 ATGTAG
1 ATGTAG
14484252 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:14484190 original size:71 final size:71
Alignment explanation
Indices: 14484102--14484265 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
14484092 GAGATGTATC
14484102 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
14484167 AGGACA
66 AGGACA
14484173 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
14484238 AGGACA
66 AGGACA
14484244 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
14484266 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:14485753 original size:36 final size:36
Alignment explanation
Indices: 14485690--14485778 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
14485680 GAGAAAGATC
* ** **
14485690 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
1 GACTATTACTGAATAA-TCGATTGTTACCAAATAACT
*
14485727 GACTATTATTGAATAATCGATTGTTACCAAATAACT
1 GACTATTACTGAATAATCGATTGTTACCAAATAACT
*
14485763 GACTGTTACTGAATAA
1 GACTATTACTGAATAA
14485779 ATAATCGTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 30 0.68
37 14 0.32
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (36 bp):
GACTATTACTGAATAATCGATTGTTACCAAATAACT
Found at i:14485777 original size:18 final size:18
Alignment explanation
Indices: 14485690--14485778 Score: 81
Period size: 18 Copynumber: 4.9 Consensus size: 18
14485680 GAGAAAGATC
*
14485690 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-CT
* *
14485709 AATTGTTACTGAATAACT
1 GACTGTTACTGAATAACT
* *
14485727 GACTATTATTGAATAA-T
1 GACTGTTACTGAATAACT
* **
14485744 CGATTGTTACCAAATAACT
1 -GACTGTTACTGAATAACT
14485763 GACTGTTACTGAATAA
1 GACTGTTACTGAATAA
14485779 ATAATCGTTC
Statistics
Matches: 53, Mismatches: 15, Indels: 5
0.73 0.21 0.07
Matches are distributed among these distances:
17 1 0.02
18 37 0.70
19 15 0.28
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (18 bp):
GACTGTTACTGAATAACT
Found at i:14493738 original size:47 final size:47
Alignment explanation
Indices: 14493674--14493784 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
14493664 GACATTGAGT
*
14493674 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
14493721 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
14493768 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
14493785 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:14500976 original size:47 final size:47
Alignment explanation
Indices: 14500912--14501022 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
14500902 GACATTGAGT
*
14500912 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
14500959 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
14501006 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
14501023 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:14509842 original size:92 final size:93
Alignment explanation
Indices: 14509730--14509900 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
14509720 GCCCATAAGT
* *
14509730 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14509795 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
14509823 GAACT-GGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
14509887 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
14509901 CAAACATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 69 0.93
93 5 0.07
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:14509896 original size:46 final size:46
Alignment explanation
Indices: 14509722--14509896 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
14509712 TGTAACCCGC
* *
14509722 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
14509768 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
14509814 ACATCTCTCGAACT-GGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
14509860 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
14509897 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 5 0.05
46 90 0.83
47 5 0.05
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:14509915 original size:46 final size:46
Alignment explanation
Indices: 14509727--14509915 Score: 142
Period size: 46 Copynumber: 4.1 Consensus size: 46
14509717 CCCGCCCATA
** *
14509727 AGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAT-ACATCC-T
*
14509772 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA--TACATC-CT
* * * * * *
14509822 --CGAACT-GGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCATACATCCT
* *
14509865 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCT
14509911 AGTGA
1 AGTGA
14509916 CATGTCACTT
Statistics
Matches: 114, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
44 8 0.07
45 5 0.04
46 83 0.73
47 5 0.04
48 5 0.04
49 1 0.01
50 5 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCT
Found at i:14512329 original size:30 final size:30
Alignment explanation
Indices: 14512285--14512373 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
14512275 CAAAGATAAC
14512285 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
14512314 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
14512344 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
14512374 TGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:14512333 original size:15 final size:15
Alignment explanation
Indices: 14512285--14512364 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
14512275 CAAAGATAAC
*
14512285 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
14512299 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
14512314 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
14512329 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
14512344 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
14512359 AAGAAA
1 AAGAAA
14512365 CCCAAGATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:14512373 original size:15 final size:15
Alignment explanation
Indices: 14512296--14512373 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
14512286 AGAAAACCGA
14512296 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
14512311 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
14512325 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
14512340 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
14512356 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
14512371 ATA
1 ATA
14512374 TGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:14515412 original size:93 final size:93
Alignment explanation
Indices: 14515300--14515471 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
14515290 GCCCATAAGT
* *
14515300 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14515365 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
14515393 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
14515458 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
14515472 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:14515467 original size:46 final size:46
Alignment explanation
Indices: 14515292--14515467 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
14515282 TGTAACCCGC
* *
14515292 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
14515338 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
14515384 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
14515431 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
14515468 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:14518852 original size:47 final size:48
Alignment explanation
Indices: 14518799--14518900 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 48
14518789 TGGGGTGGGA
* ** *
14518799 TTTATCTGA-GATTTTGGTGGCTTGTCCATGATTTTGATTATTGGTAG
1 TTTATCTGACAATTTTGGTGGCTTGTCCACAATTTTGATTATTGGCAG
14518846 TTTATCT-ACAATTTTGGTGGCTTGTCCACAATTTTGATTATTGGCAG
1 TTTATCTGACAATTTTGGTGGCTTGTCCACAATTTTGATTATTGGCAG
14518893 TTTATCTG
1 TTTATCTG
14518901 TATTACTGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
46 1 0.02
47 48 0.98
ACGTcount: A:0.19, C:0.12, G:0.22, T:0.48
Consensus pattern (48 bp):
TTTATCTGACAATTTTGGTGGCTTGTCCACAATTTTGATTATTGGCAG
Found at i:14520700 original size:17 final size:16
Alignment explanation
Indices: 14520664--14520704 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
14520654 TTTTTAAGTC
*
14520664 ATTTGTTTATTTTCTT
1 ATTTATTTATTTTCTT
14520680 ATTTATTTATTTTCATT
1 ATTTATTTATTTTC-TT
14520697 ATTTATTT
1 ATTTATTT
14520705 TTATCTCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (16 bp):
ATTTATTTATTTTCTT
Found at i:14520717 original size:19 final size:17
Alignment explanation
Indices: 14520677--14520724 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
14520667 TGTTTATTTT
14520677 CTTATTTATTTATTTTCA
1 CTTATTTATTT-TTTTCA
14520695 -TTATTTATTTTTATCTCA
1 CTTATTTATTTTT-T-TCA
*
14520713 CTTATCTATTTT
1 CTTATTTATTTT
14520725 ATGGTTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 11 0.42
18 3 0.12
19 10 0.38
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (17 bp):
CTTATTTATTTTTTTCA
Found at i:14521092 original size:20 final size:20
Alignment explanation
Indices: 14521069--14521108 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14521059 GGATATGATA
14521069 TTTATTT-TATGTTTACTTTT
1 TTTATTTCTATGTTTA-TTTT
*
14521089 TTTATTTCTATTTTTATTTT
1 TTTATTTCTATGTTTATTTT
14521109 CTTTTCAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTATTTCTATGTTTATTTT
Found at i:14522273 original size:14 final size:14
Alignment explanation
Indices: 14522254--14522283 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14522244 GTCCATGAAG
14522254 ACATTAAGCAAATA
1 ACATTAAGCAAATA
14522268 ACATTAAGCAAATA
1 ACATTAAGCAAATA
14522282 AC
1 AC
14522284 TAAAACAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.17, G:0.07, T:0.20
Consensus pattern (14 bp):
ACATTAAGCAAATA
Found at i:14525065 original size:16 final size:16
Alignment explanation
Indices: 14525044--14525074 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14525034 GCAACAACTC
*
14525044 TTGTTTAGAATAATTG
1 TTGTTTAGAACAATTG
14525060 TTGTTTAGAACAATT
1 TTGTTTAGAACAATT
14525075 ATGTTCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.48
Consensus pattern (16 bp):
TTGTTTAGAACAATTG
Found at i:14532609 original size:17 final size:18
Alignment explanation
Indices: 14532584--14532617 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14532574 TTAAATTTCT
14532584 ATTTCTTATTTATTTATG
1 ATTTCTTATTTATTTATG
*
14532602 ATTT-TTATTTTTTTAT
1 ATTTCTTATTTATTTAT
14532618 TCTCAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
ATTTCTTATTTATTTATG
Found at i:14540295 original size:26 final size:26
Alignment explanation
Indices: 14540264--14540371 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
14540254 TGAAATGCCC
14540264 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
14540290 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
14540316 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
14540342 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
14540368 ATCA
1 ATCA
14540372 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
25 4 0.05
26 68 0.91
27 3 0.04
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:14546847 original size:26 final size:26
Alignment explanation
Indices: 14546816--14546923 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
14546806 TGAAATGCCC
*
14546816 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
14546842 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14546868 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
14546894 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14546920 ATCA
1 ATCA
14546924 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14551829 original size:9 final size:9
Alignment explanation
Indices: 14551815--14551848 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
14551805 TCCATTTCCC
14551815 TTTTCTTTT
1 TTTTCTTTT
14551824 TTTTCTTTT
1 TTTTCTTTT
14551833 TTTT-TTTT
1 TTTTCTTTT
*
14551841 TCTTCTTT
1 TTTTCTTT
14551849 GTATTGCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:14551837 original size:14 final size:14
Alignment explanation
Indices: 14551814--14551844 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14551804 TTCCATTTCC
14551814 CTTTTCTTTTTTTT
1 CTTTTCTTTTTTTT
*
14551828 CTTTTTTTTTTTTT
1 CTTTTCTTTTTTTT
14551842 CTT
1 CTT
14551845 CTTTGTATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
CTTTTCTTTTTTTT
Found at i:14551840 original size:17 final size:17
Alignment explanation
Indices: 14551815--14551848 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14551805 TCCATTTCCC
*
14551815 TTTTCTTTTTTTTCTTT
1 TTTTCTTTTTCTTCTTT
*
14551832 TTTTTTTTTTCTTCTTT
1 TTTTCTTTTTCTTCTTT
14551849 GTATTGCGTT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTCTTTTTCTTCTTT
Found at i:14555497 original size:18 final size:18
Alignment explanation
Indices: 14555476--14555526 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
14555466 TTTTTTTTAG
14555476 TTTAAATTTTAATTTTTT
1 TTTAAATTTTAATTTTTT
* * *
14555494 TTTAAATTTTTATCTGTT
1 TTTAAATTTTAATTTTTT
*
14555512 TTT-AATTTAAATTTT
1 TTTAAATTTTAATTTT
14555527 AATAATTTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTAAATTTTAATTTTTT
Found at i:14555545 original size:30 final size:30
Alignment explanation
Indices: 14555493--14555559 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
14555483 TTTAATTTTT
* * *
14555493 TTTTAAATTTTTATCTGTTTTTAATTTAAA
1 TTTTAAAATTTTATATGTTTTTAATTAAAA
14555523 TTTTAATAATTTTATATG-TTTTAATTAAAA
1 TTTTAA-AATTTTATATGTTTTTAATTAAAA
*
14555553 TTATAAA
1 TTTTAAA
14555560 TATAAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 22 0.69
31 9 0.28
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTTAAAATTTTATATGTTTTTAATTAAAA
Found at i:14555569 original size:37 final size:37
Alignment explanation
Indices: 14555527--14555615 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 37
14555517 TTTAAATTTT
14555527 AATAATTTTATATGTTTTAAT-TAAAATTATAAATATA
1 AATAATTTTATATGTTTTAATATAAAATTATAAAT-TA
* *
14555564 AATAATTTAATATATTTTTTAATACTAACATTATAAATTA
1 AATAATTT--TATATGTTTTAATA-TAAAATTATAAATTA
* *
14555604 TATAATATTATA
1 AATAATTTTATA
14555616 AATATTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
37 8 0.18
38 4 0.09
39 12 0.27
40 8 0.18
41 12 0.27
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (37 bp):
AATAATTTTATATGTTTTAATATAAAATTATAAATTA
Found at i:14555789 original size:27 final size:29
Alignment explanation
Indices: 14555732--14555787 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
14555722 ATATAAAAAT
* *
14555732 TAAGTATTGAATTTTTATTATTAAATTTTA
1 TAAGTATTGAATTTATATTATGAAA-TTTA
*
14555762 TAAGTGTTGAATTTATATTA-GAAATT
1 TAAGTATTGAATTTATATTATGAAATT
14555788 ATTTAGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 3 0.13
30 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.52
Consensus pattern (29 bp):
TAAGTATTGAATTTATATTATGAAATTTA
Found at i:14564700 original size:45 final size:45
Alignment explanation
Indices: 14564649--14564736 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
14564639 AGGTAAAAGT
*
14564649 AATTATGTGCATTTAATGTAGGTATTATGGTAGGATTGTTTGTAG
1 AATTATGTGCATTTAATGTAGGTATTACGGTAGGATTGTTTGTAG
14564694 AATTATGTGCATTTAATGTAGGTATTACGGTAGGATTGTTTGT
1 AATTATGTGCATTTAATGTAGGTATTACGGTAGGATTGTTTGT
14564737 TTAATTCAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (45 bp):
AATTATGTGCATTTAATGTAGGTATTACGGTAGGATTGTTTGTAG
Found at i:14564758 original size:9 final size:9
Alignment explanation
Indices: 14564746--14564778 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
14564736 TTTAATTCAG
14564746 TTAATTTGA
1 TTAATTTGA
14564755 TTAATTTGA
1 TTAATTTGA
14564764 TTAATTTGA
1 TTAATTTGA
14564773 TTAATT
1 TTAATT
14564779 CAGTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (9 bp):
TTAATTTGA
Found at i:14564758 original size:18 final size:18
Alignment explanation
Indices: 14564732--14564788 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
14564722 GGTAGGATTG
*
14564732 TTTGTTTAATTCAGTTAA
1 TTTGATTAATTCAGTTAA
*
14564750 TTTGATTAATT-TGATTAA
1 TTTGATTAATTCAG-TTAA
14564768 TTTGATTAATTCAGTTAA
1 TTTGATTAATTCAGTTAA
14564786 TTT
1 TTT
14564789 TTTATATGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.03
18 32 0.94
19 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.56
Consensus pattern (18 bp):
TTTGATTAATTCAGTTAA
Found at i:14565482 original size:34 final size:34
Alignment explanation
Indices: 14565444--14565511 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
14565434 CCTGAGAAGG
*
14565444 AAAGATAACTAAGTAAGTTCAAAGAGCTTAGTGA
1 AAAGATAACTAAGTAAGTTCAAAGAACTTAGTGA
14565478 AAAGATAACTAAGTAAGTTCAAAGAACTTAGTGA
1 AAAGATAACTAAGTAAGTTCAAAGAACTTAGTGA
14565512 GTTCCAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.24
Consensus pattern (34 bp):
AAAGATAACTAAGTAAGTTCAAAGAACTTAGTGA
Found at i:14569867 original size:30 final size:30
Alignment explanation
Indices: 14569806--14569864 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14569796 TTTAATTCGT
*
14569806 TTTTAAAAGTTTATCTGTTTTTAACTTAAA
1 TTTTAAAAGTTTATATGTTTTTAACTTAAA
*
14569836 TTTTAATAATTTTATATG-TTTTAA-TTAAA
1 TTTTAA-AAGTTTATATGTTTTTAACTTAAA
14569865 ATTCTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 5 0.19
30 12 0.46
31 9 0.35
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (30 bp):
TTTTAAAAGTTTATATGTTTTTAACTTAAA
Found at i:14569975 original size:5 final size:5
Alignment explanation
Indices: 14569965--14569991 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14569955 TAGCCTAAAA
14569965 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
14569992 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:14570987 original size:24 final size:24
Alignment explanation
Indices: 14570960--14571009 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
14570950 TACGAAATAA
14570960 TTTTGTGTTTCA-GTTTGAAGGTTT
1 TTTTGTGTTTCAGGTTT-AAGGTTT
* * *
14570984 TTTTTTTTTTTAGGTTTAAGGTTT
1 TTTTGTGTTTCAGGTTTAAGGTTT
14571008 TT
1 TT
14571010 CTTTATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.12, C:0.02, G:0.20, T:0.66
Consensus pattern (24 bp):
TTTTGTGTTTCAGGTTTAAGGTTT
Found at i:14571018 original size:24 final size:25
Alignment explanation
Indices: 14570972--14571018 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
14570962 TTGTGTTTCA
* *
14570972 GTTTGAAGGTTTTTTTTTTTTTTAG
1 GTTTGAAGGTTTTTCTTTATTTTAG
14570997 GTTT-AAGGTTTTTCTTTATTTT
1 GTTTGAAGGTTTTTCTTTATTTT
14571019 GATTCTCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.13, C:0.02, G:0.17, T:0.68
Consensus pattern (25 bp):
GTTTGAAGGTTTTTCTTTATTTTAG
Found at i:14574687 original size:2 final size:2
Alignment explanation
Indices: 14574680--14574717 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14574670 ATTTATTATT
14574680 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14574718 GTAGTAGGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14575199 original size:53 final size:53
Alignment explanation
Indices: 14575119--14575239 Score: 188
Period size: 53 Copynumber: 2.3 Consensus size: 53
14575109 ATGTGCCGAC
* * *
14575119 TATTGTTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TATTGTTACTGTTACCGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCA
*
14575172 TATTGTTACTGTTACCGTTCCGGATTTGTTCTGATGAGGTACTCTGTGTACCA
1 TATTGTTACTGTTACCGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCA
* *
14575225 TACTGCTACTGTTAC
1 TATTGTTACTGTTAC
14575240 TGTTACTATT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (53 bp):
TATTGTTACTGTTACCGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCA
Found at i:14575473 original size:18 final size:18
Alignment explanation
Indices: 14575442--14575512 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
14575432 ACCGATCAAT
* *
14575442 TGATTGATACTGAATAAC
1 TGATTGTTATTGAATAAC
* *
14575460 TGATTATTATTGAAT-TC
1 TGATTGTTATTGAATAAC
*
14575477 TTGATTGTTATCGAATAAC
1 -TGATTGTTATTGAATAAC
* *
14575496 TGACTGTTACTGAATAA
1 TGATTGTTATTGAATAA
14575513 ATAATTGTTC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
17 1 0.02
18 39 0.95
19 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (18 bp):
TGATTGTTATTGAATAAC
Found at i:14576677 original size:16 final size:17
Alignment explanation
Indices: 14576656--14576688 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14576646 CACATTGAAG
14576656 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
14576672 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
14576689 CTTTTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:14578804 original size:40 final size:39
Alignment explanation
Indices: 14578760--14578888 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
14578750 GACTCGCTCA
*
14578760 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTGAA-CCCGGGTT-TAGCAACTTGCAC
* *
14578799 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
* * * * ** *
14578839 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
14578877 GAATGCCTTCGG
1 -AATGCCTTCGG
14578889 ATCCTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 21 0.27
39 22 0.29
40 28 0.36
41 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
Found at i:14578888 original size:78 final size:80
Alignment explanation
Indices: 14578795--14578941 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 80
14578785 ATAGCGACTT
* * *
14578795 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
14578857 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
14578873 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
14578938 CGGA
66 CGGA
14578942 CATCATTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.50
79 17 0.28
80 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:14578925 original size:40 final size:37
Alignment explanation
Indices: 14578776--14578941 Score: 125
Period size: 40 Copynumber: 4.2 Consensus size: 37
14578766 TTCGGGACGA
* ** *
14578776 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
14578816 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
14578854 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
14578894 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTC-GGA-TT
14578934 AGCCCGGA
1 AGCCCGGA
14578942 CATCATTCGA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.25
39 20 0.20
40 49 0.48
41 7 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:14580901 original size:59 final size:59
Alignment explanation
Indices: 14580764--14580901 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 59
14580754 AGTGTTAACA
* *
14580764 GGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACT
1 GGGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCCTTACAGT-ACAGAGTATACT
* *
14580825 GGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAG-CCCTATACAAGT-C-GAGATATATT
1 GGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCCT-TAC-AGTACAGAG-TATACT
* *
14580884 GGGCTTTGCCCATATCAG
1 GGGCCTAGCCCATATCAG
14580902 CACAGTTGGC
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
58 3 0.04
59 26 0.38
60 31 0.46
61 8 0.12
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (59 bp):
GGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCCTTACAGTACAGAGTATACT
Found at i:14585473 original size:42 final size:41
Alignment explanation
Indices: 14585414--14585503 Score: 171
Period size: 42 Copynumber: 2.2 Consensus size: 41
14585404 CCCAATCAAA
14585414 GAAAAAACAACAAACTCTCCTTAAACCTCTCAAAGAGAATT
1 GAAAAAACAACAAACTCTCCTTAAACCTCTCAAAGAGAATT
14585455 GAAACAAACAACAAACTCTCCTTAAACCTCTCAAAGAGAATT
1 GAAA-AAACAACAAACTCTCCTTAAACCTCTCAAAGAGAATT
14585497 GAAAAAA
1 GAAAAAA
14585504 TTGGCTGACT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 7 0.15
42 41 0.85
ACGTcount: A:0.51, C:0.23, G:0.08, T:0.18
Consensus pattern (41 bp):
GAAAAAACAACAAACTCTCCTTAAACCTCTCAAAGAGAATT
Found at i:14586398 original size:14 final size:14
Alignment explanation
Indices: 14586381--14586409 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14586371 AAGATAAAAT
14586381 AATAAAAAAATTAA
1 AATAAAAAAATTAA
14586395 AATAAAAAAATTAA
1 AATAAAAAAATTAA
14586409 A
1 A
14586410 GCTATCATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAAAAAATTAA
Found at i:14593019 original size:49 final size:49
Alignment explanation
Indices: 14592945--14593240 Score: 333
Period size: 49 Copynumber: 6.0 Consensus size: 49
14592935 GTAGCCGAAG
* *
14592945 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* * * *
14592994 TAATCTGGTACACGTAGTATCCTGCACTTAGTACTACACATGTGATCATA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-A
* * * *
14593044 GTTTTC-GAGTACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCAA
1 -TTATCTG-GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* * * *
14593094 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAA
* * * *
14593145 TTTTCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGTGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* * * * *
14593194 TTATCCGGTACACGTAGTAGGCTGCACTTAGTACTACAGACGTGACC
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
14593241 TCATAATAGT
Statistics
Matches: 205, Mismatches: 36, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
49 120 0.59
50 6 0.03
51 79 0.39
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
Found at i:14593125 original size:100 final size:100
Alignment explanation
Indices: 14592952--14593238 Score: 468
Period size: 100 Copynumber: 2.9 Consensus size: 100
14592942 AAGTTATCTG
* * * *
14592952 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTATCCT
1 GTACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
* *
14593017 GCACTTAGTACTACACATGTGATCATAGTTTTCGA
66 GCACTTAGTACTACACACGTGATCACAGTTTTCGA
14593052 GTACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
*
14593117 GCACTTAGTACTACACACGTGATCACAGTTTTCGG
66 GCACTTAGTACTACACACGTGATCACAGTTTTCGA
* *
14593152 GTACGCATAGTAGCCTA-CACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGGC
1 GTACGCATAGTAGCC-AGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
*
14593216 TGCACTTAGTACTACAGACGTGA
65 TGCACTTAGTACTACACACGTGA
14593239 CCTCATAATA
Statistics
Matches: 176, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
100 175 0.99
101 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (100 bp):
GTACGCATAGTAGCCAGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATCACAGTTTTCGA
Found at i:14595043 original size:26 final size:24
Alignment explanation
Indices: 14595013--14595060 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
14595003 AATAAAAAAA
*
14595013 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAAT-AAATATAT
14595039 TTAAAAACATAAAAATAAATAT
1 TTAAAAACATAAAAATAAATAT
14595061 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 4 0.19
26 11 0.52
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
TTAAAAACATAAAAATAAATATAT
Found at i:14595072 original size:22 final size:22
Alignment explanation
Indices: 14595031--14595089 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
14595021 ATAATAAATC
* *
14595031 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
14595051 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
14595073 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
14595090 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:14597713 original size:25 final size:24
Alignment explanation
Indices: 14597664--14597714 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
14597654 GTCATTAGGG
* *
14597664 TTACCGATTCCAACTCTTATGAGC
1 TTACCGATACCAACTCGTATGAGC
*
14597688 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATAC-CAACTCGTATGAGC
14597713 TT
1 TT
14597715 TCCATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (24 bp):
TTACCGATACCAACTCGTATGAGC
Found at i:14597761 original size:24 final size:25
Alignment explanation
Indices: 14597700--14597761 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
14597690 ACCGATACTC
* *
14597700 AGCTCGTATGAGCTTTCCATTTTTT
1 AGCTCGTATGAGCTTACCATTTTAT
*
14597725 AGCTCAG-AGGAGCTTACCA-TTTAT
1 AGCTC-GTATGAGCTTACCATTTTAT
14597749 AGCTCGTATGAGC
1 AGCTCGTATGAGC
14597762 ATACATGTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 1 0.03
24 14 0.45
25 15 0.48
26 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCATTTTAT
Found at i:14607693 original size:16 final size:16
Alignment explanation
Indices: 14607672--14607711 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
14607662 AAAAGAAAAT
14607672 ATCATCTTATTTTCTC
1 ATCATCTTATTTTCTC
14607688 ATCATCTTATTTTCTC
1 ATCATCTTATTTTCTC
*
14607704 ATCTTCTT
1 ATCATCTT
14607712 CAACCTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.17, C:0.25, G:0.00, T:0.57
Consensus pattern (16 bp):
ATCATCTTATTTTCTC
Found at i:14613789 original size:132 final size:132
Alignment explanation
Indices: 14613549--14613943 Score: 458
Period size: 131 Copynumber: 3.0 Consensus size: 132
14613539 ATTATTCATT
* * * * *
14613549 TAAAAATTCTCTAAAACGAAGGCGATGTCTG--A-TTAGCAATTCGCCGAATCATGCCCTAACGT
1 TAAAAATTCTTTAAAACGAAGGCGATGTTTGATATTTGGCAATTCGCAGAATCGTGCCCTAACGT
* * * *
14613611 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAGTGTCCCTTTATAATTTCATTCATGTTT
66 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTTCCTTTAGAATTTCACTCATGTTT
14613676 TC
131 TC
* * *
14613678 TAAAAATTCTTTAAAACAAAGGCGATGTTTGATATTTGGCCATTCGCAGAATCGTGTCCTAACGT
1 TAAAAATTCTTTAAAACGAAGGCGATGTTTGATATTTGGCAATTCGCAGAATCGTGCCCTAACGT
* *
14613743 GCTGGGTTGCAATTTCTCGGTTGCTCAAAATAATCGAATGTTCCTTTAGAATTTCACTCATGTCT
66 GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTTCCTTTAGAATTTCACTCATGTTT
14613808 T-
131 TC
* * * * * * * * *
14613809 TAAAAACTCTTTAAAGCGAAGGCAATATTCGATGTTTGGAAATTCG-AGGAATAGTGCCCTATCG
1 TAAAAATTCTTTAAAACGAAGGCGATGTTTGATATTTGGCAATTCGCA-GAATCGTGCCCTAACG
* * * ** * * * *
14613873 TGCTGGGTTTCGATTTCCCGTTTATTCAAAATAATCAAATATTCCTTTGGAATTTCACTCGTGTT
65 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTTCCTTTAGAATTTCACTCATGTT
14613938 TTC
130 TTC
14613941 TAA
1 TAA
14613944 GGGGAGGCAA
Statistics
Matches: 224, Mismatches: 37, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
129 28 0.12
130 1 0.00
131 107 0.48
132 88 0.39
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (132 bp):
TAAAAATTCTTTAAAACGAAGGCGATGTTTGATATTTGGCAATTCGCAGAATCGTGCCCTAACGT
GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTTCCTTTAGAATTTCACTCATGTTT
TC
Found at i:14615544 original size:11 final size:11
Alignment explanation
Indices: 14615528--14615555 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
14615518 GGCACAATAT
14615528 AAAACATATAC
1 AAAACATATAC
14615539 AAAACATATAC
1 AAAACATATAC
14615550 AAAACA
1 AAAACA
14615556 AAATGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.18, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAACATATAC
Found at i:14617922 original size:53 final size:53
Alignment explanation
Indices: 14617854--14617960 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
14617844 AGTGCTTTTG
* *
14617854 AAAAGCACTTCTGAAAAGGAGAAGCTAAAATTTTTAGCTTTTTCTCTCCCAAA
1 AAAAGCACTTATGAAAAGGAGAAGCTAAAATTTTTAGCTTTTCCTCTCCCAAA
14617907 AAAAGCACTTATGAAAAGGAGAAGCTAAAATTTTTAGCTTTTCCTCTCCCAAA
1 AAAAGCACTTATGAAAAGGAGAAGCTAAAATTTTTAGCTTTTCCTCTCCCAAA
14617960 A
1 A
14617961 GCACTTTTAG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (53 bp):
AAAAGCACTTATGAAAAGGAGAAGCTAAAATTTTTAGCTTTTCCTCTCCCAAA
Found at i:14618180 original size:24 final size:24
Alignment explanation
Indices: 14618151--14618206 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
14618141 TTCTAATTAA
*
14618151 ATTTTATAAATAATTAATATTTAT
1 ATTTTATAAATAATTAAAATTTAT
* *
14618175 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTATAAATAATTAAAATTTAT
14618199 ATTTTATA
1 ATTTTATA
14618207 TATTAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 24 0.92
25 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTATAAATAATTAAAATTTAT
Found at i:14618414 original size:13 final size:13
Alignment explanation
Indices: 14618398--14618422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14618388 ACTAAACTTT
14618398 TCAAAAGTATTTC
1 TCAAAAGTATTTC
14618411 TCAAAAGTATTT
1 TCAAAAGTATTT
14618423 TTTCACAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
TCAAAAGTATTTC
Found at i:14618447 original size:13 final size:13
Alignment explanation
Indices: 14618431--14618455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14618421 TTTTTCACAG
14618431 CACTTTTCAAAAT
1 CACTTTTCAAAAT
14618444 CACTTTTCAAAA
1 CACTTTTCAAAA
14618456 GCATTGTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
CACTTTTCAAAAT
Found at i:14623988 original size:6 final size:7
Alignment explanation
Indices: 14623940--14623971 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
14623930 TAAACACAAG
*
14623940 AAAACGT
1 AAAAAGT
14623947 AAAAAGT
1 AAAAAGT
14623954 AAAAAGT
1 AAAAAGT
14623961 AAAAAGT
1 AAAAAGT
14623968 AAAA
1 AAAA
14623972 GATGAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.72, C:0.03, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAAGT
Found at i:14624903 original size:15 final size:14
Alignment explanation
Indices: 14624873--14624923 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 14
14624863 ATAGCTTAAG
14624873 AAAT-ATAAAATCTA
1 AAATAATAAAAT-TA
14624887 AAATAATAATAATTAA
1 AAATAATAA-AATT-A
*
14624903 AAATAAATAAACTTA
1 AAAT-AATAAAATTA
14624918 AAATAA
1 AAATAA
14624924 ACTTAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 6 0.19
15 10 0.31
16 11 0.34
17 5 0.16
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATAATAAAATTA
Found at i:14624923 original size:11 final size:11
Alignment explanation
Indices: 14624907--14624939 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
14624897 AATTAAAAAT
14624907 AAATAAACTTA
1 AAATAAACTTA
14624918 AAATAAACTTA
1 AAATAAACTTA
14624929 AAATAGAACTT
1 AAATA-AACTT
14624940 CCTATTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.61, C:0.09, G:0.03, T:0.27
Consensus pattern (11 bp):
AAATAAACTTA
Found at i:14627586 original size:27 final size:28
Alignment explanation
Indices: 14627520--14627587 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
14627510 ATGAGATTGG
* *
14627520 CACTAAGTGTGCGAGTTTAATTGTATAG
1 CACTAAGTGTGCGAGTTGAATTGTATAA
*
14627548 CACTAAGTGTGCGAGTTGACTAT-TA-AA
1 CACTAAGTGTGCGAGTTGAAT-TGTATAA
14627575 CACTAAGTGTGCG
1 CACTAAGTGTGCG
14627588 GACTTACTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 14 0.39
28 21 0.58
29 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTGAATTGTATAA
Found at i:14638070 original size:16 final size:16
Alignment explanation
Indices: 14638040--14638087 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
14638030 CTTAAGAAAT
14638040 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
14638055 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
14638072 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
14638087 A
1 A
14638088 CTTAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Done.