Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 6 of 186
Found at i:1847412 original size:15 final size:16
Alignment explanation
Indices: 1847392--1847428 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1847382 AAATGAGTGG
*
1847392 TTAATTAGATTTTAA-
1 TTAATTAGAATTTAAC
1847407 TTAATT-GAATTTAAC
1 TTAATTAGAATTTAAC
1847422 TTAATTA
1 TTAATTA
1847429 AGAGTGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (16 bp):
TTAATTAGAATTTAAC
Found at i:1847916 original size:11 final size:12
Alignment explanation
Indices: 1847886--1847919 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
1847876 GTATGTTTAC
1847886 TTATTATATAAG
1 TTATTATATAAG
1847898 TATATTAT-TAAG
1 T-TATTATATAAG
1847910 TTATTATATA
1 TTATTATATA
1847920 TATATAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:1850319 original size:22 final size:20
Alignment explanation
Indices: 1850273--1850328 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
1850263 TACAGTGTGC
*
1850273 CCACACGAGTGTGTTATGGA
1 CCACACGAGTGTGTTATAGA
* *
1850293 ACACACGAGTGTGTCATTTAGA
1 CCACACGAGTGTGT--TATAGA
*
1850315 CCACACGGGTGTGT
1 CCACACGAGTGTGT
1850329 GGTACTGTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
22 16 0.55
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
CCACACGAGTGTGTTATAGA
Found at i:1851967 original size:14 final size:14
Alignment explanation
Indices: 1851948--1851975 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1851938 AACTGATGAA
1851948 TCTATATCTGATTT
1 TCTATATCTGATTT
1851962 TCTATATCTGATTT
1 TCTATATCTGATTT
1851976 GGGGTGGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (14 bp):
TCTATATCTGATTT
Found at i:1861066 original size:48 final size:48
Alignment explanation
Indices: 1860933--1861222 Score: 314
Period size: 48 Copynumber: 6.0 Consensus size: 48
1860923 GGGTAAGATG
* * *
1860933 TCGATGCCGATGCCATG-TCTCAGACATGGTCTTACACTAGCTTTCATATA
1 TCGAGGCCGATGCCATGTTC-CAAACATGGTCTTACACTAGC--TCACATA
* ** * * *
1860983 TCG-GTGTCGATTTCATGTTCCAAACATAGTCTTACACTAGCCCACATG
1 TCGAG-GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
* * * *
1861031 TCGAGGCCGATGCCATGTCCCAGAGATGGTCTTACACTAGCTCTCATA
1 TCGAGGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
** * * *
1861079 TAAATGCCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATA
1 TCGAGGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
* *
1861127 TCGAGGCCGATGCCATGTTCCAAACATGGTCTCACACTAGCTCTCATA
1 TCGAGGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
* * * *
1861175 TCAATGCCGATGCCATTTTCCAAACATGGTCTTACACTGGCTCACATA
1 TCGAGGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
1861223 ACCCTAGTAT
Statistics
Matches: 196, Mismatches: 41, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
48 162 0.83
49 1 0.01
50 31 0.16
51 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
TCGAGGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
Found at i:1861137 original size:96 final size:96
Alignment explanation
Indices: 1860933--1861222 Score: 391
Period size: 96 Copynumber: 3.0 Consensus size: 96
1860923 GGGTAAGATG
* * * ** * **
1860933 TCGATGCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTTTCATATATCGGTGTCGATTTCA
1 TCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCA
* * * *
1860998 TGTTCCAAACATAGTCTTACACTAGCCCACATG
64 TGTTCCAAACATGGTCTTACACTGGCTCACATA
*
1861031 TCGAGGCCGATGCCATGTCCCAGAGATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATG
1 TCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATG
*
1861096 TTCCAAACATGGTCTTACATTGGCTCACATA
66 TTCCAAACATGGTCTTACACTGGCTCACATA
* * * * *
1861127 TCGAGGCCGATGCCATGTTCCAAACATGGTCTCACACTAGCTCTCATATCAATGCCGATGCCATT
1 TCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATG
1861192 TTCCAAACATGGTCTTACACTGGCTCACATA
66 TTCCAAACATGGTCTTACACTGGCTCACATA
1861223 ACCCTAGTAT
Statistics
Matches: 171, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 125 0.73
98 46 0.27
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (96 bp):
TCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATG
TTCCAAACATGGTCTTACACTGGCTCACATA
Found at i:1861204 original size:144 final size:145
Alignment explanation
Indices: 1860936--1861222 Score: 346
Period size: 144 Copynumber: 2.0 Consensus size: 145
1860926 TAAGATGTCG
* * * **
1860936 ATGCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTTTCATATATCGGTGTCGATTTCATGT
1 ATGCCGATGCCATGTCTCAAACATGGTCTTACACTAGC-TTCACATATCGGTGCCGATGCCATGT
* * * * *
1861001 TCCAAACATAGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATGTCCCAGAGATGGTCTTAC
65 TCCAAACATAGTCTCACACTAGCCCACATATCAAGGCCGATGCCATGTCCCAAACATGGTCTTAC
*
1861066 ACTAGCTCTCATATAA
130 ACTAGCTCACATATAA
* *
1861082 ATGCCGATGCCATGT-TCCAAACATGGTCTTACATTGGC-TCACATATCGAG-GCCGATGCCATG
1 ATGCCGATGCCATGTCT-CAAACATGGTCTTACACTAGCTTCACATATCG-GTGCCGATGCCATG
* * * * * *
1861144 TTCCAAACATGGTCTCACACTAGCTCTCATATCAATGCCGATGCCATTTTCCAAACATGGTCTTA
64 TTCCAAACATAGTCTCACACTAGCCCACATATCAAGGCCGATGCCATGTCCCAAACATGGTCTTA
*
1861209 CACTGGCTCACATA
129 CACTAGCTCACATA
1861223 ACCCTAGTAT
Statistics
Matches: 119, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
144 84 0.71
145 2 0.02
146 33 0.28
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (145 bp):
ATGCCGATGCCATGTCTCAAACATGGTCTTACACTAGCTTCACATATCGGTGCCGATGCCATGTT
CCAAACATAGTCTCACACTAGCCCACATATCAAGGCCGATGCCATGTCCCAAACATGGTCTTACA
CTAGCTCACATATAA
Found at i:1865907 original size:29 final size:30
Alignment explanation
Indices: 1865847--1865913 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 30
1865837 CAAAATTGTC
* ***
1865847 ATTTAGGGATTAAATTGTGAAATGTGTAAA
1 ATTTATGGATTAAATTGTGAAATAAATAAA
*
1865877 ATTTATGG-TTAAATTGTGAAATAAATGAA
1 ATTTATGGATTAAATTGTGAAATAAATAAA
*
1865906 ATATATGG
1 ATTTATGG
1865914 GCTGATAGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (30 bp):
ATTTATGGATTAAATTGTGAAATAAATAAA
Found at i:1866257 original size:15 final size:15
Alignment explanation
Indices: 1866237--1866270 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1866227 TGTGCTTTTG
1866237 ATTGTTTA-ATATATA
1 ATTGTTTATATAT-TA
1866252 ATTGTTTATATATTA
1 ATTGTTTATATATTA
1866267 ATTG
1 ATTG
1866271 AGCTTATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATTGTTTATATATTA
Found at i:1866395 original size:45 final size:45
Alignment explanation
Indices: 1866308--1866548 Score: 220
Period size: 45 Copynumber: 5.4 Consensus size: 45
1866298 AGACCATAGT
* * **
1866308 TGAAAGACACTATGGCACCAC-ACGCAAACGAGTAAGACCATGAC
1 TGAAAGACATTATGGCATCACGATTCAAACGAGTAAGACCATGAC
* * * *
1866352 TAAAAGACGTTATGGCATCACGATTCAAATGAGTAAGATCATGAC
1 TGAAAGACATTATGGCATCACGATTCAAACGAGTAAGACCATGAC
** * *
1866397 TGAAAGACATTATGGCATCAAAATTCTAACGAGTAAGACCATGAA
1 TGAAAGACATTATGGCATCACGATTCAAACGAGTAAGACCATGAC
*** *
1866442 TGAAAGACATTATGGCATCACGATTCTCTCGAGTAAGACCAT-ATT
1 TGAAAGACATTATGGCATCACGATTCAAACGAGTAAGACCATGA-C
* * * * * *
1866487 TGAAAGACACTATGACATCATGAATCAAA-GAAATAAGACCAT-AGT
1 TGAAAGACATTATGGCATCACGATTCAAACG-AGTAAGACCATGA-C
*
1866532 TGAAAGACACTATGGCA
1 TGAAAGACATTATGGCA
1866549 ACATGACGGA
Statistics
Matches: 163, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
44 19 0.12
45 144 0.88
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
TGAAAGACATTATGGCATCACGATTCAAACGAGTAAGACCATGAC
Found at i:1866524 original size:90 final size:87
Alignment explanation
Indices: 1866289--1866594 Score: 247
Period size: 90 Copynumber: 3.4 Consensus size: 87
1866279 GGCTTGAAGG
* * * ** * *
1866289 AAATGATTAAGACCATAGTTGAAAGACACTATGGCACCACACGCAAACGAGTAAGACCATGACTA
1 AAATGAGTAAGACCATA-TTGAAAGACACTATGGCATCAAAATCAAA-GAGTAAGACCATGAATG
*
1866354 AAAGACGTTATGGCATCACGATTC
64 AAAGACATTATGGCATCACGATTC
* * * *
1866378 AAATGAGTAAGATCATGACTGAAAGACATTATGGCATCAAAATTCTAACGAGTAAGACCATGAAT
1 AAATGAGTAAGACCAT-ATTGAAAGACACTATGGCATCAAAA-TC-AAAGAGTAAGACCATGAAT
1866443 GAAAGACATTATGGCATCACGATTC
63 GAAAGACATTATGGCATCACGATTC
** * * *
1866468 -TCTCGAGTAAGACCATATTTGAAAGACACTATGACATCATGAATCAAAGAAATAAGACCAT-AG
1 AAAT-GAGTAAGACCATA-TTGAAAGACACTATGGCATCA-AAATCAAAG-AGTAAGACCATGA-
* * * * ***
1866531 TTGAAAGACACTATGGCAACATGACGGA
61 ATGAAAGACATTATGGCATCACGA-TTC
* * *
1866559 AAATGAATAAGACCATGGTTGAAAGACACCATGGCA
1 AAATGAGTAAGACCAT-ATTGAAAGACACTATGGCA
1866595 CATTCCGATC
Statistics
Matches: 172, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
89 39 0.23
90 101 0.59
91 31 0.18
92 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (87 bp):
AAATGAGTAAGACCATATTGAAAGACACTATGGCATCAAAATCAAAGAGTAAGACCATGAATGAA
AGACATTATGGCATCACGATTC
Found at i:1866584 original size:46 final size:45
Alignment explanation
Indices: 1866475--1866594 Score: 143
Period size: 45 Copynumber: 2.6 Consensus size: 45
1866465 TTCTCTCGAG
* * * **
1866475 TAAGACCATATTTGAAAGACACTATGACATCATGAATCAAAGAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACATGAAGAAAAGAAA
*
1866520 TAAGACCATAGTTGAAAGACACTATGGCAACATGACGGAAAATG-AA
1 TAAGACCATAGTTGAAAGACACTATGGCAACATGA-AGAAAA-GAAA
* *
1866566 TAAGACCATGGTTGAAAGACACCATGGCA
1 TAAGACCATAGTTGAAAGACACTATGGCA
1866595 CATTCCGATC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
45 32 0.49
46 32 0.49
47 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACATGAAGAAAAGAAA
Found at i:1869015 original size:15 final size:15
Alignment explanation
Indices: 1868995--1869031 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1868985 CATGAAATGT
1868995 TTGATGGTCCAATCA
1 TTGATGGTCCAATCA
*
1869010 TTGATGGTTCAATCA
1 TTGATGGTCCAATCA
1869025 TTGATGG
1 TTGATGG
1869032 CTTGCTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (15 bp):
TTGATGGTCCAATCA
Found at i:1874838 original size:36 final size:37
Alignment explanation
Indices: 1874790--1874866 Score: 147
Period size: 36 Copynumber: 2.1 Consensus size: 37
1874780 ATGCATTGGT
1874790 TGTTCCGGATTGATAATCAACACATTTCGCAGATCGA
1 TGTTCCGGATTGATAATCAACACATTTCGCAGATCGA
1874827 TGTT-CGGATTGATAATCAACACATTTCGCAGATCGA
1 TGTTCCGGATTGATAATCAACACATTTCGCAGATCGA
1874863 TGTT
1 TGTT
1874867 GTTATTCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 36 0.90
37 4 0.10
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (37 bp):
TGTTCCGGATTGATAATCAACACATTTCGCAGATCGA
Found at i:1875618 original size:3 final size:3
Alignment explanation
Indices: 1875610--1875634 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1875600 AATGTTGTAA
1875610 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
1875635 CATTTTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1876745 original size:3 final size:3
Alignment explanation
Indices: 1876737--1876791 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
1876727 AAATAATGGC
* * * *
1876737 AAT AAT AAT AAT ACT AAC AAT AAT AGT AAT AAT AAAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
*
1876783 AAC AAT AAT
1 AAT AAT AAT
1876792 TGAGAAAATC
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
3 39 0.95
4 2 0.05
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1876781 original size:13 final size:12
Alignment explanation
Indices: 1876713--1876791 Score: 59
Period size: 12 Copynumber: 6.5 Consensus size: 12
1876703 AAATATATAT
* *
1876713 AATAGTAATAAG
1 AATAATAATAAC
* **
1876725 AAAAATAATGGC
1 AATAATAATAAC
*
1876737 AATAATAATAAT
1 AATAATAATAAC
* * *
1876749 ACTAACAATAAT
1 AATAATAATAAC
*
1876761 AGTAATAATAAAC
1 AATAATAAT-AAC
1876774 AATAATAATAAC
1 AATAATAATAAC
1876786 AATAAT
1 AATAAT
1876792 TGAGAAAATC
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
12 41 0.80
13 10 0.20
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:1878844 original size:16 final size:18
Alignment explanation
Indices: 1878823--1878855 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
1878813 CAAGTCTTGA
1878823 CTTCTTC-GGT-GCTTCT
1 CTTCTTCAGGTCGCTTCT
1878839 CTTCTTCAGGTCGCTTC
1 CTTCTTCAGGTCGCTTC
1878856 GTTTTAGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.03, C:0.33, G:0.18, T:0.45
Consensus pattern (18 bp):
CTTCTTCAGGTCGCTTCT
Found at i:1879191 original size:85 final size:86
Alignment explanation
Indices: 1879077--1879470 Score: 352
Period size: 96 Copynumber: 4.4 Consensus size: 86
1879067 ATTTGCTCCG
*
1879077 CTGCAACTTCAGGGAGATAAGACTTGTAATTTCAATTTACTCCACTGCAACTTC-AGGAAGATAA
1 CTGCAACTTCAGAGAGATAAGACTTGTAATTTCAATTTACTCCACTGCAACTTCAAGGAAGATAA
1879141 GGTTTGTTTTGATCTGCTCTA
66 GGTTTGTTTTGATCTGCTCTA
*
1879162 CTACAACTTCAGAGAGATAAGA-TCTGTAATTT-ATAGTTTCAATCTGTTCCACTGCAACTTCAA
1 CTGCAACTTCAGAGAGATAAGACT-TGTAATTTCA-A-TTT--A-C---TCCACTGCAACTTCAA
* * *
1879225 GGAA-ATAAGATTTGCTATCTTCAGTCTGCTCCA
57 GGAAGATAAGGTTTG-T-T-TTGA-TCTGCTCTA
* ** **
1879258 CTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGTTCCACTGCAACTTCAAGG-AGATAA
1 CTGCAACTTCAGAGAGATAAGACTTGTAATTTCAATTTACTCCACTGCAACTTCAAGGAAGATAA
1879322 GGTTTGTTTTGATCTGCTCTA
66 GGTTTGTTTTGATCTGCTCTA
* * *
1879343 CTGCAACTTCAGAGAGATAAGA-TCTGTAATTTAAAGCTTCAATCTGTTCCACTGCAACTTCAGG
1 CTGCAACTTCAGAGAGATAAGACT-TGTAATTTCAA--TT-TA-C---TCCACTGCAACTTCAAG
* * *
1879407 GAA-ATAAGATTTGCTATCTTCAGTCTGCTCCA
58 GAAGATAAGGTTTG-T-T-TTGA-TCTGCTCTA
*
1879439 CTGCAACTTCAGGGAGATAAGACTTGTGAATT
1 CTGCAACTTCAGAGAGATAAGACTTGT-AATT
1879471 CACCGATCTT
Statistics
Matches: 251, Mismatches: 26, Indels: 52
0.76 0.08 0.16
Matches are distributed among these distances:
84 3 0.01
85 68 0.27
86 6 0.02
87 1 0.00
88 3 0.01
89 28 0.11
92 49 0.20
93 8 0.03
94 2 0.01
95 7 0.03
96 69 0.27
97 7 0.03
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (86 bp):
CTGCAACTTCAGAGAGATAAGACTTGTAATTTCAATTTACTCCACTGCAACTTCAAGGAAGATAA
GGTTTGTTTTGATCTGCTCTA
Found at i:1879220 original size:51 final size:49
Alignment explanation
Indices: 1879165--1879460 Score: 170
Period size: 45 Copynumber: 6.4 Consensus size: 49
1879155 TGCTCTACTA
1879165 CAACTTCAGAGAGATAAGATCTGTAATTTATAGTTTCAATCTGTTCCACTG
1 CAACTTCAGAGAGATAAGATCTGT--TTTATAGTTTCAATCTGTTCCACTG
* ** * * *
1879216 CAACTTCA-AGGAAATAAGAT-T-TGCTAT--CTTCAGTCTGCTCCACTG
1 CAACTTCAGA-GAGATAAGATCTGTTTTATAGTTTCAATCTGTTCCACTG
* * *
1879261 CAACTTCAGGGAGATAAGA-C--TTGTA-A-TTTCAACCTGTTCCACTG
1 CAACTTCAGAGAGATAAGATCTGTTTTATAGTTTCAATCTGTTCCACTG
** * *
1879305 CAACTTCA-AGGAGATAAG----G--TT-T-GTTTTGATCTGCTCTACTG
1 CAACTTCAGA-GAGATAAGATCTGTTTTATAGTTTCAATCTGTTCCACTG
* *
1879346 CAACTTCAGAGAGATAAGATCTGTAATTTAAAGCTTCAATCTGTTCCACTG
1 CAACTTCAGAGAGATAAGATCTGT--TTTATAGTTTCAATCTGTTCCACTG
* * ** * * *
1879397 CAACTTCAGGGAAATAAGAT-T-TGCTAT--CTTCAGTCTGCTCCACTG
1 CAACTTCAGAGAGATAAGATCTGTTTTATAGTTTCAATCTGTTCCACTG
*
1879442 CAACTTCAGGGAGATAAGA
1 CAACTTCAGAGAGATAAGA
1879461 CTTGTGAATT
Statistics
Matches: 191, Mismatches: 35, Indels: 44
0.71 0.13 0.16
Matches are distributed among these distances:
41 30 0.16
42 1 0.01
44 33 0.17
45 66 0.35
47 5 0.03
49 4 0.02
50 3 0.02
51 49 0.26
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (49 bp):
CAACTTCAGAGAGATAAGATCTGTTTTATAGTTTCAATCTGTTCCACTG
Found at i:1879272 original size:181 final size:181
Alignment explanation
Indices: 1879029--1879470 Score: 717
Period size: 181 Copynumber: 2.4 Consensus size: 181
1879019 TTTAATCCGC
* * * * * * *
1879029 TCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTCAATTTGCTCCGCTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
**
1879093 ATAAGACTTGTAATTTCAATTTACTCCACTGCAACTTC-AGGAAGATAAGGTTTGTTTTGATCTG
66 ATAAGACTTGTAATTTCAACCTACTCCACTGCAACTTCAAGG-AGATAAGGTTTGTTTTGATCTG
* *
1879157 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGTTTCAATCTGT
130 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTAAAGCTTCAATCTGT
*
1879209 TCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
**
1879274 ATAAGACTTGTAATTTCAACCTGTTCCACTGCAACTTCAAGGAGATAAGGTTTGTTTTGATCTGC
66 ATAAGACTTGTAATTTCAACCTACTCCACTGCAACTTCAAGGAGATAAGGTTTGTTTTGATCTGC
*
1879339 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAAAGCTTCAATCTGT
131 TCTACTACAACTTCAGAGAGATAAGATCTGTAATTTAAAGCTTCAATCTGT
1879390 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
1879455 ATAAGACTTGTGAATT
66 ATAAGACTTGT-AATT
1879471 CACCGATCTT
Statistics
Matches: 243, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
180 26 0.11
181 210 0.86
182 7 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (181 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTTGTAATTTCAACCTACTCCACTGCAACTTCAAGGAGATAAGGTTTGTTTTGATCTGC
TCTACTACAACTTCAGAGAGATAAGATCTGTAATTTAAAGCTTCAATCTGT
Found at i:1879278 original size:45 final size:43
Alignment explanation
Indices: 1879022--1879465 Score: 356
Period size: 44 Copynumber: 9.9 Consensus size: 43
1879012 TTGTTGCTTT
* * * *
1879022 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA-TTTC
* * *
1879066 AATTTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTAATTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-ATTTC
* * * *
1879110 AATTTACTCCACTGCAACTTCAGGAAGATAAGGTTTGT-TTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATTTC
* * * * *
1879151 GATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGAT-A-A---G--ATTTGTA-TTTC
* * *
1879202 AATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAT-TTC
* *
1879247 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-ATTTC
* * * *
1879291 AACCTGTTCCACTGCAACTTCAAGGAGATAAGGTTTGT-TTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATTTC
* * * *
1879332 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAAAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-A--T-----TTC
* *
1879383 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAT-TTC
* *
1879428 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
1879466 GAATTCACCG
Statistics
Matches: 317, Mismatches: 58, Indels: 50
0.75 0.14 0.12
Matches are distributed among these distances:
41 52 0.16
42 7 0.02
43 1 0.00
44 110 0.35
45 78 0.25
46 2 0.01
48 4 0.01
49 2 0.01
50 6 0.02
51 54 0.17
52 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATTTC
Found at i:1881185 original size:16 final size:16
Alignment explanation
Indices: 1881160--1881193 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1881150 AATCTGATTA
*
1881160 AAAAAATTAAAAATTC
1 AAAAAATTAAAAACTC
*
1881176 AAAAATTTAAAAACTC
1 AAAAAATTAAAAACTC
1881192 AA
1 AA
1881194 TTCAACCGAA
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:0.68, C:0.09, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAATTAAAAACTC
Found at i:1885232 original size:21 final size:21
Alignment explanation
Indices: 1885200--1885240 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1885190 AGGCTCGAGG
1885200 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
1885221 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
1885241 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:1890187 original size:20 final size:19
Alignment explanation
Indices: 1890158--1890213 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
1890148 GTTTTGAGTT
*
1890158 TTTTTTTATATTTTTTAAG
1 TTTTTATATATTTTTTAAG
* *
1890177 TTTATTATATATTCTTTAGG
1 TTT-TTATATATTTTTTAAG
*
1890197 TTTTTTTATAATTTTTT
1 TTTTTATAT-ATTTTTT
1890214 TAGATATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATATATTTTTTAAG
Found at i:1891153 original size:5 final size:5
Alignment explanation
Indices: 1891143--1891179 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
1891133 AATATCAATG
*
1891143 AACAA AACAA AACAA AACAA AAAAA AATCAA AACAA A
1 AACAA AACAA AACAA AACAA AACAA AA-CAA AACAA A
1891180 GCCCAAAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.81, C:0.16, G:0.00, T:0.03
Consensus pattern (5 bp):
AACAA
Found at i:1891445 original size:34 final size:34
Alignment explanation
Indices: 1891395--1891518 Score: 185
Period size: 34 Copynumber: 3.6 Consensus size: 34
1891385 ACTTTTACAA
* *
1891395 ATATCATATCAAAATGTCATATTATCATAAACAT
1 ATATCAGATCAAAATGTCATATTTTCATAAACAT
* *
1891429 ATATCAGATCAGAATGTCATATTTTCAAAAACAT
1 ATATCAGATCAAAATGTCATATTTTCATAAACAT
* * *
1891463 ATATCATATCATAATGTCATATTTTTATAAACAT
1 ATATCAGATCAAAATGTCATATTTTCATAAACAT
1891497 ATATCAGATCAAAATGTCATAT
1 ATATCAGATCAAAATGTCATAT
1891519 CAAATCAGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 80 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (34 bp):
ATATCAGATCAAAATGTCATATTTTCATAAACAT
Found at i:1897446 original size:21 final size:19
Alignment explanation
Indices: 1897407--1897446 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
1897397 TGAACATGTG
*
1897407 TTTATTGTGAAATTGAATA
1 TTTATTGTGAAAGTGAATA
1897426 TTTATTGGTGAAAAGTGAATA
1 TTTATT-GTG-AAAGTGAATA
1897447 AAATTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (19 bp):
TTTATTGTGAAAGTGAATA
Found at i:1897507 original size:16 final size:16
Alignment explanation
Indices: 1897470--1897502 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1897460 TTGAAAATAT
1897470 ATAT-AATTAATTAAA
1 ATATGAATTAATTAAA
1897485 ATATGAATTAATTGAAA
1 ATATGAATTAATT-AAA
1897502 A
1 A
1897503 CTGAAAAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
ATATGAATTAATTAAA
Found at i:1897645 original size:12 final size:12
Alignment explanation
Indices: 1897628--1897652 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1897618 GCCGACTACT
1897628 GTTACTGTTACC
1 GTTACTGTTACC
1897640 GTTACTGTTACC
1 GTTACTGTTACC
1897652 G
1 G
1897653 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:1897752 original size:47 final size:47
Alignment explanation
Indices: 1897683--1897799 Score: 173
Period size: 47 Copynumber: 2.5 Consensus size: 47
1897673 GATATTGTTA
* *
1897683 CTGT-TACCGTTACTGTTACTGTTTCAGATTTGTTTCGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTCCAGATTTGTTCCGATGAGGTACT
*
1897730 CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTCCAGATTTGTTCCGATGAGGTACT
* *
1897777 CTGTGTACCATACTGCTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
1897800 ACTGTTACTG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 59 0.92
48 5 0.08
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (47 bp):
CTGTGTACCGTACTGTTACTGTTCCAGATTTGTTCCGATGAGGTACT
Found at i:1897947 original size:18 final size:18
Alignment explanation
Indices: 1897916--1898005 Score: 101
Period size: 18 Copynumber: 5.0 Consensus size: 18
1897906 AAAGGTATAA
* *
1897916 AATAACTGATTATTACTG
1 AATAATTGACTATTACTG
*
1897934 AATAATTGACTATTACCG
1 AATAATTGACTATTACTG
* *
1897952 GATAATTGACTGTTACTG
1 AATAATTGACTATTACTG
* *
1897970 AATAACTGAATATTACTG
1 AATAATTGACTATTACTG
1897988 AATAATTGA-TCATTACTG
1 AATAATTGACT-ATTACTG
1898006 TAACACCCCC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
17 1 0.02
18 59 0.98
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (18 bp):
AATAATTGACTATTACTG
Found at i:1902248 original size:20 final size:19
Alignment explanation
Indices: 1902222--1902273 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
1902212 AAAGATCGAC
1902222 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* *
1902241 TGGTTACTGAAT-ATCTGAT
1 T-GTTACTGAATAATTTAAT
1902260 T-TTACTGAATAATT
1 TGTTACTGAATAATT
1902274 GACTGTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 9 0.32
18 2 0.07
19 7 0.25
20 10 0.36
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:1902378 original size:18 final size:18
Alignment explanation
Indices: 1902306--1902382 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
1902296 AATTGATCGA
* * *
1902306 TACTGAATAACTGGTTAT
1 TACTGAATAAATGATTGT
* *
1902324 TATTGAATAATTGATTGT
1 TACTGAATAAATGATTGT
* * *
1902342 TACCGAATAACTGACTGT
1 TACTGAATAAATGATTGT
*
1902360 TACTGAATAAATAATTGT
1 TACTGAATAAATGATTGT
1902378 T-CTGA
1 TACTGA
1902383 GAGTTAATGA
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
17 4 0.09
18 43 0.91
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (18 bp):
TACTGAATAAATGATTGT
Found at i:1907148 original size:20 final size:18
Alignment explanation
Indices: 1907123--1907160 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 18
1907113 AGCAGGGAAT
1907123 GAAAGAAAGAAAGGAGAAAA
1 GAAAG-AAGAAAGG-GAAAA
1907143 GAAAGAAGAAAGGGAAAA
1 GAAAGAAGAAAGGGAAAA
1907161 TTGAAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
GAAAGAAGAAAGGGAAAA
Found at i:1907166 original size:20 final size:21
Alignment explanation
Indices: 1907120--1907167 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
1907110 AAAAGCAGGG
1907120 AATGAAAGAAAGAAAGGAGAA
1 AATGAAAGAAAGAAAGGAGAA
1907141 AA-GAAAG-AAGAAAGG-GAA
1 AATGAAAGAAAGAAAGGAGAA
1907159 AATTGAAAG
1 AA-TGAAAG
1907168 TTTGATGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.20
19 8 0.32
20 10 0.40
21 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (21 bp):
AATGAAAGAAAGAAAGGAGAA
Found at i:1907551 original size:21 final size:19
Alignment explanation
Indices: 1907512--1907551 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
1907502 TGAACATGTG
*
1907512 TTTATTGTGAAATTGAATA
1 TTTATTGTGAAAGTGAATA
1907531 TTTATTAGTGAAAAGTGAATA
1 TTTATT-GTG-AAAGTGAATA
1907552 GAATTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (19 bp):
TTTATTGTGAAAGTGAATA
Found at i:1907865 original size:47 final size:47
Alignment explanation
Indices: 1907796--1907912 Score: 182
Period size: 47 Copynumber: 2.5 Consensus size: 47
1907786 GATATTGTTA
*
1907796 CTGT-TACCGTTACTGTTACTGTTTCGGATTTGTTCCAATAAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTCCGGATTTGTTCCAATAAGGTACT
* *
1907843 CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCAATAAGGTACT
*
1907890 CTGTGTACCGTACTGCTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
1907913 ACTGTTATTG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
47 60 0.92
48 5 0.08
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.40
Consensus pattern (47 bp):
CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCAATAAGGTACT
Found at i:1908082 original size:36 final size:36
Alignment explanation
Indices: 1908035--1908125 Score: 110
Period size: 36 Copynumber: 2.5 Consensus size: 36
1908025 ATAAAATAGC
** * * *
1908035 TGATTATTACTGAATAGTTGACTGTTACCGGATAAT
1 TGATTATTACTGAATAACTGAATATTACCGAATAAT
* *
1908071 TGATTGTTACTGAATAACTGAATATTACTGAATAAT
1 TGATTATTACTGAATAACTGAATATTACCGAATAAT
*
1908107 TGATCATTACTGAATAACT
1 TGATTATTACTGAATAACT
1908126 AATTGTCACT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (36 bp):
TGATTATTACTGAATAACTGAATATTACCGAATAAT
Found at i:1908131 original size:54 final size:54
Alignment explanation
Indices: 1908029--1908139 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 54
1908019 AAAGGTATAA
* * * * * * * *
1908029 AATAGCTGATTATTACTGAATAGTTGACTGTTACCGGATAATTGATTGTTACTG
1 AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTAATTGTCACTG
*
1908083 AATAACTGAATATTACTGAATAATTGA-TCATTACTGAATAACTAATTGTCACTG
1 AATAACTGAATATTACTGAATAATTGACT-ATTACCGAATAACTAATTGTCACTG
1908137 AAT
1 AAT
1908140 GAATGACTGC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 1 0.02
54 46 0.98
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (54 bp):
AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTAATTGTCACTG
Found at i:1908301 original size:18 final size:18
Alignment explanation
Indices: 1908035--1908305 Score: 98
Period size: 18 Copynumber: 14.7 Consensus size: 18
1908025 ATAAAATAGC
* **
1908035 TGATTATTACTGAATAGT
1 TGATTGTTACTGAATAAA
* * * *
1908053 TGACTGTTACCGGATAAT
1 TGATTGTTACTGAATAAA
*
1908071 TGATTGTTACTGAATAAC
1 TGATTGTTACTGAATAAA
* * *
1908089 TGAATATTACTGAATAAT
1 TGATTGTTACTGAATAAA
** *
1908107 TGATCATTACTGAATAAC
1 TGATTGTTACTGAATAAA
* * *
1908125 TAATTGTCACTGAATGAA
1 TGATTGTTACTGAATAAA
* * *
1908143 TGACTGCTACTGAATAACT
1 TGATTGTTACTGAATAA-A
* * **
1908162 TAATTGTTACTAAATATC
1 TGATTGTTACTGAATAAA
* *
1908180 TGA-T-TTATTGAATAAT
1 TGATTGTTACTGAATAAA
* *
1908196 TGACTGTTACTGGATAACCGA
1 TGATTGTTACTGAATAA---A
* *
1908217 TCAATTGATCGATACTGAATAAC
1 T-GATTG-T---TACTGAATAAA
* * * *
1908240 TGGTTATTATTGAATAAT
1 TGATTGTTACTGAATAAA
* *
1908258 TGATTGTTACCGAATAAC
1 TGATTGTTACTGAATAAA
*
1908276 TGACTGTTACTGAATAAA
1 TGATTGTTACTGAATAAA
*
1908294 TAATTGTT-CTGA
1 TGATTGTTACTGA
1908306 GAGTTAATGA
Statistics
Matches: 182, Mismatches: 60, Indels: 23
0.69 0.23 0.09
Matches are distributed among these distances:
16 11 0.06
17 6 0.03
18 135 0.74
19 12 0.07
21 2 0.01
22 5 0.03
23 2 0.01
26 9 0.05
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TGATTGTTACTGAATAAA
Found at i:1914289 original size:15 final size:15
Alignment explanation
Indices: 1914269--1914299 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1914259 CACATTAGCC
1914269 CTAATTTCTAATCAG
1 CTAATTTCTAATCAG
1914284 CTAATTTCTAATCAG
1 CTAATTTCTAATCAG
1914299 C
1 C
1914300 CTATCATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (15 bp):
CTAATTTCTAATCAG
Found at i:1918504 original size:25 final size:25
Alignment explanation
Indices: 1918471--1918521 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
1918461 AATATTAAAA
* *
1918471 TTTCCTCTT-AAATTATATTCTTTTT
1 TTTCATCTTGAAACTATATT-TTTTT
*
1918496 TTTCATCTTGATACTATATTTTTTT
1 TTTCATCTTGAAACTATATTTTTTT
1918521 T
1 T
1918522 GTTAGAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.20, C:0.14, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTCATCTTGAAACTATATTTTTTT
Found at i:1932591 original size:10 final size:9
Alignment explanation
Indices: 1932559--1932600 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
1932549 ATATGAAATG
1932559 TAAATTTTAT
1 TAAATTTT-T
1932569 T-AATTTTT
1 TAAATTTTT
*
1932577 AAAATTTCTT
1 TAAATTT-TT
1932587 TAAATTTTT
1 TAAATTTTT
1932596 TAAAT
1 TAAAT
1932601 ATTAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 1 0.04
9 18 0.64
10 9 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (9 bp):
TAAATTTTT
Found at i:1933288 original size:32 final size:33
Alignment explanation
Indices: 1933242--1933304 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1933232 GCACCCACTC
* *
1933242 AAAAATTTTCAAAAAAAGGGTAATTTTTTTATA
1 AAAAATTATCAAAAAAAGGCTAATTTTTTTATA
*
1933275 AAAAATTAT-AAAAATAGGCTAATTTTTTTA
1 AAAAATTATCAAAAAAAGGCTAATTTTTTTA
1933305 AAATTTATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (33 bp):
AAAAATTATCAAAAAAAGGCTAATTTTTTTATA
Found at i:1934626 original size:10 final size:9
Alignment explanation
Indices: 1934594--1934635 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
1934584 ATATGAAATG
1934594 TAAATTTTAT
1 TAAATTTT-T
1934604 T-AATTTTT
1 TAAATTTTT
*
1934612 AAAATTTCTT
1 TAAATTT-TT
1934622 TAAATTTTT
1 TAAATTTTT
1934631 TAAAT
1 TAAAT
1934636 ATTAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 1 0.04
9 18 0.64
10 9 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (9 bp):
TAAATTTTT
Found at i:1935323 original size:32 final size:33
Alignment explanation
Indices: 1935277--1935339 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1935267 GCACCCACTC
* *
1935277 AAAAATTTTCAAAAAAAGGGTAATTTTTTTATA
1 AAAAATTATCAAAAAAAGGCTAATTTTTTTATA
*
1935310 AAAAATTAT-AAAAATAGGCTAATTTTTTTA
1 AAAAATTATCAAAAAAAGGCTAATTTTTTTA
1935340 AAATTTATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (33 bp):
AAAAATTATCAAAAAAAGGCTAATTTTTTTATA
Found at i:1936976 original size:30 final size:29
Alignment explanation
Indices: 1936896--1936976 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 29
1936886 CGTTTTGCCA
* *
1936896 AAATCGGCCTTTTTCGGTAAATAATTTAG
1 AAATCGGCCTTTTTAGGTAAATAACTTAG
*
1936925 AAATCGGCTCATTTTTA--TAAATATACTTGG
1 AAATCGGC-C-TTTTTAGGTAAATA-ACTTAG
*
1936955 AAATGGGCCTTTTTAGGTAAAT
1 AAATCGGCCTTTTTAGGTAAAT
1936977 TAGTCAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 6 0.14
29 15 0.35
30 17 0.40
31 5 0.12
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (29 bp):
AAATCGGCCTTTTTAGGTAAATAACTTAG
Found at i:1937708 original size:38 final size:36
Alignment explanation
Indices: 1937637--1937780 Score: 108
Period size: 38 Copynumber: 3.9 Consensus size: 36
1937627 GATCCCTCAG
* **
1937637 TATATAAAACATGTGAACCCTAGATACTATGCGATCC
1 TATATATAACATGCAAACCCTAGATACTATGCGA-CC
* * * *
1937674 TTATATATAACATGCAAACTCTAGGTACTGTGCGAGC
1 -TATATATAACATGCAAACCCTAGATACTATGCGACC
* * * *
1937711 TATAGATATCATGCAAACCCTAGATATTATGCACGCCC
1 TATATATAACATGCAAACCCTAGATACTATG--CGACC
* * * * *
1937749 TATACATAACATGCGAACTCAAGGTACTATGC
1 TATATATAACATGCAAACCCTAGATACTATGC
1937781 TAGCTATACA
Statistics
Matches: 82, Mismatches: 22, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
36 26 0.32
37 1 0.01
38 55 0.67
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (36 bp):
TATATATAACATGCAAACCCTAGATACTATGCGACC
Found at i:1937725 original size:36 final size:36
Alignment explanation
Indices: 1937656--1937833 Score: 133
Period size: 36 Copynumber: 4.8 Consensus size: 36
1937646 CATGTGAACC
* * * *
1937656 CTAGATACTATGCGATCCTTATATATAACATGCAAACT
1 CTAGGTACTATGCGA-GC-TATACATATCATGCAAACT
* * *
1937694 CTAGGTACTGTGCGAGCTATAGATATCATGCAAACC
1 CTAGGTACTATGCGAGCTATACATATCATGCAAACT
* * * *
1937730 CTAGATATTATGC-ACGCCCTATACATAACATGCGAACT
1 CTAGGTACTATGCGA-G--CTATACATATCATGCAAACT
* * **
1937768 CAAGGTACTATGCTAGCTATACATATCATGTGAACT
1 CTAGGTACTATGCGAGCTATACATATCATGCAAACT
* * * *
1937804 CTAGGTACTATGTGAACCATAGATATCATG
1 CTAGGTACTATGCGAGCTATACATATCATG
1937834 TGAACCTTTA
Statistics
Matches: 112, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
35 1 0.01
36 69 0.62
37 1 0.01
38 40 0.36
39 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (36 bp):
CTAGGTACTATGCGAGCTATACATATCATGCAAACT
Found at i:1937742 original size:74 final size:74
Alignment explanation
Indices: 1937652--1937815 Score: 195
Period size: 74 Copynumber: 2.2 Consensus size: 74
1937642 AAAACATGTG
* * * * * *
1937652 AACCCTAGATACTATGCGA-TCCTTATATATAACATGCAAACTCTAGGTACTGTGCGAGCTATAG
1 AACCCTAGATACTATGC-ACGCCCTATACATAACATGCAAACTCAAGGTACTATGCGAGCTATAC
1937716 ATATCATGCA
65 ATATCATGCA
* * *
1937726 AACCCTAGATATTATGCACGCCCTATACATAACATGCGAACTCAAGGTACTATGCTAGCTATACA
1 AACCCTAGATACTATGCACGCCCTATACATAACATGCAAACTCAAGGTACTATGCGAGCTATACA
**
1937791 TATCATGTG
66 TATCATGCA
* *
1937800 AACTCTAGGTACTATG
1 AACCCTAGATACTATG
1937816 TGAACCATAG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
73 1 0.01
74 74 0.99
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (74 bp):
AACCCTAGATACTATGCACGCCCTATACATAACATGCAAACTCAAGGTACTATGCGAGCTATACA
TATCATGCA
Found at i:1937834 original size:18 final size:17
Alignment explanation
Indices: 1937790--1937840 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
1937780 CTAGCTATAC
1937790 ATATCATGTGAACTCTAG
1 ATATCATGTGAAC-CTAG
*
1937808 GTA-CTATGTGAACCATAG
1 ATATC-ATGTGAACC-TAG
1937826 ATATCATGTGAACCT
1 ATATCATGTGAACCT
1937841 TTAAAGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 3 0.11
18 24 0.86
19 1 0.04
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (17 bp):
ATATCATGTGAACCTAG
Found at i:1938149 original size:22 final size:22
Alignment explanation
Indices: 1938105--1938151 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1938095 ATTTTGCAAG
* * *
1938105 CCCTTAAGGAATGTTATGCGAA
1 CCCTTAAGGAACGCTAGGCGAA
*
1938127 CCCTTAAGGAACGCTAGGTGAA
1 CCCTTAAGGAACGCTAGGCGAA
1938149 CCC
1 CCC
1938152 CTCTTAGTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (22 bp):
CCCTTAAGGAACGCTAGGCGAA
Found at i:1938241 original size:23 final size:23
Alignment explanation
Indices: 1938188--1938247 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
1938178 GATGGTTATC
* * *
1938188 ATGCAAACCCATATGAATTAGTT
1 ATGCGAACCTATATGAATTACTT
1938211 ATGCGAACCTATATGAATTACTAT
1 ATGCGAACCTATATGAATTACT-T
1938235 ATG-GAACCT-TATG
1 ATGCGAACCTATATG
1938248 TGTGAACCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.12
23 25 0.76
24 4 0.12
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (23 bp):
ATGCGAACCTATATGAATTACTT
Found at i:1938267 original size:13 final size:12
Alignment explanation
Indices: 1938232--1938275 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
1938222 TATGAATTAC
1938232 TATATGGAACCT
1 TATATGGAACCT
*
1938244 TATGTGTGAACCT
1 TATATG-GAACCT
*
1938257 TATATGCGAACCC
1 TATATG-GAACCT
1938270 TATATG
1 TATATG
1938276 TGCAAGCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 5 0.19
13 22 0.81
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (12 bp):
TATATGGAACCT
Found at i:1938267 original size:26 final size:27
Alignment explanation
Indices: 1938232--1938286 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
1938222 TATGAATTAC
* *
1938232 TATATGGAACCTTATGTGTG-AA-CCT
1 TATATGGAACCCTATATGTGCAAGCCT
1938257 TATATGCGAACCCTATATGTGCAAGCCT
1 TATATG-GAACCCTATATGTGCAAGCCT
1938285 TA
1 TA
1938287 CAAGCAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.24
26 12 0.48
27 2 0.08
28 5 0.20
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (27 bp):
TATATGGAACCCTATATGTGCAAGCCT
Found at i:1938285 original size:28 final size:26
Alignment explanation
Indices: 1938232--1938303 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 26
1938222 TATGAATTAC
* *
1938232 TATATG-GAACCTTATGTGTGAACCT
1 TATATGCGAACCCTATATGTGAACCT
1938257 TATATGCGAACCCTATATGTGCAAGCCT
1 TATATGCGAACCCTATATGTG-AA-CCT
* * *
1938285 TACAAGCAAACCCTATATG
1 TATATGCGAACCCTATATG
1938304 CGAGCCCTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 6 0.15
26 12 0.31
27 2 0.05
28 19 0.49
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (26 bp):
TATATGCGAACCCTATATGTGAACCT
Found at i:1941235 original size:40 final size:41
Alignment explanation
Indices: 1941181--1941258 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
1941171 AAGTCCAATG
*
1941181 AATTGTGACATTAATTGTA-AATTCAATAATCCAATTGAGTA
1 AATTGTGACATTAATCGTACAA-TCAATAATCCAATTGAGTA
* * *
1941222 AATTGT-ATATTAATCGTACAATCATTTATCCAATTGA
1 AATTGTGACATTAATCGTACAATCAATAATCCAATTGA
1941259 ATTAGTCCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 24 0.75
41 8 0.25
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (41 bp):
AATTGTGACATTAATCGTACAATCAATAATCCAATTGAGTA
Found at i:1941339 original size:498 final size:497
Alignment explanation
Indices: 1940121--1941883 Score: 2156
Period size: 498 Copynumber: 3.6 Consensus size: 497
1940111 ACTTTAAAAA
* * * * * * *
1940121 ATTATAATGTATATGTATTTTTAAAAGTATTAATGAATTGTATATTCTTCTAATTATTAGCATAA
1 ATTATAGTGTGTAAGTATTTTTAAAAGTATTTATCAATTGTATATTCTTCTAATTACTAGGA-AA
* * * * *
1940186 TCAAAT-AATCTATGGCATTAATTGTATAACCAATAATCTAACTGAATAAATTGTATAATGT-AT
65 TCAAATGAAT-TGTGACATTAATTGTACAACCAATAATCCAATTGAATAAATTGTATAAT-TAAT
* * * * * *
1940249 CGTACAACCATTGAT-CAATTCAATCGGTTCATATAAACACAAAATTAAATATACATGTTTGAAA
128 CGTACAATCATTGATCCAATTGAATCAGTCCATATAAACACAACATTAAGTATACATGTTT-AAA
* * * * * *
1940313 TTCAATAACATATATCGAAATATATAAAAAGTTTGGACTATCAATGTTTAATTTTAAATATTTGA
192 TTCAATATCATATAT-GAAATATATAAAAACTTTGGACCACCTATGTTTAATTTCAAATATTTGA
* * * * *
1940378 TCAATTTAAGAGTATTTATCAATTATGCATTCCTCTAACTACAAACGCT-ATCGAATGCTTATGA
256 TTAATTTAAGAGTATTTATCAATTATGCATTCCTCTAACTACTAATG-TAATTGAATGATTATGA
* *
1940442 CATTGAACCAATTGAATCGGATCTATATATAAAATGTACTAACATTGTGGTGTACAAGTAATTTG
320 CATTGAACCAATTGAATTGGGTCTATATAT-AAATGTACTAACATTGTGGTGTACAAGTAATTTG
* * * * * * * **
1940507 AAGAGTATTGATTAATTGTACATTTCTCTAA-TACTAACGTAACTGATCATGAGTTATGACATTA
384 AAGAGTAATGATCACTTTTACATTTTTCTAATTTCTAATGTATTTGA--ATGAGTTATGACATTA
* *
1940571 GTTGTACACTCATTGATCTAATTGAACGAATCTATGTATGAAGGTGATGAC
447 ATTGTACACTCATTGATCTAATTGAATGAATCTATGTATGAAGGTGATGAC
* * *
1940622 ATTATA--GTGT--G------T--AAGTATTTACCAATTGCATATTCCTCTAATTACTAGGAAAT
1 ATTATAGTGTGTAAGTATTTTTAAAAGTATTTATCAATTGTATATTCTTCTAATTACTAGGAAA-
* * * * *
1940675 TCCAATGAATTGTGACATTAATTGTACATCCAATGATCCAATAGAATAAATTGTATAATTAGTCG
65 TCAAATGAATTGTGACATTAATTGTACAACCAATAATCCAATTGAATAAATTGTATAATTAATCG
* * * **
1940740 TACAAGT-ATTTATCCAAATGAATTAGTCCATATAAACTTAACATCT-AGTATACATGTTTAAAT
130 TACAA-TCATTGATCCAATTGAATCAGTCCATATAAACACAACAT-TAAGTATACATGTTTAAAT
* *
1940803 TCAATATCATGTAGTGAAATATATTAAAACTTTGGACCACCTATGTTTAATTTCAAATATTTGAT
193 TCAATATCATATA-TGAAATATATAAAAACTTTGGACCACCTATGTTTAATTTCAAATATTTGAT
*
1940868 TAATTTAAGAGTATTTATCAATTATGCATTCCTATAACTACTAATGTAATTGAATGATTATGACA
257 TAATTTAAGAGTATTTATCAATTATGCATTCCTCTAACTACTAATGTAATTGAATGATTATGACA
** * *
1940933 TTGAACCAATTGAATTGGGTCTATATATGGATATACTAACATTGTGGCGTACAAGTAATTTGAAG
322 TTGAACCAATTGAATTGGGTCTATATATAAATGTACTAACATTGTGGTGTACAAGTAATTTGAAG
*
1940998 AGTAAT-ATCACTTTTACATTTTTCTAATTTCTAATGTATTTGAATGAGTTATTACATTAATTGT
387 AGTAATGATCACTTTTACATTTTTCTAATTTCTAATGTATTTGAATGAGTTATGACATTAATTGT
*
1941062 ACACTCATTGATCTAATTGAATGAATCTATATATGAAGGTGATGAC
452 ACACTCATTGATCTAATTGAATGAATCTATGTATGAAGGTGATGAC
*
1941108 ATTACAGTGTGTAAGTATTTTTTAAAAGTATTTATCAATTGTATATTCTTCTAATTACTAGGAAA
1 ATTATAGTGTGTAAGTA-TTTTTAAAAGTATTTATCAATTGTATATTCTTCTAATTACTAGGAAA
* * *
1941173 GTCCAATGAATTGTGACATTAATTGTA-AATTCAATAATCCAATTGAGTAAATTGTAT-ATTAAT
65 -TCAAATGAATTGTGACATTAATTGTACAA-CCAATAATCCAATTGAATAAATTGTATAATTAAT
* * * **
1941236 CGTACAATCATTTATCCAATTGAATTAGTCCATGTAAACTTAACATCT-AGTATACATGTTTAAA
128 CGTACAATCATTGATCCAATTGAATCAGTCCATATAAACACAACAT-TAAGTATACATGTTTAAA
* * *
1941300 TTGAATATCATATAGTGAAATATA-ATAAAACTATGGACCACCTATGATTAATTTCAAATATTTG
192 TTCAATATCATATA-TGAAATATATA-AAAACTTTGGACCACCTATGTTTAATTTCAAATATTTG
* *
1941364 ATTAATTTAAGAGTATTTATCAATTATGCATTCCTCTAACCACTAATGTAATTGAATGATTACGA
255 ATTAATTTAAGAGTATTTATCAATTATGCATTCCTCTAACTACTAATGTAATTGAATGATTATGA
* *
1941429 AATTGAACCAATTGAATTGGGTCTATATACAAATGTACTAACATTGTGGTGTACAAGTAATTTGA
320 CATTGAACCAATTGAATTGGGTCTATATATAAATGTACTAACATTGTGGTGTACAAGTAATTTGA
* * * * * *
1941494 CGAGTAATGGTCACTTTTACATTTTTCTGATTTCTAATTTATTTGAATGAGTTATGACAATACTT
385 AGAGTAATGATCACTTTTACATTTTTCTAATTTCTAATGTATTTGAATGAGTTATGACATTAATT
* * * * *
1941559 GTACAATCGTTGATCGAATTGAATGAATCTATGTATGAAGGTAATAAC
450 GTACACTCATTGATCTAATTGAATGAATCTATGTATGAAGGTGATGAC
* ** *
1941607 ATTGTAGTGTAAAAGTATTTTTAAAAGT-TTTGATCAATTGTATATT-TCTCTAATTACTAGCGT
1 ATTATAGTGTGTAAGTATTTTTAAAAGTATTT-ATCAATTGTATATTCT-TCTAATTACTAG-GA
* * * * * *
1941670 AATCAAATAAATTGTGACATTAATTATACAATCATTGATCCAATTGAATAAATTGTACAATTAAT
63 AATCAAATGAATTGTGACATTAATTGTACAACCAATAATCCAATTGAATAAATTGTATAATTAAT
* * * *
1941735 CATATAATCATTGATCCAATTGAATCAGTCCATGTAAACACAACATTGAGTATACATGTTTAGAA
128 CGTACAATCATTGATCCAATTGAATCAGTCCATATAAACACAACATTAAGTATACATGTTTA-AA
* * *
1941800 TTCAATATCATATCATGAAATATATCAAAACTTTGGATCACTTATGTTTAATTTCAAATATTTGA
192 TTCAATATCATAT-ATGAAATATATAAAAACTTTGGACCACCTATGTTTAATTTCAAATATTTGA
1941865 TTAATTTAAGAGTATTTAT
256 TTAATTTAAGAGTATTTAT
1941884 ATGACACTTG
Statistics
Matches: 1101, Mismatches: 126, Indels: 71
0.85 0.10 0.05
Matches are distributed among these distances:
486 68 0.06
487 17 0.02
488 57 0.05
489 232 0.21
490 39 0.04
491 2 0.00
497 7 0.01
498 336 0.31
499 259 0.24
500 77 0.07
501 7 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (497 bp):
ATTATAGTGTGTAAGTATTTTTAAAAGTATTTATCAATTGTATATTCTTCTAATTACTAGGAAAT
CAAATGAATTGTGACATTAATTGTACAACCAATAATCCAATTGAATAAATTGTATAATTAATCGT
ACAATCATTGATCCAATTGAATCAGTCCATATAAACACAACATTAAGTATACATGTTTAAATTCA
ATATCATATATGAAATATATAAAAACTTTGGACCACCTATGTTTAATTTCAAATATTTGATTAAT
TTAAGAGTATTTATCAATTATGCATTCCTCTAACTACTAATGTAATTGAATGATTATGACATTGA
ACCAATTGAATTGGGTCTATATATAAATGTACTAACATTGTGGTGTACAAGTAATTTGAAGAGTA
ATGATCACTTTTACATTTTTCTAATTTCTAATGTATTTGAATGAGTTATGACATTAATTGTACAC
TCATTGATCTAATTGAATGAATCTATGTATGAAGGTGATGAC
Found at i:1941733 original size:41 final size:41
Alignment explanation
Indices: 1941675--1941759 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
1941665 AGCGTAATCA
*
1941675 AATAAATTGTGACATTAATTATACAATCATTGATCCAATTG
1 AATAAATTGTGACATTAATCATACAATCATTGATCCAATTG
*
1941716 AATAAATTGT-ACAATTAATCATATAATCATTGATCCAATTG
1 AATAAATTGTGAC-ATTAATCATACAATCATTGATCCAATTG
1941757 AAT
1 AAT
1941760 CAGTCCATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 2 0.05
41 39 0.95
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (41 bp):
AATAAATTGTGACATTAATCATACAATCATTGATCCAATTG
Found at i:1949370 original size:16 final size:16
Alignment explanation
Indices: 1949348--1949416 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
1949338 TTTGGTTCGC
1949348 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
1949364 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
1949380 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
1949397 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
1949413 TGTA
1 TGTA
1949417 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:1949394 original size:33 final size:32
Alignment explanation
Indices: 1949348--1949416 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
1949338 TTTGGTTCGC
1949348 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
1949380 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
1949413 TGTA
1 TGTA
1949417 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:1949481 original size:44 final size:45
Alignment explanation
Indices: 1949397--1949487 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
1949387 GGATTAGAGG
* * *
1949397 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
1949442 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
1949486 TG
1 TG
1949488 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:1949673 original size:18 final size:17
Alignment explanation
Indices: 1949652--1949686 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1949642 TTATTATTAA
*
1949652 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1949670 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1949687 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1949913 original size:18 final size:17
Alignment explanation
Indices: 1949892--1949926 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1949882 TTATTATTAA
*
1949892 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1949910 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1949927 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1950054 original size:120 final size:120
Alignment explanation
Indices: 1949635--1950033 Score: 773
Period size: 120 Copynumber: 3.3 Consensus size: 120
1949625 ATCATATTTA
1949635 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1949700 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
1949755 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1949820 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
1949875 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1949940 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
*
1949995 AACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATA
1950034 TTTTCAATTA
Statistics
Matches: 276, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
119 11 0.04
120 265 0.96
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:1958105 original size:11 final size:12
Alignment explanation
Indices: 1958073--1958105 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1958063 ATTTTTACAT
*
1958073 AAATTAGAATCA
1 AAATTAAAATCA
1958085 AAATTAAAATCA
1 AAATTAAAATCA
1958097 AAA-TAAAAT
1 AAATTAAAAT
1958106 TTCAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (12 bp):
AAATTAAAATCA
Found at i:1958890 original size:13 final size:15
Alignment explanation
Indices: 1958872--1958903 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
1958862 TTATTTTACC
1958872 AAAAAATT-ACA-AA
1 AAAAAATTAACATAA
1958885 AAAAAATTAACATAA
1 AAAAAATTAACATAA
1958900 AAAA
1 AAAA
1958904 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAAATTAACATAA
Found at i:1960873 original size:142 final size:142
Alignment explanation
Indices: 1960617--1960900 Score: 532
Period size: 142 Copynumber: 2.0 Consensus size: 142
1960607 ATGCCACATA
*
1960617 AGAAGACCAAATAAACAAGCCCAATTAGCTCCTCCCGCATGGATCAACCTATTTACCTATAAATT
1 AGAAGACCAAATAAACAAGCCCAATTAGCTCCTCCCGCATAGATCAACCTATTTACCTATAAATT
1960682 AAGAAGAATCCAGTCTTGAGTGGGAATTGAAAAAAAAATAGAAATATACTTACCTTGATTAACCT
66 AAGAAGAATCCAGTCTTGAGTGGGAATTGAAAAAAAAATAGAAATATACTTACCTTGATTAACCT
1960747 GAGCCCAAATAT
131 GAGCCCAAATAT
* *
1960759 AGAAGACCAAATAAACAAGCCCAATTAGCTCTTCCCGCATAGATCAACCTATTTACCTGTAAATT
1 AGAAGACCAAATAAACAAGCCCAATTAGCTCCTCCCGCATAGATCAACCTATTTACCTATAAATT
*
1960824 AAGAAGAATCCAGTCTTGAGTGGGAATTGAAAAAAAATTAGAAATATACTTACCTTGATTAACCT
66 AAGAAGAATCCAGTCTTGAGTGGGAATTGAAAAAAAAATAGAAATATACTTACCTTGATTAACCT
1960889 GAGCCCAAATAT
131 GAGCCCAAATAT
1960901 CCTTAGCAGC
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 138 1.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (142 bp):
AGAAGACCAAATAAACAAGCCCAATTAGCTCCTCCCGCATAGATCAACCTATTTACCTATAAATT
AAGAAGAATCCAGTCTTGAGTGGGAATTGAAAAAAAAATAGAAATATACTTACCTTGATTAACCT
GAGCCCAAATAT
Found at i:1969054 original size:11 final size:11
Alignment explanation
Indices: 1969038--1969072 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
1969028 TAGACTCAGA
1969038 TTATATTTATG
1 TTATATTTATG
1969049 TTATATTTATG
1 TTATATTTATG
*
1969060 TTGTATTTATG
1 TTATATTTATG
1969071 TT
1 TT
1969073 GTGTTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (11 bp):
TTATATTTATG
Found at i:1969702 original size:23 final size:23
Alignment explanation
Indices: 1969672--1969717 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1969662 TTACAAGGAA
1969672 GACAATAATTGGAGAGATTGTCT
1 GACAATAATTGGAGAGATTGTCT
1969695 GACAATAATTGGAGAGATTGTCT
1 GACAATAATTGGAGAGATTGTCT
1969718 CATTGTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (23 bp):
GACAATAATTGGAGAGATTGTCT
Found at i:1971490 original size:24 final size:23
Alignment explanation
Indices: 1971463--1971509 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1971453 TAGAAATAAG
*
1971463 CTATGAAAAAATTATAATATTTTT
1 CTAT-AAAAAAGTATAATATTTTT
* *
1971487 CTATAAATAAGTATATTATTTTT
1 CTATAAAAAAGTATAATATTTTT
1971510 TGGTCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
CTATAAAAAAGTATAATATTTTT
Found at i:1978748 original size:93 final size:93
Alignment explanation
Indices: 1978589--1978760 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
1978579 CGCCCATAAG
* * *
1978589 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1978654 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
1978682 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1978747 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
1978761 TCAACCATCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:1978757 original size:46 final size:46
Alignment explanation
Indices: 1978582--1978757 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
1978572 TGTAACCCGC
* * * *
1978582 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
1978628 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
1978678 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
1978721 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
1978758 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:1991874 original size:55 final size:55
Alignment explanation
Indices: 1991805--1991936 Score: 203
Period size: 55 Copynumber: 2.4 Consensus size: 55
1991795 GCCCTTATCT
* *
1991805 CGTGTGCAACACTGACTTTAAAACACGGCCATGGCATACGCCCGTGTGGCCTGCC
1 CGTGTACAACACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTGCC
*
1991860 CGTGTACAATACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTGCC
1 CGTGTACAACACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTGCC
* * *
1991915 TGTGTACAAGAATGAC-TTAAAA
1 CGTGTACAACACTGACTTTAAAA
1991937 TTTTAAGTGC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 6 0.08
55 65 0.92
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (55 bp):
CGTGTACAACACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTGCC
Found at i:1993861 original size:55 final size:55
Alignment explanation
Indices: 1993792--1993923 Score: 203
Period size: 55 Copynumber: 2.4 Consensus size: 55
1993782 GCCCTTATCT
* *
1993792 CGTGTGCAACACTGACTTTAAAACACGGCCATGGCATACGCCCGTGTGGCCTGCC
1 CGTGTACAACACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTGCC
*
1993847 CGTGTACAATACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTGCC
1 CGTGTACAACACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTGCC
* * *
1993902 TGTGTACAAGAATGAC-TTAAAA
1 CGTGTACAACACTGACTTTAAAA
1993924 TTTTAAGTGC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 6 0.08
55 65 0.92
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (55 bp):
CGTGTACAACACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTGCC
Found at i:1995502 original size:43 final size:43
Alignment explanation
Indices: 1995350--1995706 Score: 468
Period size: 43 Copynumber: 8.3 Consensus size: 43
1995340 CGTTTTTCAG
* *
1995350 AAAAAAGCGCCGTTAAAGACCAGGACCTTTAGCGGCGCTCTTAT
1 AAAAAA-CGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
* * * *
1995394 -AAAAACGCCGCCAACGACCAGGACCTTTAGCGGTGCTCTTAT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
* * *
1995436 -AAAAACGCCGCCAAAGACTAGGACCTTTAGCGGCGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
*
1995478 AAAAAACGCCGCTAAAAACCAGGACCTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
* * * * *
1995521 AAAAAACGCC-CTATAGACCTGTACTTTTAGCGGCGCTTTTAG
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
*
1995563 AAAAAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
*
1995606 AAAAAACACCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
* * * * * *
1995649 AAAAAACGCCGCTATAGACCTGTACTTTTAGCGGTGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
*
1995692 AAAAAATGCCGCTAA
1 AAAAAACGCCGCTAA
1995707 TTTGCCCAGT
Statistics
Matches: 275, Mismatches: 36, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
42 106 0.39
43 169 0.61
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
Found at i:1995509 original size:85 final size:86
Alignment explanation
Indices: 1995350--1995706 Score: 468
Period size: 85 Copynumber: 4.2 Consensus size: 86
1995340 CGTTTTTCAG
* * * *
1995350 AAAAAAGCGCCGTTAAAGACCAGGACCTTTAGCGGCGCTCTTAT-AAAAACGCCGCCAACGACCA
1 AAAAAA-CGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCA
* *
1995414 GGACCTTTAGCGGTGCTCTTAT
65 GGACCTTTAGCGGCGCTTTTAT
* * * *
1995436 -AAAAACGCCGCCAAAGACTAGGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAAACCAG
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAG
1995500 GACCTTTAGCGGCGCTTTTAT
66 GACCTTTAGCGGCGCTTTTAT
* * * * * *
1995521 AAAAAACGCC-CTATAGACCTGTACTTTTAGCGGCGCTTTTAGAAAAAACGCCGCTAAAGATCAG
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAG
1995585 GACCTTTAGCGGCGCTTTTAT
66 GACCTTTAGCGGCGCTTTTAT
* * *
1995606 AAAAAACACCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTG
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAG
* * * *
1995671 TACTTTTAGCGGTGCTTTTTT
66 GACCTTTAGCGGCGCTTTTAT
*
1995692 AAAAAATGCCGCTAA
1 AAAAAACGCCGCTAA
1995707 TTTGCCCAGT
Statistics
Matches: 233, Mismatches: 35, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
84 32 0.14
85 116 0.50
86 85 0.36
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (86 bp):
AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAG
GACCTTTAGCGGCGCTTTTAT
Found at i:1996033 original size:21 final size:21
Alignment explanation
Indices: 1996009--1996049 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
1995999 GTTCTGCTCC
*
1996009 GCCTCCCTCGCTGCTGCCTCT
1 GCCTCCCTCGCTGCTACCTCT
1996030 GCCTCCCTCGCTGCTACCTC
1 GCCTCCCTCGCTGCTACCTC
1996050 CGCTCTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.54, G:0.17, T:0.27
Consensus pattern (21 bp):
GCCTCCCTCGCTGCTACCTCT
Found at i:2006803 original size:41 final size:41
Alignment explanation
Indices: 2006746--2007132 Score: 494
Period size: 41 Copynumber: 9.5 Consensus size: 41
2006736 NNNNNNNNNN
*
2006746 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCC
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCA
*
2006787 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCG
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCA
***
2006828 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTATTG
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCA
* * *
2006869 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCATTTTATCG
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCA
*
2006910 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCC
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCA
* * *
2006951 AAA-CGCCGCTAATGATCTGGTTTTTAGTGGCGTTTTAGCA
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCA
* *
2006991 AAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTAACA
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCA
* * * **
2007032 AAAGTGCCGCTAATGCTCT-ATTTTTAGCGGTGTTTTAGTAA
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTA-CCA
* * ** * *
2007073 AAAACGCTGCTGTTGCTCT-GTTTTTAGCGGCGTTTTTCTTA
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAC-CA
*
2007114 AAA-CGCCGCTATTGCTCTG
1 AAAGCGCCGCTAATGCTCTG
2007133 TATTTTAAAA
Statistics
Matches: 310, Mismatches: 32, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
40 65 0.21
41 245 0.79
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (41 bp):
AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCA
Found at i:2007017 original size:163 final size:164
Alignment explanation
Indices: 2006746--2007108 Score: 534
Period size: 163 Copynumber: 2.2 Consensus size: 164
2006736 NNNNNNNNNN
*
2006746 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGTTT
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGTTT
* * ***
2006811 TTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTATTGAAAGCGC
66 TTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTAACAAAAGCGC
* **
2006876 CGCTAATGCTCTGGTTTTTAGCGGCATTTTA-TCG
131 CGCTAATGCTCT-ATTTTTAGCGGCATTTTAGTAA
2006910 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCCAAA-CGCCGCTAATGATCTGGTTT
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGTTT
* * *
2006974 TTAGTGGCGTTTTAGCAAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTAACAAAAGTGC
66 TTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTAACAAAAGCGC
**
2007039 CGCTAATGCTCTATTTTTAGCGGTGTTTTAGTAA
131 CGCTAATGCTCTATTTTTAGCGGCATTTTAGTAA
* * **
2007073 AAAACGCTGCTGTTGCTCT-GTTTTTAGCGGCGTTTT
1 AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTT
2007109 TCTTAAAACG
Statistics
Matches: 180, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
162 32 0.18
163 104 0.58
164 44 0.24
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (164 bp):
AAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGTTT
TTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTAACAAAAGCGC
CGCTAATGCTCTATTTTTAGCGGCATTTTAGTAA
Found at i:2007880 original size:46 final size:47
Alignment explanation
Indices: 2007774--2007895 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
2007764 TGTCTTCGAC
** * *
2007774 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
2007824 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
2007870 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
2007896 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:2010878 original size:25 final size:25
Alignment explanation
Indices: 2010850--2011061 Score: 91
Period size: 25 Copynumber: 8.6 Consensus size: 25
2010840 GGACACACGA
*
2010850 CAGCTCGTGTGAGCTTACTGATTTT
1 CAGCTCGTATGAGCTTACTGATTTT
* * **
2010875 CAGCTCATGA-GAGCTTA-TCAATACT
1 CAGCTCGT-ATGAGCTTACT-GATTTT
* * *
2010900 CAACTCGTATTAGCTTGCTG-TTATT
1 CAGCTCGTATGAGCTTACTGATT-TT
* * * * * *
2010925 TAGCTCGAAAGAGCTTGCCG-TTTA
1 CAGCTCGTATGAGCTTACTGATTTT
*
2010949 CAGCTCGTATGAGCTTACCGATTTT
1 CAGCTCGTATGAGCTTACTGATTTT
* **
2010974 CATCTCGTGA-GAGCTTA-TCGATACT
1 CAGCTCGT-ATGAGCTTACT-GATTTT
*
2010999 CAGCTCGTATGAGCTTAC-CATTATT
1 CAGCTCGTATGAGCTTACTGATT-TT
* * * *
2011024 TAGCTCGAAGGAGCTTA-TCATTTAT
1 CAGCTCGTATGAGCTTACTGATTT-T
2011049 -AGCTCGTATGAGC
1 CAGCTCGTATGAGC
2011062 ATACATGTAC
Statistics
Matches: 137, Mismatches: 37, Indels: 27
0.68 0.18 0.13
Matches are distributed among these distances:
24 35 0.26
25 100 0.73
26 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACTGATTTT
Found at i:2011010 original size:50 final size:50
Alignment explanation
Indices: 2010850--2011030 Score: 163
Period size: 50 Copynumber: 3.6 Consensus size: 50
2010840 GGACACACGA
* * * *
2010850 CAGCTCGTGTGAGCTTACTGATTTTCAGCTCATGAGAGCTTATCAATACT
1 CAGCTCGTATGAGCTTACCGATTTTCAGCTCGTGAGAGCTTATCGATACT
* * * * * ** ** *
2010900 CAACTCGTATTAGCTTGCTG-TTATTTAGCTCGAAAGAGCTTGCCG-T-TT
1 CAGCTCGTATGAGCTTACCGATT-TTCAGCTCGTGAGAGCTTATCGATACT
*
2010948 ACAGCTCGTATGAGCTTACCGATTTTCATCTCGTGAGAGCTTATCGATACT
1 -CAGCTCGTATGAGCTTACCGATTTTCAGCTCGTGAGAGCTTATCGATACT
*
2010999 CAGCTCGTATGAGCTTACC-ATTATTTAGCTCG
1 CAGCTCGTATGAGCTTACCGATT-TTCAGCTCG
2011031 AAGGAGCTTA
Statistics
Matches: 100, Mismatches: 25, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
48 1 0.01
49 38 0.38
50 60 0.60
51 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGATTTTCAGCTCGTGAGAGCTTATCGATACT
Found at i:2011023 original size:99 final size:99
Alignment explanation
Indices: 2010849--2011061 Score: 291
Period size: 99 Copynumber: 2.2 Consensus size: 99
2010839 CGGACACACG
* * *
2010849 ACAGCTCGTGTGAGCTTACTGATTTTCAGCTCATGAGAGCTTATCAATACTCAACTCGTATTAGC
1 ACAGCTCGTATGAGCTTACCGATTTTCAGCTCATGAGAGCTTATCAATACTCAACTCGTATGAGC
* ** * *
2010914 TTGCTGTTATTTAGCTCGAAAGAGCTTGCCGTTT
66 TTACCATTATTTAGCTCGAAAGAGCTTACCATTT
* * * *
2010948 ACAGCTCGTATGAGCTTACCGATTTTCATCTCGTGAGAGCTTATCGATACTCAGCTCGTATGAGC
1 ACAGCTCGTATGAGCTTACCGATTTTCAGCTCATGAGAGCTTATCAATACTCAACTCGTATGAGC
* *
2011013 TTACCATTATTTAGCTCGAAGGAGCTTATCATTT
66 TTACCATTATTTAGCTCGAAAGAGCTTACCATTT
*
2011047 ATAGCTCGTATGAGC
1 ACAGCTCGTATGAGC
2011062 ATACATGTAC
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (99 bp):
ACAGCTCGTATGAGCTTACCGATTTTCAGCTCATGAGAGCTTATCAATACTCAACTCGTATGAGC
TTACCATTATTTAGCTCGAAAGAGCTTACCATTT
Found at i:2015548 original size:45 final size:45
Alignment explanation
Indices: 2015499--2015590 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
2015489 AATTTGAGTT
*
2015499 ATATGCATTTAAGTTTATCCTCAGGTTTGGAAATAAATTTTGTGC
1 ATATGCATTTAAGTTTATCCTCAAGTTTGGAAATAAATTTTGTGC
*
2015544 ATATGCATTTAGGTTTATCCTCAAGTTTGGAAATAAATTTTGTGC
1 ATATGCATTTAAGTTTATCCTCAAGTTTGGAAATAAATTTTGTGC
2015589 AT
1 AT
2015591 TCACGGGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.42
Consensus pattern (45 bp):
ATATGCATTTAAGTTTATCCTCAAGTTTGGAAATAAATTTTGTGC
Found at i:2017764 original size:43 final size:43
Alignment explanation
Indices: 2017673--2017821 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
2017663 CAATGCCGTA
* * ** * *
2017673 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCGATAG
1 TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAAT-G
* *
2017717 -CCCAG-CTATGGTCTTACACGAAATCAAATAACGATGCTAATG
1 TCCCAGAC-ATGGTCTTACACGAAATCACATAACGATGCCAATG
* * *
2017759 TCCCAGACATGGTCTTACGC-ATAATCTCATAATGATGCCAATG
1 TCCCAGACATGGTCTTACACGA-AATCACATAACGATGCCAATG
*
2017802 TCCTAGACATGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
2017822 ATATTCACAT
Statistics
Matches: 86, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 2 0.02
43 83 0.97
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATG
Found at i:2032198 original size:68 final size:67
Alignment explanation
Indices: 2032126--2032275 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
2032116 CATCATGTGT
* * * *
2032126 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
2032188 ATGTAG
62 ATGTAG
** * *
2032194 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
2032259 AG
66 AG
2032261 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
2032276 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:2032231 original size:64 final size:64
Alignment explanation
Indices: 2032150--2032333 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
2032140 AGACATTATG
* *
2032150 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
2032214 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
2032279 AA
63 AA
* * * *
2032281 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
2032334 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:2036711 original size:26 final size:25
Alignment explanation
Indices: 2036651--2036712 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
2036641 GCTACCACCT
*
2036651 TTTTC-CTCCCCTCTCTTCCTTTCC
1 TTTTCTCTCCACTCTCTTCCTTTCC
2036675 TTTTCATTCTCCACT-TCTTCCTTTCCCC
1 TTTTC--TCTCCACTCTCTTCCTTT--CC
2036703 TTTTCTCTCC
1 TTTTCTCTCC
2036713 TCTCCATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
24 5 0.16
26 14 0.44
27 6 0.19
28 7 0.22
ACGTcount: A:0.03, C:0.45, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTTCTCTCCACTCTCTTCCTTTCC
Found at i:2047594 original size:648 final size:646
Alignment explanation
Indices: 2046358--2047658 Score: 2388
Period size: 648 Copynumber: 2.0 Consensus size: 646
2046348 TACCCATTCG
*
2046358 AATATATATATCATTAACATTTTACTCCATTACTAAGCCAAATTAATAAACCATTCTCAAATACA
1 AATATATATATCATTAACATTTTACTCCATTACTAAGCCAAATTAATAAACCATTCTCAAAGACA
*
2046423 AAACATACCATATATCAAACTTACCAAAAGTGAGCTAACCATAGGCTATTTGTGATACCTTAACA
66 AAACATACCATACATCAAACTTACCAAAAGTGAGCTAACCATAGGCTATTTGTGATACCTTAACA
2046488 AAGCACATCAACCAAGTTCACATAGATATATTTATCTATGCATGAACCAAAGCCGAATCAACCAA
131 AAGCACATCAACCAAGTTCACATAGATATATTTATCTATGCATGAACCAAAGCCGAATCAACCAA
*
2046553 ACACACATCCAAAATCACCAACCATTTTCAATGCATATAACACATATAAACTTGACTAGAATTTC
196 ACACACATCCAAAATCACCAACCATTTTCAATGCATATAACACATATAAACTTGACTAGAATTTA
2046618 ATATACTCACATATCATAATAGCCATTTTCGCATGGCTTAATATATACACAACTTCAAACTTAAC
261 ATATACTCACATATCATAATAGCCATTTTCGCATGGCTTAATATATACACAACTTCAAACTTAAC
*
2046683 CAAAATGACCTAGCCTATACATGCCATAGGTTCAAGTTCAAACTTATAAAATACCAAAAATAGTC
326 CAAAATGACCTAGCCTATACATGCCATAGGTTCAAGTTCAAACTTATAAAATACCAAAAACAGTC
*
2046748 GATAGTCTGATAGACTTTGCTAACGATCCCCGAGCTCGTAACTAATCTCCAAAAGCTATAAAACA
391 GATAGTCTGATAGACTTTGCTAACGATCCCCGAGCTCGTAACTAATCTCCAAAAGCTACAAAACA
2046813 AAGGAAAACATAAACACACATAGTAAGCTATCATAGCTTAATAAGTTATAAGCAAATAAATAACT
456 AAGGAAAACATAAACACACATAGTAAGCTATCATAGCTTAATAAGTTATAAGCAAATAAATAACT
2046878 CAATGTTAATATCAACTCAACCTAACCAAACTAATTTATGATATCATGGTAACATTTATTTTCAA
521 CAATGTTAATATCAACTCAACCTAACCAAACTAATTTATGATATCATGGTAACATTTATTTTCAA
*
2046943 GCTCATGATTTCATATACAACATGTAAC-TTCATTTAGCTGAATTTACATATATCCAATATC
586 GCTCACGATTTCATATACAACATGT-ACTTTCATTTAGCTGAATTTACATATATCCAATATC
* *
2047004 AATATATATATCATTATCATTTTACTCCATTACTAAGCCAAATTAATAAGCCATTCTCAAAGACA
1 AATATATATATCATTAACATTTTACTCCATTACTAAGCCAAATTAATAAACCATTCTCAAAGACA
*
2047069 AAACATACCATACATCAAACTTACCAAAATTGAGCTAACCATAGGCTATTTGTGATACCTTAACA
66 AAACATACCATACATCAAACTTACCAAAAGTGAGCTAACCATAGGCTATTTGTGATACCTTAACA
* *
2047134 AAGCACATCAACCAAGTTCACATATATATATTTATCTATGCATGAACCAAAGCTGAATCAACCAA
131 AAGCACATCAACCAAGTTCACATAGATATATTTATCTATGCATGAACCAAAGCCGAATCAACCAA
2047199 ACACACATCCAAAATCACCAACCATTTTCAATGCATATAACACATATAAACTTGACTAGAATTTA
196 ACACACATCCAAAATCACCAACCATTTTCAATGCATATAACACATATAAACTTGACTAGAATTTA
2047264 ATATACTCACATATCATAATAGCCATTTTTCGCATGGCTTAATATATACACAACTTCAAACTTAA
261 ATATACTCACATATCATAATAGCCA-TTTTCGCATGGCTTAATATATACACAACTTCAAACTTAA
*
2047329 CCAAATATGACCTAGCCTATACATGCCATAGGTTCAAGTTCAAACTTATAAAATACCCAAAACAG
325 CCAAA-ATGACCTAGCCTATACATGCCATAGGTTCAAGTTCAAACTTATAAAATACCAAAAACAG
* *
2047394 TCGATAGTGTGATAGACTTTGCTGACGATCCCCGAGCTCGTAACTAATCTCCAAAAGCTACAAAA
389 TCGATAGTCTGATAGACTTTGCTAACGATCCCCGAGCTCGTAACTAATCTCCAAAAGCTACAAAA
*
2047459 CAAAGGCAAACATAAACACACATAGTAAGCTATCATAGCTTAATAAGTTATAAGCAAATAAATAA
454 CAAAGGAAAACATAAACACACATAGTAAGCTATCATAGCTTAATAAGTTATAAGCAAATAAATAA
* * *
2047524 CTCGATGTTAATATCAACTCAACTTAACCAAACTAATTTATGCTATCATGGTAACATTTATTTTC
519 CTCAATGTTAATATCAACTCAACCTAACCAAACTAATTTATGATATCATGGTAACATTTATTTTC
*
2047589 AAGCTCACGATTTCATATACAACATGTACTTTCATTTAGCTGAATTTATATATATCCAATATC
584 AAGCTCACGATTTCATATACAACATGTACTTTCATTTAGCTGAATTTACATATATCCAATATC
*
2047652 AAAATAT
1 AATATAT
2047659 CATTTAATCT
Statistics
Matches: 632, Mismatches: 20, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
646 277 0.44
647 46 0.07
648 309 0.49
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (646 bp):
AATATATATATCATTAACATTTTACTCCATTACTAAGCCAAATTAATAAACCATTCTCAAAGACA
AAACATACCATACATCAAACTTACCAAAAGTGAGCTAACCATAGGCTATTTGTGATACCTTAACA
AAGCACATCAACCAAGTTCACATAGATATATTTATCTATGCATGAACCAAAGCCGAATCAACCAA
ACACACATCCAAAATCACCAACCATTTTCAATGCATATAACACATATAAACTTGACTAGAATTTA
ATATACTCACATATCATAATAGCCATTTTCGCATGGCTTAATATATACACAACTTCAAACTTAAC
CAAAATGACCTAGCCTATACATGCCATAGGTTCAAGTTCAAACTTATAAAATACCAAAAACAGTC
GATAGTCTGATAGACTTTGCTAACGATCCCCGAGCTCGTAACTAATCTCCAAAAGCTACAAAACA
AAGGAAAACATAAACACACATAGTAAGCTATCATAGCTTAATAAGTTATAAGCAAATAAATAACT
CAATGTTAATATCAACTCAACCTAACCAAACTAATTTATGATATCATGGTAACATTTATTTTCAA
GCTCACGATTTCATATACAACATGTACTTTCATTTAGCTGAATTTACATATATCCAATATC
Found at i:2050423 original size:18 final size:18
Alignment explanation
Indices: 2050384--2050425 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
2050374 AATAAATTGA
*
2050384 AAAATTAAATATTAAAAT
1 AAAATTAAATATTAAAAG
*
2050402 AAAATTAAA-ATTTAAGAG
1 AAAATTAAATA-TTAAAAG
2050420 AAAATT
1 AAAATT
2050426 CGGTCTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATTAAATATTAAAAG
Found at i:2051019 original size:17 final size:18
Alignment explanation
Indices: 2050992--2051027 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2050982 AATCAAATAT
2050992 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
2051010 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
2051027 A
1 A
2051028 AACAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:2054618 original size:28 final size:27
Alignment explanation
Indices: 2054528--2054612 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 27
2054518 TGACCCTGCT
* *
2054528 TGGACTATCTTCCAAGCAAGAGTTTGCA
1 TGGACTATCTTTCAAGTAAGAG-TTGCA
2054556 TGGACTATCTTTCAAGTAAGAGTTCGCA
1 TGGACTATCTTTCAAGTAAGAGTT-GCA
2054584 TGGACTATCATTT-AAGTAAGAGTCTGCA
1 TGGACTATC-TTTCAAGTAAGAGT-TGCA
2054612 T
1 T
2054613 AAACTAACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
27 2 0.04
28 46 0.88
29 4 0.08
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (27 bp):
TGGACTATCTTTCAAGTAAGAGTTGCA
Found at i:2054825 original size:28 final size:28
Alignment explanation
Indices: 2054771--2054832 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
2054761 GATTTGCCTT
* **
2054771 TATGAATCTGTAACTATGATTCAGCATG
1 TATGAATCTGTAACTACGAACCAGCATG
* *
2054799 TATGAATCTGTATCTACGAACCTGCATG
1 TATGAATCTGTAACTACGAACCAGCATG
2054827 TATGAA
1 TATGAA
2054833 ATCATTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (28 bp):
TATGAATCTGTAACTACGAACCAGCATG
Found at i:2056225 original size:16 final size:17
Alignment explanation
Indices: 2056199--2056234 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
2056189 TCAGAATCGG
2056199 ATTGAGAAAATTAATTA
1 ATTGAGAAAATTAATTA
2056216 ATTG-GAAAATTAATTA
1 ATTGAGAAAATTAATTA
2056232 ATT
1 ATT
2056235 TATGATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
ATTGAGAAAATTAATTA
Found at i:2061382 original size:11 final size:11
Alignment explanation
Indices: 2061366--2061392 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2061356 CTCGGATTAG
2061366 TATTTAAATCA
1 TATTTAAATCA
2061377 TATTTAAATCA
1 TATTTAAATCA
2061388 TATTT
1 TATTT
2061393 TGAGTGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (11 bp):
TATTTAAATCA
Found at i:2062608 original size:43 final size:43
Alignment explanation
Indices: 2062550--2062912 Score: 476
Period size: 43 Copynumber: 8.5 Consensus size: 43
2062540 AAACACCACA
* * *
2062550 AAAGATCAAGACTTTTAGCGGCGTTTGTGGGAAAAGCGTCGCT
1 AAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
2062593 AAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
1 AAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
*
2062636 AAAGGTCAAGGCTTTTAGCGGCATTTGTGGGAAAAGCGCCGCT
1 AAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* * ** *
2062679 AAAGGTCAAGGCTTTTAGTGGCTTTTGTGATAAAAGCGTCGCT
1 AAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
*
2062722 AAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCTGCT
1 AAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* *
2062765 AAAGGTCAAGGCTTTTAGCGGCATTTGTGGGAAAAGCGCCACT
1 AAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* ** ** * *
2062808 AAAGGTCAAGGCTTTTAGTGGATTTTGTGATAAAAGCGTCGTT
1 AAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* * * ** *
2062851 AAAGGTCAAAGCTTTTAGCGGTGTTAGTGATAAAAGCGCCGTT
1 AAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* *
2062894 AAAAGTCATGGC-TTTAGCG
1 AAAGGTCAAGGCTTTTAGCG
2062913 ACGCTTCCAC
Statistics
Matches: 285, Mismatches: 35, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
42 7 0.02
43 278 0.98
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (43 bp):
AAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
Found at i:2062785 original size:129 final size:129
Alignment explanation
Indices: 2062545--2062912 Score: 558
Period size: 129 Copynumber: 2.9 Consensus size: 129
2062535 GAAAAAAACA
* * * * * **
2062545 CCACAAAAGATCAAGACTTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCAAGGCTTTTA
1 CCACTAAAGGTCAAGGCTTTTAGTGGCTTTTGTGATAAAAGCGTCGCTAAAGGTCAAGGCTTTTA
2062610 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCATTTGTGGGAAAAGCG
66 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCATTTGTGGGAAAAGCG
*
2062674 CCGCTAAAGGTCAAGGCTTTTAGTGGCTTTTGTGATAAAAGCGTCGCTAAAGGTCAAGGCTTTTA
1 CCACTAAAGGTCAAGGCTTTTAGTGGCTTTTGTGATAAAAGCGTCGCTAAAGGTCAAGGCTTTTA
*
2062739 GCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCAAGGCTTTTAGCGGCATTTGTGGGAAAAGCG
66 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCATTTGTGGGAAAAGCG
* * *
2062803 CCACTAAAGGTCAAGGCTTTTAGTGGATTTTGTGATAAAAGCGTCGTTAAAGGTCAAAGCTTTTA
1 CCACTAAAGGTCAAGGCTTTTAGTGGCTTTTGTGATAAAAGCGTCGCTAAAGGTCAAGGCTTTTA
* * ** * * *
2062868 GCGGTGTTAGTGATAAAAGCGCCGTTAAAAGTCATGGC-TTTAGCG
66 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCG
2062913 ACGCTTCCAC
Statistics
Matches: 218, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
128 7 0.03
129 211 0.97
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (129 bp):
CCACTAAAGGTCAAGGCTTTTAGTGGCTTTTGTGATAAAAGCGTCGCTAAAGGTCAAGGCTTTTA
GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCATTTGTGGGAAAAGCG
Found at i:2063036 original size:31 final size:31
Alignment explanation
Indices: 2062987--2063072 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
2062977 AACCCTTCCT
* * *
2062987 GCATTAAATTCAACCAAAAACAGCAAATATA
1 GCATGAAATCCAACCAAAAACAACAAATATA
* *
2063018 GCATGAAATCCAATCAAAAACAACAAATGTA
1 GCATGAAATCCAACCAAAAACAACAAATATA
* *
2063049 GCATAAAAAATACAACCAAAAACA
1 GCAT--GAAATCCAACCAAAAACA
2063073 TTAAATCTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
31 30 0.67
33 15 0.33
ACGTcount: A:0.58, C:0.20, G:0.07, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAACAAATATA
Found at i:2063337 original size:21 final size:21
Alignment explanation
Indices: 2063312--2063382 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
2063302 GCTGTTACCT
2063312 CTGCCTCCCTCACTGCTGTCG
1 CTGCCTCCCTCACTGCTGTCG
** * *
2063333 CTGCCTCCCTCGTTGCTGCCA
1 CTGCCTCCCTCACTGCTGTCG
*
2063354 CTGCCTCCCTCACTGCTTTCG
1 CTGCCTCCCTCACTGCTGTCG
2063375 CTGCCTCC
1 CTGCCTCC
2063383 TTCTCGCTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.04, C:0.49, G:0.17, T:0.30
Consensus pattern (21 bp):
CTGCCTCCCTCACTGCTGTCG
Found at i:2063822 original size:13 final size:14
Alignment explanation
Indices: 2063796--2063824 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2063786 ACTAACGACG
2063796 AATTAAACCATTAT
1 AATTAAACCATTAT
2063810 AATTAAA-CATTAT
1 AATTAAACCATTAT
2063823 AA
1 AA
2063825 ATAATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:2066234 original size:35 final size:35
Alignment explanation
Indices: 2066192--2066262 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
2066182 ATTGAGCCCA
2066192 ACATTTCTACTTGATCTATTCAATCGTGTTTCAAC
1 ACATTTCTACTTGATCTATTCAATCGTGTTTCAAC
* *
2066227 ACATTTCTAGTTGGTCTATTCAATCGTGTTTCAAC
1 ACATTTCTACTTGATCTATTCAATCGTGTTTCAAC
2066262 A
1 A
2066263 TCTTCTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.42
Consensus pattern (35 bp):
ACATTTCTACTTGATCTATTCAATCGTGTTTCAAC
Found at i:2068362 original size:9 final size:9
Alignment explanation
Indices: 2068348--2068425 Score: 111
Period size: 9 Copynumber: 8.7 Consensus size: 9
2068338 TAAGTATAAT
2068348 TAAGTTATG
1 TAAGTTATG
*
2068357 TAAGTTCTG
1 TAAGTTATG
*
2068366 TAAATTATG
1 TAAGTTATG
*
2068375 TGAGTTATG
1 TAAGTTATG
*
2068384 TGAGTTATG
1 TAAGTTATG
2068393 TAAGTTATG
1 TAAGTTATG
2068402 TAAGTTATG
1 TAAGTTATG
*
2068411 TGAGTTATG
1 TAAGTTATG
2068420 TAAGTT
1 TAAGTT
2068426 CAAGTATATA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 61 1.00
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:2068716 original size:29 final size:29
Alignment explanation
Indices: 2068684--2068747 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
2068674 ACGATGTGGA
* *
2068684 AAATCACATGGAAAAAAATTATTTTAATT
1 AAATAACATGGAAAAAAATTATATTAATT
* ** *
2068713 AAATAATATTTATAAAAATTATATTAATT
1 AAATAACATGGAAAAAAATTATATTAATT
2068742 AAATAA
1 AAATAA
2068748 TATTTAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (29 bp):
AAATAACATGGAAAAAAATTATATTAATT
Found at i:2068748 original size:29 final size:28
Alignment explanation
Indices: 2068696--2068762 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 28
2068686 ATCACATGGA
*
2068696 AAAAAATTATTTTAATTAAATAATATTT
1 AAAAAATTATATTAATTAAATAATATTT
2068724 ATAAAAATTATATTAATTAAATAATATTT
1 A-AAAAATTATATTAATTAAATAATATTT
2068753 AAATAAATTA
1 AAA-AAATTA
2068763 ATCCAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 3 0.08
29 33 0.92
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAAAATTATATTAATTAAATAATATTT
Found at i:2068754 original size:15 final size:15
Alignment explanation
Indices: 2068706--2068760 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
2068696 AAAAAATTAT
2068706 TTTAATTAAATAATA
1 TTTAATTAAATAATA
2068721 TTT-A-TAAA-AATTA
1 TTTAATTAAATAA-TA
2068734 TATTAATTAAATAATA
1 T-TTAATTAAATAATA
*
2068750 TTTAAATAAAT
1 TTTAATTAAAT
2068761 TAATCCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 7 0.21
14 3 0.09
15 13 0.38
16 7 0.21
17 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:2068774 original size:39 final size:39
Alignment explanation
Indices: 2068728--2068861 Score: 259
Period size: 39 Copynumber: 3.4 Consensus size: 39
2068718 ATATTTATAA
2068728 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
*
2068767 AAATTATACTAATTAAATAATATTTAAATAAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
2068806 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
2068845 AAATTATATTAATTAAA
1 AAATTATATTAATTAAA
2068862 ATAAGATTGA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (39 bp):
AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
Found at i:2068782 original size:19 final size:19
Alignment explanation
Indices: 2068758--2068860 Score: 65
Period size: 19 Copynumber: 5.3 Consensus size: 19
2068748 TATTTAAATA
*
2068758 AATTAATCCAAATTATACT
1 AATTAATCCAAATTATAAT
2068777 AATTAAAT--AATATT-TAAAT
1 AATT-AATCCAA-ATTAT-AAT
*
2068796 AAATTAATCCAAATTATATT
1 -AATTAATCCAAATTATAAT
2068816 AATTAAAT--AATATT-TAAAT
1 AATT-AATCCAA-ATTAT-AAT
*
2068835 AAATTAATCCAAATTATATT
1 -AATTAATCCAAATTATAAT
2068855 AATTAA
1 AATTAA
2068861 AATAAGATTG
Statistics
Matches: 66, Mismatches: 4, Indels: 28
0.67 0.04 0.29
Matches are distributed among these distances:
18 6 0.09
19 30 0.45
20 24 0.36
21 6 0.09
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTAATCCAAATTATAAT
Found at i:2068816 original size:15 final size:14
Alignment explanation
Indices: 2068699--2068857 Score: 63
Period size: 14 Copynumber: 11.9 Consensus size: 14
2068689 ACATGGAAAA
* *
2068699 AAATTATTTTAATT
1 AAATTATATTAATC
* * *
2068713 AAATAATATTTATAA
1 AAATTATATTAAT-C
*
2068728 AAATTATATTAATT
1 AAATTATATTAATC
*
2068742 AAATAATATT--T-
1 AAATTATATTAATC
*
2068753 AAA-TAAATTAATCC
1 AAATTATATTAAT-C
* *
2068767 AAATTATACTAATT
1 AAATTATATTAATC
*
2068781 AAATAATATT--T-
1 AAATTATATTAATC
*
2068792 AAA-TAAATTAATCC
1 AAATTATATTAAT-C
*
2068806 AAATTATATTAATT
1 AAATTATATTAATC
*
2068820 AAATAATATT--T-
1 AAATTATATTAATC
*
2068831 AAA-TAAATTAATCC
1 AAATTATATTAAT-C
2068845 AAATTATATTAAT
1 AAATTATATTAAT
2068858 TAAAATAAGA
Statistics
Matches: 106, Mismatches: 23, Indels: 31
0.66 0.14 0.19
Matches are distributed among these distances:
10 12 0.11
11 9 0.08
12 6 0.06
14 45 0.42
15 34 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATTATATTAATC
Found at i:2068861 original size:24 final size:24
Alignment explanation
Indices: 2068729--2068861 Score: 65
Period size: 24 Copynumber: 5.3 Consensus size: 24
2068719 TATTTATAAA
* *
2068729 AATTATATTAATTAAATAATATTT
1 AATTAAATTAATCAAATAATATTT
* * *
2068753 AAATAAATTAATCCAAATTATA-CT
1 AATTAAATTAAT-CAAATAATATTT
* *
2068777 AATTAAATAATATTTAAATAA-ATTAAT
1 AATTAAAT--TAATCAAATAATATT--T
* *
2068804 CCAAATTATATTAATTAAATAATATTT
1 ---AATTAAATTAATCAAATAATATTT
* *
2068831 AAATAAATTAATCCAAATTATA-TT
1 AATTAAATTAAT-CAAATAATATTT
2068855 AATTAAA
1 AATTAAA
2068862 ATAAGATTGA
Statistics
Matches: 81, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
24 37 0.46
25 19 0.23
26 3 0.04
27 2 0.02
28 10 0.12
29 3 0.04
30 7 0.09
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (24 bp):
AATTAAATTAATCAAATAATATTT
Found at i:2068863 original size:15 final size:15
Alignment explanation
Indices: 2068698--2068744 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
2068688 CACATGGAAA
*
2068698 AAAATTATTTTAATT
1 AAAATTATATTAATT
* * *
2068713 -AAATAATATTTATA
1 AAAATTATATTAATT
2068727 AAAATTATATTAATT
1 AAAATTATATTAATT
2068742 AAA
1 AAA
2068745 TAATATTTAA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAATTATATTAATT
Found at i:2069797 original size:67 final size:67
Alignment explanation
Indices: 2069688--2069825 Score: 267
Period size: 67 Copynumber: 2.1 Consensus size: 67
2069678 CATACACCTG
*
2069688 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAATGGCTAATCTTAGTTGTCTATGTGGTTT
1 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAACGGCTAATCTTAGTTGTCTATGTGGTTT
2069753 GC
66 GC
2069755 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAACGGCTAATCTTAGTTGTCTATGTGGTTT
1 CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAACGGCTAATCTTAGTTGTCTATGTGGTTT
2069820 GC
66 GC
2069822 CATT
1 CATT
2069826 ATAAATTGAG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.40
Consensus pattern (67 bp):
CATTTTATGATGTAAAGCATGCTAGTTGCTACTCCAACGGCTAATCTTAGTTGTCTATGTGGTTT
GC
Found at i:2072817 original size:26 final size:26
Alignment explanation
Indices: 2072788--2072841 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
2072778 AAGAATTAGA
2072788 TAAAATTTGAAATATTGAAAATTATT
1 TAAAATTTGAAATATTGAAAATTATT
*
2072814 TAAAATTTGAAATCTTGAAAATTATT
1 TAAAATTTGAAATATTGAAAATTATT
2072840 TA
1 TA
2072842 GAAGTTTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (26 bp):
TAAAATTTGAAATATTGAAAATTATT
Found at i:2074754 original size:62 final size:63
Alignment explanation
Indices: 2074633--2074756 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 63
2074623 AATACCTAGA
*
2074633 AAAGAATCCACCTAGACTTCACCTATTAATTCTAAATCTGAATTAAACGATTTATTCACTTGT
1 AAAGAATCCACCTAGACTTCACCTACTAATTCTAAATCTGAATTAAACGATTTATTCACTTGT
* * *
2074696 AAAGAATCCACCTAGACTTCACCTACT-GTTCTGAATCTGAATTAAATGATTTATTCACTTG
1 AAAGAATCCACCTAGACTTCACCTACTAATTCTAAATCTGAATTAAACGATTTATTCACTTG
2074757 CGTCTTGATC
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
62 31 0.54
63 26 0.46
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (63 bp):
AAAGAATCCACCTAGACTTCACCTACTAATTCTAAATCTGAATTAAACGATTTATTCACTTGT
Found at i:2077244 original size:6 final size:6
Alignment explanation
Indices: 2077226--2077279 Score: 76
Period size: 6 Copynumber: 9.3 Consensus size: 6
2077216 GAAATCTAAG
* *
2077226 AAAATA ACAATA AACATA AAAATA AAAATA AAAATA AAAAT- AAAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
2077272 AAAATA AA
1 AAAATA AA
2077280 TAGACTCAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 10 0.23
6 33 0.77
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:2079472 original size:42 final size:42
Alignment explanation
Indices: 2079411--2079540 Score: 206
Period size: 42 Copynumber: 3.1 Consensus size: 42
2079401 TCTCGATATA
* * *
2079411 ATATATATCCGGGTTAAATCCTGCAGGCTTCGTTCTGGTAAT
1 ATATATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAAT
*
2079453 ATATATATCTGGGTCAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
2079495 ATATATATCCGGGTCAAATCCCGCAGGCTTAGTGCTGGTACT
1 ATATATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAAT
2079537 ATAT
1 ATAT
2079541 CCGGACTTAG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
ATATATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:2081902 original size:18 final size:17
Alignment explanation
Indices: 2081845--2081903 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
2081835 TATATATAAC
*
2081845 TAAGAATAAAAATAACAA
1 TAAGAAT-AATATAACAA
2081863 TAAG--TAATA-AACAAA
1 TAAGAATAATATAAC-AA
2081878 TAA-AATAATATAACTAA
1 TAAGAATAATATAAC-AA
2081895 TAAGAATAA
1 TAAGAATAA
2081904 AAAATAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 3 0.09
15 8 0.24
16 6 0.18
17 8 0.24
18 9 0.26
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (17 bp):
TAAGAATAATATAACAA
Found at i:2081907 original size:25 final size:25
Alignment explanation
Indices: 2081845--2081912 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
2081835 TATATATAAC
* *
2081845 TAAGAAT-AAAAATAACAATAAGTAA
1 TAAGAATAAAAAATAA-TATAACTAA
2081870 TAA-ACA-AATAAAATAATATAACTAA
1 TAAGA-ATAA-AAAATAATATAACTAA
2081895 TAAGAATAAAAAATAATA
1 TAAGAATAAAAAATAATA
2081913 ATAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
24 1 0.03
25 25 0.69
26 10 0.28
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (25 bp):
TAAGAATAAAAAATAATATAACTAA
Found at i:2085157 original size:40 final size:40
Alignment explanation
Indices: 2085102--2085363 Score: 456
Period size: 40 Copynumber: 6.6 Consensus size: 40
2085092 TATTCGGATG
2085102 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
2085142 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
2085182 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
2085222 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
2085262 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
2085302 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
2085342 ATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
2085364 TACTTGGTTT
Statistics
Matches: 216, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
39 17 0.08
40 199 0.92
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Done.