Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9057482
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 37
Found at i:1977073 original size:23 final size:23
Alignment explanation
Indices: 1977038--1977117 Score: 106
Period size: 23 Copynumber: 3.5 Consensus size: 23
1977028 ATTAAGTACA
* *
1977038 ATAAAATATTATGTAGCGTTTAT
1 ATAATATAATATGTAGCGTTTAT
* *
1977061 ATAATGTAATATGTAGCGCTTAT
1 ATAATATAATATGTAGCGTTTAT
*
1977084 ATAATATAATATGTAGTGTTTAT
1 ATAATATAATATGTAGCGTTTAT
*
1977107 ATAATAAAATA
1 ATAATATAATA
1977118 GGCATTTAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.41
Consensus pattern (23 bp):
ATAATATAATATGTAGCGTTTAT
Found at i:1977191 original size:110 final size:110
Alignment explanation
Indices: 1976993--1977195 Score: 284
Period size: 110 Copynumber: 1.8 Consensus size: 110
1976983 TAGGTAGCGC
* * * * * **
1976993 TTATATAATAAAATAGGTATTTAATTAGAAATATTATTAAGTACAATAAAATATTATGTAGCGTT
1 TTATATAATAAAATAGGCATTTAATGAGAAATATTATCAAGTACAATAAAATATTAGGTAACACT
* *
1977058 TATATAATGTAATATGTAGCGCTTATATAATATAATATGTAGTGT
66 TATATAATGTAATAAGTAACGCTTATATAATATAATATGTAGTGT
*
1977103 TTATATAATAAAATAGGCATTTAACTGA-AAATATTATCAAGTACAATAACATATTAGGTAACAC
1 TTATATAATAAAATAGGCATTTAA-TGAGAAATATTATCAAGTACAATAAAATATTAGGTAACAC
1977167 TTATATAATGTAA-AAGATAACGCTTATAT
65 TTATATAATGTAATAAG-TAACGCTTATAT
1977196 TTACATATTT
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
109 2 0.02
110 77 0.95
111 2 0.02
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.37
Consensus pattern (110 bp):
TTATATAATAAAATAGGCATTTAATGAGAAATATTATCAAGTACAATAAAATATTAGGTAACACT
TATATAATGTAATAAGTAACGCTTATATAATATAATATGTAGTGT
Found at i:1977646 original size:200 final size:197
Alignment explanation
Indices: 1977219--1977712 Score: 573
Period size: 200 Copynumber: 2.5 Consensus size: 197
1977209 AGCTAAACAT
* * * * *
1977219 GTATATTTATACCGATAACATTGTAAAATTATTTATTACATTATAATTATCAGTTTCGATGTTTT
1 GTATATTTATACAG-TTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * *
1977284 TGGGATCAATACAATTT--TAAATGTATTGACACTTTATGTGTGCACCTCATTGGGCATTCATTC
65 T-GGATCGATAC-TTTTAATAAATGTATCGACACTTTATGTGTGCACCTCATTGGACATTCATTC
** * * *
1977347 TGAAAAAAAGTATCGACACAAACTTAAAACTTGTCGATACATTATGTAGACCTATTTTCTCATAA
128 TGAAAAAAAGTATCGACACAAACTTAAAACTTGTCGATACAAAATGTAGACATATTCTATCATAA
*
1977412 AAACT
193 AAACG
* * * * *
1977417 GTATATTTCTACTGGGTACATTGTAAATTTATCTATTACATTGTAATTATCGGTTTCGATGTTGT
1 GTATATTTATAC-AGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCGATGTTTT
* *
1977482 TGTGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGACATTCATTCT
65 TG-GATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCATTGGACATTCATTCT
* * * *** * *
1977547 AGACAAAATGTATTGACAC-TTTTTAAAATTGTGTCGATACAAAATGTTGACATATTCTATCATA
129 -GAAAAAAAGTATCGACACAAACTTAAAACT-TGTCGATACAAAATGTAGACATATTCTATCATA
*
1977611 AAACCG
192 AAAACG
* *
1977617 GTATATTTATATCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGATGTTTT
1 GTATATTTATA-CAGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCGATGTTTT
1977682 TGGAGTCGATACTTTTAGA-AAATGTATCGAC
65 TGGA-TCGATACTTTTA-ATAAATGTATCGAC
1977713 GCATATGTTT
Statistics
Matches: 250, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
197 4 0.02
198 63 0.25
199 53 0.21
200 128 0.51
201 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (197 bp):
GTATATTTATACAGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCGATGTTTTT
GGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCATTGGACATTCATTCTGA
AAAAAAGTATCGACACAAACTTAAAACTTGTCGATACAAAATGTAGACATATTCTATCATAAAAA
CG
Found at i:1978233 original size:125 final size:125
Alignment explanation
Indices: 1978077--1978403 Score: 449
Period size: 125 Copynumber: 2.6 Consensus size: 125
1978067 TTTTACCGGG
* *
1978077 TTTACCGGTTTTGTTAAGAAACCCGGTAAAATGCCAAAATAATAACAAAACCGGTAAAAATAATG
1 TTTACCGATTTTGTTAAGAAACCCGGTAAAATGCCAAAATAATAACAAAACCGGTAGAAATAATG
** *
1978142 ATGTTTTTGATAATTTTTACCGGTTTTGTTATGCACAACAATAACAAAACC-GATAGCGTT
66 ATGTTTTTGATAATTTTTACCGGTTTTACTATGCACAACAATAACAAAACCAG-TAGCGCT
* * * * **
1978202 TTTACCGATTTTGTTAATAAACCCGATAAAATACCAAAATAATAATAAAACTTGTAGAAATAATG
1 TTTACCGATTTTGTTAAGAAACCCGGTAAAATGCCAAAATAATAACAAAACCGGTAGAAATAATG
* *
1978267 ATGTTTTCGGTAATTTTTACCGGTTTTACTATGCACAACAATAACAAAACCAGTAGCGCT
66 ATGTTTTTGATAATTTTTACCGGTTTTACTATGCACAACAATAACAAAACCAGTAGCGCT
* * ** * * *
1978327 TTTATCAATTTAATTAAGAAACTCGGTAAAATGCCAAAATAATAACAAAACCGATAGAAATAATA
1 TTTACCGATTTTGTTAAGAAACCCGGTAAAATGCCAAAATAATAACAAAACCGGTAGAAATAATG
*
1978392 ATTTTTTTGATA
66 ATGTTTTTGATA
1978404 CAAAATCGAT
Statistics
Matches: 172, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
125 171 0.99
126 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (125 bp):
TTTACCGATTTTGTTAAGAAACCCGGTAAAATGCCAAAATAATAACAAAACCGGTAGAAATAATG
ATGTTTTTGATAATTTTTACCGGTTTTACTATGCACAACAATAACAAAACCAGTAGCGCT
Found at i:1979735 original size:100 final size:100
Alignment explanation
Indices: 1979561--1979763 Score: 255
Period size: 100 Copynumber: 2.0 Consensus size: 100
1979551 AATAATTCGC
* * * *
1979561 AATTGTCATCATCACTATACATTTACAAAAATTAACCTTTTTAGTCACCAAATGTTAAAATTACT
1 AATTGTCATCATCACTATACACTTACAAAAATTAACCTTTTTAGTAACCAAATGTCAAAATTACA
* *
1979626 TATCCATACTTCAATTCATCGATGTAACAACTTGT
66 TATCCATACTTCAATCCATCAATGTAACAACTTGT
* * * *
1979661 AATTGTCATCAAT-ACTATGCACTTACACATATTAACCTTTTTAGTAATCAAATGTCAAAATTAC
1 AATTGTCATC-ATCACTATACACTTACAAAAATTAACCTTTTTAGTAACCAAATGTCAAAATTAC
** * * *
1979725 ATATTTATACTTCCATCCATCAATTTAACAATTTGT
65 ATATCCATACTTCAATCCATCAATGTAACAACTTGT
1979761 AAT
1 AAT
1979764 AGCAAGAACT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
100 85 0.98
101 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.38
Consensus pattern (100 bp):
AATTGTCATCATCACTATACACTTACAAAAATTAACCTTTTTAGTAACCAAATGTCAAAATTACA
TATCCATACTTCAATCCATCAATGTAACAACTTGT
Found at i:1983652 original size:49 final size:49
Alignment explanation
Indices: 1983580--1983721 Score: 266
Period size: 49 Copynumber: 2.9 Consensus size: 49
1983570 TACTAGCTAC
*
1983580 GATATTGAATTTAGTTTAAGCACATGATACGTAGTCAAGATAGGGCTGT
1 GATATTGTATTTAGTTTAAGCACATGATACGTAGTCAAGATAGGGCTGT
1983629 GATATTGTATTTAGTTTAAGCACATGATACGTAGTCAAGATAGGGCTGT
1 GATATTGTATTTAGTTTAAGCACATGATACGTAGTCAAGATAGGGCTGT
*
1983678 GATATTGTATTTAGTTTAAGCACATGATACCTAGTCAAGATAGG
1 GATATTGTATTTAGTTTAAGCACATGATACGTAGTCAAGATAGG
1983722 AATATTCAAC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 91 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (49 bp):
GATATTGTATTTAGTTTAAGCACATGATACGTAGTCAAGATAGGGCTGT
Found at i:1985765 original size:15 final size:15
Alignment explanation
Indices: 1985747--1985822 Score: 134
Period size: 15 Copynumber: 5.1 Consensus size: 15
1985737 AAAGCTGATA
1985747 TCTCTTACTATCAAT
1 TCTCTTACTATCAAT
*
1985762 TCTCTTGCTATCAAT
1 TCTCTTACTATCAAT
1985777 TCTCTTACTATCAAT
1 TCTCTTACTATCAAT
*
1985792 TCTCTTGCTATCAAT
1 TCTCTTACTATCAAT
1985807 TCTCTTACTATCAAT
1 TCTCTTACTATCAAT
1985822 T
1 T
1985823 TATAGTGGTC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 57 1.00
ACGTcount: A:0.24, C:0.26, G:0.03, T:0.47
Consensus pattern (15 bp):
TCTCTTACTATCAAT
Found at i:1985783 original size:30 final size:30
Alignment explanation
Indices: 1985747--1985822 Score: 152
Period size: 30 Copynumber: 2.5 Consensus size: 30
1985737 AAAGCTGATA
1985747 TCTCTTACTATCAATTCTCTTGCTATCAAT
1 TCTCTTACTATCAATTCTCTTGCTATCAAT
1985777 TCTCTTACTATCAATTCTCTTGCTATCAAT
1 TCTCTTACTATCAATTCTCTTGCTATCAAT
1985807 TCTCTTACTATCAATT
1 TCTCTTACTATCAATT
1985823 TATAGTGGTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.24, C:0.26, G:0.03, T:0.47
Consensus pattern (30 bp):
TCTCTTACTATCAATTCTCTTGCTATCAAT
Found at i:1993229 original size:53 final size:53
Alignment explanation
Indices: 1993145--1993245 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 53
1993135 CCAGATTGTA
* *
1993145 AGATATTCTATTTACAAAAGACTGTAATGTCTCTTATCGTCATCCTAGCTCAT
1 AGATATTCTATTTACAAAAGACTGTAATGTCTATTATCATCATCCTAGCTCAT
* * *
1993198 AGATATTCTATTTACTACAGACTGTACTGTCTATTATCATCATCCTAG
1 AGATATTCTATTTACAAAAGACTGTAATGTCTATTATCATCATCCTAG
1993246 GTGGTGCAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.39
Consensus pattern (53 bp):
AGATATTCTATTTACAAAAGACTGTAATGTCTATTATCATCATCCTAGCTCAT
Found at i:2000262 original size:31 final size:31
Alignment explanation
Indices: 2000227--2000288 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
2000217 ATATAGTCCT
** *
2000227 TATACTATATTTT-TTTGTGAAATTAAGTCTC
1 TATACTAT-TTTTATTTGAAAAACTAAGTCTC
2000258 TATACTATTTTTATTTGAAAAACTAAGTCTC
1 TATACTATTTTTATTTGAAAAACTAAGTCTC
2000289 CCCAACTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.48
Consensus pattern (31 bp):
TATACTATTTTTATTTGAAAAACTAAGTCTC
Found at i:2004137 original size:74 final size:73
Alignment explanation
Indices: 2003984--2004456 Score: 630
Period size: 74 Copynumber: 6.5 Consensus size: 73
2003974 TATGACTCAT
* * *
2003984 AAATAGGCGATACCTATTACATTAAAATACATACCGGTTTTTTTAAGGTTGCTAATAATGTAAAC
1 AAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTAAAGTTGCTAATAATGTAAAC
2004049 GGTAAAAA
66 GGTAAAAA
* * * * *
2004057 AAATAGGTGCTACCTATTACATTAAACTACCTACCGGTTTTTTTGAAGGATGCTAATAATATAAA
1 AAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTT-AAAGTTGCTAATAATGTAAA
2004122 CGGTAAAAA
65 CGGTAAAAA
* * * ** * ** *
2004131 AAATAGGTGCTACCTATTATATTAAAATAACTACTAGTTTGTTTAAAGATTATTAATAATGTCAA
1 AAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTAAAG-TTGCTAATAATGTAAA
2004196 CGGTAAAATA
65 CGGTAAAA-A
* * *
2004206 AAATAAGCGGTACCTATTACATTAAAATAGCTACC-GTTTTTATTAAAGTTGCTAATAATGTAAA
1 AAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTT-TTAAAGTTGCTAATAATGTAAA
*
2004270 CTGT-AAAA
65 CGGTAAAAA
* * * *
2004278 AAATAGGCGTTACCTATTACATTAAAATAGCTACCGG-TTTTTTAAAGTTGCTAATAATATAAAT
1 AAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTAAAGTTGCTAATAATGTAAAC
2004342 GGT-AAAA
66 GGTAAAAA
* *
2004349 AAATAGGCGCTACCTAATACATTAAAATACCTACCGGTTTTTTTAAGGTTGCTAATAATGTAAAC
1 AAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTAAAGTTGCTAATAATGTAAAC
2004414 GGTAAAAA
66 GGTAAAAA
*
2004422 AAATAGGCGCTACCTATTACATTAAACTACCTACC
1 AAATAGGCGCTACCTATTACATTAAAATACCTACC
2004457 AGATATGTTG
Statistics
Matches: 351, Mismatches: 42, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
71 61 0.17
72 65 0.19
73 84 0.24
74 105 0.30
75 36 0.10
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (73 bp):
AAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTAAAGTTGCTAATAATGTAAAC
GGTAAAAA
Found at i:2005127 original size:111 final size:112
Alignment explanation
Indices: 2004538--2005107 Score: 901
Period size: 112 Copynumber: 5.1 Consensus size: 112
2004528 TAGCGCCTAT
* **
2004538 AAAGTATCGATACTTTAAAAAAATGTATTAATACATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAA
* * * * *
2004603 ACCAGTTTCAATATGATAAAATCGGTAAAGAGCTACCGAATATGTTA
66 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
* *
2004650 AAAGTATCGATACTTTATAAAAATGTATCTATACATAACAATATAACATGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAA
* * * *
2004715 ACCAGTCTCATTATGACAAAACTGGTAAAGAGTTACCGGATATGTTA
66 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
*
2004762 AAAGTATCGATATTTTATAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAA
2004827 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
66 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
* * *
2004874 AAAATATCGATACTTTATAAAAATGTATCAATACATAACAATATAATA-GTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAA
* * *
2004938 ATCAATTTCATTATGACAAAACCAGTAAAGAGCTACCAGATATGTTA
66 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
*
2004985 AAAGTATCGATACTTTATAAAAATGTATCGATGCATAACAATATAACA-GTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAA
* * *
2005049 ATCAGTTTCATTATGACAAAACCAGTAAAGAGTTACCGGATATGTTG
66 ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
2005096 AAAGTATCGATA
1 AAAGTATCGATA
2005108 TTTTTTGTAC
Statistics
Matches: 425, Mismatches: 33, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
111 175 0.41
112 250 0.59
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (112 bp):
AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAA
ATCAGTTTCATTATGACAAAACCGGTAAAGAGCTACCGGATATGTTA
Found at i:2010597 original size:2 final size:2
Alignment explanation
Indices: 2010590--2010628 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2010580 GAAAAAGGAA
2010590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2010629 CATCAAAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2010686 original size:38 final size:40
Alignment explanation
Indices: 2010617--2010696 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
2010607 TATATATATA
* *
2010617 TATATATATATACATCAAAGTATTAATAAAATAAATAAGC
1 TATATATATATACACCAAAGTATTAATAAAATAAAAAAGC
*
2010657 TATATATATATACACCAAA-TATTTA-AAAATAAAAAAGC
1 TATATATATATACACCAAAGTATTAATAAAATAAAAAAGC
2010695 TA
1 TA
2010697 CCCTCTCACT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 14 0.38
39 5 0.14
40 18 0.49
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (40 bp):
TATATATATATACACCAAAGTATTAATAAAATAAAAAAGC
Found at i:2011606 original size:35 final size:36
Alignment explanation
Indices: 2011551--2011650 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
2011541 ATAGTATAAC
2011551 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
2011588 T-TATCCTA-TTTTAGGAGTTTGAATCCT--AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
2011620 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
2011651 TAAGACGAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 9
0.87 0.00 0.13
Matches are distributed among these distances:
32 6 0.10
33 7 0.12
34 19 0.32
35 19 0.32
36 7 0.12
37 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:2012486 original size:105 final size:105
Alignment explanation
Indices: 2012185--2012943 Score: 1015
Period size: 105 Copynumber: 7.3 Consensus size: 105
2012175 CATTGTTCCA
* * * * * * * *
2012185 AGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * *
2012250 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
2012291 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
2012351 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
2012391 AATCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* * *
2012456 AGCAGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTATGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2012496 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
2012561 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2012601 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
2012666 AGCGGTTCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
2012706 AG-------TCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
2012764 AGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
2012804 AGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * *
2012869 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
2012910 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
2012944 CGCAGATGGC
Statistics
Matches: 584, Mismatches: 51, Indels: 33
0.87 0.08 0.05
Matches are distributed among these distances:
98 92 0.16
99 1 0.00
100 81 0.14
101 1 0.00
102 4 0.01
103 4 0.01
104 4 0.01
105 291 0.50
106 81 0.14
107 4 0.01
109 21 0.04
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:2013746 original size:65 final size:65
Alignment explanation
Indices: 2013691--2013868 Score: 284
Period size: 65 Copynumber: 2.7 Consensus size: 65
2013681 AAGATGATGC
*
2013691 TTCAAGAGAAACTGTCTCAAGAGAGATGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
1 TTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
* *
2013756 TTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATAT
1 TTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
* * **
2013821 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTCATTTCAAGGGAAA
2013869 ATATCTCAAG
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
65 90 0.87
66 14 0.13
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.31
Consensus pattern (65 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
Found at i:2013876 original size:37 final size:37
Alignment explanation
Indices: 2013820--2014126 Score: 212
Period size: 37 Copynumber: 8.8 Consensus size: 37
2013810 AATGTTTATA
* *
2013820 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTG
* * **
2013857 TTTCAAGGGAAAATATCTCAAGAGAGACAAAA-TTCA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTG
* *
2013893 TTTCAAGGGAAA-TGTTTTC-A-A-TG------TTTATG
1 TTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT-TG
* **
2013922 TTTCAAGAGAAACTGTCTCAATG-GAGACGGAATTTTG
1 TTTCAAGGGAAACTGTCTCAA-GAGAGACAAAATTTTG
* * **
2013959 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA-CTCA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTG
* *
2013995 TTTCAAGGGAAA-TGTTTTC-A-A-TG------TTTATG
1 TTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT-TG
* * *
2014024 TTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTG
*
2014061 TTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAGTTTG
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTG
2014097 TTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAA
2014127 TGGTGAGCAC
Statistics
Matches: 206, Mismatches: 35, Indels: 58
0.69 0.12 0.19
Matches are distributed among these distances:
28 3 0.01
29 28 0.14
30 6 0.03
32 2 0.01
33 2 0.01
34 2 0.01
35 4 0.02
36 69 0.33
37 84 0.41
38 6 0.03
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.28
Consensus pattern (37 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTG
Found at i:2013928 original size:50 final size:50
Alignment explanation
Indices: 2013874--2014033 Score: 126
Period size: 50 Copynumber: 3.2 Consensus size: 50
2013864 GGAAAATATC
2013874 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
*** * ** * * * * *** * *
2013924 TCAAGAGA-A-ACTGTCTCAATGGAGACGGAATTTTGTTTCAAGGGAAACTATC
1 TCAAGAGAGACAAAAT-TCATTTCA-AGGGAAATGT-TTTCAATGTTTA-TGTT
*
2013976 TCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
2014026 TCAAGAGA
1 TCAAGAGA
2014034 AACTGTCTCA
Statistics
Matches: 73, Mismatches: 31, Indels: 12
0.63 0.27 0.10
Matches are distributed among these distances:
48 2 0.03
49 6 0.08
50 25 0.34
51 16 0.22
52 17 0.23
53 6 0.08
54 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (50 bp):
TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
Found at i:2013929 original size:102 final size:102
Alignment explanation
Indices: 2013753--2014108 Score: 595
Period size: 102 Copynumber: 3.5 Consensus size: 102
2013743 TCAATGTTTA
* *
2013753 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
2013818 TATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
2013855 TGTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* **
2013920 TGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
2013957 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
2014022 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * **
2014059 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
2014109 CTGTCTCAAG
Statistics
Matches: 236, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 236 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:2014104 original size:36 final size:36
Alignment explanation
Indices: 2014022--2014126 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 36
2014012 TCAATGTTTA
* * * *
2014022 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAG-ACAAAGTT
2014059 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
2014095 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
2014127 TGGTGAGCAC
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 38 0.59
37 26 0.41
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Found at i:2015012 original size:22 final size:22
Alignment explanation
Indices: 2014987--2015035 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
2014977 TTGTGTTTGG
2014987 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
2015009 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
2015031 TCAAA
1 TCAAA
2015036 AGATTGATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:2015703 original size:19 final size:18
Alignment explanation
Indices: 2015679--2015730 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 18
2015669 TCCCTTTTTC
2015679 TTTTTGATTTTTGCTCTTT
1 TTTTTG-TTTTTGCTCTTT
*
2015698 TTTTTGTTCTTGTTTCTCTTT
1 TTTTTG-T-TT-TTGCTCTTT
2015719 TTCTTTGTTTTT
1 TT-TTTGTTTTT
2015731 TTTGCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 9 0.32
20 4 0.14
21 11 0.39
22 4 0.14
ACGTcount: A:0.02, C:0.12, G:0.10, T:0.77
Consensus pattern (18 bp):
TTTTTGTTTTTGCTCTTT
Found at i:2015756 original size:16 final size:16
Alignment explanation
Indices: 2015730--2015763 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
2015720 TCTTTGTTTT
2015730 TTTTGCTTTTTTGCTTC
1 TTTTGCTTTTTTG-TTC
2015747 TTTT-CTTTTTTGTTC
1 TTTTGCTTTTTTGTTC
2015762 TT
1 TT
2015764 GATATGATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 8 0.47
17 4 0.24
ACGTcount: A:0.00, C:0.15, G:0.09, T:0.76
Consensus pattern (16 bp):
TTTTGCTTTTTTGTTC
Found at i:2016878 original size:8 final size:8
Alignment explanation
Indices: 2016862--2016900 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
2016852 AATGTAGATG
2016862 AAAATGCA
1 AAAATGCA
*
2016870 AAAAGGCA
1 AAAATGCA
2016878 AAAATGC-
1 AAAATGCA
2016885 AAAATGCA
1 AAAATGCA
*
2016893 AGAATGCA
1 AAAATGCA
2016901 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:2016888 original size:15 final size:15
Alignment explanation
Indices: 2016862--2016900 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
2016852 AATGTAGATG
2016862 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
2016878 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
2016893 AGAATGCA
1 AAAATGCA
2016901 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:2019451 original size:2 final size:2
Alignment explanation
Indices: 2019444--2019480 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2019434 GAAAAAGGAA
2019444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2019481 CATCAAAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2019896 original size:2 final size:2
Alignment explanation
Indices: 2019889--2019923 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2019879 TATTAAAGAA
2019889 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2019924 ATAATAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2020002 original size:18 final size:17
Alignment explanation
Indices: 2019981--2020023 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
2019971 ATATATACAT
2019981 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
2019999 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
2020016 ATAA-AATA
1 ATAATAATA
2020024 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:2020458 original size:37 final size:36
Alignment explanation
Indices: 2020415--2020516 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
2020405 ATAGTATAAC
2020415 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
*
2020452 TTTATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
2020486 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
2020517 TAAGACGAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
34 33 0.54
37 28 0.46
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:2029067 original size:20 final size:20
Alignment explanation
Indices: 2029042--2029080 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2029032 TAAATTAAAT
*
2029042 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
2029062 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
2029081 TATTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:2029157 original size:53 final size:52
Alignment explanation
Indices: 2029041--2029190 Score: 257
Period size: 53 Copynumber: 2.9 Consensus size: 52
2029031 CTAAATTAAA
*
2029041 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
*
2029093 TATTGGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
*
2029146 TATTAGATAGGATCATTTTTAATTATATAGAATCA-TTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
2029191 GTTGTTAATT
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
51 10 0.11
52 34 0.37
53 49 0.53
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:2029175 original size:20 final size:20
Alignment explanation
Indices: 2029147--2029186 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2029137 TCTATTAGTT
*
2029147 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
*
2029167 ATTATATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
2029187 TTCTGTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:2036180 original size:109 final size:110
Alignment explanation
Indices: 2035989--2036187 Score: 298
Period size: 109 Copynumber: 1.8 Consensus size: 110
2035979 ACTATAAATA
*
2035989 GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAATGGAGCCAAATCTTGAA
1 GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAAAGGAGCCAAATCTTGAA
*
2036054 ATAGTTCTCTCTTCT-AAAAATAAAAACAAAAACAAGTTTATTAG
66 ATAATTCTCTCTTCTAAAAAATAAAAACAAAAACAAGTTTATTAG
* *
2036098 GCATACCTG-AATGAGTGCAGCTATAGTACCAAAAGAATTCCAC-ACGAAAGGAGCCAAATCTTG
1 GCATACCTGTAA-AAGTGCAGCAATAGTACCAAAAGAATTCCACAAC-AAAGGAGCCAAATCTTG
*
2036161 AAATAATTC-CTTGTTCTAAAAAATAAA
64 AAATAATTCTC-TCTTCTAAAAAATAAA
2036188 CCAAAAGGTA
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
108 5 0.06
109 67 0.83
110 9 0.11
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.24
Consensus pattern (110 bp):
GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAAAGGAGCCAAATCTTGAA
ATAATTCTCTCTTCTAAAAAATAAAAACAAAAACAAGTTTATTAG
Found at i:2041499 original size:9 final size:9
Alignment explanation
Indices: 2041487--2041521 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
2041477 TAATATTTTG
2041487 TATTTAATT
1 TATTTAATT
2041496 TATTTAA-T
1 TATTTAATT
2041504 TATTTTAATT
1 TA-TTTAATT
2041514 TATTTAAT
1 TATTTAAT
2041522 ATTTTACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 3 0.12
9 18 0.75
10 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TATTTAATT
Found at i:2041512 original size:18 final size:17
Alignment explanation
Indices: 2041489--2041527 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
2041479 ATATTTTGTA
2041489 TTTAATTTATTTAATTAT
1 TTTAATTTATTTAA-TAT
2041507 TTTAATTTATTTAATAT
1 TTTAATTTATTTAATAT
2041524 TTTA
1 TTTA
2041528 CTTATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTAATTTATTTAATAT
Found at i:2048256 original size:60 final size:59
Alignment explanation
Indices: 2048148--2048303 Score: 172
Period size: 60 Copynumber: 2.6 Consensus size: 59
2048138 GTATATATAT
* * * *
2048148 ATAGTTTGGGATGAAATTAAAATGTTTAAAAATTTTGGGAACCTATTTAGAATGAAAGTC
1 ATAGTTTGGGATGAAATTGAAAT-ATTAAAAAGTTTGGGAACCTATTTAAAATGAAAGTC
*
2048208 ATAGTTTGGGGATGAAATTGAAATATTAAAAAGTTTGAGG-A-CTAATTTAAAATGATAGTC
1 ATAGTTT-GGGATGAAATTGAAATATTAAAAAGTTTG-GGAACCT-ATTTAAAATGAAAGTC
* * * *
2048268 ATACTTTAGGGATGAAATTGGAACATTTAAAAGTTT
1 ATAGTTT-GGGATGAAATTGAAATATTAAAAAGTTT
2048304 AGTGATCAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
59 2 0.02
60 64 0.77
61 17 0.20
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (59 bp):
ATAGTTTGGGATGAAATTGAAATATTAAAAAGTTTGGGAACCTATTTAAAATGAAAGTC
Found at i:2048315 original size:60 final size:60
Alignment explanation
Indices: 2048192--2048334 Score: 166
Period size: 60 Copynumber: 2.4 Consensus size: 60
2048182 TTGGGAACCT
* * * *
2048192 ATTTAGAATGAAAGTCATAGTTTGGGGATGAAATTGAAATATTAAAAAGTTTGAGGACTA
1 ATTTAAAATGAAAGTCATACTTTAGGGATGAAATTGAAACATTAAAAAGTTTGAGGACTA
* * *
2048252 ATTTAAAATGATAGTCATACTTTAGGGATGAAATTGGAACATTTAAAAGTTT-AGTGA-TCA
1 ATTTAAAATGAAAGTCATACTTTAGGGATGAAATTGAAACATTAAAAAGTTTGAG-GACT-A
*
2048312 ATTTAAGATGAGAA-TCATACTTT
1 ATTTAAAATGA-AAGTCATACTTT
2048335 GAGGACTTGT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
59 3 0.04
60 67 0.94
61 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.34
Consensus pattern (60 bp):
ATTTAAAATGAAAGTCATACTTTAGGGATGAAATTGAAACATTAAAAAGTTTGAGGACTA
Found at i:2048371 original size:2 final size:2
Alignment explanation
Indices: 2048364--2048413 Score: 91
Period size: 2 Copynumber: 24.5 Consensus size: 2
2048354 AACTCAAAGA
2048364 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2048406 AT AGT AT A
1 AT A-T AT A
2048414 ATTAAATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 45 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2060643 original size:19 final size:20
Alignment explanation
Indices: 2060611--2060656 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2060601 GATCCAACAG
2060611 AAATAATATATTTATT-AAT
1 AAATAATATATTTATTCAAT
* *
2060630 AAATATTATTTTTATTCAAT
1 AAATAATATATTTATTCAAT
2060650 AAA-AATA
1 AAATAATA
2060657 GAGATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATAATATATTTATTCAAT
Found at i:2068575 original size:19 final size:20
Alignment explanation
Indices: 2068551--2068588 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2068541 CTAATATTAT
2068551 TAATA-TAAGAAA-AAAAATA
1 TAATATTAA-AAACAAAAATA
2068570 TAATATTAAAAACAAAAAT
1 TAATATTAAAAACAAAAAT
2068589 CCATGGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (20 bp):
TAATATTAAAAACAAAAATA
Found at i:2073970 original size:22 final size:22
Alignment explanation
Indices: 2073945--2073988 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2073935 TTAATGTTAT
2073945 TTGAATACAATAATTACATTAA
1 TTGAATACAATAATTACATTAA
* * *
2073967 TTGATTTCAATAATTGCATTAA
1 TTGAATACAATAATTACATTAA
2073989 GTGATTAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (22 bp):
TTGAATACAATAATTACATTAA
Found at i:2073993 original size:22 final size:22
Alignment explanation
Indices: 2073952--2073994 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2073942 TATTTGAATA
*
2073952 CAATAATTACATTAATTGATTT
1 CAATAATTACATTAAGTGATTT
*
2073974 CAATAATTGCATTAAGTGATT
1 CAATAATTACATTAAGTGATT
2073995 AAAGAGATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (22 bp):
CAATAATTACATTAAGTGATTT
Found at i:2075770 original size:18 final size:18
Alignment explanation
Indices: 2075747--2075788 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
2075737 AAAAAACCTT
2075747 TTTTTCTTCATTTCTTTA
1 TTTTTCTTCATTTCTTTA
2075765 TTTTTCTTCATTTCTTTA
1 TTTTTCTTCATTTCTTTA
2075783 TTTTTC
1 TTTTTC
2075789 CTTTTTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTCTTCATTTCTTTA
Found at i:2075785 original size:26 final size:25
Alignment explanation
Indices: 2075749--2075798 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2075739 AAAACCTTTT
*
2075749 TTTCTTCATTTCTTTATTTTTCTTCA
1 TTTCTTCATTT-TTCATTTTTCTTCA
* *
2075775 TTTCTTTATTTTTCCTTTTTCTTC
1 TTTCTTCATTTTTCATTTTTCTTC
2075799 TCCACATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTCTTCATTTTTCATTTTTCTTCA
Found at i:2080377 original size:36 final size:32
Alignment explanation
Indices: 2080158--2081274 Score: 252
Period size: 30 Copynumber: 37.0 Consensus size: 32
2080148 AACATACGAA
* *** *
2080158 GGAGGTGGGGGTGACTTGTACACATATGGAGGT
1 GGAGGTGGGGG-GACTCGTACTTGTACGGAGGT
* * * * * *
2080191 GGCGGAGGTGGTGACTCATATTTGTATGGAGGT
1 GGAGGTGG-GGGGACTCGTACTTGTACGGAGGT
* * * *
2080224 GGTGGT--GGCGACTTGTACTTGTATGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
*
2080254 GGAGGT--GGCGACTCGTACTTGTACGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * * * *
2080284 GGTGGT--GGTGACTTGTACCTATA-GG-GG-
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * * * *
2080311 GGAGGAGGAGGTGATTCATACTTGTATGGAGGT
1 GGAGGTGG-GGGGACTCGTACTTGTACGGAGGT
*
2080344 GGAGGT--GGTGACTCGTACTTGTACGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
*
2080374 GGAGGT--GGGGACTCGTACTTGTATGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* *
2080404 GGAGGT--GGTGACTTGTACTTGTA-GAGAGGAT
1 GGAGGTGGGGGGACTCGTACTTGTACG-GAGG-T
* * * * *
2080435 -GA-G-GAGGTGACTCATACTTGTATGGAGAT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * * * *
2080464 GGTGAT--GGGGACTTGTACTTATAGGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
*
2080494 GGAGGT--GGTGACTCGTACTTGTACGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * * ** *
2080524 GGTGGT--GGCGAATTATACTTGTAAGGAGG-
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * * ** * *
2080553 AGA-ATGAGGTAACTCATACTTGTATGG-GGAT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGG-T
* ** * *
2080584 -GA--TGGTGGTGACTTATACTTGTAGGGAGGA
1 GGAGGTGG-GGGGACTCGTACTTGTACGGAGGT
* * * * *
2080614 GGA-G-GAGGTGACTCGTACTTATA-TGA--A
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
** ** *
2080641 GGAGGTGGTGATGACTTATACTTGTATGGAGGT
1 GGAGGTGG-GGGGACTCGTACTTGTACGGAGGT
* *
2080674 GGAGGT--GGTGACTCGTACTTGTATGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
** * * *
2080704 ---GGTGGGGGTGACTTATATTTGTATGGTGGT
1 GGAGGTGGGGG-GACTCGTACTTGTACGGAGGT
* * *
2080734 GGAGGT--GGTGACTCATACTTGTATGGA---
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* ** * *
2080761 GGAGGTGGTGGTGACTTATACTTATATGGA---
1 GGAGGTGG-GGGGACTCGTACTTGTACGGAGGT
* * * *
2080791 GGAGGTGGTGGTGACTTGTACTTGTAAGGAGGA
1 GGAGGTGG-GGGGACTCGTACTTGTACGGAGGT
* * * * * * *
2080824 GGA--TGAGGTGATTCATACTTATATGGTGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
*
2080854 GGAGGT--GGCGACTCGTACTTGTACGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * * * *
2080884 GGTGGT--GGTGACTTGTACTTGTAGGGAGGA
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* *
2080914 GGA-G-GAGGCGACTCGTACTTGTACGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * * * *
2080944 GGTGGT--GGTGACTTGTACTTGTAGGGAGGA
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * *
2080974 GGA-G-GAGGCGACTCGTACTTGTACGAAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * * * *
2081004 GGTGGT--GGTGACTTGTACTTGTAGGGAGGA
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* *
2081034 GGA-G-GAGGCGACTCGTACTTGTACGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * * *
2081064 GGTGGT--GGTGACTTGTACTTGTA--G-GGA
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* *
2081091 GGAGGTGGAGGCGACTCGTACTTGTACGAAGGT
1 GGAGGTGG-GGGGACTCGTACTTGTACGGAGGT
* * * * * *
2081124 GGTGGT--GGTGATTTGTACTTGTAAGGAGGA
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * *
2081154 GGA-G-GAGGTGACTCGTATTTGTACGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * * * * *
2081184 GGTGGT--GGTGACTTGTACTTATAGGGAGGA
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * *
2081214 GGAGGT--GGCGACTCGTACTTGTATGAAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
* * * *
2081244 GGTGGT--GGTGACTCGTATTTATACGGAGGT
1 GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
2081274 G
1 G
2081275 ACTCGTACTT
Statistics
Matches: 829, Mismatches: 190, Indels: 133
0.72 0.16 0.12
Matches are distributed among these distances:
27 24 0.03
28 5 0.01
29 19 0.02
30 708 0.85
31 19 0.02
32 3 0.00
33 49 0.06
34 2 0.00
ACGTcount: A:0.20, C:0.10, G:0.42, T:0.28
Consensus pattern (32 bp):
GGAGGTGGGGGGACTCGTACTTGTACGGAGGT
Found at i:2081272 original size:60 final size:60
Alignment explanation
Indices: 2080194--2081256 Score: 1232
Period size: 60 Copynumber: 17.7 Consensus size: 60
2080184 TGGAGGTGGC
* * * * * *
2080194 GGAGGTGGTGACTCATATTTGTATGGAGGTGGTGGTGGCGACTTGTACTTGTATGGAGGT
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * * * * *
2080254 GGAGGTGGCGACTCGTACTTGTACGGAGGTGGTGGTGGTGACTTGTACCTATAGGGGGGA
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * * * * *
2080314 GGAGGAGGTGATTCATACTTGTATGGAGGTGGAGGTGGTGACTCGTACTTGTACGGAGGT
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * * *
2080374 GGAGGTGGGGACTCGTACTTGTATGGAGGTGGAGGTGGTGACTTGTACTTGTAGAGAGGA
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * * * * * *
2080434 TGAGGAGGTGACTCATACTTGTATGGAGATGGTGATGGGGACTTGTACTTATAGGGAGGT
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * * * * *
2080494 GGAGGTGGTGACTCGTACTTGTACGGAGGTGGTGGTGGCGAATTATACTTGTAAGGAGGA
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * * * * *
2080554 GAATGAGGTAACTCATACTTGTATGG-GGATGATGGTGGTGACTTATACTTGTAGGGAGGA
1 GGAGGAGGTGACTCGTACTTGTATGGAGG-TGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * * * * * *
2080614 GGAGGAGGTGACTCGTACTTATATGAAGGAGGTGGTGATGACTTATACTTGTATGGAGGT
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * * * * * *
2080674 GGAGGTGGTGACTCGTACTTGTATGGAGGTGGTGGGGGTGACTTATATTTGTATGGTGGT
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * * * * *
2080734 GGAGGTGGTGACTCATACTTGTATGGAGGAGGTGGTGGTGACTTATACTTATATGGAGGA
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * * * * * * * * * *
2080794 GGTGGTGGTGACTTGTACTTGTAAGGAGGAGGAT-GAGGTGA-TTCATACTTATATGGTGGT
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGG-TGGTGGTGACTT-GTACTTGTAGGGAGGA
* * *
2080854 GGAGGTGGCGACTCGTACTTGTACGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* *
2080914 GGAGGAGGCGACTCGTACTTGTACGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * *
2080974 GGAGGAGGCGACTCGTACTTGTACGAAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* *
2081034 GGAGGAGGCGACTCGTACTTGTACGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * * * * *
2081094 GGTGGAGGCGACTCGTACTTGTACGAAGGTGGTGGTGGTGATTTGTACTTGTAAGGAGGA
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * *
2081154 GGAGGAGGTGACTCGTATTTGTACGGAGGTGGTGGTGGTGACTTGTACTTATAGGGAGGA
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
* * *
2081214 GGAGGTGGCGACTCGTACTTGTATGAAGGTGGTGGTGGTGACT
1 GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACT
2081257 CGTATTTATA
Statistics
Matches: 871, Mismatches: 126, Indels: 12
0.86 0.12 0.01
Matches are distributed among these distances:
59 5 0.01
60 861 0.99
61 5 0.01
ACGTcount: A:0.20, C:0.10, G:0.42, T:0.29
Consensus pattern (60 bp):
GGAGGAGGTGACTCGTACTTGTATGGAGGTGGTGGTGGTGACTTGTACTTGTAGGGAGGA
Found at i:2081906 original size:15 final size:16
Alignment explanation
Indices: 2081871--2081908 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
2081861 ATGGTGTGTG
*
2081871 AATTTTATTTTGAATA
1 AATTTTATTTCGAATA
2081887 AATTTTA-TTCGAATA
1 AATTTTATTTCGAATA
*
2081902 TATTTTA
1 AATTTTA
2081909 GTTATTAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (16 bp):
AATTTTATTTCGAATA
Found at i:2084023 original size:76 final size:76
Alignment explanation
Indices: 2083932--2084161 Score: 415
Period size: 76 Copynumber: 3.0 Consensus size: 76
2083922 GACTTATATG
* *
2083932 TATAAGGAGGAGGTGATGCAAGAGATGGTGGAAGTGGTAACTTGTAGACATAAGGAAGAGGCGTT
1 TATAAGGAGGAGGTGATGCGAGAGATGGTGGAAGTGGGAACTTGTAGACATAAGGAAGAGGCGTT
2083997 GAGAGAGATTA
66 GAGAGAGATTA
*
2084008 TATAAGGAGGAGGTGATGCGAGAGATGGTGGAAGTGGGAACTTGTAGACATAAGGAAGAGGCATT
1 TATAAGGAGGAGGTGATGCGAGAGATGGTGGAAGTGGGAACTTGTAGACATAAGGAAGAGGCGTT
2084073 GAGAGAGATTA
66 GAGAGAGATTA
* *
2084084 TATAAGGAGGAGGTGATGCGAGAGATGGTGGAAGTGGGAACTTGTAGACATAAAGAAGAGGCGGT
1 TATAAGGAGGAGGTGATGCGAGAGATGGTGGAAGTGGGAACTTGTAGACATAAGGAAGAGGCGTT
2084149 GAGAGAGATTA
66 GAGAGAGATTA
2084160 TA
1 TA
2084162 GAAGAGGTAA
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 148 1.00
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (76 bp):
TATAAGGAGGAGGTGATGCGAGAGATGGTGGAAGTGGGAACTTGTAGACATAAGGAAGAGGCGTT
GAGAGAGATTA
Found at i:2085596 original size:2 final size:2
Alignment explanation
Indices: 2085561--2085585 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2085551 CAAATCCTAC
2085561 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2085586 CACACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2085745 original size:2 final size:2
Alignment explanation
Indices: 2085738--2085784 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2085728 ATCGTGACTC
2085738 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2085780 AT AT A
1 AT AT A
2085785 CATGCGTGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2086654 original size:2 final size:2
Alignment explanation
Indices: 2086649--2086699 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2086639 TTTGGTTAAT
2086649 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2086691 TA TA TA TA T
1 TA TA TA TA T
2086700 TTAAAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2109889 original size:3 final size:3
Alignment explanation
Indices: 2109881--2109925 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
2109871 TAATTTTTAC
2109881 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2109926 GCGTGAGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2114659 original size:20 final size:21
Alignment explanation
Indices: 2114634--2114685 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2114624 TTTTCCCAAT
*
2114634 TCGCAATGCGAA-T-AAGTAAA
1 TCGCAATGCGAATTGAA-AAAA
*
2114654 TCGCAACGCGAATTGAAAAAA
1 TCGCAATGCGAATTGAAAAAA
2114675 TCGCAATGCGA
1 TCGCAATGCGA
2114686 TACTGACTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 11 0.41
21 14 0.52
22 2 0.07
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTGAAAAAA
Found at i:2114698 original size:41 final size:41
Alignment explanation
Indices: 2114653--2114748 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
2114643 GAATAAGTAA
* * *
2114653 ATCGCAACGCGA-ATTGAAAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGATAAT-AAAAAATCGCAAAGAGATACTGACT
* *
2114694 ATCGCAATGCGATAATACAAAATCGCAAAGAGATACTGACT
1 ATCGCAACGCGATAATAAAAAATCGCAAAGAGATACTGACT
*
2114735 TTCGCAACGCGATA
1 ATCGCAACGCGATA
2114749 CTGACTTTCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGATAATAAAAAATCGCAAAGAGATACTGACT
Found at i:2114699 original size:20 final size:20
Alignment explanation
Indices: 2114674--2114788 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
2114664 AATTGAAAAA
*
2114674 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
2114694 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
2114715 ATCGCAAAGAGATACTGACT
1 ATCGCAACGCGATACTGACT
*
2114735 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
2114755 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
2114775 TTCGCAACGCGATA
1 ATCGCAACGCGATA
2114789 ATACATAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2115004 original size:22 final size:22
Alignment explanation
Indices: 2114976--2115019 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2114966 CACTCTCTCA
*
2114976 CCCATCTCC-GACGAAATGCGTC
1 CCCATCTCCTG-CGAAATCCGTC
2114998 CCCATCTCCTGCGAAATCCGTC
1 CCCATCTCCTGCGAAATCCGTC
2115020 TATCTCCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCTGCGAAATCCGTC
Found at i:2117212 original size:14 final size:14
Alignment explanation
Indices: 2117193--2117250 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2117183 TTGTGTTTCG
2117193 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2117207 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
2117223 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
2117239 CGTTGCGATTTT
1 CGTTGCGATTTT
2117251 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2117231 original size:32 final size:33
Alignment explanation
Indices: 2117188--2117266 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
2117178 GCGATTTGTG
*
2117188 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
2117220 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
2117253 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
2117267 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 26 0.58
33 19 0.42
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:2117285 original size:20 final size:19
Alignment explanation
Indices: 2117251--2117306 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
2117241 TTGCGATTTT
2117251 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
* *
2117270 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCATTGCGATAGC
2117290 CATTTTCGCATTGCGAT
1 CA-TTTCGCATTGCGAT
2117307 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:2119194 original size:14 final size:14
Alignment explanation
Indices: 2119175--2119210 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2119165 ATTGTTTAAT
2119175 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2119189 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2119203 TGATTTGT
1 TGATTTGT
2119211 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2119402 original size:19 final size:19
Alignment explanation
Indices: 2119350--2119395 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
2119340 GCAACGAGAG
2119350 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2119369 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2119388 AATCGCAA
1 AATCGCAA
2119396 CGAGAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2119435 original size:20 final size:20
Alignment explanation
Indices: 2119410--2119478 Score: 129
Period size: 20 Copynumber: 3.5 Consensus size: 20
2119400 AAAATCACAT
*
2119410 TTGCGATAGCCATTTTCACG
1 TTGCGATAGCCATTTTCGCG
2119430 TTGCGATAGCCATTTTCGCG
1 TTGCGATAGCCATTTTCGCG
2119450 TTGCGATAGCCATTTTCGCG
1 TTGCGATAGCCATTTTCGCG
2119470 TTGCGATAG
1 TTGCGATAG
2119479 TCAAATGAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (20 bp):
TTGCGATAGCCATTTTCGCG
Found at i:2119847 original size:20 final size:20
Alignment explanation
Indices: 2119814--2119979 Score: 260
Period size: 20 Copynumber: 8.3 Consensus size: 20
2119804 GATTCTGTAT
* * *
2119814 TATCTCGTTGCGAACGTCAG
1 TATCGCGTTACGAAAGTCAG
*
2119834 AATCGCGTTACGAAAGTCAG
1 TATCGCGTTACGAAAGTCAG
*
2119854 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTACGAAAGTCAG
2119874 TATCGCGTTACGAAAGTCAG
1 TATCGCGTTACGAAAGTCAG
2119894 TATCGCGTTACGAAAGTCAG
1 TATCGCGTTACGAAAGTCAG
2119914 TATCGCGTTACGAAAGTCAG
1 TATCGCGTTACGAAAGTCAG
*
2119934 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTACGAAAGTCAG
* *
2119954 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTACGAAAGTCAG
2119974 TATCGC
1 TATCGC
2119980 ATTGTGATTT
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 137 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (20 bp):
TATCGCGTTACGAAAGTCAG
Found at i:2120009 original size:21 final size:20
Alignment explanation
Indices: 2119976--2120027 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
2119966 ATAGTCAGTA
*
2119976 TCGCATTGTGATTTTACCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
2119997 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
2120017 TCGCATTGCGA
1 TCGCATTGCGA
2120028 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:2120098 original size:21 final size:21
Alignment explanation
Indices: 2120058--2120098 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2120048 ACTGTAGACC
**
2120058 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
2120079 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
2120099 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:2133437 original size:36 final size:36
Alignment explanation
Indices: 2133396--2133504 Score: 182
Period size: 36 Copynumber: 3.0 Consensus size: 36
2133386 GAAACAGATA
* * *
2133396 TCATTTCATTACATTTGGATTACAGTTCGATAAATT
1 TCATTTCATTATAGTTAGATTACAGTTCGATAAATT
2133432 TCATTTCATTATAGTTAGATTACAGTTCGATAAATT
1 TCATTTCATTATAGTTAGATTACAGTTCGATAAATT
*
2133468 TCATTTCATTATAGTTAGATTACAGTTCAATAAATT
1 TCATTTCATTATAGTTAGATTACAGTTCGATAAATT
2133504 T
1 T
2133505 AATGATAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (36 bp):
TCATTTCATTATAGTTAGATTACAGTTCGATAAATT
Found at i:2135998 original size:18 final size:19
Alignment explanation
Indices: 2135964--2135999 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2135954 TTTAAATACA
2135964 TTAATATTCTAAATTTAAG
1 TTAATATTCTAAATTTAAG
*
2135983 TTAATTTTCT-AATTTAA
1 TTAATATTCTAAATTTAA
2136000 AATAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (19 bp):
TTAATATTCTAAATTTAAG
Found at i:2136005 original size:18 final size:19
Alignment explanation
Indices: 2135965--2136006 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
2135955 TTAAATACAT
**
2135965 TAATATTCTAAATTTAAGT
1 TAATATTCTAAATTTAAAA
*
2135984 TAATTTTCT-AATTTAAAA
1 TAATATTCTAAATTTAAAA
2136002 TAATA
1 TAATA
2136007 AAAATATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATATTCTAAATTTAAAA
Found at i:2162423 original size:28 final size:29
Alignment explanation
Indices: 2162383--2162447 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 29
2162373 GCAAACGGAC
* *
2162383 TAAATGTTGGGGGACTGTATTAC-AGTTT
1 TAAAAGTTAGGGGACTGTATTACAAGTTT
*
2162411 TAAAAGTTAGGGGACTGTATTGCAAGTTT
1 TAAAAGTTAGGGGACTGTATTACAAGTTT
2162440 TAAAAGTT
1 TAAAAGTT
2162448 GGGAGACCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 20 0.61
29 13 0.39
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (29 bp):
TAAAAGTTAGGGGACTGTATTACAAGTTT
Found at i:2167273 original size:17 final size:17
Alignment explanation
Indices: 2167248--2167283 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2167238 GTAATACAAT
*
2167248 TAATTCAAAAAAAAATG
1 TAATACAAAAAAAAATG
*
2167265 TAATACAAAATAAAATG
1 TAATACAAAAAAAAATG
2167282 TA
1 TA
2167284 GGGTTGATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (17 bp):
TAATACAAAAAAAAATG
Found at i:2168393 original size:31 final size:30
Alignment explanation
Indices: 2168355--2168452 Score: 97
Period size: 31 Copynumber: 3.2 Consensus size: 30
2168345 AATTTGTTAA
* *
2168355 ATATATTTTGTTTTTATTTTAATGTAAAAAT
1 ATATATTTTATTATTATTTTAAT-TAAAAAT
* * *
2168386 ATATATTTTATCATTATCATCAATTAAAAAT
1 ATATATTTTATTATTAT-TTTAATTAAAAAT
* * * *
2168417 ATATATTTTACTCTTATTTTCATTTAAAAT
1 ATATATTTTATTATTATTTTAATTAAAAAT
2168447 ATATAT
1 ATATAT
2168453 ACTATTTTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
30 15 0.28
31 35 0.65
32 4 0.07
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATTTTATTATTATTTTAATTAAAAAT
Found at i:2168448 original size:30 final size:31
Alignment explanation
Indices: 2168379--2168453 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
2168369 TATTTTAATG
2168379 TAAAAATATATATTTTATCATTATCATCAAT
1 TAAAAATATATATTTTATCATTATCATCAAT
** *
2168410 TAAAAATATATATTTTACTC-TTATTTTCATT
1 TAAAAATATATATTTTA-TCATTATCATCAAT
2168441 TAAAATATATATA
1 TAAAA-ATATATA
2168454 CTATTTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
31 30 0.77
32 9 0.23
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (31 bp):
TAAAAATATATATTTTATCATTATCATCAAT
Found at i:2168519 original size:29 final size:28
Alignment explanation
Indices: 2168462--2168620 Score: 111
Period size: 29 Copynumber: 5.1 Consensus size: 28
2168452 TACTATTTTT
* *
2168462 ATATATTTTTAAAAGTTAAGATAATAATAAA
1 ATATATTTTT--AA-TTAAAATAAGAATAAA
*
2168493 ATGTATTTTTAATTTAAAATAAGAATAAA
1 ATATATTTTTAA-TTAAAATAAGAATAAA
*
2168522 ATATATTTTTAAGTAAAGATAAGAATACAATATTA
1 ATATATTTTTAATTAAA-ATAAGAAT---A-A--A
*
2168557 TATATATTTTTAATTTAAAATAAGAGTAAA
1 -ATATATTTTTAA-TTAAAATAAGAATAAA
* * *
2168587 ACATATATTTTATATTAAATTAATAATAAA
1 ATATAT-TTTTA-ATTAAAATAAGAATAAA
2168617 ATAT
1 ATAT
2168621 TTAAATATGT
Statistics
Matches: 104, Mismatches: 13, Indels: 23
0.74 0.09 0.16
Matches are distributed among these distances:
28 4 0.04
29 40 0.38
30 22 0.21
31 10 0.10
32 2 0.02
33 2 0.02
35 1 0.01
36 19 0.18
37 4 0.04
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (28 bp):
ATATATTTTTAATTAAAATAAGAATAAA
Found at i:2168577 original size:65 final size:63
Alignment explanation
Indices: 2168496--2168720 Score: 178
Period size: 65 Copynumber: 3.5 Consensus size: 63
2168486 TAATAAAATG
2168496 TATTTTTAATTTAAAATAAGAATAAAATATATTTTTAAGTAAAGATAAGAATACAATATTATATA
1 TATTTTTAATTTAAAATAAGAATAAAATATATTTTTAAGTAAAGATAA-AATA-AATATTATATA
* * * *
2168561 TATTTTTAATTTAAAATAAGAGTAAAACATATATTTTATATTAAA-TTAATAATAAAATATT-TA
1 TATTTTTAATTTAAAATAAGAATAAAATATAT-TTTTA-AGTAAAGATAA-AAT-AAATATTATA
*
2168624 AA
62 TA
* * * ** * * *
2168626 TATGTTTCAAGTTAAGATATTTAA-AAAAAATATTTTTAAGTGATGATAAAGAT-AA-A--ATAT
1 TAT-TTTTAATTTAAAATA-AGAATAAAATATATTTTTAAGTAAAGATAAA-ATAAATATTATAT
2168686 A
63 A
*
2168687 TATTTTTACA-TTAAAATAAAAATAAAATATATTT
1 TATTTTTA-ATTTAAAATAAGAATAAAATATATTT
2168721 AATAAATTAA
Statistics
Matches: 127, Mismatches: 23, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
59 2 0.02
60 21 0.17
61 7 0.06
62 1 0.01
63 2 0.02
64 4 0.03
65 46 0.36
66 37 0.29
67 7 0.06
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (63 bp):
TATTTTTAATTTAAAATAAGAATAAAATATATTTTTAAGTAAAGATAAAATAAATATTATATA
Found at i:2168738 original size:30 final size:30
Alignment explanation
Indices: 2168677--2168772 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
2168667 GATGATAAAG
** * *
2168677 ATAAAATATATATTTTTACATTAAAATAAAA
1 ATAAAATATAT-TTAATAAATTAAAACAAAA
*
2168708 ATAAAATATATTTAATAAATTAAGACAAAAA
1 ATAAAATATATTTAATAAATTAAAAC-AAAA
*
2168739 ATAAAA-ATATTTAATAAGTTAAAACAAAA
1 ATAAAATATATTTAATAAATTAAAACAAAA
2168768 ATAAA
1 ATAAA
2168773 GAGATAATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
29 9 0.16
30 27 0.47
31 21 0.37
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (30 bp):
ATAAAATATATTTAATAAATTAAAACAAAA
Found at i:2175383 original size:128 final size:130
Alignment explanation
Indices: 2175214--2175490 Score: 450
Period size: 128 Copynumber: 2.1 Consensus size: 130
2175204 TGAGCAGGAG
* * *
2175214 CCAGCTGCCTCGGCTAGACAGGTGCCTTTTGCTTTGGACAATGTGCTTGTTTTGTGCTATCTTCA
1 CCAGCTGCTTCGACTAGACAGGTGCCTTTTGCTTTGGACAATGTGCATGTTTTGTGCTATCTTCA
2175279 AAATGA-GG-TTGCGGGGCTCTTATTATTCCACCGATTGAAGATACGTATCATAGTGTTGATTTA
66 AAATGAGGGCTTGCGGGGCTCTTATTATTCCACCGATTGAAGATACGTATCATAGTGTTGATTTA
2175342 CCAGCTGCTTCGACTAGACAGGTGCCTTTTGCTTTGGACAATGTGCATGTTTTGTGCTATCTTCA
1 CCAGCTGCTTCGACTAGACAGGTGCCTTTTGCTTTGGACAATGTGCATGTTTTGTGCTATCTTCA
*
2175407 AAATGAGGTTGCGGCCTTGCGGGGCTCTTATTATTCCACCGATTGAAGATACGTGTCATAGTGTT
66 AAATGA----G-GG-CTTGCGGGGCTCTTATTATTCCACCGATTGAAGATACGTATCATAGTGTT
2175472 GATTTA
125 GATTTA
2175478 CCAGCTGCTTCGA
1 CCAGCTGCTTCGA
2175491 GTGATACGTG
Statistics
Matches: 137, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
128 68 0.50
134 2 0.01
136 67 0.49
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.35
Consensus pattern (130 bp):
CCAGCTGCTTCGACTAGACAGGTGCCTTTTGCTTTGGACAATGTGCATGTTTTGTGCTATCTTCA
AAATGAGGGCTTGCGGGGCTCTTATTATTCCACCGATTGAAGATACGTATCATAGTGTTGATTTA
Found at i:2180864 original size:2 final size:2
Alignment explanation
Indices: 2180852--2180889 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2180842 TTGCTCTAGT
*
2180852 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2180890 GGATTAGTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2186000 original size:2 final size:2
Alignment explanation
Indices: 2185993--2186026 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2185983 TAAATTTTTA
2185993 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2186027 TGCTCCATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2189536 original size:128 final size:130
Alignment explanation
Indices: 2189367--2189643 Score: 450
Period size: 128 Copynumber: 2.1 Consensus size: 130
2189357 TGAGCAGGAG
* * *
2189367 CCAGCTGCCTCGGCTAGACAGGTGCCTTTTGCTTTGGACAATGTGCTTGTTTTGTGCTATCTTCA
1 CCAGCTGCTTCGACTAGACAGGTGCCTTTTGCTTTGGACAATGTGCATGTTTTGTGCTATCTTCA
2189432 AAATGA-GG-TTGCGGGGCTCTTATTATTCCACCGATTGAAGATACGTATCATAGTGTTGATTTA
66 AAATGAGGGCTTGCGGGGCTCTTATTATTCCACCGATTGAAGATACGTATCATAGTGTTGATTTA
2189495 CCAGCTGCTTCGACTAGACAGGTGCCTTTTGCTTTGGACAATGTGCATGTTTTGTGCTATCTTCA
1 CCAGCTGCTTCGACTAGACAGGTGCCTTTTGCTTTGGACAATGTGCATGTTTTGTGCTATCTTCA
*
2189560 AAATGAGGTTGCGGCCTTGCGGGGCTCTTATTATTCCACCGATTGAAGATACGTGTCATAGTGTT
66 AAATGA----G-GG-CTTGCGGGGCTCTTATTATTCCACCGATTGAAGATACGTATCATAGTGTT
2189625 GATTTA
125 GATTTA
2189631 CCAGCTGCTTCGA
1 CCAGCTGCTTCGA
2189644 GTGATACGTG
Statistics
Matches: 137, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
128 68 0.50
134 2 0.01
136 67 0.49
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.35
Consensus pattern (130 bp):
CCAGCTGCTTCGACTAGACAGGTGCCTTTTGCTTTGGACAATGTGCATGTTTTGTGCTATCTTCA
AAATGAGGGCTTGCGGGGCTCTTATTATTCCACCGATTGAAGATACGTATCATAGTGTTGATTTA
Found at i:2195010 original size:2 final size:2
Alignment explanation
Indices: 2194998--2195029 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2194988 TTGCTCTAGT
*
2194998 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2195030 GGATTAGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2200114 original size:2 final size:2
Alignment explanation
Indices: 2200107--2200203 Score: 159
Period size: 2 Copynumber: 51.0 Consensus size: 2
2200097 TAAATTTTTA
2200107 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2200147 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2200187 A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
2200204 TGCTCCATAG
Statistics
Matches: 90, Mismatches: 0, Indels: 10
0.90 0.00 0.10
Matches are distributed among these distances:
1 5 0.06
2 85 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2203910 original size:64 final size:64
Alignment explanation
Indices: 2203837--2204013 Score: 225
Period size: 64 Copynumber: 2.8 Consensus size: 64
2203827 TAAAATAAAT
* * **
2203837 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAA
1 ACATCGAATGCAATTAGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAAACAA
* *
2203901 ACATTGAATGCAATTAGTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAAACAA
1 ACATCGAATGCAATTAGTGCATCGATGCATAA-GTAGTGCATCGATGCATCCCAGTAATAAACAA
* * *
2203965 ACATCGAATG-AATTTTA-TGCACCGATGCATCAGTAGTGCATCAATGCAT
1 ACATCGAATGCAA--TTAGTGCATCGATGCATAAGTAGTGCATCGATGCAT
2204014 ACCTTTATTT
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
63 4 0.04
64 89 0.91
65 5 0.05
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (64 bp):
ACATCGAATGCAATTAGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAAACAA
Found at i:2205846 original size:734 final size:727
Alignment explanation
Indices: 2204407--2205866 Score: 2825
Period size: 734 Copynumber: 2.0 Consensus size: 727
2204397 GTATATGCAT
2204407 ATATATATATATATATATATGAAAGGTGCATAGTAGGAATTATTACATGTATATGTGGGTATGAT
1 ATATATATATATATATATATGAAAGGTGCATAGTAGGAATTATTACATGTATATGTGGGTATGAT
2204472 GCTTGTATGTGATATGTTAGTAGAATTGTTCAAGCATGATTACGAGTTAGAGTTTTATTATATGT
66 GCTTGTATGTGATATGTTAGTAGAATTGTTCAAGCATGATTACGAGTTAGAGTTTTATTATATGT
2204537 TTTATGCCTCACTAAGTCAACGACTTAGCGTGTGATTGTTTCACACGTAGGTTACAGAAGTGAGA
131 TTTATGCCTCACTAAGTCAACGACTTAGCGTGTGATTGTTTCACACGTAGGTTACAGAAGTGAGA
2204602 AGAGTAAAGAGCTAAGAGGAGCAAGACATGTCAGCATTTTCCTTACAAAGTTTCAGATCAGAAAA
196 AGAGTAAAGAGCTAAGAGGAGCAAGACATGTCAGCATTTTCCTTACAAAGTTTCAGATCAGAAAA
2204667 TAGATGATTTAATGTGTATGGTTAATCTGAATATAGTTGGCATGTACTAATTGATTGAGCTGAAT
261 TAGATGATTTAATGTGTATGGTTAATCTGAATATAGTTGGCATGTACTAATTGATTGAGCTGAAT
2204732 ATGCTCTGATCGATTTTGGTCAATTTATGTAAATACACAGTTTTTATTTAATGAAAGTTTTAAAT
326 ATGCTCTGATCGATTTTGGTCAATTTATGTAAATACACAGTTTTTATTTAATGAAAGTTTTAAAT
2204797 TTTTCTTTGAATTTTTGTCAAGAGTCAAAGTTTTGAAAGTCAATGTGACACCTCAAACTCGTATT
391 TTTTCTTTGAATTTTTGTCAAGAGTCAAAGTTTTGAAAGTCAATGTGACACCTCAAACTCGTATT
2204862 TGGGTGGATACGGTTGAGGGTGTACATTTAATGGTATCAGAGCTACAGTTTAGCGATTCTAGGCT
456 TGGGTGGATACGGTTGAGGGTGTACATTTAATGGTATCAGAGCTACAGTTTAGCGATTCTAGGCT
2204927 TAAATAGAAGTCAGAAGTGTTTAAAAAGTATACATGGCAAACTCAAAGTGAAACAAAAATCTGAT
521 TAAATAGAAGTCAGAAGTGTTTAAAAAGTATACATGGCAAACTCAAAGTGAAACAAAAATCTGAT
2204992 CTGATAGTGTAAGGAGTATGATGTCTTGCTAATAAAAATAGATTATTATGTGATAATAGAAGTAT
586 CTGATAGTGTAAGGAGTATGATGTCTTGCTAATAAAAATAGATTATTATGTGATAATAGAAGTAT
2205057 GATAATAAGAGTTTTGAAAAAAGGTAATAAACCTGAAGGTAATAGCATTCACCTGCCCTGGCCAG
651 GATAATAAGAGTTTTGAAAAAAGGTAATAAACCTGAAGGTAATAGCATTCACCTGCCCTGGCCAG
2205122 GCAGGGAGAAGC
716 GCAGGGAGAAGC
2205134 ATATATATATATATATATATGAAAGGTGCATAGTAGGAATTATTACATGTATATGTGGGTATGAT
1 ATATATATATATATATATATGAAAGGTGCATAGTAGGAATTATTACATGTATATGTGGGTATGAT
2205199 GCTTGTATGTGATATGTTAGTAGAAATTGTTCAAGCATGATTACGAGTTAGAGTTTTATTATATG
66 GCTTGTATGTGATATGTTAGTAG-AATTGTTCAAGCATGATTACGAGTTAGAGTTTTATTATATG
2205264 TTTTATGCCTCACTAAGTCAACGACTTAGCGTGTGATTGTTTCACACGTAGGTTACAGAAGTGAG
130 TTTTATGCCTCACTAAGTCAACGACTTAGCGTGTGATTGTTTCACACGTAGGTTACAGAAGTGAG
2205329 AAGAGTAAAGAGCTAAGAGGAGCAAGACATGTCAGCATTTTCCTTACAAAGTTTCAGATCAGAAA
195 AAGAGTAAAGAGCTAAGAGGAGCAAGACATGTCAGCATTTTCCTTACAAAGTTTCAGATCAGAAA
2205394 ATAGATGATTTAAATGTGTATGGTTAATCTGAATATAGTTGGCATGTACTAATTGATTGAGCTGA
260 ATAGATGATTT-AATGTGTATGGTTAATCTGAATATAGTTGGCATGTACTAATTGATTGAGCTGA
2205459 ATATGCTCTGATCGATTTTGGTCAATTTATGTAAATACACAGTTTTTATTTTAATGAAAGTTTTA
324 ATATGCTCTGATCGATTTTGGTCAATTTATGTAAATACACAGTTTTTA-TTTAATGAAAGTTTTA
2205524 AATTTTTCTTTGAATTTTTGTCAAGAGTCAAAG-TTTGAAAAGTCAATGTGACACCTCAAACTCG
388 AATTTTTCTTTGAATTTTTGTCAAGAGTCAAAGTTTTG-AAAGTCAATGTGACACCTCAAACTCG
2205588 TATTTGGGTTGGATACGGGTTGAGGGTGTTACATTTAATGGTATCAGAGCTACAGTTTAGCCGAT
452 TATTTGGG-TGGATAC-GGTTGAGGGTG-TACATTTAATGGTATCAGAGCTACAGTTTAG-CGAT
2205653 TCTAGGCTTAAATAGAAGTCAGAAGTGTTTTAAAAAGTATACAT-GCAAACTCAAAGTGAAACAA
513 TCTAGGCTTAAATAGAAGTCAGAAGTG-TTTAAAAAGTATACATGGCAAACTCAAAGTGAAACAA
2205717 AAATCTGATCTGATAGTGTAAGGAGTATGATGTCTTGCTAATAAAAATAGATTATTATGTGATAA
577 AAATCTGATCTGATAGTGTAAGGAGTATGATGTCTTGCTAATAAAAATAGATTATTATGTGATAA
2205782 TAGAAGTATGATAATAAGAGTTTTGAAAAAAGGTAATAAACCTGAAGGTAATAGCATTCACCTGC
642 TAGAAGTATGATAATAAGAGTTTTGAAAAAAGGTAATAAACCTGAAGGTAATAGCATTCACCTGC
2205847 CCTGGCCAGGCAGGGAGAAG
707 CCTGGCCAGGCAGGGAGAAG
2205867 AGCGAACACC
Statistics
Matches: 724, Mismatches: 0, Indels: 11
0.99 0.00 0.01
Matches are distributed among these distances:
727 88 0.12
728 182 0.25
729 105 0.15
730 83 0.11
731 7 0.01
732 11 0.02
733 31 0.04
734 201 0.28
735 16 0.02
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (727 bp):
ATATATATATATATATATATGAAAGGTGCATAGTAGGAATTATTACATGTATATGTGGGTATGAT
GCTTGTATGTGATATGTTAGTAGAATTGTTCAAGCATGATTACGAGTTAGAGTTTTATTATATGT
TTTATGCCTCACTAAGTCAACGACTTAGCGTGTGATTGTTTCACACGTAGGTTACAGAAGTGAGA
AGAGTAAAGAGCTAAGAGGAGCAAGACATGTCAGCATTTTCCTTACAAAGTTTCAGATCAGAAAA
TAGATGATTTAATGTGTATGGTTAATCTGAATATAGTTGGCATGTACTAATTGATTGAGCTGAAT
ATGCTCTGATCGATTTTGGTCAATTTATGTAAATACACAGTTTTTATTTAATGAAAGTTTTAAAT
TTTTCTTTGAATTTTTGTCAAGAGTCAAAGTTTTGAAAGTCAATGTGACACCTCAAACTCGTATT
TGGGTGGATACGGTTGAGGGTGTACATTTAATGGTATCAGAGCTACAGTTTAGCGATTCTAGGCT
TAAATAGAAGTCAGAAGTGTTTAAAAAGTATACATGGCAAACTCAAAGTGAAACAAAAATCTGAT
CTGATAGTGTAAGGAGTATGATGTCTTGCTAATAAAAATAGATTATTATGTGATAATAGAAGTAT
GATAATAAGAGTTTTGAAAAAAGGTAATAAACCTGAAGGTAATAGCATTCACCTGCCCTGGCCAG
GCAGGGAGAAGC
Found at i:2208893 original size:64 final size:64
Alignment explanation
Indices: 2208812--2209032 Score: 238
Period size: 64 Copynumber: 3.5 Consensus size: 64
2208802 TTGAAGGTGT
* ** * *
2208812 ATCGATGCAT-TGTTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCGT
1 ATCGATGCATAAG-TAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATTAGT
2208874 GC
63 GC
*
2208876 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
* * *
2208940 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAA-ACAAACATCGAATGCATTTTA-T
1 ATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAAGA-AAACATCGAATGCA-ATTAGT
2209002 GC
63 GC
* * *
2209004 ACCAATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
2209033 ACCTTCATTA
Statistics
Matches: 136, Mismatches: 14, Indels: 14
0.83 0.09 0.09
Matches are distributed among these distances:
63 2 0.01
64 123 0.90
65 11 0.08
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAATTAGTGC
Found at i:2209772 original size:31 final size:31
Alignment explanation
Indices: 2209734--2209798 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
2209724 AGAGTCGAGG
*
2209734 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
* *
2209765 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
2209796 GTT
1 GTT
2209799 ACCGAGGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:2209885 original size:29 final size:30
Alignment explanation
Indices: 2209784--2209882 Score: 155
Period size: 30 Copynumber: 3.3 Consensus size: 30
2209774 GGTTCTTCGG
*
2209784 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2209814 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
2209844 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2209873 GACCTCTGGA
1 GACCTCTGGA
2209883 TAGGTCTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
29 18 0.28
30 47 0.72
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:2210173 original size:2 final size:2
Alignment explanation
Indices: 2210154--2210228 Score: 123
Period size: 2 Copynumber: 37.5 Consensus size: 2
2210144 TGTATGCGTG
* * *
2210154 TA TA TG TA TA TG TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2210196 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2210229 GAAAGGTGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2214753 original size:306 final size:306
Alignment explanation
Indices: 2214200--2214808 Score: 1218
Period size: 306 Copynumber: 2.0 Consensus size: 306
2214190 TCTTGGATTC
2214200 TGTTCTTAACTACTATCTGAAATAAATAGAAAATGATAGAAGTAATACCCTTTCATTGGAAAGGG
1 TGTTCTTAACTACTATCTGAAATAAATAGAAAATGATAGAAGTAATACCCTTTCATTGGAAAGGG
2214265 CTACGGTGGTACTGCTTGCATTGAAACTGGTCAGCCTCAGTAATTGTTGCAGTTTCAAAGATCGC
66 CTACGGTGGTACTGCTTGCATTGAAACTGGTCAGCCTCAGTAATTGTTGCAGTTTCAAAGATCGC
2214330 AATTGCTCAAATTCAACTATGGTTGTTGCTTCATTTTCATCAACATCACTTCCTCTTCCCTCAGT
131 AATTGCTCAAATTCAACTATGGTTGTTGCTTCATTTTCATCAACATCACTTCCTCTTCCCTCAGT
2214395 AATGATTTCTACCATGTTTTGCAATCCACCACTTGAACTTCTTGAAGTTGTTGCAGACCTCTGGC
196 AATGATTTCTACCATGTTTTGCAATCCACCACTTGAACTTCTTGAAGTTGTTGCAGACCTCTGGC
2214460 AATGGAGAATGAAAACAAATTCTTCAATCGATAGCGACTTCCCGTT
261 AATGGAGAATGAAAACAAATTCTTCAATCGATAGCGACTTCCCGTT
2214506 TGTTCTTAACTACTATCTGAAATAAATAGAAAATGATAGAAGTAATACCCTTTCATTGGAAAGGG
1 TGTTCTTAACTACTATCTGAAATAAATAGAAAATGATAGAAGTAATACCCTTTCATTGGAAAGGG
2214571 CTACGGTGGTACTGCTTGCATTGAAACTGGTCAGCCTCAGTAATTGTTGCAGTTTCAAAGATCGC
66 CTACGGTGGTACTGCTTGCATTGAAACTGGTCAGCCTCAGTAATTGTTGCAGTTTCAAAGATCGC
2214636 AATTGCTCAAATTCAACTATGGTTGTTGCTTCATTTTCATCAACATCACTTCCTCTTCCCTCAGT
131 AATTGCTCAAATTCAACTATGGTTGTTGCTTCATTTTCATCAACATCACTTCCTCTTCCCTCAGT
2214701 AATGATTTCTACCATGTTTTGCAATCCACCACTTGAACTTCTTGAAGTTGTTGCAGACCTCTGGC
196 AATGATTTCTACCATGTTTTGCAATCCACCACTTGAACTTCTTGAAGTTGTTGCAGACCTCTGGC
2214766 AATGGAGAATGAAAACAAATTCTTCAATCGATAGCGACTTCCC
261 AATGGAGAATGAAAACAAATTCTTCAATCGATAGCGACTTCCC
2214809 ACGTTTATCT
Statistics
Matches: 303, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
306 303 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (306 bp):
TGTTCTTAACTACTATCTGAAATAAATAGAAAATGATAGAAGTAATACCCTTTCATTGGAAAGGG
CTACGGTGGTACTGCTTGCATTGAAACTGGTCAGCCTCAGTAATTGTTGCAGTTTCAAAGATCGC
AATTGCTCAAATTCAACTATGGTTGTTGCTTCATTTTCATCAACATCACTTCCTCTTCCCTCAGT
AATGATTTCTACCATGTTTTGCAATCCACCACTTGAACTTCTTGAAGTTGTTGCAGACCTCTGGC
AATGGAGAATGAAAACAAATTCTTCAATCGATAGCGACTTCCCGTT
Found at i:2215412 original size:37 final size:38
Alignment explanation
Indices: 2215357--2215440 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 38
2215347 TGGTAACCAA
2215357 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
* *
2215394 CTTTGAAAAATA-GTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
*
2215431 -GTTGAAAAAT
1 CTTTGAAAAAT
2215441 GATAATGGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 9 0.21
37 33 0.77
38 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (38 bp):
CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:2215870 original size:16 final size:16
Alignment explanation
Indices: 2215849--2215882 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
2215839 TTACTATTCA
*
2215849 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
2215865 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
2215881 CG
1 CG
2215883 GTCGACGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:2219836 original size:36 final size:35
Alignment explanation
Indices: 2219762--2219874 Score: 120
Period size: 36 Copynumber: 3.2 Consensus size: 35
2219752 TGAAAGTATT
*****
2219762 AAAATGGTTTTC-AAGTTTGGTAACCAACTTTTGAA
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTTTTG-A
2219797 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTT-TTTGA
* * *
2219833 AAAATAGTTTTTCAAAGTTTGGTAGATGTTTGTTGA
1 AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTTTTGA
2219869 AAAATG
1 AAAATG
2219875 ATAATGGGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
35 13 0.19
36 27 0.40
37 27 0.40
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTTTTGA
Found at i:2219845 original size:37 final size:37
Alignment explanation
Indices: 2219790--2219873 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
2219780 GGTAACCAAC
2219790 TTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTT
1 TTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTT
* *
2219826 TCTTTGAAAAATA-GTTTTTCAAAGTTTGGTAGATGTT
1 T-TTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTT
*
2219863 TGTTGAAAAAT
1 TTTTGAAAAAT
2219874 GATAATGGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 10 0.23
37 32 0.74
38 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (37 bp):
TTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTT
Found at i:2233880 original size:18 final size:18
Alignment explanation
Indices: 2233857--2233897 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2233847 GTCCCTTGAA
2233857 ATTTTAAAATTATTATAT
1 ATTTTAAAATTATTATAT
* * *
2233875 ATTTTAATATTTTTATGT
1 ATTTTAAAATTATTATAT
2233893 ATTTT
1 ATTTT
2233898 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTAAAATTATTATAT
Found at i:2235761 original size:2 final size:2
Alignment explanation
Indices: 2235754--2235783 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2235744 TAAAATCTCA
2235754 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2235784 CAATTAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2268576 original size:34 final size:36
Alignment explanation
Indices: 2268537--2268609 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
2268527 CATGTGGACT
*
2268537 TGTGTTTTTTTAGATA-CC-CTCTTTCTCTTGTTTG
1 TGTGTTTTTTTAGATACCCACTCTCTCTCTTGTTTG
2268571 TGTGTTTTTTTAGATACCCACTCTCTCTCTTGTTTG
1 TGTGTTTTTTTAGATACCCACTCTCTCTCTTGTTTG
2268607 TGT
1 TGT
2268610 TTATACATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 16 0.44
35 2 0.06
36 18 0.50
ACGTcount: A:0.10, C:0.19, G:0.15, T:0.56
Consensus pattern (36 bp):
TGTGTTTTTTTAGATACCCACTCTCTCTCTTGTTTG
Found at i:2268610 original size:34 final size:33
Alignment explanation
Indices: 2268536--2268611 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 33
2268526 TCATGTGGAC
*
2268536 TTGTGTTTTTTTAGATACCCTCTTTCTCTTGTT
1 TTGTGTTTTTTTAGATACCCTCTCTCTCTTGTT
2268569 TGTGTGTTTTTTTAGATACCCACTCTCTCTCTTG-T
1 T-TGTGTTTTTTTAGATA-CC-CTCTCTCTCTTGTT
2268604 TTGTGTTT
1 TTGTGTTT
2268612 ATACATTAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
33 1 0.03
34 23 0.59
35 4 0.10
36 11 0.28
ACGTcount: A:0.09, C:0.18, G:0.14, T:0.58
Consensus pattern (33 bp):
TTGTGTTTTTTTAGATACCCTCTCTCTCTTGTT
Found at i:2271105 original size:15 final size:15
Alignment explanation
Indices: 2271082--2271118 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
2271072 TTTATAATTT
2271082 TGATGTTTAAATTTTA
1 TGAT-TTTAAATTTTA
2271098 TGATTTTAAATTTTA
1 TGATTTTAAATTTTA
*
2271113 AGATTT
1 TGATTT
2271119 AATATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (15 bp):
TGATTTTAAATTTTA
Found at i:2277162 original size:23 final size:26
Alignment explanation
Indices: 2277134--2277194 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 26
2277124 ATTTATATTC
*
2277134 AAAAATTT-TA-ACGATTAACCTAGT
1 AAAAATTTATATAAGATTAACCTAGT
2277158 AAAATACTTTATATAAGATTAACCTAGT
1 AAAA-A-TTTATATAAGATTAACCTAGT
2277186 AAAATATTT
1 AAAA-ATTT
2277195 TCTATAAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 4 0.12
25 1 0.03
26 3 0.09
27 5 0.16
28 19 0.59
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (26 bp):
AAAAATTTATATAAGATTAACCTAGT
Found at i:2277178 original size:28 final size:28
Alignment explanation
Indices: 2277146--2277202 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
2277136 AAATTTTAAC
2277146 GATTAACCTAGTAAAATACTTTATATAA
1 GATTAACCTAGTAAAATACTTTATATAA
* *
2277174 GATTAACCTAGTAAAATATTTTCTATAA
1 GATTAACCTAGTAAAATACTTTATATAA
2277202 G
1 G
2277203 TGTTGATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.37
Consensus pattern (28 bp):
GATTAACCTAGTAAAATACTTTATATAA
Found at i:2277738 original size:3 final size:3
Alignment explanation
Indices: 2277730--2277757 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2277720 AACTTAAAAC
2277730 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2277758 ACGTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2282977 original size:12 final size:12
Alignment explanation
Indices: 2282960--2282984 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2282950 ACAAAGCACC
2282960 ATTTGGTGCCTA
1 ATTTGGTGCCTA
2282972 ATTTGGTGCCTA
1 ATTTGGTGCCTA
2282984 A
1 A
2282985 ATTATTTGAC
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:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:2294892 original size:9 final size:10
Alignment explanation
Indices: 2294874--2294911 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
2294864 TGCTTGAAGA
*
2294874 AGAAATAAAAG
1 AGAAA-AAATG
2294885 AGAAAAAATG
1 AGAAAAAATG
2294895 A-AAAAAATG
1 AGAAAAAATG
2294904 AGAAAAAA
1 AGAAAAAA
2294912 CAAAAATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 9 0.36
10 11 0.44
11 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (10 bp):
AGAAAAAATG
Found at i:2294906 original size:19 final size:19
Alignment explanation
Indices: 2294875--2294911 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2294865 GCTTGAAGAA
2294875 GAAATAAAAGAGAAAAAAT
1 GAAATAAAAGAGAAAAAAT
2294894 GAAA-AAAATGAGAAAAAA
1 GAAATAAAA-GAGAAAAAA
2294912 CAAAAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (19 bp):
GAAATAAAAGAGAAAAAAT
Found at i:2294916 original size:16 final size:18
Alignment explanation
Indices: 2294897--2294935 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2294887 AAAAAATGAA
2294897 AAAAATGA-G-AAAAAAC
1 AAAAATGATGAAAAAAAC
2294913 AAAAATGATGAAAAAAAC
1 AAAAATGATGAAAAAAAC
2294931 AAAAA
1 AAAAA
2294936 GAAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.38
17 1 0.05
18 12 0.57
ACGTcount: A:0.77, C:0.05, G:0.10, T:0.08
Consensus pattern (18 bp):
AAAAATGATGAAAAAAAC
Found at i:2294917 original size:19 final size:19
Alignment explanation
Indices: 2294880--2294935 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
2294870 AAGAAGAAAT
**
2294880 AAAA-GAGAAAAAATGAAA
1 AAAATGAGAAAAAACAAAA
2294898 AAAATGAGAAAAAACAAAA
1 AAAATGAGAAAAAACAAAA
**
2294917 ATGATGA-AAAAAACAAAA
1 AAAATGAGAAAAAACAAAA
2294935 A
1 A
2294936 GAAAGAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 16 0.48
19 17 0.52
ACGTcount: A:0.77, C:0.04, G:0.12, T:0.07
Consensus pattern (19 bp):
AAAATGAGAAAAAACAAAA
Found at i:2294943 original size:18 final size:18
Alignment explanation
Indices: 2294897--2294945 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
2294887 AAAAAATGAA
2294897 AAAAATG-AG-AAAAAAC
1 AAAAATGAAGAAAAAAAC
*
2294913 AAAAATGATGAAAAAAAC
1 AAAAATGAAGAAAAAAAC
2294931 AAAAA-GAAAGAAAAA
1 AAAAATG-AAGAAAAA
2294946 GAAGAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 7 0.25
17 2 0.07
18 19 0.68
ACGTcount: A:0.78, C:0.04, G:0.12, T:0.06
Consensus pattern (18 bp):
AAAAATGAAGAAAAAAAC
Found at i:2294960 original size:26 final size:26
Alignment explanation
Indices: 2294931--2294990 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
2294921 TGAAAAAAAC
*
2294931 AAAAAGAAAGAAAAAGAAG-AAAATGG
1 AAAAAGAAAGAAAAA-AAGAAAAATGA
* * *
2294957 AAAAGGGAAGAAAAAATGAAAAATGA
1 AAAAAGAAAGAAAAAAAGAAAAATGA
2294983 AAAAAGAA
1 AAAAAGAA
2294991 GAAGAAATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (26 bp):
AAAAAGAAAGAAAAAAAGAAAAATGA
Found at i:2294984 original size:25 final size:25
Alignment explanation
Indices: 2294931--2295002 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
2294921 TGAAAAAAAC
2294931 AAAAAGAAAGAAAAAGA-AGAAAATGGA
1 AAAAAG-AAGAAAAA-ATA-AAAATGGA
**
2294958 AAAGGGAAGAAAAAATGAAAAAT-GA
1 AAAAAGAAGAAAAAAT-AAAAATGGA
*
2294983 AAAAAGAAGAAGAAATAAAA
1 AAAAAGAAGAAAAAATAAAA
2295003 GGAGGGTTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 4 0.11
25 16 0.42
26 13 0.34
27 5 0.13
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (25 bp):
AAAAAGAAGAAAAAATAAAAATGGA
Found at i:2295003 original size:42 final size:43
Alignment explanation
Indices: 2294922--2295004 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 43
2294912 CAAAAATGAT
2294922 GAAAAAAACAAAAAGAAAGAAAAAGAAGAAAATGGAAAAGGGAA
1 GAAAAAAACAAAAAGAAAGAAAAAGAAGAAAAT-GAAAAGGGAA
**
2294966 GAAAAAATGAAAAATGAAA-AAAGAAGAAG-AAAT-AAAAGG
1 GAAAAAAACAAAAA-GAAAGAAA-AAGAAGAAAATGAAAAGG
2295005 AGGGTTCAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
42 6 0.17
44 19 0.54
45 10 0.29
ACGTcount: A:0.72, C:0.01, G:0.22, T:0.05
Consensus pattern (43 bp):
GAAAAAAACAAAAAGAAAGAAAAAGAAGAAAATGAAAAGGGAA
Found at i:2296191 original size:51 final size:51
Alignment explanation
Indices: 2296130--2296596 Score: 639
Period size: 51 Copynumber: 9.0 Consensus size: 51
2296120 TGAAGCAAAT
2296130 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
2296181 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
*
2296232 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGAGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
*
2296283 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
2296334 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
* *
2296385 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
** * * * * *
2296436 CCGTTTTGTTGAAGATTTTCGAGTTCTATACTCCCTGAACGGATAGGGAGC-GAGC
1 AAG-TTCGTTGAAGA--TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGA-C
* * * * *
2296491 ACGTTTGTTAAAGACTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGAC
1 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
** ** * * *
2296542 CTGTTTATTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 AAGTTCGTTGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
2296597 CCGTTTTATT
Statistics
Matches: 377, Mismatches: 29, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
51 288 0.76
52 13 0.03
54 15 0.04
55 61 0.16
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (51 bp):
AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
Found at i:2296487 original size:55 final size:51
Alignment explanation
Indices: 2296130--2296714 Score: 618
Period size: 51 Copynumber: 11.1 Consensus size: 51
2296120 TGAAGCAAAT
*
2296130 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
*
2296181 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
* *
2296232 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGAGAGCGGAC
1 AAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
* *
2296283 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
1 AAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
*
2296334 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
1 AAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
* * *
2296385 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 AAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
** * * * *
2296436 CCGTTTTGTTGAAGATTTTCGAGTTCTATACTCCCTGAACGGATAGGGAGC-GAGC
1 AAG-TTTGTTGAAGA--TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGA-C
* * * *
2296491 ACGTTTGTTAAAGACTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGAC
1 AAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
** * * * *
2296542 CTGTTTATTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 AAGTTTGTTGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
** * * * *
2296597 CCGTTTTATTGAAGATTGTTCGAGTTCTATACTC-CTTGAACGGATAGGGAGCGGAC
1 AAG-TTTGTTGAAGA---TT-GAGTCCTATACTCTC-TGAATGAATAGGGAGCGGAC
** * * * *
2296653 CTGTTTGTCGAAGATTATTCGAGTCTTATACTC-CTTGAACGAATAGGGAGCAGAC
1 AAGTTTGTTGAAG---ATT-GAGTCCTATACTCTC-TGAATGAATAGGGAGCGGAC
*
2296708 ACGTTTG
1 AAGTTTG
2296715 CCAAGGATTG
Statistics
Matches: 476, Mismatches: 43, Indels: 26
0.87 0.08 0.05
Matches are distributed among these distances:
51 288 0.61
52 13 0.03
54 15 0.03
55 111 0.23
56 48 0.10
58 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (51 bp):
AAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
Found at i:2296729 original size:55 final size:54
Alignment explanation
Indices: 2296401--2296763 Score: 221
Period size: 55 Copynumber: 6.7 Consensus size: 54
2296391 GTTGAAGATT
* * * * **
2296401 GAGTCCTATACT-CTCTGAAGGAATAGAGAGCGGACCCGTTTTGTTGAAGATT-TTC
1 GAGTCTTATACTCCT-TGAACGAATAGGGAGCAGA-CCG-TTTGTCCAAGATTGTTC
* * ** *
2296456 GAGT-TCTATACTCCCTGAACGGATAGGGAGC-GAGCACGTTTGTTAAAGA---CT-
1 GAGTCT-TATACTCCTTGAACGAATAGGGAGCAGA-C-CGTTTGTCCAAGATTGTTC
* * * * ** *
2296507 GAGTCCTATACT-CTCTGAAAGAATAGGGAGCGGACCTGTTTATTGAAGATTTTTC
1 GAGTCTTATACTCCT-TGAACGAATAGGGAGCAGACC-GTTTGTCCAAGATTGTTC
* * * * **
2296562 GAGT-TCTATACT-CTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
1 GAGTCT-TATACTCCT-TGAACGAATAGGGAGCAGA-CCG-TTTGTCCAAGATTGTTC
* * * *
2296618 GAGT-TCTATACTCCTTGAACGGATAGGGAGCGGACCTGTTTGTCGAAGATTATTC
1 GAGTCT-TATACTCCTTGAACGAATAGGGAGCAGACC-GTTTGTCCAAGATTGTTC
2296673 GAGTCTTATACTCCTTGAACGAATAGGGAGCAGACACGTTTG-CCAAGGATTGTTC
1 GAGTCTTATACTCCTTGAACGAATAGGGAGCAGAC-CGTTTGTCCAA-GATTGTTC
* *
2296728 GAGTCTTATACTCCTTGAAAGAAAAGGGAGCAGACC
1 GAGTCTTATACTCCTTGAACGAATAGGGAGCAGACC
2296764 CGTTATTTGA
Statistics
Matches: 258, Mismatches: 31, Indels: 39
0.79 0.09 0.12
Matches are distributed among these distances:
50 2 0.01
51 35 0.14
52 3 0.01
54 18 0.07
55 148 0.57
56 50 0.19
57 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (54 bp):
GAGTCTTATACTCCTTGAACGAATAGGGAGCAGACCGTTTGTCCAAGATTGTTC
Found at i:2306830 original size:35 final size:36
Alignment explanation
Indices: 2306754--2306831 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
2306744 CAAGTACTAC
*
2306754 ATTAAATATTTTATCAAAATAAAAGAATCATATTAT
1 ATTAAATATTTTATCAAAATAAAAGAATCATATAAT
* * * *
2306790 TTTAAATATTTTATTAAAATATAA-TATCATATAAT
1 ATTAAATATTTTATCAAAATAAAAGAATCATATAAT
2306825 ATTAAAT
1 ATTAAAT
2306832 GGATAATTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 15 0.42
36 21 0.58
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (36 bp):
ATTAAATATTTTATCAAAATAAAAGAATCATATAAT
Found at i:2308086 original size:29 final size:29
Alignment explanation
Indices: 2308031--2308099 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 29
2308021 CTGAATTTAC
* *
2308031 CTCTCTCTTTCCTTCTTTGTATTTCTCTAT
1 CTCTCTCTTT-CTTCTTTCTATATCTCTAT
2308061 CTCTCTCTTT-TGTCTTTCTATATCTCTAT
1 CTCTCTCTTTCT-TCTTTCTATATCTCTAT
2308090 CTCTCTCTTT
1 CTCTCTCTTT
2308100 GAGCAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 1 0.03
29 25 0.69
30 10 0.28
ACGTcount: A:0.07, C:0.30, G:0.03, T:0.59
Consensus pattern (29 bp):
CTCTCTCTTTCTTCTTTCTATATCTCTAT
Found at i:2319125 original size:37 final size:36
Alignment explanation
Indices: 2319053--2319127 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 36
2319043 GTTGAAAAAT
*
2319053 ATTTATATATTTTCTTTAAAAAATTTAAATTTATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAA-TTATAAA
* *
2319090 ATTTATATAATTTTTTTTACAAAATTGAAGA-TATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAA-ATTATAAA
2319127 A
1 A
2319128 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 15 0.45
38 17 0.52
39 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAAATTGAAATTATAAA
Found at i:2320919 original size:11 final size:11
Alignment explanation
Indices: 2320903--2320934 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
2320893 TACCCACCCC
2320903 GCATCCGCCTT
1 GCATCCGCCTT
2320914 GCATCCGCCTT
1 GCATCCGCCTT
2320925 GCATCCGCCT
1 GCATCCGCCT
2320935 GCCCCACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.09, C:0.47, G:0.19, T:0.25
Consensus pattern (11 bp):
GCATCCGCCTT
Found at i:2335638 original size:2 final size:2
Alignment explanation
Indices: 2335631--2335661 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2335621 TCAAATTGAT
2335631 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2335662 TTTATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2336208 original size:39 final size:39
Alignment explanation
Indices: 2336154--2336232 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
2336144 TGACGTGCTC
*
2336154 CATCCGAGTCTACTTTAAACCATTATCAGGCGGATATTG
1 CATCCGAGTCCACTTTAAACCATTATCAGGCGGATATTG
2336193 CATCCGAGTCCACTTTAAACCATTATCAGGCGGATATTG
1 CATCCGAGTCCACTTTAAACCATTATCAGGCGGATATTG
2336232 C
1 C
2336233 CAAGGGATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (39 bp):
CATCCGAGTCCACTTTAAACCATTATCAGGCGGATATTG
Found at i:2337821 original size:90 final size:91
Alignment explanation
Indices: 2337644--2337825 Score: 321
Period size: 92 Copynumber: 2.0 Consensus size: 91
2337634 AGAAAAATAT
*
2337644 CATTTTCTATGTTCATATATAAAAGTAGATCATCCTAATTCATAGAAAGAAGGGGGGGGGGGGAA
1 CATTTTCTATGTTCATATATAAAAGTAGATCATCCTAATTCATAGAAAGAAAGGGGGGGGGGG-A
2337709 AGAAGAGAAAACAATATTATGAGAAAG
65 AGAAGAGAAAACAATATTATGAGAAAG
*
2337736 CATTTTCTATGTTCATATATAAAAGTAGATCATCCTAATTCTTAGAAAGAAAGGGGGGGGGGG-A
1 CATTTTCTATGTTCATATATAAAAGTAGATCATCCTAATTCATAGAAAGAAAGGGGGGGGGGGAA
*
2337800 GGAGAGAAAACAATATTATGAGAAAG
66 GAAGAGAAAACAATATTATGAGAAAG
2337826 AGACTTTTAT
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
90 26 0.30
92 61 0.70
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (91 bp):
CATTTTCTATGTTCATATATAAAAGTAGATCATCCTAATTCATAGAAAGAAAGGGGGGGGGGGAA
GAAGAGAAAACAATATTATGAGAAAG
Done.