Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 337 of 433
Found at i:105448117 original size:24 final size:24
Alignment explanation
Indices: 105448083--105448181 Score: 137
Period size: 24 Copynumber: 4.1 Consensus size: 24
105448073 AAGGCTATCA
*
105448083 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
**
105448107 GGAGATAATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
105448131 GGAGAGGATGTTA-GAGCTGATAAG
1 GGAGAGGAT-TTAGGAGCTGATAAG
* *
105448155 AGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
105448179 GGA
1 GGA
105448182 TAACGGTGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 3 0.05
24 60 0.91
25 3 0.05
ACGTcount: A:0.35, C:0.04, G:0.38, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:105449079 original size:17 final size:18
Alignment explanation
Indices: 105449057--105449098 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
105449047 AGTTCGTTTC
*
105449057 GGTAGTTAGATTAATGT-
1 GGTAGTTAGATAAATGTA
* *
105449074 GGTAGTAATATAAATGTA
1 GGTAGTTAGATAAATGTA
105449092 GGTAGTT
1 GGTAGTT
105449099 CGTGCATGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.29, T:0.38
Consensus pattern (18 bp):
GGTAGTTAGATAAATGTA
Found at i:105449653 original size:27 final size:27
Alignment explanation
Indices: 105449613--105449723 Score: 147
Period size: 27 Copynumber: 4.1 Consensus size: 27
105449603 AGGAAGCGTC
*
105449613 CTGGTGGCTA-TGCCACA-ATTATCTGAT
1 CTGGTGGC-ACTGCCACATA-TATCTGTT
105449640 CTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACATATATCTGTT
*
105449667 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACATATATCTGTT
* *
105449694 CTGGTGACACTGTCACAT-TATCTGTT
1 CTGGTGGCACTGCCACATATATCTGTT
105449720 CTGG
1 CTGG
105449724 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 13 0.17
27 63 0.82
28 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCACTGCCACATATATCTGTT
Found at i:105451011 original size:16 final size:16
Alignment explanation
Indices: 105450987--105451020 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
105450977 ATCTTTTAGT
*
105450987 TTTTTTTTTAATTTTA
1 TTTTGTTTTAATTTTA
105451003 TTTTGTTTTAATTTTA
1 TTTTGTTTTAATTTTA
105451019 TT
1 TT
105451021 AATTTAACAT
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:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTGTTTTAATTTTA
Found at i:105456966 original size:46 final size:46
Alignment explanation
Indices: 105456916--105457091 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
105456906 TGGTTGAGCA
105456916 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
105456962 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GAT-ATAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
105457007 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
105457055 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
105457092 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:105457072 original size:93 final size:93
Alignment explanation
Indices: 105456913--105457084 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
105456903 GGATGGTTGA
* *
105456913 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
105456978 TGAGTCCGAGTTCGTGAGATATAACTAG
66 TGAGTCCGAGTTCGTGAGATATAACTAG
*
105457006 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
105457071 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
105457085 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATATAACTAG
Found at i:105463842 original size:29 final size:29
Alignment explanation
Indices: 105463795--105463866 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
105463785 CACTTGGCCT
* *
105463795 AATCTCATTTATATGGCCCATCAGGCCCA
1 AATCACATTCATATGGCCCATCAGGCCCA
* *
105463824 ATTCACATTCATATGGCCCATTAGGCCCA
1 AATCACATTCATATGGCCCATCAGGCCCA
*
105463853 AATCACATGCATAT
1 AATCACATTCATAT
105463867 TCATGCTCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (29 bp):
AATCACATTCATATGGCCCATCAGGCCCA
Found at i:105467123 original size:22 final size:23
Alignment explanation
Indices: 105467095--105467139 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
105467085 TAGTATGTTT
105467095 TAAATGCTTTAATATAA-TATGA
1 TAAATGCTTTAATATAATTATGA
*
105467117 TAAATGCTTTATTATAATTATGA
1 TAAATGCTTTAATATAATTATGA
105467140 ATTATATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (23 bp):
TAAATGCTTTAATATAATTATGA
Found at i:105467385 original size:51 final size:51
Alignment explanation
Indices: 105467296--105467395 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
105467286 AGATATGTGG
*
105467296 CATCCGAGCTCGTTGAGAGGTCCAAGTTCATGGTGGATGTGATT-CATGTAA
1 CATCCGAGCTCGTTGAGAGGTCCAAGTTCATAGTGGATGTG-TTACATGTAA
* * *
105467347 CATCCGAGCTCGTTGAGAGGTTCGAGTTCGTTAG-GGATGTGTTACATGT
1 CATCCGAGCTCGTTGAGAGGTCCAAGTTC-ATAGTGGATGTGTTACATGT
105467396 TATGTGGTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 2 0.05
51 39 0.91
52 2 0.05
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAGGTCCAAGTTCATAGTGGATGTGTTACATGTAA
Found at i:105468639 original size:42 final size:42
Alignment explanation
Indices: 105468593--105468673 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
105468583 CTGTGTAGAG
*
105468593 GACACGGCCTAGCACACGGGCGTACGCCTTGGCCGTGTGGAT
1 GACACGGCCTAGCACACGGGCGTACGCCTTGGCCATGTGGAT
* **
105468635 GACACGGCCTAGCGCACGGGCGTGTGCCTTGGCCATGTG
1 GACACGGCCTAGCACACGGGCGTACGCCTTGGCCATGTG
105468674 CCCCTAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.15, C:0.31, G:0.37, T:0.17
Consensus pattern (42 bp):
GACACGGCCTAGCACACGGGCGTACGCCTTGGCCATGTGGAT
Found at i:105470306 original size:29 final size:29
Alignment explanation
Indices: 105470264--105470509 Score: 213
Period size: 29 Copynumber: 8.3 Consensus size: 29
105470254 ATGACGCATC
*
105470264 AACGACTATCGACTATGAAAAGGGATGGT
1 AACGACCATCGACTATGAAAAGGGATGGT
* * *
105470293 AACGACCATCGACTGTGAAAGGGGATAGT
1 AACGACCATCGACTATGAAAAGGGATGGT
** *
105470322 ATTGACCATAGACTATGAAAAGGGATGGT
1 AACGACCATCGACTATGAAAAGGGATGGT
* *
105470351 GACGACCATCAACTATGAAAAGGGATGGT
1 AACGACCATCGACTATGAAAAGGGATGGT
* * *
105470380 AGTGACAACCATCAACTATGAAAAGTGATGGT
1 A---ACGACCATCGACTATGAAAAGGGATGGT
* * * * * **
105470412 GATGACCATCGAATATAAAAAAGGATACT
1 AACGACCATCGACTATGAAAAGGGATGGT
** *
105470441 TTCGACTATCGACTATGAAAAGGGATGGT
1 AACGACCATCGACTATGAAAAGGGATGGT
* * *
105470470 GACAACCATCGATTAATGAAAAGGGATGGT
1 AACGACCATCGACT-ATGAAAAGGGATGGT
**
105470500 TTCGACCATC
1 AACGACCATC
105470510 ATTAGCACAT
Statistics
Matches: 168, Mismatches: 45, Indels: 7
0.76 0.20 0.03
Matches are distributed among these distances:
29 120 0.71
30 22 0.13
32 26 0.15
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (29 bp):
AACGACCATCGACTATGAAAAGGGATGGT
Found at i:105471851 original size:29 final size:29
Alignment explanation
Indices: 105471818--105471949 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
105471808 GTGACGAGAT
*
105471818 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
105471847 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
105471876 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
105471905 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
105471934 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
105471950 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:105473984 original size:12 final size:12
Alignment explanation
Indices: 105473950--105473976 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
105473940 GCATTTATAC
105473950 GGCCTAGCACAT
1 GGCCTAGCACAT
105473962 GGCCTAGCACAT
1 GGCCTAGCACAT
105473974 GGC
1 GGC
105473977 TTGGCACACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (12 bp):
GGCCTAGCACAT
Found at i:105474820 original size:20 final size:20
Alignment explanation
Indices: 105474795--105474920 Score: 90
Period size: 20 Copynumber: 6.3 Consensus size: 20
105474785 CACATACATG
*
105474795 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTAGGTA
* * * * *
105474815 CCCCTGATTGCACATATGTG
1 CCCCTGTTTGTACTTAGGTA
*
105474835 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTAGGTA
* * * * *
105474855 TCCTTATTTGTACTTCGATA
1 CCCCTGTTTGTACTTAGGTA
** * * * *
105474875 CCCCTAATTGCACATATGTG
1 CCCCTGTTTGTACTTAGGTA
105474895 CCCCTGTTTGTACTTAGGTA
1 CCCCTGTTTGTACTTAGGTA
105474915 CCCCTG
1 CCCCTG
105474921 AACGCATTTA
Statistics
Matches: 74, Mismatches: 32, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.16, C:0.29, G:0.17, T:0.38
Consensus pattern (20 bp):
CCCCTGTTTGTACTTAGGTA
Found at i:105474837 original size:40 final size:40
Alignment explanation
Indices: 105474779--105474854 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
105474769 AATTATTGAA
105474779 TGATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
** *
105474819 TGATTGCACATATGTGCCCCTGTTTGTACTTTGGTA
1 TGATTGCACATACATGCCCCTGTTTGTACTTCGGTA
105474855 TCCTTATTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (40 bp):
TGATTGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
Found at i:105474894 original size:60 final size:60
Alignment explanation
Indices: 105474801--105474914 Score: 201
Period size: 60 Copynumber: 1.9 Consensus size: 60
105474791 CATGCCCCTG
* * *
105474801 TTTGTACTTCGGTACCCCTGATTGCACATATGTGCCCCTGTTTGTACTTTGGTATCCTTA
1 TTTGTACTTCGATACCCCTAATTGCACATATGTGCCCCTGTTTGTACTTAGGTATCCTTA
105474861 TTTGTACTTCGATACCCCTAATTGCACATATGTGCCCCTGTTTGTACTTAGGTA
1 TTTGTACTTCGATACCCCTAATTGCACATATGTGCCCCTGTTTGTACTTAGGTA
105474915 CCCCTGAACG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.40
Consensus pattern (60 bp):
TTTGTACTTCGATACCCCTAATTGCACATATGTGCCCCTGTTTGTACTTAGGTATCCTTA
Found at i:105476088 original size:37 final size:37
Alignment explanation
Indices: 105476047--105476122 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
105476037 TCAAAGAAAG
105476047 TAGAATTGGGGAATTACTTTTGGAAAAACGATTGAAT
1 TAGAATTGGGGAATTACTTTTGGAAAAACGATTGAAT
*
105476084 TAGAATTGGGGAATTACTTTTTGAAAAACGATTGAAT
1 TAGAATTGGGGAATTACTTTTGGAAAAACGATTGAAT
105476121 TA
1 TA
105476123 AGACAATACC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.34
Consensus pattern (37 bp):
TAGAATTGGGGAATTACTTTTGGAAAAACGATTGAAT
Found at i:105491496 original size:40 final size:39
Alignment explanation
Indices: 105491452--105491633 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
105491442 GTTCAAAACA
* * ** * *
105491452 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
105491492 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
105491532 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
105491571 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
105491610 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
105491634 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:105491563 original size:39 final size:39
Alignment explanation
Indices: 105491482--105491634 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
105491472 TATGGTAACC
* *
105491482 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
105491522 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
105491561 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
105491600 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
105491635 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:105499580 original size:40 final size:39
Alignment explanation
Indices: 105499536--105499717 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
105499526 GTTCAAAACA
* * ** * *
105499536 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
105499576 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
105499616 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
105499655 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
105499694 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
105499718 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:105499647 original size:39 final size:39
Alignment explanation
Indices: 105499566--105499718 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
105499556 TATGGTAACC
* *
105499566 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
105499606 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
105499645 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
105499684 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
105499719 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:105504786 original size:6 final size:6
Alignment explanation
Indices: 105504775--105504967 Score: 175
Period size: 6 Copynumber: 31.8 Consensus size: 6
105504765 AACTAAAATG
*
105504775 AGAATC AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
* * *
105504823 AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGACTC AGTAA-C AGAATC
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
105504872 AGAATT AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* *
105504920 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
105504968 GTGAATGCAA
Statistics
Matches: 153, Mismatches: 18, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
5 11 0.07
6 130 0.85
7 9 0.06
8 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:105505122 original size:27 final size:26
Alignment explanation
Indices: 105505085--105505150 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
105505075 AGCATGGCTG
*
105505085 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
105505111 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
105505138 CCAGAATCAGATA
1 CCAGAA-CAGATA
105505151 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:105505155 original size:27 final size:27
Alignment explanation
Indices: 105505085--105505158 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
105505075 AGCATGGCTG
* *
105505085 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
105505111 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
105505138 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
105505159 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:105505165 original size:27 final size:27
Alignment explanation
Indices: 105505109--105505166 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
105505099 GTGACAGAGT
* * *
105505109 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
105505136 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
105505163 CACC
1 CACC
105505167 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:105505371 original size:22 final size:22
Alignment explanation
Indices: 105505323--105505381 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
105505313 GTAAATACGT
*
105505323 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
105505345 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
105505367 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
105505382 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:105505508 original size:27 final size:26
Alignment explanation
Indices: 105505469--105505551 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
105505459 TCGATCGGTC
*
105505469 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGTCACCAG
*
105505495 ATACAGATATTGTGGCAGAGTCACTAG
1 A-ACAGATATTGTGGCAGAGTCACCAG
* *
105505522 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGTCACCAG
105505549 AAC
1 AAC
105505552 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGTCACCAG
Found at i:105505780 original size:27 final size:27
Alignment explanation
Indices: 105505750--105505946 Score: 182
Period size: 27 Copynumber: 7.3 Consensus size: 27
105505740 GGGGCAAAAT
* *
105505750 GGTAATTTTAACCC-ACAAAGGTATCTC
1 GGTAATTTT-ACCCTACAAGGGTATTTC
*
105505777 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
105505804 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
105505831 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
105505858 GGTAATTCTATCTTATAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
** * * *
105505885 ATTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
105505912 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
105505939 AGTAATTT
1 GGTAATTT
105505947 CACAATCAAG
Statistics
Matches: 141, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.05
27 131 0.93
28 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:105505837 original size:54 final size:54
Alignment explanation
Indices: 105505750--105505938 Score: 229
Period size: 54 Copynumber: 3.5 Consensus size: 54
105505740 GGGGCAAAAT
* * * * *
105505750 GGTAATTTTAACCC-ACAAAGGTATCTCGGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCT-ACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* *
105505804 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
* * * *
105505858 GGTAATTCTATCTTATAAGGGTATTTC-ATTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTTC
* *
105505912 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
105505939 AGTAATTTCA
Statistics
Matches: 115, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 5 0.04
54 110 0.96
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
Found at i:105505944 original size:81 final size:81
Alignment explanation
Indices: 105505769--105505945 Score: 239
Period size: 81 Copynumber: 2.2 Consensus size: 81
105505759 AACCCACAAA
* * *
105505769 GGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
105505834 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
* * * * * * *
105505850 GGTATTTTGGTAATTCTATCTTATAAGGGTATTTCATTAATTCTACCCTATAGGGGTATTTCGGA
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC-GA
105505915 -AATTCTACCCTACAGG
65 TAATTCTACCCTACAGG
*
105505931 GGTATTTCAGTAATT
1 GGTATTTCGGTAATT
105505946 TCACAATCAA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 81 0.98
82 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAT
AATTCTACCCTACAGG
Found at i:105505980 original size:27 final size:27
Alignment explanation
Indices: 105505950--105506304 Score: 423
Period size: 27 Copynumber: 13.2 Consensus size: 27
105505940 GTAATTTCAC
*
105505950 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
105505977 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
105506004 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
105506031 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
105506058 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
105506085 AATTGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
105506112 AA-CTGAGGGTAAAACGGTAATTCTTTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
105506139 AATTGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
105506166 AA-CTGAGGGTAAAACAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
105506193 AATTGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
105506220 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
105506247 AATCGAGGGT-AAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
105506273 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
105506300 AATCG
1 AATCG
105506305 GGAGTACTTT
Statistics
Matches: 280, Mismatches: 39, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
26 26 0.09
27 252 0.90
28 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:105520763 original size:40 final size:39
Alignment explanation
Indices: 105520652--105520802 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
105520642 TATACCATGT
* ** *
105520652 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
*
105520692 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *** *
105520732 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACCACTA
* *
105520772 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
105520803 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACCACTA
Found at i:105520786 original size:80 final size:79
Alignment explanation
Indices: 105520652--105520802 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
105520642 TATACCATGT
*
105520652 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
105520717 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
105520732 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
105520795 CCGGATAT
64 CCGGATAT
105520803 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:105527211 original size:39 final size:39
Alignment explanation
Indices: 105527167--105527291 Score: 153
Period size: 39 Copynumber: 3.2 Consensus size: 39
105527157 CGGAATATAA
*
105527167 CCGGATAAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
** * *
105527206 CCGGATAAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
105527245 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATA-AACCACTAGCACAAATGCCTTCGGGTCTTAGC
105527285 CCGGATA
1 CCGGATA
105527292 TAATTTCCAG
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 40 0.55
40 33 0.45
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CCGGATAAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:105527288 original size:40 final size:38
Alignment explanation
Indices: 105527182--105527329 Score: 147
Period size: 40 Copynumber: 3.8 Consensus size: 38
105527172 TAAACCATGT
* *
105527182 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATATGACTA
105527221 GCACGAATGCCTTCGGGTCTTAGCCCGGATATA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATATG--ACTA
* ** *
105527261 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT-ATGACTA
* *
105527301 GCATAATTGTCTTCGGG-CTTAGCCCGGAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGAT
105527330 GTCATTCAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 44 0.47
40 48 0.51
41 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATATGACTA
Found at i:105535356 original size:40 final size:40
Alignment explanation
Indices: 105535296--105535479 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
105535286 TATTCGAATG
*
105535296 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
105535336 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
105535376 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
105535416 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
105535456 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
105535480 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 122 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:105535429 original size:80 final size:80
Alignment explanation
Indices: 105535296--105535479 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
105535286 TATTCGAATG
* * *
105535296 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
105535360 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
105535376 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
105535441 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
105535456 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
105535480 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:105535782 original size:22 final size:22
Alignment explanation
Indices: 105535740--105535783 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
105535730 AAAATGTGCA
* *
105535740 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
105535762 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
105535784 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:105542434 original size:24 final size:24
Alignment explanation
Indices: 105542402--105542508 Score: 196
Period size: 24 Copynumber: 4.5 Consensus size: 24
105542392 TTAAGTGTTN
105542402 TATGTGTGCGATTTACTATGGCAC
1 TATGTGTGCGATTTACTATGGCAC
105542426 TATGTGTGCGATTTACTATGGCAC
1 TATGTGTGCGATTTACTATGGCAC
105542450 TATGTGTGCGATTTACTATGGCAC
1 TATGTGTGCGATTTACTATGGCAC
**
105542474 TATGTGTGCGATTCGCTATGGCAC
1 TATGTGTGCGATTTACTATGGCAC
105542498 TATGTGTGCGA
1 TATGTGTGCGA
105542509 ACATAATAAG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 81 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (24 bp):
TATGTGTGCGATTTACTATGGCAC
Found at i:105542522 original size:48 final size:48
Alignment explanation
Indices: 105542402--105542530 Score: 152
Period size: 48 Copynumber: 2.7 Consensus size: 48
105542392 TTAAGTGTTN
** * * *
105542402 TATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCAC
1 TATGTGTGCGACATAATATAGCACTATGTGTGCGATTCACTATGGCAC
** * * *
105542450 TATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCGCTATGGCAC
1 TATGTGTGCGACATAATATAGCACTATGTGTGCGATTCACTATGGCAC
105542498 TATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 TATGTGTGCG-ACATAATATAGCACTATGTGTGC
105542531 CACATTCGGT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
48 69 0.93
49 5 0.07
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (48 bp):
TATGTGTGCGACATAATATAGCACTATGTGTGCGATTCACTATGGCAC
Found at i:105550114 original size:24 final size:23
Alignment explanation
Indices: 105550077--105550237 Score: 252
Period size: 24 Copynumber: 6.8 Consensus size: 23
105550067 TGCTGGAATA
105550077 TATGGCACTATGTGTGCGA-TAC
1 TATGGCACTATGTGTGCGATTAC
*
105550099 TATGGCACTATGTGTGCGATCCAC
1 TATGGCACTATGTGTGCGAT-TAC
105550123 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGA-TTAC
105550147 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGA-TTAC
105550171 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGA-TTAC
*
105550195 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATT-AC
105550219 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
105550238 ACATAATAAG
Statistics
Matches: 132, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
22 19 0.14
23 2 0.02
24 110 0.83
25 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (23 bp):
TATGGCACTATGTGTGCGATTAC
Found at i:105550163 original size:48 final size:48
Alignment explanation
Indices: 105550077--105550237 Score: 281
Period size: 48 Copynumber: 3.4 Consensus size: 48
105550067 TGCTGGAATA
*
105550077 TATGGCACTATGTGTGCGA--TACTATGGCACTATGTGTGCGATCCAC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCAC
*
105550123 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCAC
*
105550171 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCAC
105550219 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
105550238 ACATAATAAG
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
46 19 0.17
48 90 0.83
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (48 bp):
TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCAC
Found at i:105550187 original size:72 final size:70
Alignment explanation
Indices: 105550077--105550259 Score: 269
Period size: 72 Copynumber: 2.6 Consensus size: 70
105550067 TGCTGGAATA
105550077 TATGGCACTATGTGTGCGATACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGATACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTGCGA
*
105550142 TTTAC
66 TTCAC
**
105550147 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGC
1 TATGGCACTATGTGTGCGA--TACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTGC
*
105550212 GATTCGC
64 GATTCAC
*
105550219 TATGGCACTATGTGTGCGA-ACATAATAAGCACTATGTGTGC
1 TATGGCACTATGTGTGCGATAC-T-AT-GGCACTATGTGTGC
105550260 CACATTCGGT
Statistics
Matches: 103, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
69 2 0.02
70 20 0.19
71 2 0.02
72 79 0.77
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (70 bp):
TATGGCACTATGTGTGCGATACTATGGCACTATGTGTGCGATCCACTATGGCACTATGTGTGCGA
TTCAC
Found at i:105550251 original size:48 final size:48
Alignment explanation
Indices: 105550077--105550259 Score: 246
Period size: 48 Copynumber: 3.9 Consensus size: 48
105550067 TGCTGGAATA
* *
105550077 TATGGCACTATGTGTGCGA--TACTATGGCACTATGTGTGCGATCCAC
1 TATGGCACTATGTGTGCGACTTAATATGGCACTATGTGTGCGATTCAC
* * *
105550123 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGACTTAATATGGCACTATGTGTGCGATTCAC
* * *
105550171 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGACTTAATATGGCACTATGTGTGCGATTCAC
* *
105550219 TATGGCACTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 TATGGCACTATGTGTGCG-ACTTAATATGGCACTATGTGTGC
105550260 CACATTCGGT
Statistics
Matches: 126, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
46 19 0.15
48 102 0.81
49 5 0.04
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (48 bp):
TATGGCACTATGTGTGCGACTTAATATGGCACTATGTGTGCGATTCAC
Found at i:105557860 original size:24 final size:24
Alignment explanation
Indices: 105557833--105557995 Score: 290
Period size: 24 Copynumber: 6.8 Consensus size: 24
105557823 GCTGGAATTA
105557833 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
105557857 TATGGCACTATGTGTGCGATCCAC
1 TATGGCACTATGTGTGCGATTTAC
105557881 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
105557905 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
105557929 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
105557953 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
105557977 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
105557996 ACATAATAAG
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 133 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:105561972 original size:20 final size:20
Alignment explanation
Indices: 105561947--105562000 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
105561937 ACATTAGTGA
105561947 AAAAAATTATAAATATAAAT
1 AAAAAATTATAAATATAAAT
* *
105561967 AAAAAATATTTATATATAAAT
1 AAAAAAT-TATAAATATAAAT
*
105561988 -TAAAA-TATAAATA
1 AAAAAATTATAAATA
105562001 GAATAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 6 0.21
20 11 0.39
21 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATTATAAATATAAAT
Found at i:105561972 original size:21 final size:21
Alignment explanation
Indices: 105561946--105561992 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
105561936 CACATTAGTG
105561946 AAAAAA-ATTATAAATATAAAT
1 AAAAAATATT-TAAATATAAAT
*
105561967 AAAAAATATTTATATATAAAT
1 AAAAAATATTTAAATATAAAT
*
105561988 TAAAA
1 AAAAA
105561993 TATAAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAAATATTTAAATATAAAT
Found at i:105568720 original size:26 final size:26
Alignment explanation
Indices: 105568684--105568741 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
105568674 ACAACACAAT
105568684 GATCAAAGTAGTAGCACCTTTTCAAC
1 GATCAAAGTAGTAGCACCTTTTCAAC
105568710 GATCAAAGTAGTAGCACCTTTTCAAC
1 GATCAAAGTAGTAGCACCTTTTCAAC
105568736 GATCAA
1 GATCAA
105568742 CGAACAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (26 bp):
GATCAAAGTAGTAGCACCTTTTCAAC
Found at i:105569097 original size:10 final size:10
Alignment explanation
Indices: 105569082--105569141 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
105569072 TAATTTTAGG
105569082 ATTTAT-TTT
1 ATTTATCTTT
105569091 CATTTATCTTT
1 -ATTTATCTTT
105569102 ATTTATCTTT
1 ATTTATCTTT
*
105569112 AATTATCTTT
1 ATTTATCTTT
105569122 ATTTAT-TTGT
1 ATTTATCTT-T
105569132 ATTTATCTTT
1 ATTTATCTTT
105569142 TAGAATTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:105580451 original size:25 final size:25
Alignment explanation
Indices: 105580416--105580463 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
105580406 TACAGGAACT
105580416 AATTTTAAACAATAAAAA-TAAATAA
1 AATTTTAAACAA-AAAAATTAAATAA
*
105580441 AATTTTTAACAAAAAAATTAAAT
1 AATTTTAAACAAAAAAATTAAAT
105580464 TGTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (25 bp):
AATTTTAAACAAAAAAATTAAATAA
Found at i:105586156 original size:20 final size:20
Alignment explanation
Indices: 105586131--105586168 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
105586121 CACAGGAAAT
105586131 AAATGAGCATAAGA-AATGAA
1 AAATGAG-ATAAGATAATGAA
105586151 AAATGAGATAAGATAATG
1 AAATGAGATAAGATAATG
105586169 CACTAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.03, G:0.21, T:0.18
Consensus pattern (20 bp):
AAATGAGATAAGATAATGAA
Found at i:105589267 original size:12 final size:12
Alignment explanation
Indices: 105589250--105589279 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
105589240 AAAGAAAGAT
105589250 AAATAAAAAATA
1 AAATAAAAAATA
105589262 AAATAAAAAATA
1 AAATAAAAAATA
105589274 ATAATA
1 A-AATA
105589280 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AAATAAAAAATA
Found at i:105589342 original size:12 final size:12
Alignment explanation
Indices: 105589322--105589358 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
105589312 AAAGGTATTT
*
105589322 GTAATAATAATA
1 GTAAAAATAATA
105589334 GTAAAAATAATA
1 GTAAAAATAATA
*
105589346 TTAAAAATAATA
1 GTAAAAATAATA
105589358 G
1 G
105589359 AAATAATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (12 bp):
GTAAAAATAATA
Found at i:105589425 original size:6 final size:5
Alignment explanation
Indices: 105589408--105589488 Score: 66
Period size: 5 Copynumber: 16.6 Consensus size: 5
105589398 TAAGAATAAT
* *
105589408 AAAT- AAATA AAATA AAA-A ATTAGTA AAATA AAA-A TAAATA ATATA
1 AAATA AAATA AAATA AAATA A--AATA AAATA AAATA -AAATA AAATA
105589453 AAA-A ATAAT- AAAT- AAATA AAATA AAATA AAATA AAA
1 AAATA A-AATA AAATA AAATA AAATA AAATA AAATA AAA
105589489 GGGGTGGCTT
Statistics
Matches: 64, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
4 16 0.25
5 44 0.69
6 2 0.03
7 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:105589427 original size:16 final size:16
Alignment explanation
Indices: 105589397--105589488 Score: 91
Period size: 16 Copynumber: 5.7 Consensus size: 16
105589387 AAATCTAAGT
*
105589397 ATAAGAATAATAAATAA
1 ATAA-AATAAAAAATAA
*
105589414 ATAAAATAAAAAATTA
1 ATAAAATAAAAAATAA
*
105589430 GTAAAAT-AAAAATAA
1 ATAAAATAAAAAATAA
*
105589445 ATAATATAAAAAAT-A
1 ATAAAATAAAAAATAA
105589460 AT-AAATAAATAAAATAAA
1 ATAAAAT-AA-AAAAT-AA
105589478 ATAAAATAAAA
1 ATAAAATAAAA
105589489 GGGGTGGCTT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
14 3 0.05
15 17 0.27
16 27 0.44
17 6 0.10
18 5 0.08
19 4 0.06
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (16 bp):
ATAAAATAAAAAATAA
Found at i:105589442 original size:15 final size:15
Alignment explanation
Indices: 105589397--105589487 Score: 82
Period size: 15 Copynumber: 6.1 Consensus size: 15
105589387 AAATCTAAGT
105589397 ATAAGAATAATAAATAA
1 ATAA-AATAA-AAATAA
*
105589414 ATAAAATAAAAAATTA
1 ATAAAAT-AAAAATAA
*
105589430 GTAAAATAAAAATAA
1 ATAAAATAAAAATAA
*
105589445 ATAATATAAAAA-ATA
1 ATAAAATAAAAATA-A
*
105589460 AT-AAATAAATA-AA
1 ATAAAATAAAAATAA
105589473 ATAAAAT-AAAATAA
1 ATAAAATAAAAATAA
105589487 A
1 A
105589488 AGGGGTGGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
13 6 0.10
14 16 0.26
15 20 0.32
16 14 0.23
17 6 0.10
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (15 bp):
ATAAAATAAAAATAA
Found at i:105589458 original size:38 final size:34
Alignment explanation
Indices: 105589405--105589487 Score: 94
Period size: 38 Copynumber: 2.3 Consensus size: 34
105589395 GTATAAGAAT
* *
105589405 AATAAATAAATAAAATAAAAAATTAGTAAAATAAA
1 AATAAATAAATAAAATAAAAAATAAATAAAAT-AA
*
105589440 AATAAATAATATAAAAAATAATAAATAAATAAAATAA
1 AATAAATAA-AT--AAAATAAAAAATAAATAAAATAA
105589477 AATAAAATAAA
1 AAT-AAATAAA
105589488 AGGGGTGGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 9 0.22
36 2 0.05
37 6 0.15
38 24 0.59
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (34 bp):
AATAAATAAATAAAATAAAAAATAAATAAAATAA
Found at i:105589468 original size:23 final size:23
Alignment explanation
Indices: 105589402--105589487 Score: 61
Period size: 23 Copynumber: 3.6 Consensus size: 23
105589392 TAAGTATAAG
105589402 AATAATAAATAAATAAAATAAAA
1 AATAATAAATAAATAAAATAAAA
* *
105589425 AATTAGTAAAATAAAAATAAATAATATA
1 AA-TAAT-AAATAAATA-AAATAA-A-A
*
105589453 AAAAAT-AATAAAT-AAATAAAA
1 AATAATAAATAAATAAAATAAAA
105589474 TAA-AATAAAATAAA
1 -AATAAT-AAATAAA
105589488 AGGGGTGGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
21 4 0.08
22 3 0.06
23 14 0.28
24 3 0.06
25 14 0.28
26 6 0.12
27 3 0.06
28 3 0.06
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (23 bp):
AATAATAAATAAATAAAATAAAA
Found at i:105589799 original size:30 final size:30
Alignment explanation
Indices: 105589765--105589831 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
105589755 TGCCCGTGTG
* * *
105589765 TCCAGGCCGTATGTGCCACATGGTTGTATC
1 TCCAGGCCATATGTGCCACACGGTCGTATC
* * *
105589795 TCCAGGCTATGTGTGCCACACGGTCGTGTC
1 TCCAGGCCATATGTGCCACACGGTCGTATC
105589825 TCCAGGC
1 TCCAGGC
105589832 TGTTTGTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.27
Consensus pattern (30 bp):
TCCAGGCCATATGTGCCACACGGTCGTATC
Found at i:105589832 original size:30 final size:30
Alignment explanation
Indices: 105589776--105589832 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
105589766 CCAGGCCGTA
* *
105589776 TGTGCCACATGGTTGTATCTCCAGGCTATG
1 TGTGCCACACGGTCGTATCTCCAGGCTATG
*
105589806 TGTGCCACACGGTCGTGTCTCCAGGCT
1 TGTGCCACACGGTCGTATCTCCAGGCT
105589833 GTTTGTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.28, G:0.28, T:0.30
Consensus pattern (30 bp):
TGTGCCACACGGTCGTATCTCCAGGCTATG
Found at i:105595249 original size:29 final size:29
Alignment explanation
Indices: 105595217--105595323 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
105595207 ATACCCTCCG
** *
105595217 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
105595246 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
105595275 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
105595304 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
105595324 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:105596224 original size:143 final size:143
Alignment explanation
Indices: 105595966--105596263 Score: 587
Period size: 143 Copynumber: 2.1 Consensus size: 143
105595956 AAATTCTATA
105595966 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
105596031 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
66 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
*
105596096 AGGAAGACAACAT
131 AGGAAAACAACAT
105596109 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
105596174 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
66 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
105596239 AGGAAAACAACAT
131 AGGAAAACAACAT
105596252 GCATGGCCGAAT
1 GCATGGCCGAAT
105596264 TTTAACTCAC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 154 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.21
Consensus pattern (143 bp):
GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
AGGAAAACAACAT
Found at i:105597409 original size:6 final size:6
Alignment explanation
Indices: 105597366--105597434 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
105597356 TGCCAGAAGC
* * * *
105597366 AAATAA AAGA-AA AATTAGA AAACAA AAATTA AACTAA AAATAA AAATAA
1 AAATAA AA-ATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAATAA
*
105597415 AAAT-A TAAT-A AAATAA AAAT
1 AAATAA AAATAA AAATAA AAAT
105597435 GGCTAAATTA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
5 8 0.16
6 36 0.73
7 5 0.10
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:105599896 original size:28 final size:28
Alignment explanation
Indices: 105599856--105599912 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
105599846 AAATAATAGG
105599856 TTAAAAGAGAAATATGATAAGTTTAACA
1 TTAAAAGAGAAATATGATAAGTTTAACA
105599884 TTAAAAGAGAAATATGATAAGTTTAACA
1 TTAAAAGAGAAATATGATAAGTTTAACA
105599912 T
1 T
105599913 AACATTTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.30
Consensus pattern (28 bp):
TTAAAAGAGAAATATGATAAGTTTAACA
Found at i:105606975 original size:23 final size:23
Alignment explanation
Indices: 105606945--105606992 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
105606935 CTTTGATATC
105606945 AGCCATCTCTGTGAAATCTGGTA
1 AGCCATCTCTGTGAAATCTGGTA
105606968 AGCCATCTCTGTGAAATCTGGTA
1 AGCCATCTCTGTGAAATCTGGTA
105606991 AG
1 AG
105606993 TTACACACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
AGCCATCTCTGTGAAATCTGGTA
Found at i:105612142 original size:18 final size:18
Alignment explanation
Indices: 105612116--105612150 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
105612106 GAGTTAAACG
105612116 AATCAAGTTATTCGAGTT
1 AATCAAGTTATTCGAGTT
* *
105612134 AATCGAGTTATTTGAGT
1 AATCAAGTTATTCGAGT
105612151 CAACTCGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (18 bp):
AATCAAGTTATTCGAGTT
Found at i:105612217 original size:9 final size:9
Alignment explanation
Indices: 105612200--105612236 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
105612190 TAAGTTTTCG
105612200 AATTCGAAT
1 AATTCGAAT
*
105612209 AACTCGAAT
1 AATTCGAAT
105612218 AATTCGAAT
1 AATTCGAAT
105612227 AATTCGAAT
1 AATTCGAAT
105612236 A
1 A
105612237 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:105613600 original size:20 final size:20
Alignment explanation
Indices: 105613564--105613605 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
105613554 AACTATTTAA
* *
105613564 ATAATATTATTTGAATAGTT
1 ATAATATTAATTGAATAATT
105613584 ATAATATTAAATT-AATAATT
1 ATAATATT-AATTGAATAATT
105613604 AT
1 AT
105613606 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
ATAATATTAATTGAATAATT
Found at i:105614561 original size:13 final size:13
Alignment explanation
Indices: 105614543--105614584 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
105614533 ATACAACACT
105614543 AAAAAACTATGTC
1 AAAAAACTATGTC
105614556 AAAAAA-TCAT-T-
1 AAAAAACT-ATGTC
105614567 AAAAAACTATGTC
1 AAAAAACTATGTC
105614580 AAAAA
1 AAAAA
105614585 TCATTCTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 8 0.32
12 4 0.16
13 13 0.52
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.21
Consensus pattern (13 bp):
AAAAAACTATGTC
Found at i:105614583 original size:23 final size:24
Alignment explanation
Indices: 105614542--105614589 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
105614532 AATACAACAC
105614542 TAAAAAACTATGTCAAAAAATCAT
1 TAAAAAACTATGTCAAAAAATCAT
105614566 TAAAAAACTATGTC-AAAAATCAT
1 TAAAAAACTATGTCAAAAAATCAT
105614589 T
1 T
105614590 CTCATGTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.27
Consensus pattern (24 bp):
TAAAAAACTATGTCAAAAAATCAT
Found at i:105618482 original size:19 final size:19
Alignment explanation
Indices: 105618436--105618483 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
105618426 GTATATATTT
105618436 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
105618454 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
105618473 TAAGTTTTATT
1 TAAATTTTATT
105618484 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:105618545 original size:43 final size:43
Alignment explanation
Indices: 105618497--105618589 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
105618487 ATTCTAGAAA
105618497 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
105618540 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
105618583 TATTTTC
1 TATTTTC
105618590 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:105620541 original size:40 final size:39
Alignment explanation
Indices: 105620497--105620687 Score: 174
Period size: 40 Copynumber: 4.8 Consensus size: 39
105620487 GGATATAACG
* *
105620497 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTT-TAGTA
*
105620537 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAAGCCC-GGTTTAGTA
* * *
105620577 ACTCACACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGG-TTTAGTA
* * * * *
105620616 ACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTAAGCCCGG-TTTAGTA
* *
105620656 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTCGGGACTAAGCCCGG
105620688 ACATCATTCA
Statistics
Matches: 127, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 6 0.05
39 26 0.20
40 79 0.62
41 16 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTTTAGTA
Found at i:105620605 original size:79 final size:81
Alignment explanation
Indices: 105620504--105620688 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
105620494 ACGACTCGCT
**
105620504 CAAATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCTTAACCC
* *
105620567 GGGTTTAGTAACTCA-CA
64 GGATATAGTAACTCAGCA
* **
105620584 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAACCCGG
* *
105620648 ATATAGTCACTTAGCA
66 ATATAGTAACTCAGCA
105620664 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
105620689 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.61
80 33 0.36
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTCAGCA
Found at i:105628614 original size:40 final size:39
Alignment explanation
Indices: 105628561--105628747 Score: 175
Period size: 40 Copynumber: 4.7 Consensus size: 39
105628551 GGATATAACG
* *
105628561 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTT-TAGTA
*
105628601 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAAGCCC-GGTTTAGTA
* * *
105628641 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTTTAGTA
* * * * *
105628679 ACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTAAGCCCGG-TTTAGTA
* *
105628719 ACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 AC-TCGCACAAATGCCTTCGGGACTAAGCC
105628748 GGACATCATT
Statistics
Matches: 123, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
37 2 0.02
38 26 0.21
39 12 0.10
40 67 0.54
41 16 0.13
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTAAGCCCGGTTTAGTA
Found at i:105628696 original size:78 final size:80
Alignment explanation
Indices: 105628535--105628747 Score: 231
Period size: 78 Copynumber: 2.7 Consensus size: 80
105628525 GAATCACGTA
*** * ** *
105628535 CCTTCGGAAT-TTAA-CCGGATATAACGACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATA
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATA
105628598 GTAACTCGCACGAATG
65 GTAACTCGCACGAATG
* *
105628614 CCTTCGGGA-CTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGATT-TA
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATA
*
105628676 TTAACTCGCACGAATG
65 GTAACTCGCACGAATG
** * *
105628692 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
105628748 GGACATCATT
Statistics
Matches: 112, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
77 3 0.03
78 46 0.41
79 34 0.30
80 29 0.26
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATTATAG
TAACTCGCACGAATG
Found at i:105634527 original size:19 final size:18
Alignment explanation
Indices: 105634498--105634536 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
105634488 GTATATATTT
105634498 TAAATTTATTTAGG-TAGA
1 TAAATTTATTT-GGATAGA
105634516 TAAATCTTATTTGGATAGA
1 TAAAT-TTATTTGGATAGA
105634535 TA
1 TA
105634537 GTTTTATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (18 bp):
TAAATTTATTTGGATAGA
Found at i:105634604 original size:43 final size:43
Alignment explanation
Indices: 105634557--105634646 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
105634547 TATTCTAAAA
*
105634557 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAACAAGGGAAC
* *
105634600 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAACAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAACAAGGGAAC
105634643 TATT
1 TATT
105634647 CCCAATTAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 42 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAACAAGGGAAC
Found at i:105645493 original size:14 final size:15
Alignment explanation
Indices: 105645456--105645495 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
105645446 TTTTTAAATA
105645456 GAATATAATTTTTAT
1 GAATATAATTTTTAT
* *
105645471 GTATTTAATTTTTAT
1 GAATATAATTTTTAT
105645486 -AATATAATTT
1 GAATATAATTT
105645496 ATTCTTAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
GAATATAATTTTTAT
Found at i:105645815 original size:28 final size:28
Alignment explanation
Indices: 105645775--105645829 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
105645765 CAAATAATTA
105645775 AATTATAGTAATGTAAAATCATAGACAT
1 AATTATAGTAATGTAAAATCATAGACAT
*
105645803 AATTATAGTAATGTAAAATCTTAGACA
1 AATTATAGTAATGTAAAATCATAGACA
105645830 ATCTAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (28 bp):
AATTATAGTAATGTAAAATCATAGACAT
Found at i:105646193 original size:93 final size:91
Alignment explanation
Indices: 105646062--105646237 Score: 246
Period size: 93 Copynumber: 1.9 Consensus size: 91
105646052 AAGCCTCTTC
* * * *
105646062 TTTTTTTTACACTCAATTGAGCACTTGAATTTTTAAAATGCATCAAAAAGGCCCTCAAACTTCTT
1 TTTTTTTTACACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAATTCTT
105646127 CAAAAAAAGCAATTAAGCCTCTGCTTT
66 C-AAAAAAGCAATTAAGCCTCTGCTTT
* * * *
105646154 TTTTTTTTATCACTTAATTG-GATACTTGAACTTTCAAAATGCATCAAAAAGACCCTTAAAATTT
1 TTTTTTTTA-CACTCAATTGAG-CACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAATTC
105646218 TTCAAAAAAGCAATTAAGCC
64 TTCAAAAAAGCAATTAAGCC
105646238 CTTGCTCTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 27 0.36
93 47 0.64
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (91 bp):
TTTTTTTTACACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAATTCTT
CAAAAAAGCAATTAAGCCTCTGCTTT
Found at i:105646360 original size:18 final size:19
Alignment explanation
Indices: 105646329--105646367 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
105646319 ATATAAAAAT
* *
105646329 AATTAG-AATTTTTTTTAA
1 AATTAGAAAATTTTTATAA
105646347 AATTAGAAAATTTTTATAA
1 AATTAGAAAATTTTTATAA
105646366 AA
1 AA
105646368 ATCATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
AATTAGAAAATTTTTATAA
Found at i:105646376 original size:20 final size:20
Alignment explanation
Indices: 105646320--105646377 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
105646310 TTTAATAAAA
*
105646320 TATAAAAATAATTAGAATTTT
1 TATAAAAATAA-TAAAATTTT
* * * *
105646341 TTTTAAAATTAGAAAATTTT
1 TATAAAAATAATAAAATTTT
*
105646361 TATAAAAATCATAAAAT
1 TATAAAAATAATAAAAT
105646378 AAAAATTGAA
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (20 bp):
TATAAAAATAATAAAATTTT
Found at i:105646381 original size:33 final size:33
Alignment explanation
Indices: 105646345--105646409 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
105646335 AATTTTTTTT
**
105646345 AAAATTAGAAAATTTTTATAAAAATCATAAAATA
1 AAAATT-GAAAAAATTTATAAAAATCATAAAATA
105646379 AAAATTGAAAAAATTTATAAAAATCATAAAA
1 AAAATTGAAAAAATTTATAAAAATCATAAAA
105646410 GAAATTAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 23 0.79
34 6 0.21
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (33 bp):
AAAATTGAAAAAATTTATAAAAATCATAAAATA
Found at i:105646697 original size:18 final size:18
Alignment explanation
Indices: 105646619--105646703 Score: 55
Period size: 18 Copynumber: 4.5 Consensus size: 18
105646609 CTTTATAAAA
*
105646619 TTTTATAATTTTTTA-TAT
1 TTTTAT-ATTTTTTACGAT
* * *
105646637 TTCTATATATTTTATGAT
1 TTTTATATTTTTTACGAT
** *
105646655 TTTTATAAAATTTTACAATT
1 TTTTAT-ATTTTTTACGA-T
105646675 GTTTTATATTTTTTACGAT
1 -TTTTATATTTTTTACGAT
105646694 TTTTAATATT
1 TTTT-ATATT
105646704 GGAATTTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
17 7 0.13
18 16 0.31
19 14 0.27
20 9 0.17
21 6 0.12
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTTATATTTTTTACGAT
Found at i:105646702 original size:19 final size:20
Alignment explanation
Indices: 105646665--105646703 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
105646655 TTTTATAAAA
*
105646665 TTTTACAATTGTTTTATATT
1 TTTTACAATTGTTTAATATT
*
105646685 TTTTACGATT-TTTAATATT
1 TTTTACAATTGTTTAATATT
105646704 GGAATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTACAATTGTTTAATATT
Found at i:105646937 original size:87 final size:86
Alignment explanation
Indices: 105646783--105647005 Score: 261
Period size: 87 Copynumber: 2.6 Consensus size: 86
105646773 AATTTTTAAT
* * * * *
105646783 AAAAGCAAGGGCTTAATTTC-TTTTTTGAAAAATTTTGAGGGTTTTTTTTATGCATTTTAAAATT
1 AAAAGTAAGGGCTTAATTACTTTTTTTGAAAAA-TTTGAGGG-TTTTTTGATACATTTTAAAAGT
* *
105646847 TCAAGTACTCAATTGAGTG-AAA
64 TCAAGTACCCAAATGAGTGCAAA
* * *
105646869 AAAAGTAAGGGCTTAATTGCTTTTTTTGTAAAGATTTGAGGGTCTTTTTGATACATTTTGAAAGT
1 AAAAGTAAGGGCTTAATTACTTTTTTTG-AAAAATTTGAGGGT-TTTTTGATACATTTTAAAAGT
105646934 TCAAGTACCCAAATGAGTGCAAA
64 TCAAGTACCCAAATGAGTGCAAA
* * * *
105646957 AAAAATAGGGGCTTAATTACTTTTTTTAAAAAAATTTGACGGTTTTTTG
1 AAAAGTAAGGGCTTAATTACTTTTTTT-GAAAAATTTGAGGGTTTTTTG
105647006 CACCCTTAAA
Statistics
Matches: 117, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
86 19 0.16
87 55 0.47
88 43 0.37
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.40
Consensus pattern (86 bp):
AAAAGTAAGGGCTTAATTACTTTTTTTGAAAAATTTGAGGGTTTTTTGATACATTTTAAAAGTTC
AAGTACCCAAATGAGTGCAAA
Found at i:105647371 original size:1 final size:1
Alignment explanation
Indices: 105647365--105647390 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
105647355 TTTGTAATTT
105647365 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
105647391 GACTTACAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:105649012 original size:26 final size:27
Alignment explanation
Indices: 105648975--105649025 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
105648965 ATTACTCCAC
105648975 TAATAACTTTATCTA-AATA-AAGTAAA
1 TAATAACTTTAT-TATAATACAAGTAAA
105649001 TAATAA-TATTATTATAATACAAGTA
1 TAATAACT-TTATTATAATACAAGTA
105649026 GTTAGAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
25 3 0.14
26 14 0.64
27 5 0.23
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (27 bp):
TAATAACTTTATTATAATACAAGTAAA
Found at i:105650124 original size:1 final size:1
Alignment explanation
Indices: 105650118--105650147 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
105650108 ATTGGTTGTG
105650118 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
105650148 AAGGTTGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:105652772 original size:29 final size:29
Alignment explanation
Indices: 105652733--105652807 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
105652723 GGTTGAGAGA
* *
105652733 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
105652762 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
105652791 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
105652808 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:105657491 original size:2 final size:2
Alignment explanation
Indices: 105657484--105657509 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
105657474 ACATGCATGC
105657484 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
105657510 GCTTATAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105676261 original size:48 final size:48
Alignment explanation
Indices: 105676190--105676339 Score: 158
Period size: 48 Copynumber: 3.1 Consensus size: 48
105676180 CTGGGCTATC
* * * * * * *
105676190 GGCATCGATATATGTTCCAATGTAAAACCATGTTTGGGACATGGCATT
1 GGCATCGACATACGATCCCATGTAAGACCATGTCTAGGACATGGCATT
*
105676238 GGCATCGACCTACGATCCCATGTAAGACCATGTCTAGGACATGGCATT
1 GGCATCGACATACGATCCCATGTAAGACCATGTCTAGGACATGGCATT
* * * * * *
105676286 GGGATCGATATATGATGCCATGTAAGACCATATCTAGGATA-GGACATT
1 GGCATCGACATACGATCCCATGTAAGACCATGTCTAGGACATGG-CATT
105676334 GGCATC
1 GGCATC
105676340 CTACCATGTA
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
47 2 0.02
48 83 0.98
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (48 bp):
GGCATCGACATACGATCCCATGTAAGACCATGTCTAGGACATGGCATT
Found at i:105684783 original size:20 final size:20
Alignment explanation
Indices: 105684737--105684776 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
105684727 CTTGTACAGG
105684737 ATTTGCACTTCGGTGCCTCT
1 ATTTGCACTTCGGTGCCTCT
*
105684757 ATTTGCACTTTGGTGCCTCT
1 ATTTGCACTTCGGTGCCTCT
105684777 TATTGCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.28, G:0.20, T:0.42
Consensus pattern (20 bp):
ATTTGCACTTCGGTGCCTCT
Found at i:105685843 original size:29 final size:30
Alignment explanation
Indices: 105685781--105685844 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
105685771 ACACAGGTTT
*
105685781 TCACACGGTCATGTTCCACACACAATCACT
1 TCACACGGTCATGTTCCACACACAATCACC
* *
105685811 TCACAC-GTCGTGTTCCACACA-AGGTCACC
1 TCACACGGTCATGTTCCACACACA-ATCACC
105685840 TCACA
1 TCACA
105685845 TGGCTGTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 23 0.77
30 6 0.20
ACGTcount: A:0.28, C:0.38, G:0.12, T:0.22
Consensus pattern (30 bp):
TCACACGGTCATGTTCCACACACAATCACC
Found at i:105687394 original size:21 final size:21
Alignment explanation
Indices: 105687369--105687427 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
105687359 ATTTGCCATC
*
105687369 GGTGTCATGACACAGCCATAG
1 GGTGTCACGACACAGCCATAG
** *
105687390 GGTGTTGCGACATAGCCATAG
1 GGTGTCACGACACAGCCATAG
**
105687411 GGTGTTGCGACACAGCC
1 GGTGTCACGACACAGCC
105687428 TTGAAGACAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (21 bp):
GGTGTCACGACACAGCCATAG
Found at i:105687697 original size:15 final size:15
Alignment explanation
Indices: 105687677--105687708 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
105687667 TCAACAGTAG
105687677 TTTTTATTTTTATTT
1 TTTTTATTTTTATTT
*
105687692 TTTTTATTTTTCTTT
1 TTTTTATTTTTATTT
105687707 TT
1 TT
105687709 CACGGGGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:105688067 original size:30 final size:30
Alignment explanation
Indices: 105688027--105688173 Score: 114
Period size: 30 Copynumber: 4.9 Consensus size: 30
105688017 CCAGGCTGTG
* *
105688027 TGACTTATACGGCTAAGACACACTCCCATA
1 TGACTCATACGGCTGAGACACACTCCCATA
** * *
105688057 TGACTCATACGATTGGGACACACTCCCATG
1 TGACTCATACGGCTGAGACACACTCCCATA
* * *
105688087 TGACCCATACGGCTGAGACACACTCCCGTG
1 TGACTCATACGGCTGAGACACACTCCCATA
* * ** * *** *
105688117 TGCCTTATACAACTGAGTCACACTCTTGTG
1 TGACTCATACGGCTGAGACACACTCCCATA
* *
105688147 TGACTCATGCGGCTGATACACACTCCC
1 TGACTCATACGGCTGAGACACACTCCC
105688174 GTGTCTCAGG
Statistics
Matches: 89, Mismatches: 28, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 89 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (30 bp):
TGACTCATACGGCTGAGACACACTCCCATA
Found at i:105688139 original size:60 final size:60
Alignment explanation
Indices: 105688033--105688177 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 60
105688023 TGTGTGACTT
* * * * * *
105688033 ATACGGCTAAGACACACTCCCATATGACTCATACGATTGGGACACACTCCCATGTGACCC
1 ATACGGCTGAGACACACTCCCGTGTGACTCATACAACTGAGACACACTCCCATGTGACCC
* * * *** *
105688093 ATACGGCTGAGACACACTCCCGTGTGCCTTATACAACTGAGTCACACTCTTGTGTGACTC
1 ATACGGCTGAGACACACTCCCGTGTGACTCATACAACTGAGACACACTCCCATGTGACCC
* *
105688153 ATGCGGCTGATACACACTCCCGTGT
1 ATACGGCTGAGACACACTCCCGTGT
105688178 CTCAGGCAAT
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 70 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (60 bp):
ATACGGCTGAGACACACTCCCGTGTGACTCATACAACTGAGACACACTCCCATGTGACCC
Found at i:105703473 original size:20 final size:20
Alignment explanation
Indices: 105703448--105703633 Score: 135
Period size: 20 Copynumber: 9.3 Consensus size: 20
105703438 AAAGTGCAAC
*
105703448 CAGGGGTACCGGAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * *
105703468 CAGGGGCA-CGTAAGTGCAAC
1 CAGGGGTACCG-AAGTACAAA
* *
105703488 CAAGAGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* *** *
105703508 CAGGGGCACATTAGTACAAT
1 CAGGGGTACCGAAGTACAAA
105703528 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
** * *
105703548 CAGGGG-AATGTAAGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
* *
105703568 CAGGCGTACCGTAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * *
105703588 CAGGGGCA-CGTAAGTGCAAT
1 CAGGGGTACCG-AAGTACAAA
105703608 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
*
105703628 TAGGGG
1 CAGGGG
105703634 CACATCATTC
Statistics
Matches: 120, Mismatches: 40, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
19 6 0.05
20 108 0.90
21 6 0.05
ACGTcount: A:0.36, C:0.19, G:0.31, T:0.13
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:105703486 original size:40 final size:40
Alignment explanation
Indices: 105703439--105703636 Score: 279
Period size: 40 Copynumber: 5.0 Consensus size: 40
105703429 AAGGGCACAA
* *
105703439 AAGTGCAACCAGGGGTACCGGAGTACAAACAGGGGCACGT
1 AAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGT
* * * *
105703479 AAGTGCAACCAAGAGTACCGAAGTACAAACAGGGGCACAT
1 AAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGT
* * * *
105703519 TAGTACAATCAGGGGTACCGAAGTACAAACAGGGGAATGT
1 AAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGT
* *
105703559 AAGTGCAATCAGGCGTACCGTAGTACAAACAGGGGCACGT
1 AAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGT
*
105703599 AAGTGCAATCAGGGGTACCGAAGTACAAATAGGGGCAC
1 AAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCAC
105703637 ATCATTCAAT
Statistics
Matches: 137, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.36, C:0.20, G:0.30, T:0.13
Consensus pattern (40 bp):
AAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGT
Found at i:105705007 original size:18 final size:17
Alignment explanation
Indices: 105704975--105705009 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
105704965 TGAATTGCAC
105704975 ATAATTATATTTGATTT
1 ATAATTATATTTGATTT
*
105704992 ATAATGTATGTTTGATTT
1 ATAAT-TATATTTGATTT
105705010 GTATTGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (17 bp):
ATAATTATATTTGATTT
Found at i:105707388 original size:40 final size:40
Alignment explanation
Indices: 105707263--105707390 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
105707253 ATGCTGGAAA
* * * *
105707263 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
105707303 CTACAT-CGGGCTAAGA-CCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
105707341 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
105707381 TTATATCCGG
1 TTATATCCGG
105707391 TTATATTCCG
Statistics
Matches: 67, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
38 18 0.27
39 21 0.31
40 28 0.42
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:105717262 original size:40 final size:40
Alignment explanation
Indices: 105717135--105717264 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
105717125 ATGCTGGAAA
* * *
105717135 TTATATCCGGGTTAAGACCCGAAGGCAATT-GGGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
105717175 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
105717215 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
105717255 TTATATCCGG
1 TTATATCCGG
105717265 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.05
40 71 0.95
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:105725660 original size:90 final size:90
Alignment explanation
Indices: 105725504--105725667 Score: 222
Period size: 90 Copynumber: 1.8 Consensus size: 90
105725494 GCCAAAGCCT
* * * * * *
105725504 TGTCCTCGACATGGTCTTAAATGGGCCTACATATCGATGCCATATCCCAGATATGATTTTATACG
1 TGTCCTAGACATGGTCTTAAACGGGCCTACATATCGATGCCATATCCCAGACATGATCTCACACG
*
105725569 AAGTCTCATGTCAGTGTCGATGCCA
66 AAATCTCATGTCAGTGTCGATGCCA
* * *
105725594 TGTCCTAGACATGGTCTTACACGGGACCT-CATATCGATGCCATGTCCCAGACATGGTCTCACAC
1 TGTCCTAGACATGGTCTTAAACGGG-CCTACATATCGATGCCATATCCCAGACATGATCTCACAC
105725658 GAAATCTCAT
65 GAAATCTCAT
105725668 ATCAACATCA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
90 60 0.95
91 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (90 bp):
TGTCCTAGACATGGTCTTAAACGGGCCTACATATCGATGCCATATCCCAGACATGATCTCACACG
AAATCTCATGTCAGTGTCGATGCCA
Found at i:105725667 original size:42 final size:42
Alignment explanation
Indices: 105725585--105725670 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
105725575 CATGTCAGTG
* * **
105725585 TCGATGCCATGTCCTAGACATGGTCTTACACGGGACCTCATA
1 TCGATGCCATGTCCCAGACATGGTCTCACACGAAACCTCATA
*
105725627 TCGATGCCATGTCCCAGACATGGTCTCACACGAAATCTCATA
1 TCGATGCCATGTCCCAGACATGGTCTCACACGAAACCTCATA
105725669 TC
1 TC
105725671 AACATCATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (42 bp):
TCGATGCCATGTCCCAGACATGGTCTCACACGAAACCTCATA
Found at i:105725757 original size:48 final size:47
Alignment explanation
Indices: 105725676--105726123 Score: 279
Period size: 48 Copynumber: 9.5 Consensus size: 47
105725666 ATATCAACAT
* * * * * *
105725676 CATATCCTAGATATGGTCTTACA-TGAAATCACATACCGATGCCGATAC
1 CATATCCCAGATATGGTCTTACACTG-CA-CACATATCAACGCCGATGC
*
105725724 CATATCCCAGATATGGTCTTACACTAGCACACATATCAACACCGATGC
1 CATATCCCAGATATGGTCTTACACT-GCACACATATCAACGCCGATGC
* * * *
105725772 CATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGCTGATGC
1 CATATCCCAGATATGGTCTTACACT-GCACACATATCAACGCCGATGC
* * * *
105725820 CATGTCCTAGAAATGGT-TTACACTGGCTCACATATC-A-----ATGC
1 CATATCCCAGATATGGTCTTACACT-GCACACATATCAACGCCGATGC
* * * * * *
105725861 CATATCCCAAATATGGTCTTACA-TGAAATCACATA-CTGATGTCAATGC
1 CATATCCCAGATATGGTCTTACACTG-CA-CACATATC-AACGCCGATGC
* ** **
105725909 CATATCCTAGATATTATCTTACACTAGCACACATATCAACGTTGATGC
1 CATATCCCAGATATGGTCTTACACT-GCACACATATCAACGCCGATGC
* * * * *
105725957 CATCTCCCAGACATGGTCTTACACTGCCTCACATATTAACGTCGATGC
1 CATATCCCAGATATGGTCTTACACTG-CACACATATCAACGCCGATGC
* * * * * * *
105726005 CATGTCCCAAACATGGTTTTACATTAGCTCACATATCAACACCGATGC
1 CATATCCCAGATATGGTCTTACACT-GCACACATATCAACGCCGATGC
* * * * * * **
105726053 CATGTCCCAAACATGGTCTTACACAGGCTCAC-TATCAATGTTGATGC
1 CATATCCCAGATATGGTCTTACAC-TGCACACATATCAACGCCGATGC
* *
105726100 CATGTCCCAGACATGGTCTTACAC
1 CATATCCCAGATATGGTCTTACAC
105726124 GGGATCTCGT
Statistics
Matches: 329, Mismatches: 53, Indels: 37
0.79 0.13 0.09
Matches are distributed among these distances:
40 1 0.00
41 19 0.06
42 11 0.03
43 1 0.00
46 1 0.00
47 54 0.16
48 234 0.71
49 6 0.02
50 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (47 bp):
CATATCCCAGATATGGTCTTACACTGCACACATATCAACGCCGATGC
Found at i:105725914 original size:185 final size:186
Alignment explanation
Indices: 105725627--105726043 Score: 543
Period size: 185 Copynumber: 2.2 Consensus size: 186
105725617 GGACCTCATA
* * * * ** * *** * *
105725627 TCGATGCCATGTCCCAGACATGGTCTCACACGAAATCTCATATCAACATCATATCCTAGATATGG
1 TCGATGCCATGTCCCAAACATGGTTTTACACTAGCTCACATATCAATGCCATATCCCAAATATGG
* *
105725692 TCTTACATGAAATCACATACCGATGCCGATACCATATCCCAGATATGGTCTTACACTAGCACACA
66 TCTTACATGAAATCACATACCGATGCCAATACCATATCCCAGATATGATCTTACACTAGCACACA
* *
105725757 TATCAACACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACG
131 TATCAACACCGATGCCATCTCCCAGACATGGTCTTACACTGCCTCACATATCAACG
* *
105725813 -CTGATGCCATGTCCTAGAA-ATGG-TTTACACTGGCTCACATATCAATGCCATATCCCAAATAT
1 TC-GATGCCATGTCCCA-AACATGGTTTTACACTAGCTCACATATCAATGCCATATCCCAAATAT
* * * * *
105725875 GGTCTTACATGAAATCACATACTGATGTCAATGCCATATCCTAGATATTATCTTACACTAGCACA
64 GGTCTTACATGAAATCACATACCGATGCCAATACCATATCCCAGATATGATCTTACACTAGCACA
*** *
105725940 CATATCAACGTTGATGCCATCTCCCAGACATGGTCTTACACTGCCTCACATATTAACG
129 CATATCAACACCGATGCCATCTCCCAGACATGGTCTTACACTGCCTCACATATCAACG
*
105725998 TCGATGCCATGTCCCAAACATGGTTTTACATTAGCTCACATATCAA
1 TCGATGCCATGTCCCAAACATGGTTTTACACTAGCTCACATATCAA
105726044 CACCGATGCC
Statistics
Matches: 196, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
184 2 0.01
185 155 0.79
186 38 0.19
187 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (186 bp):
TCGATGCCATGTCCCAAACATGGTTTTACACTAGCTCACATATCAATGCCATATCCCAAATATGG
TCTTACATGAAATCACATACCGATGCCAATACCATATCCCAGATATGATCTTACACTAGCACACA
TATCAACACCGATGCCATCTCCCAGACATGGTCTTACACTGCCTCACATATCAACG
Found at i:105725989 original size:96 final size:96
Alignment explanation
Indices: 105725718--105726123 Score: 368
Period size: 96 Copynumber: 4.3 Consensus size: 96
105725708 ATACCGATGC
* *
105725718 CGATACCATATCCCAGATATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGA
1 CGATGCCATATCCCAGATATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAAA
*
105725783 CATGGTCTTACACTGGCTCACATA-TCAACG-
66 CATGGTCTTACACTGACTCACATACT-AACGT
* * * * * *
105725813 CTGATGCCATGTCCTAGAAATGGT-TTACACTGGCTCACATAT---CA---ATGCCATATCCCAA
1 C-GATGCCATATCCCAGATATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAA
* * * *
105725871 ATATGGTCTTACA-TGAAATCACATACTGATGT
65 ACATGGTCTTACACTG-ACTCACATACTAACGT
* * ** *** * *
105725903 CAATGCCATATCCTAGATATTATCTTACACTAGCACACATATCAACGTTGATGCCATCTCCCAGA
1 CGATGCCATATCCCAGATATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAAA
* *
105725968 CATGGTCTTACACTGCCTCACATATTAACGT
66 CATGGTCTTACACTGACTCACATACTAACGT
* * * * * *
105725999 CGATGCCATGTCCCAAACATGGTTTTACATTAGCTCACATATCAACACCGATGCCATGTCCCAAA
1 CGATGCCATATCCCAGATATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAAA
* * *
105726064 CATGGTCTTACACAGGCTCAC-TA-TCAATGT
66 CATGGTCTTACACTGACTCACATACT-AACGT
* * *
105726094 TGATGCCATGTCCCAGACATGGTCTTACAC
1 CGATGCCATATCCCAGATATGGTCTTACAC
105726124 GGGATCTCGT
Statistics
Matches: 247, Mismatches: 51, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
88 2 0.01
89 50 0.20
90 18 0.07
92 2 0.01
93 1 0.00
94 1 0.00
95 49 0.20
96 122 0.49
97 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (96 bp):
CGATGCCATATCCCAGATATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAAA
CATGGTCTTACACTGACTCACATACTAACGT
Found at i:105728567 original size:19 final size:18
Alignment explanation
Indices: 105728533--105728568 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
105728523 TATCGATGTT
*
105728533 TTCAAAATATTGATACCC
1 TTCAAAATAATGATACCC
105728551 TTCAAAATAAATGATACC
1 TTCAAAAT-AATGATACC
105728569 AATTTGACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (18 bp):
TTCAAAATAATGATACCC
Found at i:105736609 original size:13 final size:13
Alignment explanation
Indices: 105736591--105736618 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
105736581 CTACATTAAA
105736591 CTCATGATAGTTT
1 CTCATGATAGTTT
105736604 CTCATGATAGTTT
1 CTCATGATAGTTT
105736617 CT
1 CT
105736619 TCCCTAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.46
Consensus pattern (13 bp):
CTCATGATAGTTT
Found at i:105738531 original size:30 final size:30
Alignment explanation
Indices: 105738486--105738545 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
105738476 ATTTAATACG
* *
105738486 AACTTTGGCAAAATTATATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
105738516 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
105738546 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:105748719 original size:30 final size:30
Alignment explanation
Indices: 105748683--105748743 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
105748673 CATTTAATAC
105748683 AAACTTTAGAAAAATTACA-TTTTTGCCCCT
1 AAACTTTAGAAAAATTACACTTTTT-CCCCT
* * *
105748713 AAACTTTTGCATAATTACACTTTTTCCCCT
1 AAACTTTAGAAAAATTACACTTTTTCCCCT
105748743 A
1 A
105748744 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACACTTTTTCCCCT
Found at i:105750951 original size:40 final size:40
Alignment explanation
Indices: 105750859--105751008 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
105750849 AATTGAATGA
* * * *
105750859 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAAT-T
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACATAC
* * *
105750898 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
105750939 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
105750978 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
105751009 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 54 0.59
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:105751022 original size:40 final size:40
Alignment explanation
Indices: 105750898--105751024 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
105750888 GCTGGAAATT
* * * * *
105750898 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * ** *
105750938 CATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
105750978 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
105751018 TATCCGG
1 TATCCGG
105751025 TTATGTTCCG
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:105758089 original size:40 final size:40
Alignment explanation
Indices: 105758028--105758273 Score: 224
Period size: 40 Copynumber: 6.2 Consensus size: 40
105758018 GGATGATAAT
* *
105758028 CGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-TC
1 CGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATATC
* *
105758068 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATATC
* *
105758108 CGGGCTAAGTCCCAAAGGCGTTTGTGCGA--GCTATTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--ATATC
* *
105758148 CGAGCTAAGTCCCGAAGGCATTTGTGCGAGT--TATTATAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT-C
* * * *
105758187 CGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACT-ATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATATC
* *
105758227 CGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTAATATC
105758267 C-GGCTAA
1 CGGGCTAA
105758274 ACTCCGAAGG
Statistics
Matches: 171, Mismatches: 22, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 37 0.22
40 123 0.72
41 5 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATATC
Found at i:105758234 original size:79 final size:80
Alignment explanation
Indices: 105758067--105758250 Score: 262
Period size: 79 Copynumber: 2.3 Consensus size: 80
105758057 GTGGCTAATT
* **
105758067 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGAATTTG
* * *
105758132 TGCGAGCTATTATAT
66 TGCAAGCTACTATAA
* * * *
105758147 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGAATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGAATTTG
*
105758211 TGCAAGTTACTATAA
66 TGCAAGCTACTATAA
105758226 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
105758251 AGCTAGTGGC
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 57 0.62
80 35 0.38
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGAATTTG
TGCAAGCTACTATAA
Found at i:105758283 original size:79 final size:79
Alignment explanation
Indices: 105758067--105758273 Score: 256
Period size: 79 Copynumber: 2.6 Consensus size: 79
105758057 GTGGCTAATT
* * **
105758067 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGAATTTG
* * *
105758132 TGCGAGCTATTATAT
65 TGCAAGCTACTATAA
* *
105758147 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGAATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGAATTTG
*
105758211 TGCAAGTTACTATAA
65 TGCAAGCTACTATAA
* * *
105758226 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAA
105758274 ACTCCGAAGG
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 71 0.65
80 37 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGAATTTGT
GCAAGCTACTATAA
Found at i:105765949 original size:40 final size:40
Alignment explanation
Indices: 105765887--105766133 Score: 217
Period size: 40 Copynumber: 6.2 Consensus size: 40
105765877 CGGATGATAA
* *
105765887 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATAT
* *
105765927 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
*
105765967 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGA--GCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--ATAT
* * *
105766007 CCGAGCTAAGTCCCAAAGGCATTTGTGCGAGT--TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
* * * *
105766045 ACCGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
* * *
105766086 CTGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTAATAT
105766126 CC-GGCTAA
1 CCGGGCTAA
105766134 ACTCCGAAGG
Statistics
Matches: 170, Mismatches: 24, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 36 0.21
40 123 0.72
41 5 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
Found at i:105766072 original size:79 final size:80
Alignment explanation
Indices: 105765926--105766110 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 80
105765916 AGTGGCTAAT
* **
105765926 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGAATTT
* *
105765991 GTGCGAGCTATTATA
66 GTGCAAGCTACTATA
* * * *
105766006 TCCGAGCTAAGTCCCAAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGAATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGAATTT
*
105766070 GTGCAAGTTACTATA
66 GTGCAAGCTACTATA
* *
105766085 ACTGGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
105766111 AGCTAGTGGC
Statistics
Matches: 91, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 56 0.62
80 35 0.38
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGAATTT
GTGCAAGCTACTATA
Done.