Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 23 of 276
Found at i:7212796 original size:55 final size:55
Alignment explanation
Indices: 7212730--7212881 Score: 225
Period size: 55 Copynumber: 2.8 Consensus size: 55
7212720 TAAATTGTAC
7212730 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * * *
7212785 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTCTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
7212840 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
7212882 GACTTAATAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 23 0.27
55 63 0.73
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:7212844 original size:82 final size:82
Alignment explanation
Indices: 7212730--7212881 Score: 241
Period size: 82 Copynumber: 1.9 Consensus size: 82
7212720 TAAATTGTAC
* * *
7212730 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTCTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
7212795 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
7212812 AGCACTAAGTCTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTCTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
7212877 GTGCG
66 GTGCG
7212882 GACTTAATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTCTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:7218557 original size:43 final size:41
Alignment explanation
Indices: 7218454--7218560 Score: 99
Period size: 43 Copynumber: 2.6 Consensus size: 41
7218444 TATGTGTTAT
* *** *
7218454 CATGTAAGACCACGTCTGGGACGTTGGCATGTATCTGATTT
1 CATGTAAGACCACGACTGGGACAAAGGCATGTATCTGATTA
* ** *
7218495 CATGTGAGACC-TTATCTGGGACAAAGGCATCGATATTTGATTA
1 CATGTAAGACCACGA-CTGGGACAAAGGCAT-G-TATCTGATTA
7218538 CATGTAAGACCACGACTGGGACA
1 CATGTAAGACCACGACTGGGACA
7218561 TTGGGATTGT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
41 22 0.44
42 1 0.02
43 26 0.52
44 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
CATGTAAGACCACGACTGGGACAAAGGCATGTATCTGATTA
Found at i:7219816 original size:6 final size:6
Alignment explanation
Indices: 7219805--7220113 Score: 289
Period size: 6 Copynumber: 50.8 Consensus size: 6
7219795 AACCAAAATG
*
7219805 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
7219853 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATT AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
7219902 AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC
*
7219951 AGAATC AGAATC AGAATC AGAATT AGTAAT- AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
7219999 AGAATT ACGTGA-C AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * * *
7220048 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATT ACGTCA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
7220097 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
7220114 GTGAATGCAA
Statistics
Matches: 252, Mismatches: 25, Indels: 52
0.77 0.08 0.16
Matches are distributed among these distances:
5 18 0.07
6 210 0.83
7 19 0.08
8 5 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:7219820 original size:30 final size:30
Alignment explanation
Indices: 7219784--7220113 Score: 367
Period size: 30 Copynumber: 11.1 Consensus size: 30
7219774 AAGAAACATT
* *
7219784 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
7219814 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
7219844 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
* *
7219874 ATCAGAATTAGGTGACAGAATTAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
*
7219905 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
*
7219936 ATCAGTAA-CA-GAATCAGAATCAGAATCAGA
1 ATCAG-AATTAGGAA-CAGAATCAGAATCAGA
* *
7219966 ATCAGAATTAGTAATAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
7219996 ATCAGAATTACGTG-ACAGAATCAGAATCAGA
1 ATCAGAATTA-G-GAACAGAATCAGAATCAGA
7220027 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* *
7220051 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
**
7220081 ATCAGAATTACGTCACAGAATCAGAATCAGA
1 ATCAGAATTA-GGAACAGAATCAGAATCAGA
7220112 AT
1 AT
7220114 GTGAATGCAA
Statistics
Matches: 264, Mismatches: 18, Indels: 35
0.83 0.06 0.11
Matches are distributed among these distances:
24 22 0.08
27 1 0.00
28 1 0.00
29 4 0.02
30 133 0.50
31 101 0.38
32 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:7220086 original size:85 final size:85
Alignment explanation
Indices: 7219805--7220113 Score: 422
Period size: 91 Copynumber: 3.5 Consensus size: 85
7219795 AACCAAAATG
* *
7219805 AGAATCAGAATCAGAATCA-GTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAA
1 AGAATCAGAATCAGAATTACGTGACAGAATCAGAATCAGAATC------AGTAACAGAATCAGAA
* * *
7219869 TCAGAATCAGAATTAGGTGACAGAATT
60 TCAGAATCAGTATTA-GTAACAGAATC
*
7219896 AGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAA
1 AGAATCAGAATCAGAATTACGTGACAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAA
*
7219961 TCAGAATCAGAATTAGTAATAGAATC
66 TCAG--T----ATTAGTAACAGAATC
7219987 AGAATCAGAATCAGAATTACGTGACAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAA
1 AGAATCAGAATCAGAATTACGTGACAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAA
7220052 TCAGTATTAGTAACAGAATC
66 TCAGTATTAGTAACAGAATC
*
7220072 AGAATCAGAATCAGAATTACGTCACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATTACGTGACAGAATCAGAATCAGAAT
7220114 GTGAATGCAA
Statistics
Matches: 202, Mismatches: 9, Indels: 20
0.87 0.04 0.09
Matches are distributed among these distances:
85 55 0.27
86 26 0.13
89 1 0.00
91 94 0.47
92 26 0.13
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATTACGTGACAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAA
TCAGTATTAGTAACAGAATC
Found at i:7220268 original size:27 final size:26
Alignment explanation
Indices: 7220231--7220296 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
7220221 AGCATGGCTG
*
7220231 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
7220257 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
7220284 CCAGAATCAGATA
1 CCAGAA-CAGATA
7220297 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:7220301 original size:27 final size:27
Alignment explanation
Indices: 7220231--7220304 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
7220221 AGCATGGCTG
* *
7220231 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
7220257 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
7220284 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
7220305 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:7220311 original size:27 final size:27
Alignment explanation
Indices: 7220255--7220312 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
7220245 GTGACAGAGT
* * *
7220255 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
7220282 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
7220309 CACC
1 CACC
7220313 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:7220693 original size:27 final size:26
Alignment explanation
Indices: 7220614--7220696 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
7220604 TCGATCGGTC
* * *
7220614 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
7220640 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
7220667 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
7220694 AAC
1 AAC
7220697 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:7220925 original size:27 final size:27
Alignment explanation
Indices: 7220895--7221090 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
7220885 GGGGCAAAAT
* * *
7220895 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
7220922 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
7220949 GGTATTTCTACCCTACAAGGGCATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
7220976 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
7221003 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
7221030 AGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
7221057 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
7221084 AGTAATT
1 GGTAATT
7221091 TCATAATCAA
Statistics
Matches: 140, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:7221125 original size:27 final size:27
Alignment explanation
Indices: 7221095--7221558 Score: 542
Period size: 27 Copynumber: 17.2 Consensus size: 27
7221085 GTAATTTCAT
*
7221095 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
7221122 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
7221149 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
7221176 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
7221203 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* ** *
7221230 AATTGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
7221257 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
7221284 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
7221311 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
7221338 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
7221365 AATCAAGGGTAAAACAGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
7221392 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
7221419 AA-CTAAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
7221446 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
7221473 AA-CTTAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
7221500 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
7221527 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
7221554 AATCG
1 AATCG
7221559 GGAGTACTTT
Statistics
Matches: 378, Mismatches: 49, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.01
27 369 0.98
28 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:7228280 original size:16 final size:14
Alignment explanation
Indices: 7228249--7228276 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7228239 TTTTTCGTGC
7228249 TTATTATGTGTGAA
1 TTATTATGTGTGAA
7228263 TTATTATGTGTGAA
1 TTATTATGTGTGAA
7228277 AATTTCGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
TTATTATGTGTGAA
Found at i:7229512 original size:43 final size:42
Alignment explanation
Indices: 7229395--7229517 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 42
7229385 GAGTTATGAT
* *
7229395 TTACATGTAAGACCACGTCTGGGATGTTGGCATCGTATCTGA
1 TTACATGTAAGACCACGTCTGGGACGTTGGCATCGTATCTCA
*** * *
7229437 TTTTGTGTAAGACC-CTGTCTGGGACAG-AGGCATCGATATTTCA
1 TTACATGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATCTCA
* *
7229480 TTACATGTAAGACCACGTCTAGGACGTTGGCATTGTAT
1 TTACATGTAAGACCACGTCTGGGACGTTGGCATCGTAT
7229518 GAGATTTTTG
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.48
43 31 0.49
44 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACGTTGGCATCGTATCTCA
Found at i:7241144 original size:24 final size:25
Alignment explanation
Indices: 7241096--7241145 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
7241086 TTGAGTAATT
* *
7241096 AGGACTAAATTGAAAAAAATGATAA
1 AGGAATAAATTGAAAAAAATAATAA
*
7241121 AGGAATAAATT-ACAAAAATAATAA
1 AGGAATAAATTGAAAAAAATAATAA
7241145 A
1 A
7241146 TTGAGGGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (25 bp):
AGGAATAAATTGAAAAAAATAATAA
Found at i:7241498 original size:26 final size:26
Alignment explanation
Indices: 7241462--7241514 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
7241452 ACATCGTCCA
7241462 AGGTAAGTTTATAAGCAAATAGACAT
1 AGGTAAGTTTATAAGCAAATAGACAT
7241488 AGGTAAGTTTATAAGCAAATAGACAT
1 AGGTAAGTTTATAAGCAAATAGACAT
7241514 A
1 A
7241515 CTTAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.26
Consensus pattern (26 bp):
AGGTAAGTTTATAAGCAAATAGACAT
Found at i:7241524 original size:26 final size:26
Alignment explanation
Indices: 7241464--7241524 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
7241454 ATCGTCCAAG
*
7241464 GTAAGTTTATAAGCAAATAGACATAG
1 GTAAGTTTATAAGCAAATAGACATAC
7241490 GTAAGTTTATAAGCAAATAGACATAC
1 GTAAGTTTATAAGCAAATAGACATAC
* *
7241516 TTAATTTTA
1 GTAAGTTTA
7241525 ATTAAATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (26 bp):
GTAAGTTTATAAGCAAATAGACATAC
Found at i:7243965 original size:5 final size:5
Alignment explanation
Indices: 7243957--7244001 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
7243947 GGGTTAGGGT
*
7243957 TTTTC TTTTC TTTTC TTTTC TTTTCCC TTTTT TTTTC TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTT--C TTTTC TTTTC TTTTC TTTT
7244002 TTTCATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
4 4 0.11
5 27 0.75
7 5 0.14
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:7243987 original size:22 final size:22
Alignment explanation
Indices: 7243961--7244002 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7243951 TAGGGTTTTT
7243961 CTTTTCTTTTCTTTTCTTTTCC
1 CTTTTCTTTTCTTTTCTTTTCC
* *
7243983 CTTTTTTTTTCTTTTTTTTT
1 CTTTTCTTTTCTTTTCTTTT
7244003 TTCATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (22 bp):
CTTTTCTTTTCTTTTCTTTTCC
Found at i:7244465 original size:30 final size:30
Alignment explanation
Indices: 7244431--7244493 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
7244421 TGTGACCGAA
* * * *
7244431 AGGTAATTTCTATGCCTATGTGAGACCAAG
1 AGGTAATCTATATGACTAGGTGAGACCAAG
7244461 AGGTAATCTATATGACTAGGTGAGACCAAG
1 AGGTAATCTATATGACTAGGTGAGACCAAG
7244491 AGG
1 AGG
7244494 ATGTTCCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.25
Consensus pattern (30 bp):
AGGTAATCTATATGACTAGGTGAGACCAAG
Found at i:7247797 original size:29 final size:29
Alignment explanation
Indices: 7247737--7247849 Score: 167
Period size: 29 Copynumber: 4.0 Consensus size: 29
7247727 ACATACCTGT
* * *
7247737 ATATGGCCCACTAGGCCC-AATCTCTTTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
7247765 ATATGGCTCATGAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
7247794 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
7247823 ATAT-GCCCATTAGGCCCAAATCACATT
1 ATATGGCCCATTAGGCCCAAATCACATT
7247850 TACAGTCATG
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
28 38 0.49
29 39 0.51
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:7247798 original size:57 final size:57
Alignment explanation
Indices: 7247737--7247849 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
7247727 ACATACCTGT
* * *
7247737 ATATGGCCCACTAGGCCC-AATCTCTTTCATATGGCTCATGAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCCAAATCACATTCATAT-GCCCATGAGGCCCAAATCACATTC
* *
7247794 ATATGGCCCATTAGGCCCAAATCACATTCATATGCCCATTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCCAAATCACATTCATATGCCCATGAGGCCCAAATCACATT
7247850 TACAGTCATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
57 38 0.76
58 12 0.24
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (57 bp):
ATATGGCCCACTAGGCCCAAATCACATTCATATGCCCATGAGGCCCAAATCACATTC
Found at i:7247944 original size:18 final size:19
Alignment explanation
Indices: 7247921--7247958 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7247911 ATGGGCCCGA
*
7247921 TAGCCCA-TCGGGCCCATT
1 TAGCCCATTCCGGCCCATT
7247939 TAGCCCATTCCGGCCCATT
1 TAGCCCATTCCGGCCCATT
7247958 T
1 T
7247959 GGCCAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.16, C:0.39, G:0.18, T:0.26
Consensus pattern (19 bp):
TAGCCCATTCCGGCCCATT
Found at i:7247967 original size:19 final size:19
Alignment explanation
Indices: 7247931--7247967 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7247921 TAGCCCATCG
*
7247931 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
7247950 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
7247968 ACAACCCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:7248079 original size:8 final size:8
Alignment explanation
Indices: 7248066--7248111 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
7248056 ATAGCCAAAC
*
7248066 TTTCGGGT
1 TTTCGGCT
*
7248074 TTTCGGCA
1 TTTCGGCT
*
7248082 TTTCAGCT
1 TTTCGGCT
*
7248090 TTTCGGCA
1 TTTCGGCT
7248098 TTTCGGCT
1 TTTCGGCT
7248106 TTTCGG
1 TTTCGG
7248112 GATTTGCAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.07, C:0.22, G:0.26, T:0.46
Consensus pattern (8 bp):
TTTCGGCT
Found at i:7248092 original size:16 final size:16
Alignment explanation
Indices: 7248073--7248116 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
7248063 AACTTTCGGG
7248073 TTTTCGGCATTTCAGC
1 TTTTCGGCATTTCAGC
*
7248089 TTTTCGGCATTTCGGC
1 TTTTCGGCATTTCAGC
*
7248105 TTTTCGGGATTT
1 TTTTCGGCATTT
7248117 GCAGATCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.09, C:0.20, G:0.23, T:0.48
Consensus pattern (16 bp):
TTTTCGGCATTTCAGC
Found at i:7248909 original size:13 final size:14
Alignment explanation
Indices: 7248891--7248920 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7248881 ATATATATAC
7248891 TAAATAAATAA-AA
1 TAAATAAATAATAA
7248904 TAAATAAATAATAA
1 TAAATAAATAATAA
7248918 TAA
1 TAA
7248921 CCTACACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAATAAATAATAA
Found at i:7256581 original size:27 final size:28
Alignment explanation
Indices: 7256536--7256644 Score: 127
Period size: 27 Copynumber: 4.0 Consensus size: 28
7256526 GGAGGAAGCG
*
7256536 TTCTGGTGGCTATGTCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
7256564 TTCTGGT-GTTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
7256590 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
* * * *
7256617 ATCTGGTGACTCTGTCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
7256644 T
1 T
7256645 GACTGATCGA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 49 0.69
28 7 0.10
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:7256639 original size:53 final size:54
Alignment explanation
Indices: 7256535--7256644 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 54
7256525 TGGAGGAAGC
* * *
7256535 GTTCTGGTGGCTATGTCACAAATATCTGTTTCTGGTGTTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGCTATGCCACAAATATCT
* * *
7256589 GTTCTGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTCTGTCAC-AATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTG-CTATGCCACAAATATCT
7256642 GTT
1 GTT
7256645 GACTGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
53 26 0.53
54 23 0.47
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGCTATGCCACAAATATCT
Found at i:7256967 original size:25 final size:26
Alignment explanation
Indices: 7256939--7256995 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
7256929 TGCCACGTAT
* *
7256939 TCTGTT-AAGTGGCTTTGCCACATTA
1 TCTGTTCAAGTGGCTCTGCCACAATA
*
7256964 TCTGATTCTAGTGGCTCTGCCACAATA
1 TCTG-TTCAAGTGGCTCTGCCACAATA
7256991 TCTGT
1 TCTGT
7256996 ATCTGGTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.15
26 3 0.11
27 20 0.74
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (26 bp):
TCTGTTCAAGTGGCTCTGCCACAATA
Found at i:7257193 original size:31 final size:31
Alignment explanation
Indices: 7257150--7257210 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
7257140 TCTAATTTTG
*
7257150 ATTCTGTTACCTGATACTGATTATGATTCTA
1 ATTCTGTCACCTGATACTGATTATGATTCTA
* *
7257181 ATTCTGTCACCTGATTCTGATTCTGATTCT
1 ATTCTGTCACCTGATACTGATTATGATTCT
7257211 CATTTTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTCTGTCACCTGATACTGATTATGATTCTA
Found at i:7257200 original size:6 final size:6
Alignment explanation
Indices: 7257138--7257231 Score: 57
Period size: 6 Copynumber: 15.3 Consensus size: 6
7257128 TTGCATTTAC
* * * * *
7257138 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTATG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
7257187 -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCTA ATTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT
7257232 AATGTATTGC
Statistics
Matches: 65, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
5 3 0.05
6 54 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:7257222 original size:37 final size:36
Alignment explanation
Indices: 7257138--7257222 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 36
7257128 TTGCATTTAC
*
7257138 ATTCTAATTTTGATTCTGTTACCTGATACTGATTATG
1 ATTCT-ATTTTGATTCTGTCACCTGATACTGATTATG
* *
7257175 ATTCTA-----ATTCTGTCACCTGATTCTGATTCTG
1 ATTCTATTTTGATTCTGTCACCTGATACTGATTATG
7257206 ATTCTCATTTTGATTCT
1 ATTCT-ATTTTGATTCT
7257223 AATTCTGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
31 27 0.69
32 1 0.03
36 1 0.03
37 10 0.26
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (36 bp):
ATTCTATTTTGATTCTGTCACCTGATACTGATTATG
Found at i:7273517 original size:19 final size:19
Alignment explanation
Indices: 7273493--7273530 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7273483 ATTAAATAAG
7273493 TTAAATTTGACATTATAGA
1 TTAAATTTGACATTATAGA
7273512 TTAAATTTGACATTATAGA
1 TTAAATTTGACATTATAGA
7273531 ACAAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (19 bp):
TTAAATTTGACATTATAGA
Found at i:7280725 original size:12 final size:12
Alignment explanation
Indices: 7280708--7280733 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7280698 TTGACATCTC
7280708 ATATGATATTTG
1 ATATGATATTTG
7280720 ATATGATATTTG
1 ATATGATATTTG
7280732 AT
1 AT
7280734 GCATTTCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (12 bp):
ATATGATATTTG
Found at i:7281029 original size:28 final size:28
Alignment explanation
Indices: 7280989--7281058 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
7280979 ATAGTAAGTC
*
7280989 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
7281017 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
7281045 CGCACACTTAGTGC
1 CGCACACTTAGTGC
7281059 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:7285944 original size:93 final size:93
Alignment explanation
Indices: 7285831--7286001 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
7285821 GCCCCTAAGT
*
7285831 GAACTCGGAATCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGAATCAACTCAACGAGCTCGGA-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
7285895 ATGAGTTCGGATGCCTAGTTACATATCAC
65 ACGAGTTCGGATGCCTAGTTACATATCAC
* * * *
7285924 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
7285989 CGAGTTTGGATGC
66 CGAGTTCGGATGC
7286002 TCAACTATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 68 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATATCAC
Found at i:7285989 original size:46 final size:47
Alignment explanation
Indices: 7285826--7285994 Score: 186
Period size: 46 Copynumber: 3.6 Consensus size: 47
7285816 AACCCGCCCC
* * * *
7285826 TAAGTGAACTCGGAATCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
* * * *
7285872 TAAATGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT--A
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-ATTTGCATCCA
* *
7285920 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
7285965 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
7285995 TGGATGCTCA
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 3 0.03
46 52 0.51
47 30 0.30
48 4 0.04
49 1 0.01
50 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCATCCA
Found at i:7302094 original size:93 final size:93
Alignment explanation
Indices: 7301935--7302105 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
7301925 CCCATAAACA
* * * *
7301935 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACGAGTGAACTTGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
7302000 GAGTTCGGATGCCTAGTTATATCTCACG
66 GAGTTCGGATGCCTAGTTATATCTCACG
* * * * *
7302028 AACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAATTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
7302093 GAGTTCGGATGCC
66 GAGTTCGGATGCC
7302106 CAAACATCCT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTATATCTCACG
Found at i:7302097 original size:46 final size:46
Alignment explanation
Indices: 7301935--7302101 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 46
7301925 CCCATAAACA
* * * * **
7301935 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACGAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTG
* * ** * *
7301981 AACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTATAT-C-TCA-CG
1 AACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAGTG
*
7302028 AACTCGGACTCAACTCAATGAGTTCGGACATTTGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTG
*
7302074 AACTCGGACTCAATTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGTTCGGA
7302102 TGCCCAAACA
Statistics
Matches: 94, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 52 0.55
47 27 0.29
48 1 0.01
49 2 0.02
50 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTG
Found at i:7312934 original size:19 final size:19
Alignment explanation
Indices: 7312910--7312946 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7312900 CTACAATGTC
7312910 ATAACAGAGT-CTTAGTAAT
1 ATAACAGA-TACTTAGTAAT
7312929 ATAACAGATACTTAGTAA
1 ATAACAGATACTTAGTAA
7312947 AGTTCAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.30
Consensus pattern (19 bp):
ATAACAGATACTTAGTAAT
Found at i:7318097 original size:40 final size:40
Alignment explanation
Indices: 7317998--7318102 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 40
7317988 GGGCTTCAGG
* * * *
7317998 CCTAGCAAGCGAAATGCCGGTGAATGAGTTCAAACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAAACTTAAAA
* *** ***
7318039 TCTAGCAGGCTTCGTGCCGGTGATGAATTCAGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAAACTTAAAA
7318079 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
7318103 TTGATAAAAG
Statistics
Matches: 49, Mismatches: 15, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
40 33 0.67
41 16 0.33
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAAACTTAAAA
Found at i:7326419 original size:20 final size:20
Alignment explanation
Indices: 7326390--7326440 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
7326380 TATTTTAAAT
*
7326390 ATATTTTTTTTTCAAATTTTA
1 ATATTTTTTTAT-AAATTTTA
*
7326411 ATATTTTTTTATAATTTTTA
1 ATATTTTTTTATAAATTTTA
*
7326431 ATAATTTTTT
1 ATATTTTTTT
7326441 GGTTCAGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
ATATTTTTTTATAAATTTTA
Found at i:7327783 original size:16 final size:16
Alignment explanation
Indices: 7327764--7327821 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
7327754 AAATTCTTGA
7327764 AAACTCAAATTTTCTT
1 AAACTCAAATTTTCTT
* *
7327780 AAACTCCAATTTTTATT
1 AAACT-CAAATTTTCTT
* * *
7327797 AAATTCAGATTTTCTC
1 AAACTCAAATTTTCTT
*
7327813 AATCTCAAA
1 AAACTCAAA
7327822 CGTTCTCGTG
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (16 bp):
AAACTCAAATTTTCTT
Found at i:7327873 original size:17 final size:16
Alignment explanation
Indices: 7327832--7327907 Score: 52
Period size: 16 Copynumber: 4.7 Consensus size: 16
7327822 CGTTCTCGTG
7327832 TTTGAATTTTTTTAGA
1 TTTGAATTTTTTTAGA
7327848 TTT-ATATTTTTTTCA-A
1 TTTGA-ATTTTTTT-AGA
*
7327864 CTTTGAATTTTTTT-GG
1 -TTTGAATTTTTTTAGA
* *
7327880 GTTGAAACTTTTTTA-A
1 TTTG-AATTTTTTTAGA
7327896 GTTTGAATTTTT
1 -TTTGAATTTTT
7327908 ATGGACACGA
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
15 4 0.09
16 26 0.57
17 15 0.33
18 1 0.02
ACGTcount: A:0.22, C:0.04, G:0.12, T:0.62
Consensus pattern (16 bp):
TTTGAATTTTTTTAGA
Found at i:7327892 original size:33 final size:32
Alignment explanation
Indices: 7327832--7327907 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
7327822 CGTTCTCGTG
* * *
7327832 TTTGAATTTTTTTAGATTTATATTTTTTTCAAC
1 TTTGAATTTTTTTAGATTGAAACTTTTTT-AAC
* * *
7327865 TTTGAATTTTTTTGGGTTGAAACTTTTTTAAG
1 TTTGAATTTTTTTAGATTGAAACTTTTTTAAC
7327897 TTTGAATTTTT
1 TTTGAATTTTT
7327908 ATGGACACGA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 13 0.35
33 24 0.65
ACGTcount: A:0.22, C:0.04, G:0.12, T:0.62
Consensus pattern (32 bp):
TTTGAATTTTTTTAGATTGAAACTTTTTTAAC
Found at i:7327907 original size:16 final size:15
Alignment explanation
Indices: 7327831--7327907 Score: 57
Period size: 17 Copynumber: 4.8 Consensus size: 15
7327821 ACGTTCTCGT
7327831 GTTTGAATTTTTTTA
1 GTTTGAATTTTTTTA
7327846 GATTT-ATATTTTTTTCAA
1 G-TTTGA-ATTTTTTT--A
* *
7327864 CTTTGAATTTTTTTG
1 GTTTGAATTTTTTTA
* *
7327879 GGTTGAAACTTTTTTAA
1 GTTTG-AA-TTTTTTTA
7327896 GTTTGAATTTTT
1 GTTTGAATTTTT
7327908 ATGGACACGA
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
15 10 0.21
16 15 0.31
17 21 0.44
18 2 0.04
ACGTcount: A:0.22, C:0.04, G:0.13, T:0.61
Consensus pattern (15 bp):
GTTTGAATTTTTTTA
Found at i:7330073 original size:26 final size:26
Alignment explanation
Indices: 7330041--7330090 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
7330031 TCAACCAAGG
7330041 ATAACCACAATATACAACCAAAAACA
1 ATAACCACAATATACAACCAAAAACA
*
7330067 ATAACCACGATATACAACCAAAAA
1 ATAACCACAATATACAACCAAAAA
7330091 AATGTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.60, C:0.26, G:0.02, T:0.12
Consensus pattern (26 bp):
ATAACCACAATATACAACCAAAAACA
Found at i:7330608 original size:18 final size:20
Alignment explanation
Indices: 7330587--7330635 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
7330577 ATTTATATTA
7330587 AATTAAATTAAATTT-T-CT
1 AATTAAATTAAATTTATCCT
*
7330605 AATTAAATTAATTTTAATCCT
1 AATTAAATTAAATTT-ATCCT
7330626 AATTAAATTA
1 AATTAAATTA
7330636 TTTTTTAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 14 0.52
20 1 0.04
21 12 0.44
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTAAATTAAATTTATCCT
Found at i:7330650 original size:21 final size:21
Alignment explanation
Indices: 7330605--7330650 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7330595 TAAATTTTCT
*
7330605 AATTAAATTAATTTTAATCCT
1 AATTAAATTAATTTTAATCCC
*
7330626 AATTAAATTATTTTTTAA-CCC
1 AATTAAATTA-ATTTTAATCCC
7330647 AATT
1 AATT
7330651 TTAATTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTAAATTAATTTTAATCCC
Found at i:7332031 original size:29 final size:29
Alignment explanation
Indices: 7331989--7332059 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
7331979 ACCAAAAGTC
7331989 CGTGTGGCCCACATAGCCTGACACACGTT
1 CGTGTGGCCCACATAGCCTGACACACGTT
* *
7332018 CGTGTGGACCACATAGCCTGACATACGTT
1 CGTGTGGCCCACATAGCCTGACACACGTT
7332047 CGTGTGGCCCACA
1 CGTGTGGCCCACA
7332060 GGCCCAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.21, C:0.32, G:0.25, T:0.21
Consensus pattern (29 bp):
CGTGTGGCCCACATAGCCTGACACACGTT
Found at i:7332596 original size:21 final size:21
Alignment explanation
Indices: 7332572--7332614 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7332562 CTATGATACC
*
7332572 ACAAAAAGTAAAGAAAGAAAA
1 ACAAAAAGAAAAGAAAGAAAA
* **
7332593 ACAATAAGAAAAGGGAGAAAA
1 ACAAAAAGAAAAGAAAGAAAA
7332614 A
1 A
7332615 TGAACAATAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.05
Consensus pattern (21 bp):
ACAAAAAGAAAAGAAAGAAAA
Found at i:7333633 original size:16 final size:16
Alignment explanation
Indices: 7333612--7333645 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7333602 TCAGTATACT
7333612 AAAAGTACCATGATTG
1 AAAAGTACCATGATTG
7333628 AAAAGTACCATGATTG
1 AAAAGTACCATGATTG
7333644 AA
1 AA
7333646 CTCTCCCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (16 bp):
AAAAGTACCATGATTG
Found at i:7339987 original size:40 final size:40
Alignment explanation
Indices: 7339892--7339993 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
7339882 GGAGTATAAC
* * *
7339892 CAGGGGCACAGAAGTGCAACCAGGGGTATCGAAATACAAA
1 CAGGGGCACACAAGTGCAATCAGCGGTATCGAAATACAAA
* ** ** *
7339932 CAAGGATACGTAAGTGCAATCAGCGGTA-CTGAAGTACAAA
1 CAGGGGCACACAAGTGCAATCAGCGGTATC-GAAATACAAA
7339972 CAGGGGCACACAAGTGCAATCA
1 CAGGGGCACACAAGTGCAATCA
7339994 TTCAATAATT
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.39, C:0.21, G:0.27, T:0.13
Consensus pattern (40 bp):
CAGGGGCACACAAGTGCAATCAGCGGTATCGAAATACAAA
Found at i:7345463 original size:93 final size:93
Alignment explanation
Indices: 7345348--7345518 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
7345338 GCCCATAAGT
*
7345348 GAACTCGGACTCAACTCAACGAGCTCTGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
7345412 ACGAGTTTGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
7345441 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
7345506 TGAGTTCGGATGC
66 CGAGTTCGGATGC
7345519 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:7345511 original size:46 final size:46
Alignment explanation
Indices: 7345340--7345515 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
7345330 TGTAACCCGC
* *
7345340 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCTGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
7345386 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
7345436 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7345479 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
7345516 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 60 0.56
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7351281 original size:39 final size:40
Alignment explanation
Indices: 7351077--7351299 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
7351067 TTGAATGCTG
* * * * * *
7351077 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
7351117 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
7351157 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
7351197 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
7351237 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
7351276 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
7351300 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:7351319 original size:79 final size:80
Alignment explanation
Indices: 7351152--7351334 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
7351142 GTGCGAGATA
* * *
7351152 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
7351217 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
7351232 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
7351296 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
7351311 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
7351335 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:7358492 original size:30 final size:30
Alignment explanation
Indices: 7358456--7358515 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
7358446 TACTAAAAAC
7358456 TATAGATATAAGGTCATAAGATAGGGAAAG
1 TATAGATATAAGGTCATAAGATAGGGAAAG
*
7358486 TATAGATATAAGGTCATAAGATAGTGAAAG
1 TATAGATATAAGGTCATAAGATAGGGAAAG
7358516 AAGTGAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.47, C:0.03, G:0.25, T:0.25
Consensus pattern (30 bp):
TATAGATATAAGGTCATAAGATAGGGAAAG
Found at i:7358507 original size:15 final size:15
Alignment explanation
Indices: 7358459--7358508 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
7358449 TAAAAACTAT
7358459 AGATATAAGGTCATA
1 AGATATAAGGTCATA
* *
7358474 AGATAGGGAAAGT-AT-
1 AGATA--TAAGGTCATA
7358489 AGATATAAGGTCATA
1 AGATATAAGGTCATA
7358504 AGATA
1 AGATA
7358509 GTGAAAGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
13 4 0.15
14 2 0.07
15 15 0.56
16 2 0.07
17 4 0.15
ACGTcount: A:0.48, C:0.04, G:0.24, T:0.24
Consensus pattern (15 bp):
AGATATAAGGTCATA
Found at i:7358940 original size:14 final size:14
Alignment explanation
Indices: 7358923--7358953 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7358913 AAAGTAGTTT
*
7358923 TAAAAAGATAAAAA
1 TAAAAACATAAAAA
7358937 TAAAAACATAAAAA
1 TAAAAACATAAAAA
7358951 TAA
1 TAA
7358954 TAAATAACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.16
Consensus pattern (14 bp):
TAAAAACATAAAAA
Found at i:7360662 original size:23 final size:23
Alignment explanation
Indices: 7360610--7360664 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
7360600 TCGCACAAGG
* *
7360610 GGAGAAA-AGGGGATAAAGGAGA
1 GGAGAAAGAGGAGAAAAAGGAGA
*
7360632 GGAAAAAGAGGAGAAAAATGGA-A
1 GGAGAAAGAGGAGAAAAA-GGAGA
7360655 GGAGAAAGAG
1 GGAGAAAGAG
7360665 AAAGAGTGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 6 0.22
23 18 0.67
24 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.04
Consensus pattern (23 bp):
GGAGAAAGAGGAGAAAAAGGAGA
Found at i:7366680 original size:48 final size:48
Alignment explanation
Indices: 7366625--7366726 Score: 168
Period size: 48 Copynumber: 2.1 Consensus size: 48
7366615 CAAGTATAAC
* * *
7366625 TTCATAATAGTTTATCTCGAGTTCAGATTATTTTATGTCTGAACTTTA
1 TTCATAATAGTTCATCTCGAGTTCAGATTATTTCATGTCAGAACTTTA
7366673 TTCATAATAGTTCATCTCGAGTTCAGATTATTTCATGTCAGAACTTTA
1 TTCATAATAGTTCATCTCGAGTTCAGATTATTTCATGTCAGAACTTTA
*
7366721 CTCATA
1 TTCATA
7366727 TCATTCGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (48 bp):
TTCATAATAGTTCATCTCGAGTTCAGATTATTTCATGTCAGAACTTTA
Found at i:7369606 original size:40 final size:40
Alignment explanation
Indices: 7369542--7369637 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
7369532 CATCTTTGTT
* * *
7369542 CAACCCAACACACC-A-TGTGGGGATAAAATCGACCCA-C
1 CAACCCTACACACCAAGTATGGGGATAAAATCAACCCATC
* *
7369579 CTAGCCCTACACACCAAGTATGGGGATAGAATCAACCCATC
1 C-AACCCTACACACCAAGTATGGGGATAAAATCAACCCATC
7369620 CAACCCTACACACCAAGT
1 CAACCCTACACACCAAGT
7369638 GGTACCATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 1 0.02
38 11 0.22
39 1 0.02
40 34 0.69
41 2 0.04
ACGTcount: A:0.36, C:0.35, G:0.15, T:0.14
Consensus pattern (40 bp):
CAACCCTACACACCAAGTATGGGGATAAAATCAACCCATC
Found at i:7374461 original size:26 final size:28
Alignment explanation
Indices: 7374435--7374509 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
7374425 GTTGAATCAT
7374435 TCAATATTTTGCACACTAAGTGCCATTC
1 TCAATATTTTGCACACTAAGTGCCATTC
* *
7374463 TCAATATCTTGCACCCTAAGTGCCATTC
1 TCAATATTTTGCACACTAAGTGCCATTC
*
7374491 TCAATATTTCGCACACTAA
1 TCAATATTTTGCACACTAA
7374510 TTTCCATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (28 bp):
TCAATATTTTGCACACTAAGTGCCATTC
Found at i:7380342 original size:15 final size:15
Alignment explanation
Indices: 7380322--7380352 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7380312 AAATATGAAA
7380322 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
7380337 GATATGTTTTGTATT
1 GATATGTTTTGGATT
7380352 G
1 G
7380353 GAATTTTGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:7380996 original size:29 final size:30
Alignment explanation
Indices: 7380928--7380987 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 30
7380918 GTGACATAGG
7380928 ATCTGATATATGATGTGCGAGTAAGACCATGGC
1 ATCT-ATATATGATGTGCGAGTAAGACCA--GC
7380961 ATCTATATATG-TGTGCGAGTAAGACCA
1 ATCTATATATGATGTGCGAGTAAGACCA
7380988 CATTTTATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 16 0.59
32 7 0.26
33 4 0.15
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (30 bp):
ATCTATATATGATGTGCGAGTAAGACCAGC
Found at i:7381950 original size:8 final size:8
Alignment explanation
Indices: 7381920--7381949 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
7381910 TAACGCCCCA
7381920 AAAATCCC
1 AAAATCCC
7381928 AAAATCCC
1 AAAATCCC
*
7381936 AAAATCTC
1 AAAATCCC
7381944 AAAATC
1 AAAATC
7381950 TTGAATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAATCCC
Found at i:7383461 original size:14 final size:14
Alignment explanation
Indices: 7383442--7383468 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7383432 GAACCACTTG
7383442 GACACATATTTGGT
1 GACACATATTTGGT
7383456 GACACATATTTGG
1 GACACATATTTGG
7383469 ACACAAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (14 bp):
GACACATATTTGGT
Found at i:7383471 original size:12 final size:12
Alignment explanation
Indices: 7383439--7383473 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
7383429 TCTGAACCAC
7383439 TTGGACACATAT
1 TTGGACACATAT
7383451 TTGGTGACACATAT
1 TT-G-GACACATAT
7383465 TTGGACACA
1 TTGGACACA
7383474 AAAGCCCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.38
13 2 0.10
14 11 0.52
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (12 bp):
TTGGACACATAT
Found at i:7384425 original size:8 final size:8
Alignment explanation
Indices: 7384408--7384458 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
7384398 ATGTATCGGC
7384408 AAAAGCCG
1 AAAAGCCG
*
7384416 AAATGCCG
1 AAAAGCCG
*
7384424 AAAAGGCG
1 AAAAGCCG
7384432 AAAAGCC-
1 AAAAGCCG
7384439 AAAATGCCG
1 AAAA-GCCG
*
7384448 AAAAGCTG
1 AAAAGCCG
7384456 AAA
1 AAA
7384459 GTTTGGCTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 4 0.11
8 28 0.78
9 4 0.11
ACGTcount: A:0.51, C:0.20, G:0.24, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:7384736 original size:29 final size:29
Alignment explanation
Indices: 7384677--7384757 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
7384667 GAATATGAAT
* *
7384677 GTGA-TTGGGCCTAA-CGGCCATATAAAT
1 GTGATTTGGGCCTAATGGGCCATATAAAG
*
7384704 GTGATTTGGGCCTAATGGGCCATATACAG
1 GTGATTTGGGCCTAATGGGCCATATAAAG
7384733 GTGATTTGGGCCTAATGGGCCATAT
1 GTGATTTGGGCCTAATGGGCCATAT
7384758 GAATATGGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
27 4 0.08
28 10 0.20
29 35 0.71
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
GTGATTTGGGCCTAATGGGCCATATAAAG
Found at i:7384780 original size:57 final size:56
Alignment explanation
Indices: 7384677--7384791 Score: 126
Period size: 57 Copynumber: 2.0 Consensus size: 56
7384667 GAATATGAAT
* * *
7384677 GTGATTGGGCCTAACGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAG
1 GTGATTGGGCCTAACGGCCATATAAATATGAGTTGGGCCTAATGGGCCAGATACAG
* * * *
7384733 GTGATTTGGGCCTAATGGGCCATATGAATATG-GTTGGG-CTGAGTGGGCGAGATACAG
1 GTGA-TTGGGCCTAA-CGGCCATATAAATATGAGTTGGGCCT-AATGGGCCAGATACAG
7384790 GT
1 GT
7384792 ATGTGAATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
56 6 0.12
57 30 0.61
58 13 0.27
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (56 bp):
GTGATTGGGCCTAACGGCCATATAAATATGAGTTGGGCCTAATGGGCCAGATACAG
Found at i:7390055 original size:16 final size:16
Alignment explanation
Indices: 7390025--7390074 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
7390015 TTGTAACGCC
* *
7390025 CCAAGAATCTCGAAAT
1 CCAAAAATCCCGAAAT
* *
7390041 CCAAAAGTCCTGAAAT
1 CCAAAAATCCCGAAAT
*
7390057 CTAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
7390073 CC
1 CC
7390075 CAAATTTTCT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.18
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:7391476 original size:29 final size:29
Alignment explanation
Indices: 7391421--7391510 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
7391411 ATGAGCATGA
* * *
7391421 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
7391449 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * *
7391478 ATATATAGGTGATTTGGGACTAATAGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
7391507 ATAT
1 ATAT
7391511 GAATATGGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 11 0.20
29 43 0.80
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:7396802 original size:16 final size:16
Alignment explanation
Indices: 7396781--7396830 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
7396771 TTGTAACGCC
*
7396781 CCAAAAATCCCGAAAT
1 CCAAAAATCCAGAAAT
*
7396797 CCAAAAATCCAAAAAT
1 CCAAAAATCCAGAAAT
*
7396813 CCAAAAATCCTGAAAT
1 CCAAAAATCCAGAAAT
7396829 CC
1 CC
7396831 CAAATTTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.52, C:0.30, G:0.04, T:0.14
Consensus pattern (16 bp):
CCAAAAATCCAGAAAT
Found at i:7396830 original size:8 final size:8
Alignment explanation
Indices: 7396781--7396822 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
7396771 TTGTAACGCC
7396781 CCAAAAAT
1 CCAAAAAT
**
7396789 CCCGAAAT
1 CCAAAAAT
7396797 CCAAAAAT
1 CCAAAAAT
7396805 CCAAAAAT
1 CCAAAAAT
7396813 CCAAAAAT
1 CCAAAAAT
7396821 CC
1 CC
7396823 TGAAATCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.55, C:0.31, G:0.02, T:0.12
Consensus pattern (8 bp):
CCAAAAAT
Found at i:7398252 original size:29 final size:29
Alignment explanation
Indices: 7398195--7398309 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
7398185 GTGAGCATGA
* *
7398195 ATATGAATGTGACTT-GGCCTATTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
7398223 ATATCAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
7398252 ATAT-ACAGGTGATTTGGGTCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* * *
7398281 ATATGAATATGA-TTGGGCTTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
7398309 A
1 A
7398310 AATACAGGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 28 0.38
29 45 0.61
30 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:7402438 original size:55 final size:52
Alignment explanation
Indices: 7402312--7402497 Score: 210
Period size: 55 Copynumber: 3.5 Consensus size: 52
7402302 TTACCATTGC
* * * * * *
7402312 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGC
1 CATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTAAGAACTTATCAATGT
* *
7402365 CATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTACAGTAACTTATCAATGT
1 CATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTA-AG-AACTTATCAATGT
* * *
7402420 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGT
1 CATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTA-AGAACTTATCAATGT
*
7402474 CATGCCTTGGCATGGTCTTACATG
1 CATGCCTTGACATGGTCTTACATG
7402498 ATATCCTTAT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 31 0.27
54 36 0.32
55 42 0.37
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (52 bp):
CATGCCTTGACATGGTCTTACATGGTACCTTGCCTTAAGAACTTATCAATGT
Found at i:7402488 original size:54 final size:54
Alignment explanation
Indices: 7402312--7402505 Score: 239
Period size: 54 Copynumber: 3.6 Consensus size: 54
7402302 TTACCATTGC
* * * * * *
7402312 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGT
* ** *
7402365 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTACAGTAACTTATCAATGT
1 CATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTTATCAATGT
* *
7402420 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGT
1 CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGT
*
7402474 CATGCCTTGGCATGGTCTTACATGATATCCTT
1 CATGCCTTGACATGGTCTTACATGATATCCTT
7402506 ATCTTACCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 31 0.26
54 43 0.36
55 42 0.35
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAATGT
Found at i:7402542 original size:47 final size:47
Alignment explanation
Indices: 7402484--7402605 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
7402474 CATGCCTTGG
* *
7402484 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* *
7402531 CATGATCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCTAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
7402578 CATGGTCTTACATGGTAACCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
7402606 GTGCTAATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:7402793 original size:44 final size:44
Alignment explanation
Indices: 7402744--7402867 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 44
7402734 ATCCTTAACC
* * * *
7402744 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTT-TCG
1 TCAATTCTTCCTTAAATGCCATGGTA-CAACCATGGAATTTTCT-G
*
7402788 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGAATTTTCTG
1 TCAATTCTTCCTTAAATGCCATGGTACAACCATGGAATTTTCTG
* * *
7402832 TCAATTCTTCCTTAATTGTCATAGTACAACCATGGA
1 TCAATTCTTCCTTAAATGCCATGGTACAACCATGGA
7402868 GTTTGACATA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
43 2 0.03
44 68 0.96
45 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (44 bp):
TCAATTCTTCCTTAAATGCCATGGTACAACCATGGAATTTTCTG
Found at i:7405941 original size:98 final size:98
Alignment explanation
Indices: 7405820--7406001 Score: 301
Period size: 98 Copynumber: 1.9 Consensus size: 98
7405810 TTTGCTCAAA
* * * *
7405820 TACTTTAGCTTTAGTCATGTGTTTTCTTTTCTTCTTATTTCTAGTTTGTCTATTTTTGTTTCTGT
1 TACTTTAGCTTTAATAATGTGTTTTCTTTTCATCTTATTTCTAGCTTGTCTATTTTTGTTTCTGT
7405885 TTTTCATTTACTTGAGGACAAGCAATGGCTTAG
66 TTTTCATTTACTTGAGGACAAGCAATGGCTTAG
* *
7405918 TACTTTAGTTTTAATAATGTGTTTTCTTTTCATCTTATTTTTAGCTTGTCTATTTTTGTTTCTGT
1 TACTTTAGCTTTAATAATGTGTTTTCTTTTCATCTTATTTCTAGCTTGTCTATTTTTGTTTCTGT
*
7405983 TTTTCGTTTACTTGAGGAC
66 TTTTCATTTACTTGAGGAC
7406002 GAGAAACAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 77 1.00
ACGTcount: A:0.16, C:0.13, G:0.14, T:0.57
Consensus pattern (98 bp):
TACTTTAGCTTTAATAATGTGTTTTCTTTTCATCTTATTTCTAGCTTGTCTATTTTTGTTTCTGT
TTTTCATTTACTTGAGGACAAGCAATGGCTTAG
Found at i:7408617 original size:47 final size:47
Alignment explanation
Indices: 7408563--7408759 Score: 216
Period size: 47 Copynumber: 4.1 Consensus size: 47
7408553 TTAGGATTTT
** * *
7408563 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
7408610 ATGTGATGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
7408657 ATGTGATGAATATGAACATGGATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
7408704 ATGTGA-AATATGTATGAGATATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGA-ATG--TGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
7408754 ATGTGA
1 ATGTGA
7408760 AATATATATA
Statistics
Matches: 129, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
46 1 0.01
47 91 0.71
49 3 0.02
50 34 0.26
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:7408638 original size:25 final size:25
Alignment explanation
Indices: 7408610--7408686 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
7408600 CGAATGGCCA
7408610 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* *
7408635 ATGTGAT-AAGGTCG-A-ATGGC-CA-
1 ATGTGATGAATGT-GAACAT-GCATAT
* *
7408657 ATGTGATGAATATGAACATGGATAT
1 ATGTGATGAATGTGAACATGCATAT
7408682 ATGTG
1 ATGTG
7408687 GTAAAGCCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 10 0.26
25 13 0.33
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:7408663 original size:22 final size:22
Alignment explanation
Indices: 7408592--7408663 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
7408582 GTATATATGA
*
7408592 GATAAGGCCGAATGGCCAATGT
1 GATAAGGTCGAATGGCCAATGT
* *
7408614 GATGAATGT-GAACAT-GCATATATGT
1 GAT-AAGGTCG-A-ATGGC-CA-ATGT
7408639 GATAAGGTCGAATGGCCAATGT
1 GATAAGGTCGAATGGCCAATGT
7408661 GAT
1 GAT
7408664 GAATATGAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 11 0.29
23 9 0.24
24 10 0.26
25 8 0.21
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
GATAAGGTCGAATGGCCAATGT
Found at i:7408742 original size:50 final size:50
Alignment explanation
Indices: 7408627--7408816 Score: 196
Period size: 50 Copynumber: 3.8 Consensus size: 50
7408617 GAATGTGAAC
* * * * *
7408627 ATGCATATATGTGATAAGGTCGAATGGCCAATGTG--ATGA-ATATGA-AC
1 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATATATGAGAT
* *
7408674 ATGGATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
7408724 ATGCATATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGAT
1 ATGCATATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATATATGAGAT
* *
7408778 ATG--TATATGTGGTAAAGCCGAATGGATAGTGTGAAATAT
1 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
7408817 GTAGGCGATG
Statistics
Matches: 123, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
47 30 0.24
48 5 0.04
49 9 0.07
50 34 0.28
52 28 0.23
53 2 0.02
54 15 0.12
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (50 bp):
ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
Found at i:7408800 original size:52 final size:53
Alignment explanation
Indices: 7408677--7408816 Score: 186
Period size: 52 Copynumber: 2.7 Consensus size: 53
7408667 TATGAACATG
*
7408677 GATATATGTGGTAAAGCCGAATGG-CTAATGTG--A-A-ATATGTATGAGATAT
1 GATATATGTGGTAAAGCCGAATGGTC-AATGTGAAATATATATATATGAGATAT
7408726 GCATATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATATGAGATAT
1 G-ATATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATATGAGATAT
*
7408780 G-TATATGTGGTAAAGCCGAATGGAT-AGTGTGAAATAT
1 GATATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
7408817 GTAGGCGATG
Statistics
Matches: 82, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
49 1 0.01
50 29 0.35
51 1 0.01
52 34 0.41
53 2 0.02
54 15 0.18
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (53 bp):
GATATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATATGAGATAT
Found at i:7409019 original size:37 final size:37
Alignment explanation
Indices: 7408969--7409077 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
7408959 ATATATTCCT
*
7408969 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
7409006 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
* *
7409043 GGTAAGACCCGATAACTTCGTGTGGAGATTTTGTC
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
7409078 TGAGCTAAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:7410611 original size:40 final size:40
Alignment explanation
Indices: 7410328--7410599 Score: 420
Period size: 40 Copynumber: 6.8 Consensus size: 40
7410318 GAGAATTGAG
* *
7410328 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
7410368 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
7410408 AGTGATGTATCCAGG-CTAAGTCTCAAAGAGCATTCGTGCT
1 AGTGATGTATCC-GGACTAAGTCCCGAAGAGCATTCGTGCT
7410448 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* *
7410488 AGTGATGTATCCAGACTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
7410528 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
7410568 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCA
7410600 ATCATGCTGG
Statistics
Matches: 213, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 209 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:7419250 original size:40 final size:40
Alignment explanation
Indices: 7419191--7419408 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
7419181 CGGATGATAA
* * * *
7419191 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
7419231 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
7419271 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
7419311 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
7419351 CCGGGCTATGTCCCAAAGGCATTCGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
7419391 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
7419409 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.09
40 145 0.91
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:7427321 original size:40 final size:41
Alignment explanation
Indices: 7427262--7427590 Score: 372
Period size: 40 Copynumber: 8.5 Consensus size: 41
7427252 CGGATGATAA
* * * *
7427262 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTAT
7427302 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG----T--TA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTAT
* * *
7427336 -C--GCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTAT
7427373 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-GTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTAT
* *
7427413 CTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTAT
*
7427453 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTAT
*
7427493 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTAT
* * *
7427533 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAGTAT
* *
7427573 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
7427591 TACTTGGCTT
Statistics
Matches: 256, Mismatches: 19, Indels: 29
0.84 0.06 0.10
Matches are distributed among these distances:
31 25 0.10
33 1 0.00
34 1 0.00
35 1 0.00
36 1 0.00
37 1 0.00
38 1 0.00
39 17 0.07
40 208 0.81
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTAT
Found at i:7427344 original size:31 final size:32
Alignment explanation
Indices: 7427305--7427407 Score: 109
Period size: 31 Copynumber: 3.0 Consensus size: 32
7427295 ACTAGTTCCG
7427305 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
* *
7427337 -GCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCC
1 GGCTAAGTCCCGAAGGCA-TT----T-GTG-CGAGTTAC
7427375 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
7427408 TGTATCTGGG
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
31 17 0.29
32 2 0.03
33 6 0.10
34 3 0.05
35 1 0.02
36 1 0.02
37 3 0.05
38 6 0.10
39 2 0.03
40 17 0.29
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.25
Consensus pattern (32 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
Found at i:7428047 original size:47 final size:47
Alignment explanation
Indices: 7427993--7428189 Score: 216
Period size: 47 Copynumber: 4.1 Consensus size: 47
7427983 TTAGGATTTT
** * *
7427993 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
7428040 ATGTGATGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
7428087 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * ** *
7428134 ATGTGA-AATATGTATGAGATATGCATATATGTGGTAAATCCGAATGGTCA
1 ATGTGATGA-ATG--TGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
7428184 ATGTGA
1 ATGTGA
7428190 AATATATATA
Statistics
Matches: 130, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
46 1 0.01
47 92 0.71
49 3 0.02
50 34 0.26
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:7428068 original size:25 final size:25
Alignment explanation
Indices: 7428040--7428116 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
7428030 CGAATGGCCA
7428040 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* *
7428065 ATGTGAT-AAGGTCG-A-ATGGC-CA-
1 ATGTGATGAATGT-GAACAT-GCATAT
*
7428087 ATGTGATGAATATGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
7428112 ATGTG
1 ATGTG
7428117 GTAAAGCCGA
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 10 0.25
25 13 0.32
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:7428093 original size:22 final size:22
Alignment explanation
Indices: 7428022--7428093 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
7428012 GTATATATGA
*
7428022 GATAAGGCCGAATGGCCAATGT
1 GATAAGGTCGAATGGCCAATGT
* *
7428044 GATGAATGT-GAACAT-GCATATATGT
1 GAT-AAGGTCG-A-ATGGC-CA-ATGT
7428069 GATAAGGTCGAATGGCCAATGT
1 GATAAGGTCGAATGGCCAATGT
7428091 GAT
1 GAT
7428094 GAATATGAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 11 0.29
23 9 0.24
24 10 0.26
25 8 0.21
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
GATAAGGTCGAATGGCCAATGT
Found at i:7428168 original size:50 final size:50
Alignment explanation
Indices: 7428057--7428244 Score: 210
Period size: 50 Copynumber: 3.8 Consensus size: 50
7428047 GAATGTGAAC
* * * * *
7428057 ATGCATATATGTGATAAGGTCGAATGGCCAATGTG--ATGA-ATATGA-AC
1 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATATATGAGAT
*
7428104 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
*
7428154 ATGCATATATGTGGTAAATCCGAATGG-TCAATGTGAAATATATATATGAGAT
1 ATGCATATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGAT
* *
7428206 ATG--TATATGTGGTAAAGCCGAATAGCTAGTGTGAAATAT
1 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
7428245 GTAGGCGATG
Statistics
Matches: 122, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
47 31 0.25
48 5 0.04
49 10 0.08
50 58 0.48
51 3 0.02
52 15 0.12
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (50 bp):
ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
Found at i:7428262 original size:50 final size:49
Alignment explanation
Indices: 7428104--7428268 Score: 181
Period size: 50 Copynumber: 3.3 Consensus size: 49
7428094 GAATATGAAC
*
7428104 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAAT-GCTAATGTGAAATATGTATGAGAT
* * * *
7428154 ATGCATATATGTGGTAAATCCGAATGGTCAATGTGAAATATATATATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGCT-AATGTG-AA-ATATGTATGAGAT
* * *
7428206 AT--GTATATGTGGTAAAGCCGAATAGCTAGTGTGAAATATGTAGGCGAT
1 ATGCGTATATGTGGTAAAGCCGAAT-GCTAATGTGAAATATGTATGAGAT
*
7428254 GTGCGTATATTGTGG
1 ATGCGTATA-TGTGG
7428269 CTGAACGACC
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
48 11 0.11
49 4 0.04
50 59 0.61
51 9 0.09
52 14 0.14
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.32
Consensus pattern (49 bp):
ATGCGTATATGTGGTAAAGCCGAATGCTAATGTGAAATATGTATGAGAT
Found at i:7428443 original size:37 final size:37
Alignment explanation
Indices: 7428393--7428498 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
7428383 GGAAATATAT
*
7428393 TCCGGGTAAGACCCGATGACTACGTATGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
7428430 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
7428467 TCCGGGTAAGACCCGATAACTTCGTGTGGAGA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA
7428499 CTTCGTCTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:7431083 original size:31 final size:31
Alignment explanation
Indices: 7431042--7431104 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
7431032 CCTTTTCATA
* *
7431042 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
**
7431073 TTTCAAATTTCATATTACTGGGCCAAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
7431104 T
1 T
7431105 GACTGTAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCAAAGCCT
Found at i:7431351 original size:24 final size:24
Alignment explanation
Indices: 7431313--7431464 Score: 227
Period size: 24 Copynumber: 6.4 Consensus size: 24
7431303 CTAGAGGCCT
*
7431313 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
7431338 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
7431362 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
*
7431385 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
7431409 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
7431433 AGCCC-TTTAATAACTGGGGCCTA
1 AGCCCTTTTAATAACTGGGGCATA
7431456 AGCCCTTTT
1 AGCCCTTTT
7431465 TCACTTCCTC
Statistics
Matches: 117, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 42 0.36
24 71 0.61
25 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:7431399 original size:71 final size:71
Alignment explanation
Indices: 7431299--7431464 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
7431289 GCTTTATCAT
* *
7431299 ATAACTAGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACT-GGGGCCTAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
7431363 GCCCTTTA
64 GCCCTTTA
* * *
7431371 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCCTAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
7431436 CCTTTA
66 CCTTTA
7431442 ATAACTGGGGCCTAAGCCCTTTT
1 ATAACTGGGGCCTAAGCCCTTTT
7431465 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 77 0.89
72 10 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCCTAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:7431464 original size:47 final size:48
Alignment explanation
Indices: 7431313--7431464 Score: 227
Period size: 47 Copynumber: 3.2 Consensus size: 48
7431303 CTAGAGGCCT
* *
7431313 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
* *
7431362 AGCCC-TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
* *
7431409 AGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCCTA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
7431456 AGCCCTTTT
1 AGCCCTTTT
7431465 TCACTTCCTC
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
47 69 0.73
48 22 0.23
49 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:7431546 original size:20 final size:20
Alignment explanation
Indices: 7431523--7431580 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
7431513 CATCACGTGT
7431523 ATATCATACATATCATGTGC
1 ATATCATACATATCATGTGC
*
7431543 ATATCATACATGTCATGTGC
1 ATATCATACATATCATGTGC
*
7431563 ATATCATACATACCATGT
1 ATATCATACATATCATGT
7431581 TTATCAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATATCATACATATCATGTGC
Found at i:7434682 original size:93 final size:93
Alignment explanation
Indices: 7434486--7434675 Score: 371
Period size: 93 Copynumber: 2.0 Consensus size: 93
7434476 ATAATTTAGT
*
7434486 AATAAATATATATTGCAATTTGTAAATATTTAGTAATAAATGATTTATATTATTAAAACTTATAG
1 AATAAATATATATTACAATTTGTAAATATTTAGTAATAAATGATTTATATTATTAAAACTTATAG
7434551 CATCAAATATGAATATTTTAATAATATA
66 CATCAAATATGAATATTTTAATAATATA
7434579 AATAAATATATATTACAATTTGTAAATATTTAGTAATAAATGATTTATATTATTAAAACTTATAG
1 AATAAATATATATTACAATTTGTAAATATTTAGTAATAAATGATTTATATTATTAAAACTTATAG
7434644 CATCAAATATGAATATTTTAATAATATA
66 CATCAAATATGAATATTTTAATAATATA
7434672 AATA
1 AATA
7434676 TGTATATTTT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 96 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (93 bp):
AATAAATATATATTACAATTTGTAAATATTTAGTAATAAATGATTTATATTATTAAAACTTATAG
CATCAAATATGAATATTTTAATAATATA
Found at i:7435878 original size:28 final size:30
Alignment explanation
Indices: 7435824--7435881 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
7435814 GCAATTTCAT
*
7435824 TTATTAAAAAATATTTTCATTTAATAAAATA
1 TTATTAAAAAATATTTT-ATATAATAAAATA
*
7435855 TTATTAAAATATATTTT-TAT-ATAAAAT
1 TTATTAAAAAATATTTTATATAATAAAAT
7435882 TCAAACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.28
29 2 0.08
31 16 0.64
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
TTATTAAAAAATATTTTATATAATAAAATA
Found at i:7437706 original size:30 final size:30
Alignment explanation
Indices: 7437672--7437761 Score: 80
Period size: 30 Copynumber: 3.0 Consensus size: 30
7437662 TTTAAATTTA
7437672 AAATATATTTTAAAATTAATTTTTTGGTAC
1 AAATATATTTTAAAATTAATTTTTTGGTAC
* *** *
7437702 AAATAGAAAATAAAATTTGAATTTTAAT-GTA-
1 AAATATATTTTAAAA-TT-AATTTT-TTGGTAC
7437733 AAATATATTTT-AAATTAA-TTTTTGGTAC
1 AAATATATTTTAAAATTAATTTTTTGGTAC
7437761 A
1 A
7437762 TGTCGGTTCA
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
26 1 0.02
27 6 0.13
28 3 0.07
29 2 0.04
30 14 0.31
31 9 0.20
32 9 0.20
33 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (30 bp):
AAATATATTTTAAAATTAATTTTTTGGTAC
Found at i:7442051 original size:94 final size:94
Alignment explanation
Indices: 7441522--7442026 Score: 1010
Period size: 94 Copynumber: 5.4 Consensus size: 94
7441512 TCATTTGTGT
7441522 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACAATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACAATGTC
7441587 TGGGACATGGCATCGGCATTGAGACGAGA
66 TGGGACATGGCATCGGCATTGAGACGAGA
7441616 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACAATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACAATGTC
7441681 TGGGACATGGCATCGGCATTGAGACGAGA
66 TGGGACATGGCATCGGCATTGAGACGAGA
7441710 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACAATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACAATGTC
7441775 TGGGACATGGCATCGGCATTGAGACGAGA
66 TGGGACATGGCATCGGCATTGAGACGAGA
7441804 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACAATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACAATGTC
7441869 TGGGACATGGCATCGGCATTGAGACGAGA
66 TGGGACATGGCATCGGCATTGAGACGAGA
7441898 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACAATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACAATGTC
7441963 TGGGACATGGCATCGGCATTGAGACGAGA
66 TGGGACATGGCATCGGCATTGAGACGAGA
7441992 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
7442027 TTGAGATGTA
Statistics
Matches: 411, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 411 1.00
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.21
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACAATGTC
TGGGACATGGCATCGGCATTGAGACGAGA
Found at i:7447614 original size:43 final size:43
Alignment explanation
Indices: 7447539--7447661 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 43
7447529 AAACACTTAT
* * * * * *
7447539 ATCACATA-TAATGCCA-TATCCCAGATATGGTCTTACATGTT
1 ATCACATACCAATGCCACTATCCTAGACAGGGTCTTACACGTA
*
7447580 ATCACATACCAATGCCTCTATCCTAGACAGGGTCTTACACGTA
1 ATCACATACCAATGCCACTATCCTAGACAGGGTCTTACACGTA
* * * * * *
7447623 ATCTCTTATCAATGCCAGTGTCCTAGACATGGTCTTACA
1 ATCACATACCAATGCCACTATCCTAGACAGGGTCTTACA
7447662 AAAAGTCACA
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
41 8 0.12
42 6 0.09
43 52 0.79
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (43 bp):
ATCACATACCAATGCCACTATCCTAGACAGGGTCTTACACGTA
Found at i:7451647 original size:29 final size:29
Alignment explanation
Indices: 7451585--7451674 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 29
7451575 ACAAGTTTTG
* *
7451585 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
7451613 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* *
7451642 CGTATGGCCCATTAGGCCCAAGTCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
7451671 CATA
1 CATA
7451675 GTCATGCTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 18 0.32
29 38 0.68
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:7459772 original size:145 final size:145
Alignment explanation
Indices: 7459574--7459847 Score: 503
Period size: 145 Copynumber: 1.9 Consensus size: 145
7459564 AACTCAAGGT
* * *
7459574 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
7459639 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
7459704 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
*
7459719 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
7459784 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
7459848 TACTTTAAAC
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 124 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:7459864 original size:29 final size:30
Alignment explanation
Indices: 7459825--7459903 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
7459815 CTTAATAATC
7459825 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
7459855 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
7459884 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
7459904 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:7462170 original size:56 final size:56
Alignment explanation
Indices: 7462084--7462196 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
7462074 CTCGGTCCAA
*
7462084 AACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAAT
1 AACAATGGTGTACAGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAAT
7462140 AACAATGGTGTACAGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAAT
1 AACAATGGTGTACAGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAAT
7462196 A
1 A
7462197 CTTGATTGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (56 bp):
AACAATGGTGTACAGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCATCTTAAT
Found at i:7462706 original size:49 final size:49
Alignment explanation
Indices: 7462633--7462726 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
7462623 CATTTCCACT
*
7462633 CGGGTATCATGATCGGCTGAAGTAATCCTGAAGGCACTTGATGTTCCGC
1 CGGGTATCATGATCGGCTGAAGTAATCCTAAAGGCACTTGATGTTCCGC
*
7462682 CGGGTATCATGATCGGCTGGAGTAATCCTAAAGGCACTTGATGTT
1 CGGGTATCATGATCGGCTGAAGTAATCCTAAAGGCACTTGATGTT
7462727 TTCACTTGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (49 bp):
CGGGTATCATGATCGGCTGAAGTAATCCTAAAGGCACTTGATGTTCCGC
Found at i:7463560 original size:60 final size:60
Alignment explanation
Indices: 7463486--7463605 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
7463476 TCAATACACA
* *
7463486 ACCCAACCCGAGTAGGGATGCGTCACTATAAATGACAAACTCTTTGCCTGATTCGGGTTG
1 ACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTGATTCGGGTTG
7463546 ACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTGATTCGGGTTG
1 ACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTGATTCGGGTTG
7463606 CACCAAAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (60 bp):
ACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTGATTCGGGTTG
Found at i:7464107 original size:52 final size:52
Alignment explanation
Indices: 7464047--7464150 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
7464037 AATATGGTCT
*
7464047 GAAGATCCGATTCATCAAATCCATAAATGCCGCAGGGGCATTAGTGAGCCCA
1 GAAGATCCGATTCATCAAATCCATAAATACCGCAGGGGCATTAGTGAGCCCA
* *
7464099 GAAGATCCGATTCATCAAATCCATAAATACTGCAGGGTCATTAGTGAGCCCA
1 GAAGATCCGATTCATCAAATCCATAAATACCGCAGGGGCATTAGTGAGCCCA
7464151 AACGGCATCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (52 bp):
GAAGATCCGATTCATCAAATCCATAAATACCGCAGGGGCATTAGTGAGCCCA
Found at i:7472358 original size:27 final size:26
Alignment explanation
Indices: 7472328--7472389 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
7472318 ATCAAAGCTG
7472328 CCAGTATCAGTATATGTGGCAAAGCCA
1 CCAGTAT-AGTATATGTGGCAAAGCCA
*
7472355 CCAGTAGTAGTATATGTGGCGAAGCCA
1 CCAGTA-TAGTATATGTGGCAAAGCCA
*
7472382 CCGGTATA
1 CCAGTATA
7472390 ATACACTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 2 0.06
27 29 0.91
28 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (26 bp):
CCAGTATAGTATATGTGGCAAAGCCA
Found at i:7496592 original size:24 final size:24
Alignment explanation
Indices: 7496542--7496595 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
7496532 AATCGAATTT
*
7496542 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
7496566 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
7496590 GCACAC
1 GCACAC
7496596 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:7504266 original size:24 final size:24
Alignment explanation
Indices: 7504216--7504269 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
7504206 AATCGAATTT
*
7504216 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
7504240 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
7504264 GCACAC
1 GCACAC
7504270 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:7509715 original size:15 final size:13
Alignment explanation
Indices: 7509682--7509706 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7509672 ACAAACTCTA
7509682 AAATTTTCACACT
1 AAATTTTCACACT
7509695 AAATTTTCACAC
1 AAATTTTCACAC
7509707 ATATAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTTTCACACT
Done.