Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 257 of 349
Found at i:85429809 original size:23 final size:24
Alignment explanation
Indices: 85429765--85429809 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
85429755 TTATTAGAAG
* * *
85429765 TAATTATGAGTTTAGTTGAGTGCT
1 TAATTAGGAGTTTAATTAAGTGCT
85429789 TAATTAGGA-TTTAATTAAGTG
1 TAATTAGGAGTTTAATTAAGTG
85429810 AATTTAGCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.44
Consensus pattern (24 bp):
TAATTAGGAGTTTAATTAAGTGCT
Found at i:85429999 original size:16 final size:15
Alignment explanation
Indices: 85429974--85430009 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
85429964 TTTTCTTAAT
85429974 TTATTAATTATTATA
1 TTATTAATTATTATA
*
85429989 TTATATAATTATTATT
1 TTAT-TAATTATTATA
85430005 TTATT
1 TTATT
85430010 TAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTAATTATTATA
Found at i:85432498 original size:20 final size:20
Alignment explanation
Indices: 85432473--85432518 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
85432463 AGACCTTACT
*
85432473 ATGTAAATAGCCCAATTTGA
1 ATGTAAATAGCCCAATTAGA
85432493 ATGTAAATAGCCCAATTAGA
1 ATGTAAATAGCCCAATTAGA
85432513 ATGTAA
1 ATGTAA
85432519 GTGGACATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (20 bp):
ATGTAAATAGCCCAATTAGA
Found at i:85433547 original size:22 final size:22
Alignment explanation
Indices: 85433489--85433556 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
85433479 AGACTCACCA
85433489 CAGCTCATATGAGCTTACCGTTT
1 CAGCTCAT-TGAGCTTACCGTTT
**
85433512 CAGCTCTACGGAGCTTACCG-TT
1 CAGCTC-ATTGAGCTTACCGTTT
*
85433534 CAGCTCAATTGAGCTTACTGTTT
1 CAGCTC-ATTGAGCTTACCGTTT
85433557 ATCGGCTCAG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 18 0.49
23 18 0.49
24 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (22 bp):
CAGCTCATTGAGCTTACCGTTT
Found at i:85434965 original size:38 final size:38
Alignment explanation
Indices: 85434922--85434997 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
85434912 TTCATCCTTT
85434922 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
*
85434960 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
85434998 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAAGAGGAA
Found at i:85436292 original size:40 final size:40
Alignment explanation
Indices: 85436187--85436335 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
85436177 ACTCGAGATG
*
85436187 ATATCCGGGCCTAAGTCCCGAAGGAGCTTTTGTGCTAAGCGACT
1 ATATCCGGG-CTAAGTCCCGAA-G-GCATTTGTGCT-AGCGACT
* *
85436231 ACAATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 A-TATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
85436272 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
85436312 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
85436336 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 54 0.59
41 8 0.09
42 10 0.11
43 1 0.01
44 11 0.12
45 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:85443035 original size:38 final size:38
Alignment explanation
Indices: 85442993--85443068 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
85442983 GTTCATCCTT
*
85442993 TTCATTTCTTTTGTCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
85443031 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
85443069 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:85444349 original size:40 final size:40
Alignment explanation
Indices: 85444255--85444399 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
85444245 TACTCGAATG
*
85444255 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
85444296 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
85444336 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
85444376 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
85444400 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:85464059 original size:93 final size:93
Alignment explanation
Indices: 85463947--85464118 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
85463937 ACCCATAAGT
* *
85463947 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
85464012 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
85464040 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
85464105 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
85464119 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:85464114 original size:46 final size:46
Alignment explanation
Indices: 85463939--85464114 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
85463929 TGTAACCCAC
* * *
85463939 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
85463985 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
85464031 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
85464078 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
85464115 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:85483791 original size:40 final size:40
Alignment explanation
Indices: 85483705--85483794 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
85483695 AGACTATGTT
*
85483705 TGGCACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAA
1 TGGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAA
* * * **
85483745 TAGCACTAAGTGTGCGAATTGGAATAGCTTTGGCTATATG
1 TGGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAA
85483785 TGGCACTAAG
1 TGGCACTAAG
85483795 CGTGTAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAA
Found at i:85490181 original size:27 final size:27
Alignment explanation
Indices: 85490151--85491100 Score: 798
Period size: 27 Copynumber: 35.2 Consensus size: 27
85490141 AAAGTACTCC
* ** *
85490151 CGATTTACAGAATTTTCATTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* *
85490178 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* *
85490205 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTATAGAATTAACGTTTTACCCT
* * *
85490232 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
*
85490259 C-AGTTTATAGAATT-ACTATTTTACCCT
1 CGA-TTTATAGAATTAAC-GTTTTACCCT
*
85490286 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* * * *
85490313 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
*
85490340 C-AGTTTATAGAATT-ACTATTTTACCCT
1 CGA-TTTATAGAATTAAC-GTTTTACCCT
*
85490367 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* * ***
85490394 CGATTTGTAAAATTATTATTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* * *
85490421 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* * *
85490448 C-AGTTTACAAAATT-ACTATTTTACCCT
1 CGA-TTTATAGAATTAAC-GTTTTACCCT
85490475 CGATTTATAGAATT-ACTGTTTTACCCT
1 CGATTTATAGAATTAAC-GTTTTACCCT
* * *
85490502 CGATTTGTAAAATT-ACAATTTTACCCT
1 CGATTTATAGAATTAAC-GTTTTACCCT
*
85490529 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* *
85490556 C-AGTTTACAGAATT-ACTATTTTACCCT
1 CGA-TTTATAGAATTAAC-GTTTTACCCT
*
85490583 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* *
85490610 CGATTTGTAAAATT-ACTGTTTTACCCT
1 CGATTTATAGAATTAAC-GTTTTACCCT
* * *
85490637 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* * *
85490664 C-AGTTTACAAAATT-ACTATTTTACCCT
1 CGA-TTTATAGAATTAAC-GTTTTACCCT
85490691 CGATTTATAGAATT-ACTGTTTTACCCT
1 CGATTTATAGAATTAAC-GTTTTACCCT
* *
85490718 CGATTTGTAAAATT-ACAGTTTTACCCT
1 CGATTTATAGAATTAAC-GTTTTACCCT
*
85490745 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* *
85490772 C-AGTTTACAGAATT-ACTATTTTACCCT
1 CGA-TTTATAGAATTAAC-GTTTTACCCT
*
85490799 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* * *
85490826 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* * *
85490853 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* * * * *
85490880 C-AGGTTACAAAATT-ACTATTTTACCTT
1 CGA-TTTATAGAATTAAC-GTTTTACCCT
* *
85490907 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
*
85490934 C-AGTTTACAGAATT-ACTGTTTTACCCT
1 CGA-TTTATAGAATTAAC-GTTTTACCCT
*
85490961 CGATTTACAGAATT-ACTGTTTTACCCT
1 CGATTTATAGAATTAAC-GTTTTACCCT
* * *
85490988 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
* * * *
85491015 TGATTTACAGAATT-ACTGGTTTACCTT
1 CGATTTATAGAATTAAC-GTTTTACCCT
* * *
85491042 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTATAGAATTAACGTTTTACCCT
*
85491069 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTAACGTTTTACCCT
*
85491096 TGATT
1 CGATT
85491101 GTGAAATTAC
Statistics
Matches: 775, Mismatches: 108, Indels: 80
0.80 0.11 0.08
Matches are distributed among these distances:
26 20 0.03
27 735 0.95
28 20 0.03
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTATAGAATTAACGTTTTACCCT
Found at i:85490298 original size:108 final size:108
Alignment explanation
Indices: 85490151--85491095 Score: 1276
Period size: 108 Copynumber: 8.8 Consensus size: 108
85490141 AAAGTACTCC
* ** * ** *
85490151 CGATTTACAGAATTTTCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAG
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGA-TTTACAG
**
85490215 AATTACCGTTTTACCCTC-GATTTACAAAATTACCGTTTTACCCT
65 AATTACCGTTTTACCCTCAG-TTTACAAAATTACTATTTTACCCT
** * * ** *
85490259 C-AGTTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAA
1 CGA-TTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAG
* * *
85490323 AATTACCATTTTACCCTCAGTTTATAGAATTACTATTTTACCCT
65 AATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTTACCCT
***
85490367 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTATTATTTTACCCTCGATTTACAGA
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGA
*
85490432 ATTACCATTTTACCCTCAGTTTACAAAATTACTATTTTACCCT
66 ATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTTACCCT
* ** *
85490475 CGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATTACAATTTTACCCTCGATTTATAGA
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGA
*
85490540 ATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCT
66 ATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTTACCCT
*
85490583 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTCGATTTACAGA
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGA
*
85490648 ATTACCATTTTACCCTCAGTTTACAAAATTACTATTTTACCCT
66 ATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTTACCCT
* * *
85490691 CGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATTACAGTTTTACCCTCGATTTATAGA
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGA
*
85490756 ATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCT
66 ATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTTACCCT
* *
85490799 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTATCGTTTTACCCTCGATTTACAAA
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGA
* *
85490864 ATTACCGTTTTACCCTCAGGTTACAAAATTACTATTTTACCTT
66 ATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTTACCCT
* * *
85490907 CGATTTACAGAATTACCGTTTTACCCTC-AGTT-TACAGAATTACTGTTTTACCCTCGATTTACA
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTA-A-AATTACCGTTTTACCCTCGATTTACA
* ** *
85490970 GAATTACTGTTTTACCCTC-GATTTGTAAAATTA-TCGTTTTACCCT
64 GAATTACCGTTTTACCCTCAG-TTTACAAAATTACT-ATTTTACCCT
* * * * * ** * *
85491015 TGATTTACAGAATTACTGGTTTACCTTC-AGTTTACAAAATTATCGTTTTACCCTCGATTTATAG
1 CGATTTATAGAATTACCGTTTTACCCTCGA-TTTGTAAAATTACCGTTTTACCCTCGATTTACAG
85491079 AATTACCGTTTTACCCT
65 AATTACCGTTTTACCCT
85491096 TGATTGTGAA
Statistics
Matches: 756, Mismatches: 71, Indels: 20
0.89 0.08 0.02
Matches are distributed among these distances:
106 2 0.00
107 7 0.01
108 740 0.98
109 6 0.01
110 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (108 bp):
CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGA
ATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTTACCCT
Found at i:85491009 original size:54 final size:54
Alignment explanation
Indices: 85490151--85491100 Score: 1116
Period size: 54 Copynumber: 17.6 Consensus size: 54
85490141 AAAGTACTCC
* ** * * * *
85490151 CGATTTACAGAATTTTCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCT
* * *
85490205 C-AGTTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCT
** * *
85490259 C-AGTTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCT
* * * * *
85490313 CGATTTGTAAAATTACCATTTTACCCTC-AGTTTATAGAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGA-TTTATAAAATTACTGTTTTACCCT
* * *
85490367 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTATTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCT
* * * *
85490421 CGATTTACAGAATTACCATTTTACCCTC-AGTTTACAAAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGA-TTTATAAAATTACTGTTTTACCCT
* * **
85490475 CGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATTACAATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCT
* * *
85490529 CGATTTATAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGA-TTTATAAAATTACTGTTTTACCCT
*
85490583 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCT
* * * *
85490637 CGATTTACAGAATTACCATTTTACCCTC-AGTTTACAAAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGA-TTTATAAAATTACTGTTTTACCCT
* * *
85490691 CGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATTACAGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCT
* * *
85490745 CGATTTATAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGA-TTTATAAAATTACTGTTTTACCCT
*
85490799 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTA-TCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACT-GTTTTACCCT
* * * * * *
85490853 CGATTTACAAAATTACCGTTTTACCCTC-AGGTTACAAAATTACTATTTTACCTT
1 CGATTTATAGAATTACCGTTTTACCCTCGA-TTTATAAAATTACTGTTTTACCCT
* * *
85490907 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGA-TTTATAAAATTACTGTTTTACCCT
* * *
85490961 CGATTTACAGAATTACTGTTTTACCCTCGATTTGTAAAATTA-TCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACT-GTTTTACCCT
* * * * * *
85491015 TGATTTACAGAATTACTGGTTTACCTTC-AGTTTACAAAATTA-TCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCTCGA-TTTATAAAATTACT-GTTTTACCCT
*
85491069 CGATTTATAGAATTACCGTTTTACCCTTGATT
1 CGATTTATAGAATTACCGTTTTACCCTCGATT
85491101 GTGAAATTAC
Statistics
Matches: 788, Mismatches: 89, Indels: 38
0.86 0.10 0.04
Matches are distributed among these distances:
53 10 0.01
54 769 0.98
55 9 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
CGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCT
Found at i:85491122 original size:27 final size:27
Alignment explanation
Indices: 85491090--85491217 Score: 95
Period size: 27 Copynumber: 4.8 Consensus size: 27
85491080 ATTACCGTTT
* *
85491090 TACCCTTGATTGTGA-AATTACTGAAA
1 TACCCCTGATAGTGAGAATTACTGAAA
* *
85491116 TACCCCTGTATGGT-AGAATTTCTGAAA
1 TACCCCTG-ATAGTGAGAATTACTGAAA
*
85491143 TACCCCT-ATAGGGTAGAATTACTGAAA
1 TACCCCTGATAGTG-AGAATTACTGAAA
* * **
85491170 TACCCTTG-TAGGGTAGAATTACCAAAA
1 TACCCCTGATAGTG-AGAATTACTGAAA
*
85491197 TACCCCTG-TAGGGTAGAATTA
1 TACCCCTGATAGTG-AGAATTA
85491218 TACCCTTGTA
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
25 3 0.03
26 8 0.09
27 76 0.87
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (27 bp):
TACCCCTGATAGTGAGAATTACTGAAA
Found at i:85491173 original size:54 final size:54
Alignment explanation
Indices: 85491105--85491217 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
85491095 TTGATTGTGA
* * **
85491105 AATTACTGAAATACCCCTGTATGGTAGAATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
* *
85491159 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
85491213 AATTA
1 AATTA
85491218 TACCCTTGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
Found at i:85491220 original size:21 final size:21
Alignment explanation
Indices: 85491196--85491256 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
85491186 AATTACCAAA
85491196 ATACCCCTGTAGGGTAGAATT
1 ATACCCCTGTAGGGTAGAATT
*
85491217 ATACCCTTGTAGGGTAG-A--
1 ATACCCCTGTAGGGTAGAATT
85491235 ATACCCCTGTAGGGTAGAATT
1 ATACCCCTGTAGGGTAGAATT
85491256 A
1 A
85491257 CCGAGATACC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 16 0.46
19 1 0.03
20 1 0.03
21 17 0.49
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (21 bp):
ATACCCCTGTAGGGTAGAATT
Found at i:85491240 original size:18 final size:18
Alignment explanation
Indices: 85491195--85491254 Score: 84
Period size: 18 Copynumber: 3.2 Consensus size: 18
85491185 GAATTACCAA
85491195 AATACCCCTGTAGGGTAG
1 AATACCCCTGTAGGGTAG
*
85491213 AATTATACCCTTGTAGGGTAG
1 -A--ATACCCCTGTAGGGTAG
85491234 AATACCCCTGTAGGGTAG
1 AATACCCCTGTAGGGTAG
85491252 AAT
1 AAT
85491255 TACCGAGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
18 19 0.51
19 1 0.03
20 1 0.03
21 16 0.43
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (18 bp):
AATACCCCTGTAGGGTAG
Found at i:85491545 original size:27 final size:26
Alignment explanation
Indices: 85491484--85491566 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
85491474 CGGAGGAAGC
* *
85491484 GTTCTGGTGGCTATGCCACAAATATTT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
85491511 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
85491537 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
85491564 GTT
1 GTT
85491567 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 9 0.18
27 41 0.82
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:85491686 original size:22 final size:22
Alignment explanation
Indices: 85491654--85491712 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
85491644 CCCGTTATTA
*
85491654 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
85491676 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
85491698 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
85491713 ACGTATTTAC
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:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:85491899 original size:27 final size:27
Alignment explanation
Indices: 85491877--85491950 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
85491867 TAGGTGGGTT
*
85491877 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
* *
85491904 TGCCATAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
85491931 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
85491951 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.12
27 34 0.85
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:85492102 original size:6 final size:6
Alignment explanation
Indices: 85492093--85492139 Score: 78
Period size: 6 Copynumber: 7.8 Consensus size: 6
85492083 CTGTCACGTA
85492093 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
85492140 CATTTTGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 2 0.05
6 35 0.90
7 2 0.05
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:85494811 original size:44 final size:41
Alignment explanation
Indices: 85494669--85494850 Score: 140
Period size: 40 Copynumber: 4.4 Consensus size: 41
85494659 ACTATGTTCA
* * * ** *
85494669 GCACTAAGTGTGTGAT-TTGAAATAGCTTTGGCTATAAATA
1 GCACTAAGTGTGCGATATTGGAATAGCTTCGGCTATATGTG
85494709 GCACTAAGTGTGCGA-ATTGGAATAGCTTCGGCTATATGTG
1 GCACTAAGTGTGCGATATTGGAATAGCTTCGGCTATATGTG
* * * * *
85494749 GCACTAGGTGTACAATATT-GAGATAGTTTCGGTTTAATATGATG
1 GCACTAAGTGTGCGATATTGGA-ATAGCTTCGG-CT-ATATG-TG
**
85494793 GCACTAAGTGTGCGATATT-TTATAGCTTCGGCTAGATTAT-TG
1 GCACTAAGTGTGCGATATTGGAATAGCTTCGGCT--A-TATGTG
*
85494835 GAACTAAGTGTGCGAT
1 GCACTAAGTGTGCGAT
85494851 GTTCTTGTAC
Statistics
Matches: 114, Mismatches: 20, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
40 47 0.41
41 12 0.11
42 19 0.17
43 15 0.13
44 21 0.18
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (41 bp):
GCACTAAGTGTGCGATATTGGAATAGCTTCGGCTATATGTG
Found at i:85501045 original size:40 final size:40
Alignment explanation
Indices: 85500990--85501201 Score: 329
Period size: 40 Copynumber: 5.3 Consensus size: 40
85500980 TATTCGAATG
*
85500990 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
85501030 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
85501070 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
85501110 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
85501150 ATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
85501190 ATATCC-GGCTAA
1 ATATCCGGGCTAA
85501202 ACTCGAAGGT
Statistics
Matches: 159, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 6 0.04
40 150 0.94
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:85514740 original size:46 final size:46
Alignment explanation
Indices: 85514690--85514862 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
85514680 TGGTTGAGCA
85514690 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
85514736 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
85514781 CATCCGAACTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
85514829 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
85514863 GGGGCGAGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:85514846 original size:93 final size:93
Alignment explanation
Indices: 85514687--85514857 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
85514677 GGATGGTTGA
*
85514687 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
85514752 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
85514780 GCATCCGAACTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGTCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
85514845 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
85514858 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:85516888 original size:16 final size:16
Alignment explanation
Indices: 85516869--85516899 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85516859 ATTGTTTTAT
85516869 TACAGAATTTCACTTC
1 TACAGAATTTCACTTC
*
85516885 TACATAATTTCACTT
1 TACAGAATTTCACTT
85516900 ACTCCATTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (16 bp):
TACAGAATTTCACTTC
Found at i:85517137 original size:26 final size:26
Alignment explanation
Indices: 85517105--85517186 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
85517095 AGCTCTCTGG
85517105 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
* *
85517131 TACACAT-G-CGACCTATCAAGC-TAGTA-
1 TACACATAGTAG-CCT-GC-A-CTTAGTAC
85517157 T--ACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
85517181 TACACA
1 TACACA
85517187 CGTGACTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 20
0.64 0.06 0.30
Matches are distributed among these distances:
22 1 0.02
23 6 0.14
24 7 0.17
25 8 0.19
26 13 0.31
27 6 0.14
28 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:85517162 original size:50 final size:50
Alignment explanation
Indices: 85517100--85517339 Score: 248
Period size: 50 Copynumber: 4.8 Consensus size: 50
85517090 ACCGAAGCTC
*
85517100 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * * * * * *
85517150 GCTAGTATACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * ** * ** *
85517200 TCTGATAAATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAA
* * * *
85517252 T-GGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
* * *
85517301 TCTGGTACACGTAGTAGCTTGCACTTCGTACTACACACG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACG
85517340 TGACTCACAA
Statistics
Matches: 149, Mismatches: 38, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
49 4 0.03
50 110 0.74
51 33 0.22
52 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
Found at i:85517286 original size:101 final size:101
Alignment explanation
Indices: 85517159--85517342 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 101
85517149 AGCTAGTATA
* * * *
85517159 CATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATAAATGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATAAACGTAGTAGCCTGCAC
85517224 TTAGTACTACACACGTGATCGAAGTTAATGGGTACG
66 TTAGTACTACACACGTGATCGAAGTTAATGGGTACG
* * * * * *
85517260 CATAGTAGCCTGCATTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCTTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATAAACGTAGTAGCCTGCAC
*
85517325 TTCGTACTACACACGTGA
66 TTAGTACTACACACGTGA
85517343 CTCACAACGG
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATAAACGTAGTAGCCTGCAC
TTAGTACTACACACGTGATCGAAGTTAATGGGTACG
Found at i:85523763 original size:40 final size:40
Alignment explanation
Indices: 85523692--85523859 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
85523682 CGGGGTTTAG
** * *
85523692 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
85523731 CCGGATATGGTCACTAGCATAAATTCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
85523771 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * * *
85523811 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACATAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAAC
85523852 CCGGATAT
1 CCGGATAT
85523860 CATTCGAGTA
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 15 0.14
40 61 0.59
41 28 0.27
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:85527165 original size:14 final size:14
Alignment explanation
Indices: 85527146--85527174 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
85527136 TTTACAACTC
85527146 GAGCCAACGTCTTT
1 GAGCCAACGTCTTT
85527160 GAGCCAACGTCTTT
1 GAGCCAACGTCTTT
85527174 G
1 G
85527175 TCGCAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (14 bp):
GAGCCAACGTCTTT
Found at i:85530530 original size:38 final size:37
Alignment explanation
Indices: 85530488--85530562 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
85530478 CAAGAACTCC
85530488 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCT-CTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
85530526 TTCCTCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
85530563 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 32 0.86
38 5 0.14
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (37 bp):
TTCCTCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:85537231 original size:39 final size:40
Alignment explanation
Indices: 85537186--85537296 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 40
85537176 CGGGGTTTAG
* * *
85537186 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
85537225 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * *
85537265 CCGGATATAGTCGCTAGCACAAATGCCTTCGG
1 CCGGATATAACCACTAGCATAAAGGCCTTCGG
85537297 ATCTTAGTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
39 15 0.25
40 45 0.75
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:85537256 original size:40 final size:40
Alignment explanation
Indices: 85537209--85537353 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
85537199 CTCGCACAAG
* * * * *
85537209 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
85537249 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
85537289 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
85537330 GCCTTCGGGACTTAGCTCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
85537354 CATCCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:85538584 original size:38 final size:38
Alignment explanation
Indices: 85538542--85538617 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
85538532 CAAGAACTCC
85538542 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
85538580 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
85538618 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:85558413 original size:27 final size:28
Alignment explanation
Indices: 85558310--85558465 Score: 119
Period size: 27 Copynumber: 5.8 Consensus size: 28
85558300 TGTCTGCCAA
* *
85558310 GACTTCCCCATG-TCTAATGTCCCGACG
1 GACTTCCCCATGTTCTAGTGTCTCGACG
* * * **
85558337 GACTTCCCTATGTT-TAGTATCCCGATA
1 GACTTCCCCATGTTCTAGTGTCTCGACG
* * *
85558364 GACTTCCCCATGTTC-AATTTCTCGATG
1 GACTTCCCCATGTTCTAGTGTCTCGACG
*
85558391 GACTTCCCCATGTTCT-GTGTCTCGAAG
1 GACTTCCCCATGTTCTAGTGTCTCGACG
* * *
85558418 GA-TGTCTCCGTGTT-TAGTGTCTCAACG
1 GACT-TCCCCATGTTCTAGTGTCTCGACG
*
85558445 GACTTTCCCATGTT-TAGTGTC
1 GACTTCCCCATGTTCTAGTGTC
85558466 CCAATAGACT
Statistics
Matches: 103, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
26 2 0.02
27 99 0.96
28 2 0.02
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.35
Consensus pattern (28 bp):
GACTTCCCCATGTTCTAGTGTCTCGACG
Found at i:85558485 original size:27 final size:27
Alignment explanation
Indices: 85558425--85558488 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
85558415 AAGGATGTCT
* *
85558425 CCGTGTTTAGTGTCTCAACGGACTTTC
1 CCGTGTTTAGTGTCCCAACAGACTTTC
* *
85558452 CCATGTTTAGTGTCCCAATAGAC-TTC
1 CCGTGTTTAGTGTCCCAACAGACTTTC
85558478 CTCGTGTTTAG
1 C-CGTGTTTAG
85558489 CATCCTAGCG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (27 bp):
CCGTGTTTAGTGTCCCAACAGACTTTC
Found at i:85558627 original size:45 final size:45
Alignment explanation
Indices: 85558571--85558656 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
85558561 CGTGTTTTAA
* *
85558571 CATGATGCCATAACATCTTTTAGTTATGATCTTACTCATTTCAAT
1 CATGATGCCATAACATCTTTCAATTATGATCTTACTCATTTCAAT
* * * *
85558616 CATGATTCCATAGCATCTTTCAATTGTGGTCTTACTCATTT
1 CATGATGCCATAACATCTTTCAATTATGATCTTACTCATTT
85558657 TAAGTGTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (45 bp):
CATGATGCCATAACATCTTTCAATTATGATCTTACTCATTTCAAT
Found at i:85561601 original size:44 final size:43
Alignment explanation
Indices: 85561533--85561680 Score: 155
Period size: 43 Copynumber: 3.4 Consensus size: 43
85561523 TGTGTTGTCG
*
85561533 TGTAAGACCACGTCT-ACGACGTTGGCATC-AACTTATGATTTACA
1 TGTAAGACCACGTCTGA-GATGTTGGCATCGAA-TT-TGATTTACA
*
85561577 TGTAAGACCACGTCTGAGATGTTGGCATCGTATTTGATTT-CGA
1 TGTAAGACCACGTCTGAGATGTTGGCATCGAATTTGATTTAC-A
* *
85561620 -GTAAGACCATGTCTGGGATAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGACCACGTCTGAGAT-GTTGGCATCGA-ATTTGATTTACA
*
85561662 TATAAGACCACGTCTGAGA
1 TGTAAGACCACGTCTGAGA
85561681 CTTTGGAATT
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
42 29 0.33
43 30 0.34
44 28 0.31
45 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGAGATGTTGGCATCGAATTTGATTTACA
Found at i:85570242 original size:30 final size:30
Alignment explanation
Indices: 85570208--85570265 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
85570198 TCCTTAACTC
85570208 AAACTTTTGCAAAATTACAATTTTGCCCGT
1 AAACTTTTGCAAAATTACAATTTTGCCCGT
* * *
85570238 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTTGCAAAATTACAATTTTGCCC
85570266 CTAGGCTCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCGT
Found at i:85575448 original size:43 final size:42
Alignment explanation
Indices: 85575337--85575454 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
85575327 TGTGTTGTTT
** *
85575337 TGTAAGACCACATCTGGGACGTTGGCATCGTATTTGATTTCA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACA
* *
85575379 TGTAAGACCCTGTCTAGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCG-TATTTGATTACA
* *
85575422 TGTAAGACCATGTCCGGGACGTTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACGTTGGCATCGTAT
85575455 GAGCTTTCTG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 28 0.44
43 36 0.56
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTACA
Found at i:85578968 original size:27 final size:27
Alignment explanation
Indices: 85578949--85579135 Score: 223
Period size: 27 Copynumber: 6.9 Consensus size: 27
85578939 CCTTGCTTTG
85578949 TAGAATTACCATTTTACCCTCGATTTA
1 TAGAATTACCATTTTACCCTCGATTTA
* *
85578976 TAGAATTACCATTTCACCCTCAATTTA
1 TAGAATTACCATTTTACCCTCGATTTA
* * *
85579003 AAAAATTACTATTTTACCCTCGATTTA
1 TAGAATTACCATTTTACCCTCGATTTA
*
85579030 TAAAATTACCATTTTACCCTCGATTTA
1 TAGAATTACCATTTTACCCTCGATTTA
* * *
85579057 CAGAATTACCGTTTTACCCTCTATTTA
1 TAGAATTACCATTTTACCCTCGATTTA
* * *
85579084 CAAAATTAGCATTTTACCCTC-AGTTTA
1 TAGAATTACCATTTTACCCTCGA-TTTA
* * *
85579111 CAAAATTATCATTTTACCCTCGATT
1 TAGAATTACCATTTTACCCTCGATT
85579136 GTTAAATTAC
Statistics
Matches: 141, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 139 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (27 bp):
TAGAATTACCATTTTACCCTCGATTTA
Found at i:85579017 original size:54 final size:54
Alignment explanation
Indices: 85578952--85579135 Score: 260
Period size: 54 Copynumber: 3.4 Consensus size: 54
85578942 TGCTTTGTAG
* * *
85578952 AATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAATTTAAAA
1 AATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTACAA
* * *
85579006 AATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTACAA
* * * * *
85579060 AATTACCGTTTTACCCTCTATTTACAAAATTAGCATTTTACCCTCAGTTTACAA
1 AATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTACAA
*
85579114 AATTATCATTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
85579136 GTTAAATTAC
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 113 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTACAA
Found at i:85579062 original size:81 final size:81
Alignment explanation
Indices: 85578952--85579135 Score: 273
Period size: 81 Copynumber: 2.3 Consensus size: 81
85578942 TGCTTTGTAG
*
85578952 AATTACCATTTTACCCTCGATTTATAGAATTACCATTTCACCCTCAATTTAAAAAATTA-CTATT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCAATTTAAAAAATTAGC-ATT
*
85579016 TTACCCTC-GATTTATAA
65 TTACCCTCAG-TTTACAA
* * * *
85579033 AATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCTATTTACAAAATTAGCATTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCAATTTAAAAAATTAGCATTT
85579098 TACCCTCAGTTTACAA
66 TACCCTCAGTTTACAA
*
85579114 AATTATCATTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
85579136 GTTAAATTAC
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
81 92 0.98
82 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTCACCCTCAATTTAAAAAATTAGCATTT
TACCCTCAGTTTACAA
Found at i:85579197 original size:27 final size:27
Alignment explanation
Indices: 85579167--85579344 Score: 227
Period size: 27 Copynumber: 6.6 Consensus size: 27
85579157 TGTAGGATAG
85579167 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
85579194 AATTACGAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
85579221 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
85579248 AATTACCTAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
85579275 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
85579302 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
85579329 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
85579345 TTGACTTTCT
Statistics
Matches: 132, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.04
27 123 0.93
28 4 0.03
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:85579367 original size:29 final size:27
Alignment explanation
Indices: 85579310--85579403 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
85579300 AAAATTACCA
* * * *
85579310 AAATACCCCTGATTTACAAAATTACAG
1 AAATACCCTTGCTTTATAAAATTATAG
*
85579337 AAATACCCTTGACTTTCTAAAAATTATAG
1 AAATACCCTTG-CTTTAT-AAAATTATAG
* * *
85579366 AAATACCATTGGTTTATAAAATTATTG
1 AAATACCCTTGCTTTATAAAATTATAG
85579393 AAATACCCTTG
1 AAATACCCTTG
85579404 GTTTGTAGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 29 0.53
28 7 0.13
29 19 0.35
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATACCCTTGCTTTATAAAATTATAG
Found at i:85579387 original size:56 final size:55
Alignment explanation
Indices: 85579191--85579403 Score: 182
Period size: 54 Copynumber: 3.9 Consensus size: 55
85579181 CCCTAGTTTG
* * * * * * *
85579191 TAAAATTACGAAAATACCCCTAGTTTGTAAAATTACCA-AAATACCCCT-AGTTTG
1 TAAAATTACCAAAATACCACTGGTTTATAAAATTA-CAGAAATACCCTTGAATTTC
* * * * * *
85579245 TAAAATTACCTAAATACCACTGGTTTGTGAAATTACCGAAATACCC-TCAATTTG
1 TAAAATTACCAAAATACCACTGGTTTATAAAATTACAGAAATACCCTTGAATTTC
* * * *
85579299 TAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTTTC
1 TAAAATTACCAAAATACCACTGGTTTATAAAATTACAGAAATACCCTTGAATTTC
* * **
85579354 TAAAAATTA-TAGAAATACCATTGGTTTATAAAATTATTGAAATACCCTTG
1 T-AAAATTACCA-AAATACCACTGGTTTATAAAATTACAGAAATACCCTTG
85579404 GTTTGTAGAT
Statistics
Matches: 130, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.02
54 82 0.63
55 7 0.05
56 39 0.30
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (55 bp):
TAAAATTACCAAAATACCACTGGTTTATAAAATTACAGAAATACCCTTGAATTTC
Found at i:85580367 original size:24 final size:25
Alignment explanation
Indices: 85580335--85580402 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 25
85580325 GGAAGTGCTA
*
85580335 AAAGGGCTCTGCCCCAGTTTA-CCG
1 AAAGGGCTCTGCCCCAGTTTATCAG
85580359 AAAGGGCTCTGCCCCAGTTTATCAG
1 AAAGGGCTCTGCCCCAGTTTATCAG
*
85580384 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTCTGCCCCAGTT
85580403 ATTAAAAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 21 0.51
25 20 0.49
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (25 bp):
AAAGGGCTCTGCCCCAGTTTATCAG
Found at i:85580609 original size:42 final size:42
Alignment explanation
Indices: 85580550--85580641 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
85580540 TAGTCTCCCC
*
85580550 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
85580592 AAATGGGCTTGTATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
85580634 AAATGGGC
1 AAATGGGC
85580642 CTAAGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:85580708 original size:31 final size:31
Alignment explanation
Indices: 85580665--85580810 Score: 258
Period size: 31 Copynumber: 4.7 Consensus size: 31
85580655 CGTTTACAGT
*
85580665 AAAGGCTTCGGCCCAGTGATATGATTTTTGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
85580696 AAAGACTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
85580727 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
85580758 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
85580789 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
85580811 TCAAGACTAA
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 5 0.05
31 106 0.95
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:85583913 original size:15 final size:17
Alignment explanation
Indices: 85583883--85583914 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
85583873 TTGATACTTG
85583883 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
85583900 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
85583915 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:85584015 original size:12 final size:14
Alignment explanation
Indices: 85583998--85584031 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
85583988 CTGTTTAAAC
85583998 ATGCCATTG-A-TT
1 ATGCCATTGAACTT
85584010 ATGCCATTGAACTT
1 ATGCCATTGAACTT
85584024 ATGCCATT
1 ATGCCATT
85584032 TATTTTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.45
13 1 0.05
14 10 0.50
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (14 bp):
ATGCCATTGAACTT
Found at i:85588282 original size:47 final size:47
Alignment explanation
Indices: 85588209--85588453 Score: 364
Period size: 47 Copynumber: 5.2 Consensus size: 47
85588199 AGATATGTAA
*
85588209 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTCTAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * *
85588256 ATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
85588303 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * * * * *
85588350 ATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * * *
85588397 ATGTGATAAGGCCGAATGGCCAATGTGATGGATATGAAAGTGTACAA
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
85588444 ATGTGATAAG
1 ATGTGATAAG
85588454 TCCCGAAGGG
Statistics
Matches: 177, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 177 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
Found at i:85590406 original size:27 final size:26
Alignment explanation
Indices: 85590348--85590460 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
85590338 AGGAAGCGTC
* *
85590348 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
85590376 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
85590403 CTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
85590431 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
85590457 CTGG
1 CTGG
85590461 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.49
28 32 0.42
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:85590433 original size:55 final size:54
Alignment explanation
Indices: 85590348--85590460 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
85590338 AGGAAGCGTC
*
85590348 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
85590403 CTGGTGGCTCTGCCAC-GATTATCTATATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCT-GATCTGGTGACTCTGCCACATTATCTGTT
85590457 CTGG
1 CTGG
85590461 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 19 0.37
55 33 0.63
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:85594952 original size:48 final size:48
Alignment explanation
Indices: 85594797--85595226 Score: 345
Period size: 48 Copynumber: 9.0 Consensus size: 48
85594787 AGGGTAAAAT
* * *
85594797 GCCGATGCCATG-TCCGAGACATGGTCTTACACTAGCTCTCATACATCG-G
1 GCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACAT--ATCGAG
* * * * ** * ** * * *
85594846 TGCCAATGCCAGGTCCCAGACATGGTCTTACACTAACACATTTAACAAT
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
* *
85594895 GCC-AGTGCCATGTTCCAAATATGGTCTTACACTGGCTCACATATTGAG
1 GCCGA-TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
* * * * *
85594943 GCCAATGCCATGTTCCAAACATGGTCGTACACTGGCTCACATAACAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
*** ** * *
85594991 AATGATGTTATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
* * * * *
85595039 GCCGATGTCGTGTCCCAAACATGGTCTTACACTGGCTCGCATATACCAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT-CGAG
* * *
85595088 TGCCGATGCCATGTCCCAGACATGGTCTTTCACTGG--CACATATCGAG
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
* * * *
85595135 ACCGATGCCATGTCCCAGACATGGTCTTTCACTGG--CACATATCGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
* *
85595181 GCCGATGCCATG-TCGCAAACATGGTCTTACATTGGCTCTCATATCG
1 GCCGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATATCG
85595227 CCATGGTTTA
Statistics
Matches: 308, Mismatches: 63, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
45 1 0.00
46 73 0.24
47 4 0.01
48 163 0.53
49 3 0.01
50 62 0.20
51 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
Found at i:85595844 original size:21 final size:21
Alignment explanation
Indices: 85595815--85595863 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
85595805 CATCATTACC
*
85595815 AAGCCTAGCCAAAACTGATTT
1 AAGCTTAGCCAAAACTGATTT
85595836 AAGCTTAGCCAAAACTGATTT
1 AAGCTTAGCCAAAACTGATTT
85595857 AAGCTTA
1 AAGCTTA
85595864 TAGCAACTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (21 bp):
AAGCTTAGCCAAAACTGATTT
Found at i:85597990 original size:43 final size:43
Alignment explanation
Indices: 85597931--85598025 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
85597921 TGATTTTGTA
* *
85597931 TAAGACCATGTCTGGGACATTA-GCATCGATATGA-GATTACATG
1 TAAGACCATGTCTGGGACA-GAGGCATCGATAT-ATGATAACATG
* * *
85597974 TAAGACCCTGTTTGGGATAGAGGCATCGATATATGATAACATG
1 TAAGACCATGTCTGGGACAGAGGCATCGATATATGATAACATG
85598017 TAAGACCAT
1 TAAGACCAT
85598026 ATCTAGGATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
42 2 0.05
43 42 0.95
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGAGGCATCGATATATGATAACATG
Found at i:85598035 original size:43 final size:43
Alignment explanation
Indices: 85597953--85598035 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
85597943 TGGGACATTA
* * * * *
85597953 GCATCGATATGAGATTACATGTAAGACCCTGTTTGGGATAGAG
1 GCATCGATATGAGATAACATGTAAGACCATATCTAGGATAGAG
85597996 GCATCGATAT-ATGATAACATGTAAGACCATATCTAGGATA
1 GCATCGATATGA-GATAACATGTAAGACCATATCTAGGATA
85598036 TGGCATTGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (43 bp):
GCATCGATATGAGATAACATGTAAGACCATATCTAGGATAGAG
Found at i:85605209 original size:15 final size:17
Alignment explanation
Indices: 85605179--85605210 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
85605169 TTGATACTTG
85605179 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
85605196 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
85605211 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:85611563 original size:43 final size:43
Alignment explanation
Indices: 85611505--85611588 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
85611495 TGATATATGT
* * *
85611505 GGCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGAG
1 GGCATCCAAGATCGTTGAGTGGTCCGAGTTCATAATGGATGAG
*
85611548 GGCATCCAAGATCGTTGAGTGTTCCGAGTTCATAATGGATG
1 GGCATCCAAGATCGTTGAGTGGTCCGAGTTCATAATGGATG
85611589 TGATACATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
GGCATCCAAGATCGTTGAGTGGTCCGAGTTCATAATGGATGAG
Found at i:85619512 original size:29 final size:30
Alignment explanation
Indices: 85619455--85619512 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
85619445 CTTTTGAAAA
* * * *
85619455 TATTTATAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
85619485 TATTTACAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
85619513 AAAATACTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:85629399 original size:53 final size:53
Alignment explanation
Indices: 85629334--85629534 Score: 206
Period size: 53 Copynumber: 3.7 Consensus size: 53
85629324 TTTTTTAAAA
* * *
85629334 TTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAAC
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAC
* * * * * * **
85629387 TCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTTCCTTATAGTAGT
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AAC
* * *
85629442 TTATCAATGCCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTGCA-GAAC
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTT--ATGAAC
** *
85629496 TTACCAATGCCATGCCTTGGTATGGTCTTACTTGGTATC
1 TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
85629535 TTTAAACCCT
Statistics
Matches: 118, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
53 42 0.36
54 35 0.30
55 40 0.34
57 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (53 bp):
TTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAC
Found at i:85639535 original size:27 final size:26
Alignment explanation
Indices: 85639486--85639559 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
85639476 AGCATGGCTG
* * *
85639486 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
85639512 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
85639539 CTAGAATCAGATAATGTGGCA
1 CCAGAA-CAGATATTGTGGCA
85639560 AACCCACCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.15
27 33 0.85
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:85639772 original size:22 final size:22
Alignment explanation
Indices: 85639724--85639782 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
85639714 GTAAATACGT
*
85639724 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
85639746 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
85639768 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
85639783 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:85639949 original size:27 final size:26
Alignment explanation
Indices: 85639870--85639952 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
85639860 TCAATCGGTC
* * *
85639870 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
85639896 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
85639923 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
85639950 AAC
1 AAC
85639953 GCTTCCTCCA
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:85640170 original size:27 final size:28
Alignment explanation
Indices: 85640108--85640171 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
85640098 CAGTCACTTG
*
85640108 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
85640136 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
85640162 CCCACAAGGG
1 CCCACAAGGG
85640172 TATCTCAGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:85640182 original size:27 final size:27
Alignment explanation
Indices: 85640152--85640346 Score: 212
Period size: 27 Copynumber: 7.2 Consensus size: 27
85640142 GGGCAAAATG
* * *
85640152 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * **
85640179 GTAATTCTACCCTATAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
85640206 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
** **
85640232 GATAATTCTACCCTACGGGGGTATTTTG
1 G-TAATTCTACCCTACAAGGGTATTTCA
* *
85640260 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
85640287 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
85640314 GAAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
85640341 GTAATT
1 GTAATT
85640347 TCACAATCGA
Statistics
Matches: 137, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 1 0.01
27 135 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:85640208 original size:54 final size:54
Alignment explanation
Indices: 85640150--85640346 Score: 288
Period size: 54 Copynumber: 3.6 Consensus size: 54
85640140 AAGGGCAAAA
* * *
85640150 TGGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
* **
85640204 TGGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACGGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTATAGGGGTATTT
* *
85640258 TGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
* *
85640312 TAGAAATTCTACCCTACAAGGGTATTTCAGTAATT
1 TGGTAATTCTACCCTACAAGGGTATTTCAGTAATT
85640347 TCACAATCGA
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 124 0.98
55 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
Found at i:85640254 original size:81 final size:81
Alignment explanation
Indices: 85640154--85640346 Score: 235
Period size: 81 Copynumber: 2.4 Consensus size: 81
85640144 GCAAAATGGT
* * * * ** *
85640154 AATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTTGGTATTTCTACCCT
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCT
*
85640219 ACAAGGGTA-TTTCGA
66 ACAAGGGTATTTTAGA
** ** *
85640234 TAATTCTACCCTACGGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 -AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCC
* *
85640299 TATAGGGGTATTTTAGA
65 TACAAGGGTATTTTAGA
85640316 AATTCTACCCTACAAGGGTATTTCAGTAATT
1 AATTCTACCCTACAAGGGTATTTCAGTAATT
85640347 TCACAATCGA
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 87 0.95
82 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTTAGA
Found at i:85640387 original size:27 final size:27
Alignment explanation
Indices: 85640351--85640705 Score: 437
Period size: 27 Copynumber: 13.1 Consensus size: 27
85640341 GTAATTTCAC
85640351 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
85640378 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
85640405 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
85640432 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
85640459 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
** *
85640486 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
85640513 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
85640540 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
85640567 AATTGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
**
85640594 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
85640621 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
*
85640648 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
85640675 AATCGATGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
85640702 AATC
1 AATC
85640706 AGGAGTACTT
Statistics
Matches: 280, Mismatches: 42, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
26 3 0.01
27 275 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:85640723 original size:108 final size:108
Alignment explanation
Indices: 85640341--85640705 Score: 547
Period size: 108 Copynumber: 3.4 Consensus size: 108
85640331 GGGTATTTCA
* * *
85640341 GTAATTTCAC-AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA-CGATAATTTTGT
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAG-TAATTCTGT
* *
85640404 AAACTGAGGGT-AAACCAGTAATTCTATAAATCAAGGGTAAAACG
65 AAACTGAGGGTAAAACGA-TAATTCTGTAAATCAAGGGTAAAACG
*
85640448 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTA
*
85640513 AACTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
66 AACTGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACG
* * *
85640556 GTAATTTTACAAATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTA
**
85640621 AACTGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAACG
66 AACTGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACG
* * * *
85640664 GTAATTCTATAAATCGATGGTAAAACGGTAATTCTGTAAATC
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATC
85640706 AGGAGTACTT
Statistics
Matches: 235, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
107 9 0.04
108 221 0.94
109 5 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (108 bp):
GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTA
AACTGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACG
Found at i:85644620 original size:15 final size:15
Alignment explanation
Indices: 85644597--85644652 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
85644587 AAAACACTAT
*
85644597 TGTTCATAAAATATC
1 TGTTAATAAAATATC
85644612 TGTTAATAAATACTAT-
1 TGTTAATAAA-A-TATC
*
85644628 TGTTCATAAAATATC
1 TGTTAATAAAATATC
85644643 TGTTAATAAA
1 TGTTAATAAA
85644653 CACTGGAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 3 0.09
15 19 0.54
16 10 0.29
17 3 0.09
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (15 bp):
TGTTAATAAAATATC
Found at i:85644627 original size:31 final size:31
Alignment explanation
Indices: 85644592--85644652 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
85644582 ACTCTAAAAC
85644592 ACTATTGTTCATAAAATATCTGTTAATAAAT
1 ACTATTGTTCATAAAATATCTGTTAATAAAT
85644623 ACTATTGTTCATAAAATATCTGTTAATAAA
1 ACTATTGTTCATAAAATATCTGTTAATAAA
85644653 CACTGGAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ACTATTGTTCATAAAATATCTGTTAATAAAT
Found at i:85657755 original size:47 final size:47
Alignment explanation
Indices: 85657703--85658200 Score: 768
Period size: 47 Copynumber: 10.6 Consensus size: 47
85657693 GATAATTGTG
* *
85657703 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
85657750 ATGTGAAAGTGTATATATGTGATAAGGCC-AATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
85657796 ATGTGAAAGTGTATATATGTGATAAGGCC-AATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
85657842 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
85657889 ATGTGAAAGTCTATATATGTGATAAGGCCGAATGGCC-AGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA-TGTGATGA
85657936 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
85657985 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
85658032 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
85658079 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
85658128 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
85658175 ATGTGAAAGTGTATAAATATGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
85658201 TCCCGAAGGG
Statistics
Matches: 417, Mismatches: 27, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
46 93 0.22
47 234 0.56
49 89 0.21
50 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:85657990 original size:96 final size:94
Alignment explanation
Indices: 85657703--85658200 Score: 768
Period size: 96 Copynumber: 5.3 Consensus size: 94
85657693 GATAATTGTG
* *
85657703 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
85657768 GTGATAAGGCC-AATGGCCGATGTGATGA
66 GTGATAAGGCCGAATGGCCGATGTGATGA
85657796 ATGTGAAAGTGTATATATGTGATAAGGCC-AATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
85657860 GTGATAAGGCCTAATAGCCGATGTGATGA
66 GTGATAAGGCCGAATGGCCGATGTGATGA
* *
85657889 ATGTGAAAGTCTATATATGTGATAAGGCCGAATGGCC-AGTGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA-TGTGATGAATGTGAAAGTG--TATA
*
85657953 TATGTGATAAGGCCTAATGGCCGATGTGATGA
63 TATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
85657985 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
85658050 GTGATAAGGCCGAATGGCCAATGTGATGA
66 GTGATAAGGCCGAATGGCCGATGTGATGA
85658079 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
85658144 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
64 ATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
85658175 ATGTGAAAGTGTATAAATATGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
85658201 TCCCGAAGGG
Statistics
Matches: 377, Mismatches: 20, Indels: 15
0.92 0.05 0.04
Matches are distributed among these distances:
92 46 0.12
93 72 0.19
94 84 0.22
96 174 0.46
97 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCGATGTGATGA
Found at i:85658013 original size:143 final size:143
Alignment explanation
Indices: 85657703--85658200 Score: 808
Period size: 143 Copynumber: 3.5 Consensus size: 143
85657693 GATAATTGTG
* * *
85657703 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
85657768 GTGATAAGGCC-AATGGCC-GATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC-AAT
66 GTGATAAGGCCGAATGGCCAG-TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
85657828 GGCCGATGTGATGA
130 GGCCGATGTGATGA
*
85657842 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTCTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
85657907 GTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
85657972 GCCGATGTGATGA
131 GCCGATGTGATGA
*
85657985 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGTCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
*
85658050 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
85658115 GCCGATGTGATGA
131 GCCGATGTGATGA
* * * * * * * * *
85658128 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
*
85658193 ATGATAAG
66 GTGATAAG
85658201 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
139 72 0.21
140 26 0.08
141 1 0.00
142 18 0.05
143 219 0.65
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAGTGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:85661359 original size:47 final size:48
Alignment explanation
Indices: 85661271--85661487 Score: 184
Period size: 47 Copynumber: 4.6 Consensus size: 48
85661261 GTAAGGTGCC
* * * * *
85661271 GATGCCATGTCCTAGACACGGTCTTACATTGGCTCAT-ATCTCAAGTA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCATCTCAAGCA
85661318 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCATAG-A
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCATCTCA-AGCA
* * * *
85661365 CGATG-CATATCCCAGACAT-GTCTTACACTGGCTTA-CGTCTCGAAGCCA
1 -GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCATCTC-AAG-CA
* * * * *
85661413 -ATG-CATGTCCCTGACAT-GTCTTACACT-AGTCCTCTTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCATCTCAA-GCA
*
85661458 GATGCCATGTCCTAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
85661488 AGCTCTCACA
Statistics
Matches: 141, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
45 4 0.03
46 56 0.40
47 64 0.45
48 17 0.12
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCATCTCAAGCA
Found at i:85661417 original size:46 final size:46
Alignment explanation
Indices: 85661327--85661439 Score: 131
Period size: 46 Copynumber: 2.4 Consensus size: 46
85661317 AGATGCCATG
*
85661327 TCCCAGACATGGTCTTACACTGACTATCATCTCATAGACGATGCATA
1 TCCCAGACAT-GTCTTACACTGACTATCATCTCATAGACAATGCATA
* * * *
85661374 TCCCAGACATGTCTTACACTGGCT-TACGTCTCGA-AGCCAATGCATG
1 TCCCAGACATGTCTTACACTGACTAT-CATCTC-ATAGACAATGCATA
*
85661420 TCCCTGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
85661440 AGTCCTCTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.02
46 46 0.79
47 11 0.19
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGACTATCATCTCATAGACAATGCATA
Found at i:85663238 original size:108 final size:110
Alignment explanation
Indices: 85663094--85663294 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
85663084 ATCCTTTTGA
* * *
85663094 AACTTACCATTGCTATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGA-A-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTATTACATGGTATCCTTGCCTTA-GACACCTCACCAA
85663157 -TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTACCTTATAGT
65 CTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTACCTTATAGT
* * *
85663202 AACTTATCAATGCCATGTCTTGACATGGTATTACATGGTATCCTTGCCTTAGACACCTTACCAAC
1 AACTTACCAATGCCATGTCTCGACATGGTATTACATGGTATCCTTGCCTTAGACACCTCACCAAC
* *
85663267 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTAGCATGGTCTTACATGG
85663295 TATCTTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 2 0.02
108 47 0.57
109 7 0.09
110 26 0.32
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTATTACATGGTATCCTTGCCTTAGACACCTCACCAAC
TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTACCTTATAGT
Found at i:85663252 original size:55 final size:54
Alignment explanation
Indices: 85663047--85663298 Score: 232
Period size: 55 Copynumber: 4.7 Consensus size: 54
85663037 ACACGGGTAC
* * * * *
85663047 CTTACCATTGCCATGACTTGCCATGGTCTTACGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * *
85663096 CTTACCATTGCTATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * *
85663149 CTCACCAATGCCATGCCTT-AGCATGGTCTTACATGGGA-CCTTTACCTTATAGTAA
1 CTTACCAATGCCATGCCTTGA-CATGGTCTTACATGGTATCC-TTGCCTTATAG-AA
* * * * * *
85663204 CTTATCAATGCCATGTCTTGACATGGTATTACATGGTATCCTTGCCTTAGACAC
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* *
85663258 CTTACCAACTTCCATGCCTTGGCATGGTCTTACATGGTATC
1 CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATC
85663299 TTTAAACCCT
Statistics
Matches: 164, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
49 38 0.23
52 5 0.03
53 40 0.24
54 9 0.05
55 69 0.42
56 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:85672380 original size:22 final size:22
Alignment explanation
Indices: 85672349--85672395 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
85672339 AAAGAAATCC
85672349 CAAGTAACTGTCTCTTTCGGTA
1 CAAGTAACTGTCTCTTTCGGTA
*
85672371 CAAGTGACTGTCTCTTTCGGTA
1 CAAGTAACTGTCTCTTTCGGTA
85672393 CAA
1 CAA
85672396 CTGATACAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (22 bp):
CAAGTAACTGTCTCTTTCGGTA
Found at i:85674608 original size:55 final size:54
Alignment explanation
Indices: 85674417--85674672 Score: 240
Period size: 55 Copynumber: 4.8 Consensus size: 54
85674407 ACACGGGTAC
* * * * *
85674417 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-T-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AA
* * **
85674467 CTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * *
85674520 CTCACCAATGCCATGCCTTGGCATAGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AA
* * * * *
85674575 CTTATCAATGCCATGTCTTGACATGGTATTACATGATATCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
*
85674628 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
85674673 AAATCCTAAT
Statistics
Matches: 168, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
50 37 0.22
52 2 0.01
53 45 0.27
54 10 0.06
55 72 0.43
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:85674615 original size:108 final size:110
Alignment explanation
Indices: 85674465--85674665 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
85674455 TCCTTTTTGA
* * *
85674465 AACTTACCATTGCCATGTCTCAACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCAACATGGTATTACATGATATCCTTGCCTTA-GAAACCTCACCAA
85674528 -TGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
85674573 AACTTATCAATGCCATGTCTTGACATGGTATTACATGATATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCAACATGGTATTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
85674638 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATAGTCTTACATGG
85674666 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCAACATGGTATTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:85676167 original size:29 final size:28
Alignment explanation
Indices: 85676124--85676213 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
85676114 GTGAGCATGA
85676124 ATATAAAGTGATTTGGGCCTAACGGGCC
1 ATATAAAGTGATTTGGGCCTAACGGGCC
**
85676152 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATATAAA-GTGATTTGGGCCTAACGGGCC
*
85676181 ATATGAATA-TGATTTGGGCCTGACGGGCC
1 ATAT-AA-AGTGATTTGGGCCTAACGGGCC
85676210 ATAT
1 ATAT
85676214 GAATGAGATG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 7 0.13
29 44 0.81
30 2 0.04
31 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATAAAGTGATTTGGGCCTAACGGGCC
Found at i:85679739 original size:43 final size:43
Alignment explanation
Indices: 85679572--85679743 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 43
85679562 ATATTGTACA
* * * *
85679572 ATGCCAACGTCCCAGACGTAGTCTTACATGAAATCACATGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCACATATCG
*
85679615 ATGCCACTGTCCCAGACAG-GGTCTTACACG-AATCACA-ATTACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCACATA-T-CG
* * * *
85679658 ATGCCAATGTCTCAAACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCACATATCG
* *
85679701 ATGCCAATGTCCTAGATGTGGTCTTACACGAGAA-CACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA-AATCACATATCG
85679744 GAAATCCTAT
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
42 8 0.08
43 86 0.81
44 11 0.10
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCACATATCG
Found at i:85682457 original size:30 final size:30
Alignment explanation
Indices: 85682422--85682503 Score: 146
Period size: 30 Copynumber: 2.7 Consensus size: 30
85682412 CTTCTTCGGT
*
85682422 AAAATGACCATTTTGCCCCTAGACCTTGAC
1 AAAATGACCATTTTACCCCTAGACCTTGAC
*
85682452 AAAATGACCATTTTACCCCTAAACCTTGAC
1 AAAATGACCATTTTACCCCTAGACCTTGAC
85682482 AAAATGACCATTTTACCCCTAG
1 AAAATGACCATTTTACCCCTAG
85682504 GCTCAAAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.27
Consensus pattern (30 bp):
AAAATGACCATTTTACCCCTAGACCTTGAC
Found at i:85685044 original size:40 final size:40
Alignment explanation
Indices: 85685014--85685199 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
85685004 GCTACTCGTT
* *
85685014 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
85685054 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
85685094 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
85685134 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCA
*
85685175 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
85685200 CATCATTCAA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
39 3 0.02
40 115 0.87
41 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:85692396 original size:30 final size:30
Alignment explanation
Indices: 85692343--85692435 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 30
85692333 TAAAGGTGAT
* * *
85692343 TTGGGCCTAATGGGTCATGTGAATATGAAA
1 TTGGGCCTGATGGGCCATATGAATATGAAA
* *
85692373 TTGGGCCTGATAGGCCATATGAATGTG-AA
1 TTGGGCCTGATGGGCCATATGAATATGAAA
* * *
85692402 TCGGGTC-GATGGGCCATAT-AA-ATGAGA
1 TTGGGCCTGATGGGCCATATGAATATGAAA
85692429 TTGGGCC
1 TTGGGCC
85692436 AAGTGGGCCA
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
26 2 0.04
27 8 0.16
28 11 0.22
29 7 0.14
30 22 0.44
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (30 bp):
TTGGGCCTGATGGGCCATATGAATATGAAA
Found at i:85694063 original size:40 final size:40
Alignment explanation
Indices: 85694001--85694256 Score: 349
Period size: 40 Copynumber: 6.4 Consensus size: 40
85693991 AAACCAAGTA
* * *
85694001 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
85694040 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
85694080 CCTTCGGGACTTAGCCCGGATATAGTACCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
85694120 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
85694160 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
85694200 CCTTCGAGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
85694240 CCTTCGGGTCTTAGCCC
1 CCTTCGGGACTTAGCCC
85694257 CGTTATCATC
Statistics
Matches: 199, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.07
40 185 0.93
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:85776755 original size:39 final size:39
Alignment explanation
Indices: 85776664--85776885 Score: 295
Period size: 39 Copynumber: 5.6 Consensus size: 39
85776654 AAGTGAATAT
* * * **
85776664 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAG-TTTTAA
85776704 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAA
85776743 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAA
85776782 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAA
* * *
85776822 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAA
* * *
85776861 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
85776886 TGAACGAGGA
Statistics
Matches: 169, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 113 0.67
40 56 0.33
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAA
Found at i:85776773 original size:79 final size:78
Alignment explanation
Indices: 85776625--85776885 Score: 305
Period size: 79 Copynumber: 3.3 Consensus size: 78
85776615 TTGAATGCTG
* * * * * *
85776625 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGG-C
*
85776687 TTTGTGCGAGATACTAAA
62 ATTGTGCGAG-TACTAAA
85776705 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT-
**
85776769 GTGCGAGTTTTAAA
65 GTGCGAGTACTAAA
*
85776783 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTG
*
85776848 TGTGAGTTACTAAA
66 TGCGAG-TACTAAA
* * *
85776862 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
85776886 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 16, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
78 49 0.31
79 81 0.51
80 22 0.14
81 7 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTACTAAA
Found at i:85776837 original size:118 final size:118
Alignment explanation
Indices: 85776626--85776885 Score: 310
Period size: 118 Copynumber: 2.2 Consensus size: 118
85776616 TGAATGCTGT
* * ** * * *
85776626 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGT-TTTAAATCCGGATTAAGATCCGAAGGCATTC
* *
85776690 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAT
64 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAA
* *
85776745 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAATCCGGGTTAAG-TCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAATCCGGATTAAGAT-CCGAAGGCATTCG
* ** * *
85776809 TGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAA
65 TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAA
*
85776863 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
85776886 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
117 9 0.08
118 83 0.69
119 22 0.18
120 6 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (118 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAATCCGGATTAAGATCCGAAGGCATTCGT
GCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAA
Found at i:85776905 original size:79 final size:79
Alignment explanation
Indices: 85776664--85776920 Score: 234
Period size: 79 Copynumber: 3.3 Consensus size: 79
85776654 AAGTGAATAT
* * * * * *
85776664 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAG-TTCTAAAACCGGGCTAAGTCCCGAAGGCAT
** ***
85776728 TCGTGCGA-GTTTTAA
64 TCGAACGAGGAGCTAA
* * *
85776743 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTCTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
85776808 GTGCGAGTTGTTAA
66 GAACGAGGAGCTAA
* * *
85776822 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-CTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
85776886 TGAACGAGGAGCTAT
65 CGAACGAGGAGCTAA
*
85776901 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
85776921 TACGTGATTT
Statistics
Matches: 153, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 59 0.39
79 94 0.61
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTCTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAA
Found at i:85776909 original size:118 final size:117
Alignment explanation
Indices: 85776661--85776920 Score: 290
Period size: 118 Copynumber: 2.2 Consensus size: 117
85776651 GCTAAGTGAA
* *
85776661 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGG-TTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
* * * ** ***
85776725 CATTCGTGCGAGTTTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTT
64 CATTCGTGCGAGTTCTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGAGC
* * ** *
85776779 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGC
1 TATATCC-GGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGC
* * *
85776844 ATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGC
65 ATTCGTGCGAGTT-CTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGA-GAGC
*
85776898 TATATCCGGTTAAATCCCGAAGG
1 TATATCCGGTTAAGTCCCGAAGG
85776921 TACGTGATTT
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
117 9 0.08
118 100 0.85
119 9 0.08
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (117 bp):
TATATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCA
TTCGTGCGAGTTCTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGAGC
Found at i:85780273 original size:12 final size:11
Alignment explanation
Indices: 85780241--85780285 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
85780231 TTTCTCCTAA
85780241 AATCCCTCCTC
1 AATCCCTCCTC
*
85780252 ATATCTCTCCTC
1 A-ATCCCTCCTC
85780264 AACTCCCTCCTAC
1 AA-TCCCTCCT-C
85780277 AATCCCTCC
1 AATCCCTCC
85780286 ATGACCAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 24 0.83
13 3 0.10
ACGTcount: A:0.20, C:0.51, G:0.00, T:0.29
Consensus pattern (11 bp):
AATCCCTCCTC
Found at i:85780285 original size:24 final size:24
Alignment explanation
Indices: 85780234--85780285 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
85780224 CCATGATTTT
*
85780234 CTCCTAAAATCCCTCCTCATATCT
1 CTCCTAAAATCCCTCCTCATATCC
* *
85780258 CTCCTCAACTCCCTCCTACA-ATCC
1 CTCCTAAAATCCCTCCT-CATATCC
85780282 CTCC
1 CTCC
85780286 ATGACCAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.21, C:0.50, G:0.00, T:0.29
Consensus pattern (24 bp):
CTCCTAAAATCCCTCCTCATATCC
Found at i:85782494 original size:27 final size:27
Alignment explanation
Indices: 85782464--85782530 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
85782454 AGGGCTAAAC
* *
85782464 AGTCATTTCATCTCATGAGAGCAAAAT
1 AGTCATTTTATCTCATGAGAGAAAAAT
*
85782491 AGTCATTTTACCTCATGAGAGAAAAAT
1 AGTCATTTTATCTCATGAGAGAAAAAT
85782518 AGTCATTTTATCT
1 AGTCATTTTATCT
85782531 TATAGGGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (27 bp):
AGTCATTTTATCTCATGAGAGAAAAAT
Found at i:85782583 original size:27 final size:26
Alignment explanation
Indices: 85782553--85782652 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 26
85782543 ACAGTTATTT
*
85782553 TACCCTACAGGGGTATTTCGGTCATTC
1 TACCCTA-TGGGGTATTTCGGTCATTC
* *
85782580 TACCCTATGGGGAATTTCGGCCATTC
1 TACCCTATGGGGTATTTCGGTCATTC
* *
85782606 TACCCTATGGGGATATTTCGATCACTC
1 TACCCTATGGGG-TATTTCGGTCATTC
*
85782633 TACCCGATGAGGGTATTTCG
1 TACCCTATG-GGGTATTTCG
85782653 ATCTTTTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 28 0.44
27 32 0.51
28 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (26 bp):
TACCCTATGGGGTATTTCGGTCATTC
Found at i:85788739 original size:27 final size:27
Alignment explanation
Indices: 85788699--85788791 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
85788689 AGTCCTATGG
* *
85788699 GACATTAAACACAAGATATTTTGATGA
1 GACATTAAACACAAGATAGTTTGACGA
* * *
85788726 GATATTGAATACAAGATAGTTTGACGA
1 GACATTAAACACAAGATAGTTTGACGA
*
85788753 GACATTAAACATAAGATAGTTTGACGA
1 GACATTAAACACAAGATAGTTTGACGA
*
85788780 GACATGAAACAC
1 GACATTAAACAC
85788792 GTGATAATTC
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (27 bp):
GACATTAAACACAAGATAGTTTGACGA
Found at i:85800255 original size:14 final size:13
Alignment explanation
Indices: 85800236--85800268 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
85800226 ATAACGTAAT
85800236 TTACCATAATCTCA
1 TTACCATAAT-TCA
85800250 TTACCATAATTCA
1 TTACCATAATTCA
85800263 TT-CCAT
1 TTACCAT
85800269 CACAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 5 0.26
14 10 0.53
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (13 bp):
TTACCATAATTCA
Found at i:85802898 original size:42 final size:42
Alignment explanation
Indices: 85802837--85802928 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
85802827 TACACGGTCA
* * * * *
85802837 AGACACACGCCCATGTGTTGGGTCGTGTGTTTCACATGATTG
1 AGACACATGCCCATCTGTTGGGCCGTGTGTTTCACACGACTG
* *
85802879 AGACACATGCCCATCTGTTGGGCCTTGTGTTTCACACGGCTG
1 AGACACATGCCCATCTGTTGGGCCGTGTGTTTCACACGACTG
85802921 AGACACAT
1 AGACACAT
85802929 ACCCGTGTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (42 bp):
AGACACATGCCCATCTGTTGGGCCGTGTGTTTCACACGACTG
Found at i:85806705 original size:51 final size:51
Alignment explanation
Indices: 85806565--85806846 Score: 196
Period size: 51 Copynumber: 5.5 Consensus size: 51
85806555 CAGATGCCCG
* * * * *
85806565 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTGCACATAGTACCACACATGTGA-CCAAAGCTATCTT-TTACACATA
* *
85806616 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTGCACATAGTACCACACATGTGACCAAAGCTATCTTTTACACATA
* * * ***
85806667 GTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGAT-CACATA
1 GTGGCCTGCACATAGTACCACACATGTGACCAAAGCTATCTTTTACACATA
* * ** * * *** **
85806717 ATAGCCTGCATTTAGTACTACACATGTGACCTAA-CTATCTGGCACATGTA
1 GTGGCCTGCACATAGTACCACACATGTGACCAAAGCTATCTTTTACACATA
* * * * * * *
85806767 GTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCAT-TTTAAACACATA
1 GTGGCCTGCACATAGTACCACACATGTGACC-AAAGCTATCTTT-TACACATA
* *
85806819 GTTGCCTGCACATAGTACTACACATGTG
1 GTGGCCTGCACATAGTACCACACATGTG
85806847 TTCTCACAAT
Statistics
Matches: 188, Mismatches: 37, Indels: 11
0.80 0.16 0.05
Matches are distributed among these distances:
49 6 0.03
50 68 0.36
51 80 0.43
52 34 0.18
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACATGTGACCAAAGCTATCTTTTACACATA
Found at i:85806798 original size:50 final size:49
Alignment explanation
Indices: 85806610--85806846 Score: 172
Period size: 50 Copynumber: 4.7 Consensus size: 49
85806600 CTACCTTCTT
* * * * * * * **
85806610 CACAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTA
1 CACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCTATC--GGA
* * * *
85806661 CACATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGA
1 CACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCTATCGGA
* *
85806710 TCACATAATAGCCTGCATTTAGTACTACACATGTGACCTAA-CTATCTGG-
1 -CACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCTATC-GGA
* * * ***
85806759 CACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAA
1 CACA--TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AAGC-TATCGGA
* *
85806813 CACATAGTTGCCTGCACATAGTACTACACATGTG
1 CACATAGTAGCCTGCACTTAGTACTACACATGTG
85806847 TTCTCACAAT
Statistics
Matches: 153, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
48 4 0.03
49 6 0.04
50 67 0.44
51 40 0.26
52 29 0.19
53 1 0.01
54 6 0.04
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (49 bp):
CACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGCTATCGGA
Found at i:85814076 original size:27 final size:27
Alignment explanation
Indices: 85814038--85814090 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
85814028 CCCAAGCCAT
85814038 ACGGGCGTGTGACCCTATTTTGATGAC
1 ACGGGCGTGTGACCCTATTTTGATGAC
*
85814065 ACGGGCGTGTGACCCTGTTTTGATGA
1 ACGGGCGTGTGACCCTATTTTGATGA
85814091 AAGAATTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.30
Consensus pattern (27 bp):
ACGGGCGTGTGACCCTATTTTGATGAC
Found at i:85831201 original size:18 final size:18
Alignment explanation
Indices: 85831178--85831218 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
85831168 CCTGTTAATA
85831178 TAGGAGTAAATCCCTGAT
1 TAGGAGTAAATCCCTGAT
*
85831196 TAGGAGTAAATCCTTGAT
1 TAGGAGTAAATCCCTGAT
85831214 TAGGA
1 TAGGA
85831219 TTTATCTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (18 bp):
TAGGAGTAAATCCCTGAT
Found at i:85843267 original size:31 final size:30
Alignment explanation
Indices: 85843220--85843280 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
85843210 TATTTTATTA
*
85843220 TTAATTTTCTTATTATTTTA-AAGGCATTTG
1 TTAATTTTATTATTATTTTAGAA-GCATTTG
85843250 TTAATTTTTATTATTATTTTAGAAGCATTTG
1 TTAA-TTTTATTATTATTTTAGAAGCATTTG
85843281 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 4 0.14
31 22 0.79
32 2 0.07
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAGAAGCATTTG
Found at i:85843398 original size:18 final size:18
Alignment explanation
Indices: 85843363--85843402 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
85843353 GAAATATTTA
*
85843363 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
85843381 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
85843401 TT
1 TT
85843403 AAAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:85866449 original size:48 final size:48
Alignment explanation
Indices: 85866369--85866746 Score: 435
Period size: 48 Copynumber: 7.9 Consensus size: 48
85866359 ACAATGCCTC
* *
85866369 ATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
** * * *
85866417 ATGTTGATACCATGTCCTAGACATGGTCTTACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
* * * * **
85866465 ATGCCAATGCCATGTCCCAAACATGTTGTTACACTGGCTCATGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
*
85866513 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAC-TAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
* * * *
85866560 ATGTCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCGCATATACTG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA-AC-A
* * *
85866610 GTGCCGATGCCATGTCCCA-AGCATGGTCTTACACT-GAT-ACATATCA
1 ATGCCGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCACATAACA
* * * *
85866656 AGGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
* * *
85866702 AGGCCGATGCCATGGCCCAGACATGGTCTTACACTGGCTCTCATA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA
85866747 TCGCCATGGT
Statistics
Matches: 285, Mismatches: 37, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
46 73 0.26
47 48 0.17
48 129 0.45
49 5 0.02
50 30 0.11
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
Found at i:85873229 original size:48 final size:48
Alignment explanation
Indices: 85873169--85873348 Score: 252
Period size: 48 Copynumber: 3.8 Consensus size: 48
85873159 ACGACACCTC
* * * *
85873169 ATGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAACG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACA
* * * * *
85873217 ATACCGATGCCATGTACCAGACATGGTCTTACAGTAGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACA
*
85873265 ATGCCGATGCCATGTCCCAAACATGGTTTTACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACA
* *
85873313 ATGCCAATGCCATGTCCCAGACATGGTCTTACACTG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTG
85873349 ACTCTCATAT
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 114 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACA
Found at i:85873278 original size:96 final size:96
Alignment explanation
Indices: 85873169--85873345 Score: 282
Period size: 96 Copynumber: 1.8 Consensus size: 96
85873159 ACGACACCTC
* * * *
85873169 ATGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAACGATACCGATGCCATGTAC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATACCAATGCCATGTAC
85873234 CAGACATGGTCTTACAGTAGCTCACGTAACA
66 CAGACATGGTCTTACAGTAGCTCACGTAACA
* * * *
85873265 ATGCCGATGCCATGTCCCAAACATGGTTTTACACTGGCTCACGTAACAATGCCAATGCCATGTCC
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATACCAATGCCATGTAC
85873330 CAGACATGGTCTTACA
66 CAGACATGGTCTTACA
85873346 CTGACTCTCA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (96 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACAATACCAATGCCATGTAC
CAGACATGGTCTTACAGTAGCTCACGTAACA
Found at i:85883791 original size:15 final size:16
Alignment explanation
Indices: 85883759--85883792 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
85883749 ATTTCATCTC
*
85883759 ATTTGCATTTAGGTTA
1 ATTTGCATCTAGGTTA
85883775 ATTTGCATCTA-GTTA
1 ATTTGCATCTAGGTTA
85883790 ATT
1 ATT
85883793 AATTACTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (16 bp):
ATTTGCATCTAGGTTA
Found at i:85884105 original size:39 final size:38
Alignment explanation
Indices: 85884026--85884122 Score: 92
Period size: 38 Copynumber: 2.6 Consensus size: 38
85884016 TTCCAATTTG
* *
85884026 TTTTTTATTTTATTTTATTTTATTTTTAAATTTATTAAT
1 TTTTTTATTTTATTTTA-TTTATTTGTAAATTGATTAAT
* *
85884065 TTTTTTATTTTCTTTTA-TTATCTTGTAAATTGGTTCAA-
1 TTTTTTATTTTATTTTATTTAT-TTGTAAATTGATT-AAT
* *
85884103 TTTTAT-TTTTATTTTTTTTA
1 TTTTTTATTTTATTTTATTTA
85884123 CTTTAATAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
37 12 0.25
38 18 0.38
39 18 0.38
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (38 bp):
TTTTTTATTTTATTTTATTTATTTGTAAATTGATTAAT
Found at i:85887657 original size:15 final size:16
Alignment explanation
Indices: 85887639--85887672 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
85887629 TTAAAGGTTA
85887639 AAATAGTAAATAG-GT
1 AAATAGTAAATAGTGT
*
85887654 AAATAGTAATTAGTGT
1 AAATAGTAAATAGTGT
85887670 AAA
1 AAA
85887673 AGATGACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (16 bp):
AAATAGTAAATAGTGT
Found at i:85889706 original size:22 final size:22
Alignment explanation
Indices: 85889680--85889725 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
85889670 TTATTCTATG
85889680 AATTG-ATATATGTTTATAAATT
1 AATTGAATATATGTTT-TAAATT
* *
85889702 AATTGAATATTTGTTTTTAATT
1 AATTGAATATATGTTTTAAATT
85889724 AA
1 AA
85889726 GATAAAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (22 bp):
AATTGAATATATGTTTTAAATT
Found at i:85901080 original size:12 final size:11
Alignment explanation
Indices: 85901061--85901091 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
85901051 TATATAAAAC
85901061 TTATTTTATTA
1 TTATTTTATTA
85901072 TTCATTTTATTA
1 TT-ATTTTATTA
85901084 TTATTTTA
1 TTATTTTA
85901092 AAGGAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:85901270 original size:11 final size:11
Alignment explanation
Indices: 85901254--85901287 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
85901244 TATATATATT
85901254 TAAAAATAATA
1 TAAAAATAATA
*
85901265 TAAAAATAACA
1 TAAAAATAATA
85901276 TAAAAATTAATA
1 TAAAAA-TAATA
85901288 CTAGTGGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:85903827 original size:28 final size:27
Alignment explanation
Indices: 85903769--85903833 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 27
85903759 ACTAGTGTGC
* *
85903769 GCCATAAAGGCATTCTTTTCAGAGATC
1 GCCATAAAGGCATTCTTTTCAGACATA
* * *
85903796 GCCATAGAGGCTATTCTTTTCATACTTA
1 GCCATAAAGGC-ATTCTTTTCAGACATA
*
85903824 GCCACAAAGG
1 GCCATAAAGG
85903834 ATTTCATTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 10 0.33
28 20 0.67
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (27 bp):
GCCATAAAGGCATTCTTTTCAGACATA
Found at i:85905108 original size:19 final size:23
Alignment explanation
Indices: 85905056--85905110 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
85905046 AACAAAGCTC
*
85905056 CACACGCCCGTGTGGGTATAGAG
1 CACACGCCCGTGTGGCTATAGAG
*
85905079 CACACGACCGTGT-GCTAT-G-G
1 CACACGCCCGTGTGGCTATAGAG
85905099 -ACACGCCCGTGT
1 CACACGCCCGTGT
85905111 CCCGAACCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 11 0.38
20 1 0.03
21 1 0.03
22 4 0.14
23 12 0.41
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.18
Consensus pattern (23 bp):
CACACGCCCGTGTGGCTATAGAG
Done.