Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 17 of 211
Found at i:4638268 original size:3 final size:3
Alignment explanation
Indices: 4638262--4638299 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4638252 GTCGTCGTCG
4638262 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
4638300 TTCTTCTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:4640262 original size:22 final size:22
Alignment explanation
Indices: 4640232--4640274 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4640222 ACAGCAAAAC
*
4640232 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
4640254 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
4640275 AGCGCCGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:4640502 original size:85 final size:86
Alignment explanation
Indices: 4640370--4640575 Score: 209
Period size: 85 Copynumber: 2.4 Consensus size: 86
4640360 TGAAAAAAAA
* * *** **
4640370 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTCCCACAAACGCCGCTG-AAGACTGAGACCT
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTAAAACAAACGCCGC-GAAAGACCCAGACCT
*
4640434 TTAGCGG-CGCTTTAGGACAAG
65 TTAGCGGTAGCTTTAGGACAAG
* * * *
4640455 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTAAAAGAAGCGCCGCGAAAGACCCCGATCTT
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTAAAACAAACGCCGCGAAAGACCCAGACCTT
** *
4640520 TAGCGGTATTTTTAGGAGAAG
66 TAGCGGTAGCTTTAGGACAAG
* ** * *
4640541 CGCCGCTAAAGATCAGGGTCTTTAGCGGGGTTTTT
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTT
4640576 TCTCAAACGC
Statistics
Matches: 99, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
84 1 0.01
85 58 0.59
86 40 0.40
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (86 bp):
CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTAAAACAAACGCCGCGAAAGACCCAGACCTT
TAGCGGTAGCTTTAGGACAAG
Found at i:4640721 original size:43 final size:43
Alignment explanation
Indices: 4640367--4640765 Score: 215
Period size: 43 Copynumber: 9.3 Consensus size: 43
4640357 TTTTGAAAAA
4640367 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTC-CCAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTT-TCACCAC
* *** * **
4640410 AAACGCCGCTGAAGACTGAGACCTTTAGCGGCGCTTT-AGGAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAC
* * * ** *
4640452 AAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTAAAAG
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAC
* * * *** * ** *
4640495 AAGCGCCGCGAAAGACCCCGATCTTTAGCGGTATTTTTAGGAG
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAC
* * ** * * *** *
4640538 AAGCGCCGCTAAAGATCAGGGTCTTTAGCGG-GGTTTTTTCTC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAC
* * *
4640580 AAACGCCGC-AATAGAACCTGGT-TTATAGCGGCGCTTTCCCCTA-
1 AAACGCCGCTAA-AGACCCTGATCTT-TAGCGGCGCTTTCACC-AC
* * * * *
4640623 AAACGCCAC-AATAGACCCTGATCTATAACGACGC-TTCGACCAA
1 AAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTC-ACCAC
* * * *
4640666 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAC
* * *
4640709 AAACGCCGCTAAAGACCCCT-ATCTGTAGCGGCGC-GTCGACCAA
1 AAACGCCGCTAAAGA-CCCTGATCTTTAGCGGCGCTTTC-ACCAC
*
4640752 AAACGCCACTAAAG
1 AAACGCCGCTAAAG
4640766 GGGCAACACC
Statistics
Matches: 278, Mismatches: 65, Indels: 26
0.75 0.18 0.07
Matches are distributed among these distances:
41 4 0.01
42 64 0.23
43 201 0.72
44 9 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCACCAC
Found at i:4641144 original size:21 final size:21
Alignment explanation
Indices: 4641118--4641209 Score: 121
Period size: 21 Copynumber: 4.4 Consensus size: 21
4641108 TTTGACGCTG
4641118 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
4641139 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
4641160 CTGTGCTTCCCTCACTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
4641181 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
4641202 ATCTGCTT
1 CTCTGCTT
4641210 TAAGCTGCTG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.04, C:0.45, G:0.18, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:4646694 original size:25 final size:25
Alignment explanation
Indices: 4646666--4648024 Score: 135
Period size: 27 Copynumber: 49.3 Consensus size: 25
4646656 TAAATTATGT
*
4646666 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* **
4646691 ATTATGTAAGTTGTGTACCATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
4646716 ATTATGCTATG-TAAG--TTATGTAA
1 ATTATG-TAAGTTATGTATTATGAAA
* * * *
4646739 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
4646764 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
4646789 ATTAAGT-AGTTATGTAATTTACGAATA
1 ATTATGTAAGTTATGT-A-TTATGAA-A
* *
4646816 ATTAAAAAATGTAAGTTATGTAAGT-TGTAA
1 ATT-----ATGTAAGTTATGT-ATTATGAAA
* * *
4646846 GTTATGTAAGTTATGTATAAT-ATTA
1 ATTATGTAAGTTATGTATTATGA-AA
**
4646871 ATTAACTAAGTTATGTAATTTATGTATAA
1 ATTATGTAAGTTATGT-A-TTATG-A-AA
* * *
4646900 CATTAAAGTAAGTTATGTAATTTATGTAT
1 -ATT-ATGTAAGTTATGT-A-TTATGAAA
4646929 ATTAAT-TAAGTTATGTAAGTTATGTATAA
1 ATT-ATGTAAGTTATGT-A-TTATG-A-AA
4646958 TATTAATGTAAGTTATGTAATTTATGTATAA
1 -ATT-ATGTAAGTTATGT-A-TTATG-A-AA
** *
4646989 TATTAATGTACTTTATGTA-TAT--TA
1 -ATT-ATGTAAGTTATGTATTATGAAA
* *
4647013 TTTAAT-TAAGTTATGTAATTTATATATAA
1 ATT-ATGTAAGTTATGT-A-TTAT-GA-AA
*
4647042 TATTAATGTAAGTTATGTATAAT-ATAA
1 -ATT-ATGTAAGTTATGTATTATGA-AA
4647069 ATTAAT-TAAGTTATGTAATTTATGTATAA
1 ATT-ATGTAAGTTATGT-A-TTATG-A-AA
4647098 TATTAATGTAAGTTATGTACTTTATGTATATAA
1 -ATT-ATGTAAGTTATGTA--TTATG---A-AA
*
4647131 ATTAAGTAAGTTATGTAATTTATGTATAA
1 ATTATGTAAGTTATGT-A-TTATG-A-AA
** * *
4647160 TATTAATGTACTTTACGTA-TAT--TA
1 -ATT-ATGTAAGTTATGTATTATGAAA
*
4647184 TTTAAT-TAAGTTATGTAATTTATGTATAA
1 ATT-ATGTAAGTTATGT-A-TTATG-A-AA
*
4647213 TATTAATGTAAGTTATGTATAAT-ATAA
1 -ATT-ATGTAAGTTATGTATTATGA-AA
4647240 ATTAAT-TAAGTTATGTAATTTATGTATAA
1 ATT-ATGTAAGTTATGT-A-TTATG-A-AA
4647269 TATTAATGTAAGTTATGTACTTTATGTATATAA
1 -ATT-ATGTAAGTTATGTA--TTATG---A-AA
*
4647302 ATTAAGTAAGTTATGTAATTTATGTATAA
1 ATTATGTAAGTTATGT-A-TTATG-A-AA
** *
4647331 TATTAATGTACTTTATGTA-TAT--TA
1 -ATT-ATGTAAGTTATGTATTATGAAA
*
4647355 TTTAAT-TAAGTTATGTAATTTATGTATAA
1 ATT-ATGTAAGTTATGT-A-TTATG-A-AA
** *
4647384 TATTAATGTACTTTATGTA-TAT--TA
1 -ATT-ATGTAAGTTATGTATTATGAAA
*
4647408 TTTAAT-TAAGTTATGTAATTTATGTATAA
1 ATT-ATGTAAGTTATGT-A-TTATG-A-AA
4647437 TATTAATGTAAGTTATGTACTTTATGTATATA
1 -ATT-ATGTAAGTTATGTA--TTATG-A-A-A
*
4647469 ATTAAGTAAGTTATGTAATTTATGTATAA
1 ATTATGTAAGTTATGT-A-TTATG-A-AA
4647498 TATTAATGTAAGTTATGTACTTTATGTATATTA
1 -ATT-ATGTAAGTTATGTA--TTATG-A-A--A
* **
4647531 ATTTATGTAAGTTATTTAATTTATTTAA
1 A-TTATGTAAGTTATGT-A-TTATGAAA
* * **
4647559 GTTATGTAAGTTATTTAATTTATTTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * *
4647586 GTTATGTAAGTTATTTAATTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * **
4647613 GTTATGTAAGTTATTTAAGTTATTTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * *
4647640 GTTATGTAAGTTATTTAATTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * *
4647667 GTTATGTAAGTTATTTAATTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * *
4647694 GTTATGTAAGTTATTTAATTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * * * *
4647721 GTTATTTAATTTATTTAAGTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * * *
4647748 GTTATTTAATTTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * *
4647775 GTTATTTAAGTTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * * *
4647802 GTTATTTAAGTTATGTAAGTTATGTAT
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * * *
4647829 GTTATTTAATTTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * * *
4647856 GTTATTTAATTTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * * *
4647883 GTTATTTAATTTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * **
4647910 GTTATTTAAGTTATGTAAATTATTTAA
1 ATTATGTAAGTTATGT--ATTATGAAA
* *
4647937 TTTATGTAAGTTATGTATTTATGTAA
1 ATTATGTAAGTTATGTA-TTATGAAA
* * * *
4647963 GTTATCTAAGTTATTTAAGTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
* * *
4647990 ATTATTTAATTTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGT-A-TTATGAAA
*
4648017 GTTATGTA
1 ATTATGTA
4648025 TTATGTTAAA
Statistics
Matches: 1115, Mismatches: 121, Indels: 194
0.78 0.08 0.14
Matches are distributed among these distances:
22 34 0.03
23 35 0.03
24 12 0.01
25 125 0.11
26 44 0.04
27 449 0.40
28 20 0.02
29 34 0.03
30 86 0.08
31 221 0.20
32 31 0.03
33 24 0.02
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:4646737 original size:9 final size:9
Alignment explanation
Indices: 4646723--4646985 Score: 133
Period size: 9 Copynumber: 29.7 Consensus size: 9
4646713 AAAATTATGC
4646723 TATGTAAGT
1 TATGTAAGT
4646732 TATGTAAGT
1 TATGTAAGT
* *
4646741 CATATAAGT
1 TATGTAAGT
4646750 TATGT-A-T
1 TATGTAAGT
4646757 TATGTAAGT
1 TATGTAAGT
4646766 TATGTAAGT
1 TATGTAAGT
*
4646775 TAT-TTA-T
1 TATGTAAGT
* *
4646782 TATGAAAAT
1 TATGTAAGT
*
4646791 TAAGT-AGT
1 TATGTAAGT
*
4646799 TATGTAATT
1 TATGTAAGT
*
4646808 TACG-AA-T
1 TATGTAAGT
* **
4646815 AAT-TAAAA
1 TATGTAAGT
*
4646823 AATGTAAGT
1 TATGTAAGT
4646832 TATGTAAG-
1 TATGTAAGT
4646840 T-TGTAAGT
1 TATGTAAGT
4646848 TATGTAAGT
1 TATGTAAGT
*
4646857 TATGTATA-A
1 TATGTA-AGT
4646866 TAT-TAA-T
1 TATGTAAGT
**
4646873 TAACTAAGT
1 TATGTAAGT
*
4646882 TATGTAATT
1 TATGTAAGT
*
4646891 TATGTATAACAT
1 TATG--TAA-GT
*
4646903 TAAAGTAAGT
1 T-ATGTAAGT
*
4646913 TATGTAATT
1 TATGTAAGT
4646922 TATGTATA-T
1 TATGTA-AGT
4646931 TAAT-TAAGT
1 T-ATGTAAGT
4646940 TATGTAAGT
1 TATGTAAGT
*
4646949 TATGTATAATAT
1 TATG--TAA-GT
4646961 TAATGTAAGT
1 T-ATGTAAGT
*
4646971 TATGTAATT
1 TATGTAAGT
4646980 TATGTA
1 TATGTA
4646986 TAATATTAAT
Statistics
Matches: 196, Mismatches: 33, Indels: 50
0.70 0.12 0.18
Matches are distributed among these distances:
7 23 0.12
8 26 0.13
9 118 0.60
10 8 0.04
11 12 0.06
12 4 0.02
13 5 0.03
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:4646766 original size:16 final size:16
Alignment explanation
Indices: 4646652--4646771 Score: 69
Period size: 16 Copynumber: 7.9 Consensus size: 16
4646642 ATAATTAAGC
*
4646652 TATGTAAATTATGTAT
1 TATGTAAGTTATGTAT
*
4646668 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
4646684 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
* *
4646693 TATGTAAGTTGTGTAC
1 TATGTAAGTTATGTAT
* * * *
4646709 CATGAAAATTATG--C
1 TATGTAAGTTATGTAT
4646723 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
4646741 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
4646757 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
4646772 AGTTATTTAT
Statistics
Matches: 77, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 11 0.14
15 2 0.03
16 42 0.55
17 1 0.01
18 12 0.16
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:4646846 original size:16 final size:16
Alignment explanation
Indices: 4646825--4646857 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4646815 AATTAAAAAA
4646825 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
4646841 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
4646857 T
1 T
4646858 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:4646915 original size:31 final size:31
Alignment explanation
Indices: 4646841--4647944 Score: 851
Period size: 27 Copynumber: 38.7 Consensus size: 31
4646831 TTATGTAAGT
*
4646841 TGTAAGTTATGTAAGTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
4646872 TTAACTAAGTTATGTAATTTATGTATAACATTAA
1 -T--GTAAGTTATGTAATTTATGTATAATATTAA
*
4646906 AGTAAGTTATGTAATTTATG--T-ATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
4646934 T-TAAGTTATGTAAGTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
4646964 TGTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
**
4646995 TGTACTTTATGT-A--TA--T-T-AT-TTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
4647018 T-TAAGTTATGTAATTTATATATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
4647048 TGTAAGTTATGT-A--TA-ATATAA-ATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
4647074 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
4647104 TGTAAGTTATGTACTTTATGTATATAAATTAA
1 TGTAAGTTATGTAATTTATGTATA-ATATTAA
4647136 -GTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
** *
4647166 TGTACTTTACGT-A--TA--T-T-AT-TTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
4647189 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
4647219 TGTAAGTTATGT-A--TA-ATATAA-ATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
4647245 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
4647275 TGTAAGTTATGTACTTTATGTATATAAATTAA
1 TGTAAGTTATGTAATTTATGTATA-ATATTAA
4647307 -GTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
**
4647337 TGTACTTTATGT-A--TA--T-T-AT-TTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
4647360 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
**
4647390 TGTACTTTATGT-A--TA--T-T-AT-TTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
4647413 T-TAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
4647443 TGTAAGTTATGTACTTTATGTAT-ATAATTAA
1 TGTAAGTTATGTAATTTATGTATAAT-ATTAA
4647474 -GTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* * *
4647504 TGTAAGTTATGTACTTTATGTATATTAATTTA
1 TGTAAGTTATGTAATTTATGTATAAT-ATTAA
* *
4647536 TGTAAGTTATTTAATTTAT-T-TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
4647563 TGTAAGTTATTTAATTTAT-T-TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
4647590 TGTAAGTTATTTAATTTATG--TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* * *
4647617 TGTAAGTTATTTAAGTTAT-T-TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
4647644 TGTAAGTTATTTAATTTATG--TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
4647671 TGTAAGTTATTTAATTTATG--TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* * *
4647698 TGTAAGTTATTTAATTTATGTAAGTTATTTAATTTA
1 TGTAAGTTATGTAATTTATGT-A--TA-AT-ATTAA
* *
4647734 TTTAAGTTATGTAAGTTAT-T-TAAT-TT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
4647761 TGTAAGTTATGTAAGTTAT-T-TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
4647788 TGTAAGTTATGTAAGTTAT-T-TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
4647815 TGTAAGTTATGT-ATGTTAT-T-TAAT-TT-A
1 TGTAAGTTATGTAAT-TTATGTATAATATTAA
*
4647842 TGTAAGTTATGTAAGTTAT-T-TAAT-TT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
*
4647869 TGTAAGTTATGTAAGTTAT-T-TAAT-TT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
4647896 TGTAAGTTATGTAAGTTAT-T-TAA-GTT-A
1 TGTAAGTTATGTAATTTATGTATAATATTAA
* *
4647923 TGTAAATTATTTAATTTATGTA
1 TGTAAGTTATGTAATTTATGTA
4647945 AGTTATGTAT
Statistics
Matches: 930, Mismatches: 61, Indels: 165
0.80 0.05 0.14
Matches are distributed among these distances:
22 31 0.03
23 24 0.03
24 8 0.01
25 32 0.03
26 19 0.02
27 352 0.38
28 32 0.03
29 20 0.02
30 89 0.10
31 240 0.26
32 36 0.04
34 27 0.03
35 3 0.00
36 17 0.02
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.50
Consensus pattern (31 bp):
TGTAAGTTATGTAATTTATGTATAATATTAA
Found at i:4646997 original size:22 final size:23
Alignment explanation
Indices: 4646972--4647029 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
4646962 AATGTAAGTT
4646972 ATGTAATTTATGTATAATA-TTA
1 ATGTAATTTATGTATAATATTTA
* *
4646994 ATGTACTTTATGTATATTATTTA
1 ATGTAATTTATGTATAATATTTA
*
4647017 AT-TAAGTTATGTA
1 ATGTAATTTATGTA
4647030 ATTTATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (23 bp):
ATGTAATTTATGTATAATATTTA
Found at i:4647050 original size:22 final size:22
Alignment explanation
Indices: 4647025--4647075 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
4647015 TAATTAAGTT
*
4647025 ATGTAATTTATATATAATATTA
1 ATGTAATTTATATATAATATAA
* *
4647047 ATGTAAGTTATGTATAATATAA
1 ATGTAATTTATATATAATATAA
4647069 AT-TAATT
1 ATGTAATT
4647076 AAGTTATGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (22 bp):
ATGTAATTTATATATAATATAA
Found at i:4647148 original size:171 final size:171
Alignment explanation
Indices: 4646843--4647620 Score: 1097
Period size: 171 Copynumber: 4.6 Consensus size: 171
4646833 ATGTAAGTTG
* * * *
4646843 TAAGTTATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAACATTAAAG
1 TAAGTTATGTAATTTATGTATAATATTAA-T--GTAAGTTATGT-A--TA-ATATAA-ATT-AAT
** *
4646908 TAAGTTATGTAATTTATG--T-ATATTAAT-TAAGTTATGTAAGTTATGTATA-ATATTAATGTA
57 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTACTTTATGTATATAAATTAA-GTA
4646968 AGTTATGTAATTTATGTATAATATTAATGTACTTTATGTATATTATTTAAT
121 AGTTATGTAATTTATGTATAATATTAATGTACTTTATGTATATTATTTAAT
*
4647019 TAAGTTATGTAATTTATATATAATATTAATGTAAGTTATGTATAATATAAATTAATTAAGTTATG
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATAAATTAATTAAGTTATG
4647084 TAATTTATGTATAATATTAATGTAAGTTATGTACTTTATGTATATAAATTAAGTAAGTTATGTAA
66 TAATTTATGTATAATATTAATGTAAGTTATGTACTTTATGTATATAAATTAAGTAAGTTATGTAA
*
4647149 TTTATGTATAATATTAATGTACTTTACGTATATTATTTAAT
131 TTTATGTATAATATTAATGTACTTTATGTATATTATTTAAT
4647190 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATAAATTAATTAAGTTATG
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATAAATTAATTAAGTTATG
4647255 TAATTTATGTATAATATTAATGTAAGTTATGTACTTTATGTATATAAATTAAGTAAGTTATGTAA
66 TAATTTATGTATAATATTAATGTAAGTTATGTACTTTATGTATATAAATTAAGTAAGTTATGTAA
4647320 TTTATGTATAATATTAATGTACTTTATGTATATTATTTAAT
131 TTTATGTATAATATTAATGTACTTTATGTATATTATTTAAT
** *
4647361 TAAGTTATGTAATTTATGTATAATATTAATGTACTTTATGTAT-AT-T-ATTTAATTAAGTTATG
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATAAATTAATTAAGTTATG
4647423 TAATTTATGTATAATATTAATGTAAGTTATGTACTTTATGTATAT-AATTAAGTAAGTTATGTAA
66 TAATTTATGTATAATATTAATGTAAGTTATGTACTTTATGTATATAAATTAAGTAAGTTATGTAA
** *
4647487 TTTATGTATAATATTAATGTAAGTTATGTACT-TTATGTATAT
131 TTTATGTATAATATTAATGTACTTTATGTA-TATTATTTA-AT
* * * * * * *
4647529 TAATTTATGTAAGTTAT-T-TAAT-TT-ATTTAAGTTATGTAAGTTATTTAATTTATTTAAGTTA
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-A-TAATATAAATTAATTAAGTTA
*
4647590 TGTAAGTTAT-T-TAAT-TT-ATGTAAGTTATGTA
64 TGTAATTTATGTATAATATTAATGTAAGTTATGTA
4647621 AGTTATTTAA
Statistics
Matches: 566, Mismatches: 24, Indels: 35
0.91 0.04 0.06
Matches are distributed among these distances:
164 10 0.02
165 17 0.03
166 7 0.01
167 80 0.14
168 83 0.15
169 29 0.05
170 12 0.02
171 283 0.50
172 7 0.01
173 10 0.02
175 1 0.00
176 27 0.05
ACGTcount: A:0.38, C:0.01, G:0.11, T:0.49
Consensus pattern (171 bp):
TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATAAATTAATTAAGTTATG
TAATTTATGTATAATATTAATGTAAGTTATGTACTTTATGTATATAAATTAAGTAAGTTATGTAA
TTTATGTATAATATTAATGTACTTTATGTATATTATTTAAT
Found at i:4647153 original size:9 final size:9
Alignment explanation
Indices: 4646907--4648024 Score: 501
Period size: 9 Copynumber: 121.3 Consensus size: 9
4646897 TAACATTAAA
*
4646907 GTAAGTTAT
1 GTAATTTAT
4646916 GTAATTTAT
1 GTAATTTAT
*
4646925 GTATATTAAT
1 GTA-ATTTAT
*
4646935 -TAAGTTAT
1 GTAATTTAT
*
4646943 GTAAGTTAT
1 GTAATTTAT
4646952 GTATAATATTAAT
1 G--TAAT-TT-AT
*
4646965 GTAAGTTAT
1 GTAATTTAT
4646974 GTAATTTAT
1 GTAATTTAT
4646983 GTATAATATTAAT
1 G--TAAT-TT-AT
*
4646996 GTACTTTAT
1 GTAATTTAT
4647005 GT-A--TAT
1 GTAATTTAT
4647011 -T-ATTTAAT
1 GTAATTT-AT
*
4647019 -TAAGTTAT
1 GTAATTTAT
4647027 GTAATTTATAT
1 GTAA-TT-TAT
*
4647038 ATAATATTAAT
1 GTAAT-TT-AT
*
4647049 GTAAGTTAT
1 GTAATTTAT
*
4647058 GT-ATAATAT
1 GTAAT-TTAT
* *
4647067 -AAATTAAT
1 GTAATTTAT
*
4647075 -TAAGTTAT
1 GTAATTTAT
4647083 GTAATTTAT
1 GTAATTTAT
4647092 GTATAATATTAAT
1 G--TAAT-TT-AT
*
4647105 GTAAGTTAT
1 GTAATTTAT
*
4647114 GTACTTTAT
1 GTAATTTAT
*
4647123 GTATATAAATTAA
1 GTA-AT---TTAT
*
4647136 GTAAGTTAT
1 GTAATTTAT
4647145 GTAATTTAT
1 GTAATTTAT
4647154 GTATAATATTAAT
1 G--TAAT-TT-AT
* *
4647167 GTACTTTAC
1 GTAATTTAT
4647176 GT-A--TAT
1 GTAATTTAT
4647182 -T-ATTTAAT
1 GTAATTT-AT
*
4647190 -TAAGTTAT
1 GTAATTTAT
4647198 GTAATTTAT
1 GTAATTTAT
4647207 GTATAATATTAAT
1 G--TAAT-TT-AT
*
4647220 GTAAGTTAT
1 GTAATTTAT
*
4647229 GT-ATAATAT
1 GTAAT-TTAT
* *
4647238 -AAATTAAT
1 GTAATTTAT
*
4647246 -TAAGTTAT
1 GTAATTTAT
4647254 GTAATTTAT
1 GTAATTTAT
4647263 GTATAATATTAAT
1 G--TAAT-TT-AT
*
4647276 GTAAGTTAT
1 GTAATTTAT
*
4647285 GTACTTTAT
1 GTAATTTAT
*
4647294 GTATATAAATTAA
1 GTA-AT---TTAT
*
4647307 GTAAGTTAT
1 GTAATTTAT
4647316 GTAATTTAT
1 GTAATTTAT
4647325 GTATAATATTAAT
1 G--TAAT-TT-AT
*
4647338 GTACTTTAT
1 GTAATTTAT
4647347 GT-A--TAT
1 GTAATTTAT
4647353 -T-ATTTAAT
1 GTAATTT-AT
*
4647361 -TAAGTTAT
1 GTAATTTAT
4647369 GTAATTTAT
1 GTAATTTAT
4647378 GTATAATATTAAT
1 G--TAAT-TT-AT
*
4647391 GTACTTTAT
1 GTAATTTAT
4647400 GT-A--TAT
1 GTAATTTAT
4647406 -T-ATTTAAT
1 GTAATTT-AT
*
4647414 -TAAGTTAT
1 GTAATTTAT
4647422 GTAATTTAT
1 GTAATTTAT
4647431 GTATAATATTAAT
1 G--TAAT-TT-AT
*
4647444 GTAAGTTAT
1 GTAATTTAT
*
4647453 GTACTTTAT
1 GTAATTTAT
*
4647462 GTATATAATTAA
1 GTA-AT--TTAT
*
4647474 GTAAGTTAT
1 GTAATTTAT
4647483 GTAATTTAT
1 GTAATTTAT
4647492 GTATAATATTAAT
1 G--TAAT-TT-AT
*
4647505 GTAAGTTAT
1 GTAATTTAT
*
4647514 GTACTTTAT
1 GTAATTTAT
4647523 GT-A--TAT
1 GTAATTTAT
4647529 -TAATTTAT
1 GTAATTTAT
*
4647537 GTAAGTTAT
1 GTAATTTAT
*
4647546 TTAATTTAT
1 GTAATTTAT
* *
4647555 TTAAGTTAT
1 GTAATTTAT
*
4647564 GTAAGTTAT
1 GTAATTTAT
*
4647573 TTAATTTAT
1 GTAATTTAT
* *
4647582 TTAAGTTAT
1 GTAATTTAT
*
4647591 GTAAGTTAT
1 GTAATTTAT
*
4647600 TTAATTTAT
1 GTAATTTAT
*
4647609 GTAAGTTAT
1 GTAATTTAT
*
4647618 GTAAGTTAT
1 GTAATTTAT
* *
4647627 TTAAGTTAT
1 GTAATTTAT
* *
4647636 TTAAGTTAT
1 GTAATTTAT
*
4647645 GTAAGTTAT
1 GTAATTTAT
*
4647654 TTAATTTAT
1 GTAATTTAT
*
4647663 GTAAGTTAT
1 GTAATTTAT
*
4647672 GTAAGTTAT
1 GTAATTTAT
*
4647681 TTAATTTAT
1 GTAATTTAT
*
4647690 GTAAGTTAT
1 GTAATTTAT
*
4647699 GTAAGTTAT
1 GTAATTTAT
*
4647708 TTAATTTAT
1 GTAATTTAT
*
4647717 GTAAGTTAT
1 GTAATTTAT
*
4647726 TTAATTTAT
1 GTAATTTAT
* *
4647735 TTAAGTTAT
1 GTAATTTAT
*
4647744 GTAAGTTAT
1 GTAATTTAT
*
4647753 TTAATTTAT
1 GTAATTTAT
*
4647762 GTAAGTTAT
1 GTAATTTAT
*
4647771 GTAAGTTAT
1 GTAATTTAT
* *
4647780 TTAAGTTAT
1 GTAATTTAT
*
4647789 GTAAGTTAT
1 GTAATTTAT
*
4647798 GTAAGTTAT
1 GTAATTTAT
* *
4647807 TTAAGTTAT
1 GTAATTTAT
*
4647816 GTAAGTTAT
1 GTAATTTAT
4647825 GT-ATGTTAT
1 GTAAT-TTAT
*
4647834 TTAATTTAT
1 GTAATTTAT
*
4647843 GTAAGTTAT
1 GTAATTTAT
*
4647852 GTAAGTTAT
1 GTAATTTAT
*
4647861 TTAATTTAT
1 GTAATTTAT
*
4647870 GTAAGTTAT
1 GTAATTTAT
*
4647879 GTAAGTTAT
1 GTAATTTAT
*
4647888 TTAATTTAT
1 GTAATTTAT
*
4647897 GTAAGTTAT
1 GTAATTTAT
*
4647906 GTAAGTTAT
1 GTAATTTAT
* *
4647915 TTAAGTTAT
1 GTAATTTAT
*
4647924 GTAAATTAT
1 GTAATTTAT
*
4647933 TTAATTTAT
1 GTAATTTAT
*
4647942 GTAAGTTAT
1 GTAATTTAT
4647951 GT-ATTTAT
1 GTAATTTAT
*
4647959 GTAAGTTAT
1 GTAATTTAT
* *
4647968 CTAAGTTAT
1 GTAATTTAT
* *
4647977 TTAAGTTAT
1 GTAATTTAT
*
4647986 GTAAATTAT
1 GTAATTTAT
*
4647995 TTAATTTAT
1 GTAATTTAT
*
4648004 GTAAGTTAT
1 GTAATTTAT
*
4648013 GTAAGTTAT
1 GTAATTTAT
4648022 GTA
1 GTA
4648025 TTATGTTAAA
Statistics
Matches: 876, Mismatches: 143, Indels: 180
0.73 0.12 0.15
Matches are distributed among these distances:
5 9 0.01
6 15 0.02
7 4 0.00
8 51 0.06
9 610 0.70
10 35 0.04
11 82 0.09
12 28 0.03
13 42 0.05
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (9 bp):
GTAATTTAT
Found at i:4647664 original size:171 final size:172
Alignment explanation
Indices: 4646756--4647976 Score: 949
Period size: 171 Copynumber: 7.3 Consensus size: 172
4646746 AAGTTATGTA
* * *
4646756 TTATGTAAGTTATGTAAGTTATTT-A-TTATGA-AAATTAAGT-AGTTATGTAATTTACGAATAA
1 TTATGTAAGTTATGTAAGTTATTTAAGTTAT-ATAAATTATGTAAGTTATGTAATTTATGTATAA
** * *
4646817 TTAAAAAATGTAAGTTATGTA-AGT-TG----TAAGTTATGTAAGTTATGTATAATATTAATTAA
65 -T-ATTAATGTAATTTATGTATATTATGTAATTAAGTTATGTAAGTTATGTATAATATTAA-T--
* * * *
4646876 CTAAGTTATGTAATTTATGTATAACATTAAAGTAAGTTATGTAATTTATGTATAT
125 GTAAGTTATGT-A-TTAT-T-T-A-ATTTAATTAAGTTATGTAATTTATTTA-AT
* *
4646931 TAAT-TAAGTTATGTAAGTTA--T--G-TATA-ATATTAATGTAAGTTATGTAATTTATGTATAA
1 TTATGTAAGTTATGTAAGTTATTTAAGTTATATAAATT-ATGTAAGTTATGTAATTTATGTATAA
* * * *
4646989 TATTAATGTACTTTATGTATATTATTTAATTAAGTTATGTAATTTATATATAATATTAATGTAAG
65 TATTAATGTAATTTATGTATATTATGTAATTAAGTTATGTAAGTTATGTATAATATTAATGTAAG
* * *
4647054 TTATGTATAATATAAATTAATTAAGTTATGTAATTTATGTATAAT
130 TTATGTATTATTTAATTTAATTAAGTTATGTAATTTAT-T-TAAT
* * *
4647099 ATTAATGTAAGTTATGT-A---CTTTATG-TATATAAATTAAGTAAGTTATGTAATTTATGTATA
1 -TT-ATGTAAGTTATGTAAGTTATTTAAGTTATATAAATTATGTAAGTTATGTAATTTATGTATA
* * * *
4647159 ATATTAATGTACTTTACGTATATTATTTAATTAAGTTATGTAATTTATGTATAATATTAATGTAA
64 ATATTAATGTAATTTATGTATATTATGTAATTAAGTTATGTAAGTTATGTATAATATTAATGTAA
* * *
4647224 GTTATGTATAATATAAATTAATTAAGTTATGTAATTTATGTATAAT
129 GTTATGTATTATTTAATTTAATTAAGTTATGTAATTTAT-T-TAAT
* * *
4647270 ATTAATGTAAGTTATGT-A---CTTTATG-TATATAAATTAAGTAAGTTATGTAATTTATGTATA
1 -TT-ATGTAAGTTATGTAAGTTATTTAAGTTATATAAATTATGTAAGTTATGTAATTTATGTATA
* * * *
4647330 ATATTAATGTACTTTATGTATATTATTTAATTAAGTTATGTAATTTATGTATAATATTAATGTAC
64 ATATTAATGTAATTTATGTATATTATGTAATTAAGTTATGTAAGTTATGTATAATATTAATGTAA
*
4647395 TTTATGTA-TA-TT-ATTTAATTAAGTTATGTAATTTATGTATAAT
129 GTTATGTATTATTTAATTTAATTAAGTTATGTAATTTAT-T-TAAT
* * *
4647438 ATTAATGTAAGTTATGT-A---CTTTATG-TATAT-AATTAAGTAAGTTATGTAATTTATGTATA
1 -TT-ATGTAAGTTATGTAAGTTATTTAAGTTATATAAATTATGTAAGTTATGTAATTTATGTATA
* * *
4647497 ATATTAATGTAAGTTATGTACT-TTATGTATATTAATTTATGTAAGTTAT-T-TAAT-TT-ATTT
64 ATATTAATGTAATTTATGTA-TATTATGTA-ATTAAGTTATGTAAGTTATGTATAATATTAATGT
* *
4647557 AAGTTATGTAAGTTATTTAATTTATTTAAGTTATGTAAGTTATTTAAT
127 AAGTTATGT-A-TTATTTAATTTAATTAAGTTATGTAATTTATTTAAT
* * *
4647605 TTATGTAAGTTATGTAAGTTATTTAAGTTATTTAAGTTATGTAAGTTATTTAATTTATG--TAA-
1 TTATGTAAGTTATGTAAGTTATTTAAGTTATATAAATTATGTAAGTTATGTAATTTATGTATAAT
* * *
4647667 GTT-ATGTAAGTTAT-T-TA--AT-TTATGTAAGTTATGTAAGTTAT-T-TAAT-TT-ATGTAAG
66 ATTAATGTAATTTATGTATATTATGTAAT-TAAGTTATGTAAGTTATGTATAATATTAATGTAAG
* *
4647722 ---T-TA---TTTAATTTATTTAAGTTATGTAAGTTATTTAAT
130 TTATGTATTATTTAATTTAATTAAGTTATGTAATTTATTTAAT
* * * *
4647758 TTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTATGTAAGTTATTTAAGTTATG--TAA-
1 TTATGTAAGTTATGTAAGTTATTTAAGTTATATAAATTATGTAAGTTATGTAATTTATGTATAAT
* *
4647820 GTT-ATGT-ATGTTAT-T-TA--AT-TTATGTAAGTTATGTAAGTTAT-T-TAAT-TT-ATGTAA
66 ATTAATGTAAT-TTATGTATATTATGTAAT-TAAGTTATGTAAGTTATGTATAATATTAATGTAA
* *
4647874 GTTATGTAAGTTATTTAATTT-ATGTAAGTTATGTAAGTTATTTAAG
129 GTTATGT-A-TTATTTAATTTAAT-TAAGTTATGTAATTTATTTAAT
* * * * * * * *
4647920 TTATGTAAATTATTTAATTTATGTAAGTTATGT-ATTTATGTAAGTTATCTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATTTAAGTTATATAAATTATGTAAGTTATGTAATTTAT
4647977 TTAAGTTATG
Statistics
Matches: 938, Mismatches: 63, Indels: 104
0.85 0.06 0.09
Matches are distributed among these distances:
152 1 0.00
153 145 0.15
156 1 0.00
157 2 0.00
158 2 0.00
159 1 0.00
161 25 0.03
162 88 0.09
163 2 0.00
164 11 0.01
165 16 0.02
166 8 0.01
167 92 0.10
168 86 0.09
169 36 0.04
170 27 0.03
171 312 0.33
172 26 0.03
173 10 0.01
174 16 0.02
175 4 0.00
176 27 0.03
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.50
Consensus pattern (172 bp):
TTATGTAAGTTATGTAAGTTATTTAAGTTATATAAATTATGTAAGTTATGTAATTTATGTATAAT
ATTAATGTAATTTATGTATATTATGTAATTAAGTTATGTAAGTTATGTATAATATTAATGTAAGT
TATGTATTATTTAATTTAATTAAGTTATGTAATTTATTTAAT
Found at i:4648016 original size:27 final size:27
Alignment explanation
Indices: 4647533--4648021 Score: 737
Period size: 27 Copynumber: 18.5 Consensus size: 27
4647523 GTATATTAAT
*
4647533 TTATGTAAGTTATTTAATTTATTTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
*
4647560 TTATGTAAGTTATTTAATTTATTTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
4647587 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
* *
4647614 TTATGTAAGTTATTTAAGTTATTTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
4647641 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
4647668 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
4647695 TTATGTAAGTTATTT-A---A--T---
1 TTATGTAAGTTATTTAATTTATGTAAG
*
4647713 TTATGTAAGTTATTTAATTTATTTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
4647740 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
*
4647767 TTATGTAAGTTATTTAAGTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
*
4647794 TTATGTAAGTTATTTAAGTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
*
4647821 TTATGTATGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
4647848 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
4647875 TTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
* *
4647902 TTATGTAAGTTATTTAAGTTATGTAAA
1 TTATGTAAGTTATTTAATTTATGTAAG
* * * * *
4647929 TTATTTAATTTATGTAAGTTATGT-AT
1 TTATGTAAGTTATTTAATTTATGTAAG
* * *
4647955 TTATGTAAGTTATCTAAGTTATTTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
*
4647982 TTATGTAAATTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG
4648009 TTATGTAAGTTAT
1 TTATGTAAGTTAT
4648022 GTATTATGTT
Statistics
Matches: 426, Mismatches: 26, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
18 15 0.04
19 1 0.00
21 1 0.00
22 1 0.00
23 1 0.00
24 1 0.00
26 22 0.05
27 384 0.90
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (27 bp):
TTATGTAAGTTATTTAATTTATGTAAG
Found at i:4650367 original size:40 final size:40
Alignment explanation
Indices: 4650289--4650367 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
4650279 AAACACAAAA
* * * * * *
4650289 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
4650329 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
4650368 TACATAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (40 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
Found at i:4650455 original size:115 final size:114
Alignment explanation
Indices: 4650225--4650540 Score: 544
Period size: 114 Copynumber: 2.8 Consensus size: 114
4650215 AATAAACACC
4650225 TGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
* *
4650289 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGTAACATATTT
66 TAACA-TTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
* *
4650339 TGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGTAAACACATA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGTAAACACAAA
* * *
4650404 ATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTT
65 ATAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
4650454 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
4650519 TAACATTTTTGCGGCGTTTTAA
66 TAACATTTTTGCGGCGTTTTAA
4650541 TAAAAACGCC
Statistics
Matches: 189, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
114 83 0.44
115 72 0.38
116 34 0.18
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (114 bp):
TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
TAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
Found at i:4650482 original size:40 final size:39
Alignment explanation
Indices: 4650405--4650482 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
4650395 AAACACATAA
* * *
4650405 TAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAG
1 TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
*
4650444 TAACATCTTTTGCGGCGTTTTAACAA-AAACGCCACTAAA
1 TAACAT-TTTTGCGGCATTTTAA-AAGAAACGCCACTAAA
4650483 TACATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 6 0.18
40 25 0.76
41 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (39 bp):
TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
Found at i:4650631 original size:75 final size:74
Alignment explanation
Indices: 4650444--4650615 Score: 308
Period size: 75 Copynumber: 2.3 Consensus size: 74
4650434 GCCGCTAAAG
4650444 TAACATCTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
1 TAACAT-TTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
4650509 AAACACAAAA
65 AAACACAAAA
*
4650519 TAACATTTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGT
1 TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGT
4650584 AAACACAAAA
65 AAACACAAAA
*
4650594 TAACATTCTTGCGGCGTTTTAA
1 TAACATTTTTGCGGCGTTTTAA
4650616 GATAAGCGCC
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
74 36 0.38
75 58 0.62
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (74 bp):
TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTA
AACACAAAA
Found at i:4650656 original size:189 final size:189
Alignment explanation
Indices: 4650329--4650707 Score: 589
Period size: 189 Copynumber: 2.0 Consensus size: 189
4650319 GCCGCTAAAG
4650329 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * * *
4650394 TAAACACATAATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTTTGCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
* * *
4650459 CGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACAT-AAAAACGATCACGTTTCGGTAAACACAAAA
* *
4650519 TAACAT-TTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * *
4650583 TAAACACAAAATAACATTCTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGCAAGATCTTTTCCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
** *
4650648 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATTTCGTTTCGGTCAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
4650707 T
1 T
4650708 CCAACAAAAC
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
188 26 0.15
189 140 0.81
190 6 0.03
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (189 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
Found at i:4650904 original size:113 final size:115
Alignment explanation
Indices: 4650704--4650988 Score: 315
Period size: 114 Copynumber: 2.5 Consensus size: 115
4650694 GGTCAACACA
* * * ** * * * * *** **
4650704 AAATCCAACAAAACGGCAACGTTTTTATTATAACCCATTGAAATTTTGTGGCGTTTCCAACGCAG
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
4650769 CGCCGCTAAAGGCTGACGTTTT-CGGCGTTTTACAAAAAACGCCACTAAT
66 CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
* * *
4650818 AAATCCTACACCACGGCAGCG-TTTTATTAAAACAGAATCACATTTTGCGGCGTTTTTGACATAG
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
4650882 CGCCGCTAAAGGATGATC-TTTTCCGGCGTTTTACCAAAAACGCCAGTAAG
66 CGCCGCTAAAGGATGA-CGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
* * * *
4650932 AAATCTTACAGAACGGCAACGTTTTTATTGAAACAAAATCACATTTTGCGGTGTTTT
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTT
4650989 ACCCAAAACG
Statistics
Matches: 141, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
113 50 0.35
114 59 0.42
115 32 0.23
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (115 bp):
AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
Found at i:4651596 original size:21 final size:21
Alignment explanation
Indices: 4651566--4651616 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
4651556 CCTAGCCTAG
*
4651566 ACCCTGAACCCCAACCCGTAA
1 ACCCTAAACCCCAACCCGTAA
* *
4651587 ACCTTAAACCCCAACTCGTAA
1 ACCCTAAACCCCAACCCGTAA
4651608 ACCCTAAAC
1 ACCCTAAAC
4651617 TGTAAACCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.43, G:0.06, T:0.14
Consensus pattern (21 bp):
ACCCTAAACCCCAACCCGTAA
Found at i:4652165 original size:73 final size:72
Alignment explanation
Indices: 4652070--4652207 Score: 206
Period size: 73 Copynumber: 1.9 Consensus size: 72
4652060 AAAGACTCGA
4652070 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCG-CTTTTACAAAAACGCCACTAA
1 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTA-AAAAACGCCACTAA
4652134 AGCCTCCC
65 AGCCTCCC
* * * * *
4652142 AAACTAAGAAAAACGATGTCGTTGGGCTTCGGTTTTTTGTGGCGATTTTTAAAAAACGCCGCTAA
1 AAACTAAG-AAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAA
4652207 A
65 A
4652208 ACATTGAGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
72 8 0.14
73 46 0.78
74 5 0.08
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (72 bp):
AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAAA
GCCTCCC
Found at i:4652260 original size:114 final size:114
Alignment explanation
Indices: 4652107--4652433 Score: 408
Period size: 113 Copynumber: 2.9 Consensus size: 114
4652097 TAGGCTTTTT
** * ** * *
4652107 GCGGCGCTTTTACAAAAACGCCACTAAAGCCTCCCAAACTAAGAAAAACGATGTCGTTGGGCTTC
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTAGGCTTA
* * * * *
4652172 GGTTTTTTGTGGCGATTTTTAAAAAACGCCGCTAAAACATTGAGCATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* *
4652221 GCGGCGCTTTCCCGAAAACGCCACCAAAGCCTCGAAAACTAAG-AAAATGATGTCGTTAGGCTTA
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTAGGCTTA
* * * *
4652285 GGTCTTTTGCGGCGCTTTTTAAGAAACGCTGCTAAAGCCCTGAGAATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* * * *
4652334 -CTTGCGC-TTCTCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGACGTCGTTTGGTT
1 GC-GGCGCTTTC-CCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTAGGCT
*
4652397 TAGGTTTTTAGCGGCGCTTTTTAAGAAACGCCGCTAA
64 TAGGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAA
4652434 TGCTCATTAT
Statistics
Matches: 183, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
112 4 0.02
113 93 0.51
114 86 0.47
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTAGGCTTA
GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
Found at i:4652508 original size:40 final size:41
Alignment explanation
Indices: 4652443--4652539 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 41
4652433 ATGCTCATTA
*
4652443 TTAGCGGCG-TTTTTGTAAAAGCGCCGATAATAC-TGATAT
1 TTAGCGGCGTTTTTTGTAAAAGCGCCGATAATACTTAATAT
* * * * * *
4652482 TTAGCGGCGTTTTTTTTTAAATCGCCGCTAATGCTTAATTT
1 TTAGCGGCGTTTTTTGTAAAAGCGCCGATAATACTTAATAT
*
4652523 TTAGCGGCGTTTGTTGT
1 TTAGCGGCGTTTTTTGT
4652540 CCAATCGCCG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 9 0.19
40 19 0.40
41 19 0.40
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.41
Consensus pattern (41 bp):
TTAGCGGCGTTTTTTGTAAAAGCGCCGATAATACTTAATAT
Found at i:4652526 original size:41 final size:40
Alignment explanation
Indices: 4652401--4652553 Score: 141
Period size: 39 Copynumber: 3.9 Consensus size: 40
4652391 TTGGTTTAGG
* * *
4652401 TTTTTAGCGGCG-CTTTT-TAAGAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTTTGTAA-AATCGCCGCTAATGCTAA
* * * * *
4652440 TTATTAGCGGCG-TTTTTGTAAAAGCGCCGATAATACTGA
1 TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAATGCTAA
* * *
4652479 TATTTAGCGGCGTTTTTTTTTAAATCGCCGCTAATGCTTAA
1 TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAATGC-TAA
* **
4652520 TTTTTAGCGGCGTTTGTTGTCCAATCGCCGCTAA
1 TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAA
4652554 AAGCGCCGCT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 39 0.42
40 22 0.24
41 31 0.34
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAATGCTAA
Found at i:4652843 original size:19 final size:19
Alignment explanation
Indices: 4652819--4652857 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4652809 GGATGACCAA
4652819 ATTGCAAGCATTTCATTTT
1 ATTGCAAGCATTTCATTTT
4652838 ATTGCAAGCATTTCATTTT
1 ATTGCAAGCATTTCATTTT
4652857 A
1 A
4652858 GGTAGCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (19 bp):
ATTGCAAGCATTTCATTTT
Found at i:4659584 original size:13 final size:14
Alignment explanation
Indices: 4659557--4659589 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4659547 GTTTCTAATT
*
4659557 AATTTTGATTTTTA
1 AATTTTGATTATTA
4659571 AATTTT-ATTATTA
1 AATTTTGATTATTA
4659584 AATTTT
1 AATTTT
4659590 CGCTATTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (14 bp):
AATTTTGATTATTA
Found at i:4668728 original size:3 final size:3
Alignment explanation
Indices: 4668720--4668746 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4668710 CAAGCTGCTC
4668720 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
4668747 TTCCCTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:4670874 original size:253 final size:254
Alignment explanation
Indices: 4670426--4670928 Score: 756
Period size: 253 Copynumber: 2.0 Consensus size: 254
4670416 ATATTGGGGT
* ** * * *
4670426 TGCAATTACTTCTTTATGTAAGAGTAGATTGGGCCTAAACTAATAGGTTATCCGGACGATTGTTG
1 TGCAATTACATCTTTATGTAAGAGTAGATTCAGCCTAAACTAATAGATGATCCAGACGATTGTTG
* * * *
4670491 AATAAAATCATTCACTTGGGGAGGCTCCGCAAATGTAGGATCATTGTGTCTAAACTACGTTATCA
66 AATAAAATCATTCACTAGGCGAGGCTCCACAAATGTAGGATCATTGTGTCTAAACTACGTTAACA
* *
4670556 AAGATCGGTTGTGTTAATTCTTTTCTACTCATATTTTTTTCGTTGCCCATTTTCGTTCTAACTTT
131 AAGACCGGTTGTGTCAATTCTTTTCTACTCATATTTTTTTCGTTGCCCATTTTCGTTCTAACTTT
* *
4670621 CACTACAACGAGCATT-AGCAAAGTTGATTTATCATGTCAGTAAACTAATTATTTATCA
196 CACTACAACGAGCATTAAGCAAAGTTGATTTATCATATCAGCAAACTAATTATTTATCA
* * * * *
4670679 TGCAATTACATCTTTGTGTAAGGGTATATTCAGCTTAAACTAATAGATGATCCAGATGATTGTTG
1 TGCAATTACATCTTTATGTAAGAGTAGATTCAGCCTAAACTAATAGATGATCCAGACGATTGTTG
* * * *
4670744 AATAAAATCATTCACTAGGCGAGGCTGCACAGATGTAGGATTATTGTGTCTGAACTACGTTAACA
66 AATAAAATCATTCACTAGGCGAGGCTCCACAAATGTAGGATCATTGTGTCTAAACTACGTTAACA
*
4670809 AAGACCGGTTGTGTCAATTCTTTTCTACTCTTATTTTTTTCGTTGCCCATTTTCGTTCTAACTTT
131 AAGACCGGTTGTGTCAATTCTTTTCTACTCATATTTTTTTCGTTGCCCATTTTCGTTCTAACTTT
* **
4670874 CACTACAATGAGCATTAAGCAAAGTTGATTTATCATATTGGCAAACTAATTATTT
196 CACTACAACGAGCATTAAGCAAAGTTGATTTATCATATCAGCAAACTAATTATTT
4670929 TTTCAATCTT
Statistics
Matches: 222, Mismatches: 27, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
253 188 0.85
254 34 0.15
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (254 bp):
TGCAATTACATCTTTATGTAAGAGTAGATTCAGCCTAAACTAATAGATGATCCAGACGATTGTTG
AATAAAATCATTCACTAGGCGAGGCTCCACAAATGTAGGATCATTGTGTCTAAACTACGTTAACA
AAGACCGGTTGTGTCAATTCTTTTCTACTCATATTTTTTTCGTTGCCCATTTTCGTTCTAACTTT
CACTACAACGAGCATTAAGCAAAGTTGATTTATCATATCAGCAAACTAATTATTTATCA
Found at i:4671027 original size:27 final size:27
Alignment explanation
Indices: 4670988--4671039 Score: 88
Period size: 26 Copynumber: 1.9 Consensus size: 27
4670978 TGGACTAAAC
4670988 TACAAACAATTTAAACACAAAAAATATG
1 TACAAACAATTTAAA-ACAAAAAATATG
4671016 TACAAA-AATTTAAAACAAAAAATA
1 TACAAACAATTTAAAACAAAAAATA
4671040 GTTAGGGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.42
27 8 0.33
28 6 0.25
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21
Consensus pattern (27 bp):
TACAAACAATTTAAAACAAAAAATATG
Found at i:4675144 original size:44 final size:44
Alignment explanation
Indices: 4675059--4675144 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
4675049 CATTTTCGAG
*** **
4675059 ATTTTACTTTTTATAATTTTTATATAGAATTTTTTTAAAATATA
1 ATTTTACTTTTTATAATTTTTATATAGAAAAATGGTAAAATATA
* *
4675103 ATTTTATTTTTTATAATTTTTATATAGAAAAATGGTCAAATA
1 ATTTTACTTTTTATAATTTTTATATAGAAAAATGGTAAAATA
4675145 GACAAAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (44 bp):
ATTTTACTTTTTATAATTTTTATATAGAAAAATGGTAAAATATA
Found at i:4682341 original size:231 final size:231
Alignment explanation
Indices: 4681931--4682392 Score: 863
Period size: 231 Copynumber: 2.0 Consensus size: 231
4681921 TTTTAGTAAA
* * *
4681931 GGGTTTTTCAGCTTGTTCAATGTTTTATTTTAGCACTTGACACAAGGTAGGCAGGTTTATTATTA
1 GGGTTTGTCAGCTTGTTCAATGTTCTACTTTAGCACTTGACACAAGGTAGGCAGGTTTATTATTA
4681996 CTAGAAGTTAACAAAAGAATGTGATTACCCTTTCGAATAGGACCTCTGCTATCCATCATGTTAGT
66 CTAGAAGTTAACAAAAGAATGTGATTACCCTTTCGAATAGGACCTCTGCTATCCATCATGTTAGT
*
4682061 AGCTGGATTTGTGAATAAATTAGGCTCATTTCTGGCATGGAAATTGTTTGCATGTTGGATGGTTG
131 AGCTGGATTTGTGAATAAATGAGGCTCATTTCTGGCATGGAAATTGTTTGCATGTTGGATGGTTG
4682126 ACCGTTTCAGTGATTGGTACTTGCTCCTCAATTGAT
196 ACCGTTTCAGTGATTGGTACTTGCTCCTCAATTGAT
4682162 GGGTTTGTCAGCTTGTTCAATGTTCTACTTTAGCACTTGACACAAGGTAGGCAGGTTTATTATTA
1 GGGTTTGTCAGCTTGTTCAATGTTCTACTTTAGCACTTGACACAAGGTAGGCAGGTTTATTATTA
4682227 CTAGAAGTTAACAAAAGAATGTGATTACCCTTTCGAATAGGACCTCTGCTATCCATCATGTTAGT
66 CTAGAAGTTAACAAAAGAATGTGATTACCCTTTCGAATAGGACCTCTGCTATCCATCATGTTAGT
*
4682292 AGCTGGATTTGTGAATAAATCGA-GCTCTTTTCTGGCATGGAAATTGTTTGCATGTTGGATGGTT
131 AGCTGGATTTGTGAATAAAT-GAGGCTCATTTCTGGCATGGAAATTGTTTGCATGTTGGATGGTT
4682356 GACCGTTTCAGTGATTGGTACTTGCTCCTCAATTGAT
195 GACCGTTTCAGTGATTGGTACTTGCTCCTCAATTGAT
4682393 CATACATTTC
Statistics
Matches: 225, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
231 224 1.00
232 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (231 bp):
GGGTTTGTCAGCTTGTTCAATGTTCTACTTTAGCACTTGACACAAGGTAGGCAGGTTTATTATTA
CTAGAAGTTAACAAAAGAATGTGATTACCCTTTCGAATAGGACCTCTGCTATCCATCATGTTAGT
AGCTGGATTTGTGAATAAATGAGGCTCATTTCTGGCATGGAAATTGTTTGCATGTTGGATGGTTG
ACCGTTTCAGTGATTGGTACTTGCTCCTCAATTGAT
Found at i:4703285 original size:30 final size:31
Alignment explanation
Indices: 4703249--4703314 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
4703239 AATAGTTTAT
* *
4703249 ATTTTTATAATTTTTAAAAGATTAAATTA-A
1 ATTTTTATAATTTCTAAAAGATTAAAGTATA
* * *
4703279 ATTTTTATTATTTCTAGAAGGTTAAAGTATA
1 ATTTTTATAATTTCTAAAAGATTAAAGTATA
4703310 ATTTT
1 ATTTT
4703315 ACCATTACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (31 bp):
ATTTTTATAATTTCTAAAAGATTAAAGTATA
Found at i:4703782 original size:30 final size:30
Alignment explanation
Indices: 4703742--4703798 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
4703732 ACCAAAATGC
4703742 AACGACTATCATTTTCCTCACAATTTTGTA
1 AACGACTATCATTTTCCTCACAATTTTGTA
* * *
4703772 AACGATTATCATTTTTCTTACAATTTT
1 AACGACTATCATTTTCCTCACAATTTT
4703799 ATTTACATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (30 bp):
AACGACTATCATTTTCCTCACAATTTTGTA
Found at i:4709369 original size:32 final size:32
Alignment explanation
Indices: 4709328--4709388 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
4709318 AAACAGCAAA
* *
4709328 AACAGCAGCATTTTTTC-TTCTGCAAATTTAGG
1 AACAGCAGCAATTTATCTTTC-GCAAATTTAGG
4709360 AACAGCAGCAATTTATCTTTCGCAAATTT
1 AACAGCAGCAATTTATCTTTCGCAAATTT
4709389 GGGTTGAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (32 bp):
AACAGCAGCAATTTATCTTTCGCAAATTTAGG
Found at i:4710650 original size:17 final size:17
Alignment explanation
Indices: 4710628--4710661 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4710618 ATCCACTAAT
*
4710628 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
4710645 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
4710662 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:4715289 original size:17 final size:17
Alignment explanation
Indices: 4715267--4715300 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4715257 ATCCACTAAT
*
4715267 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
4715284 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
4715301 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:4715655 original size:10 final size:10
Alignment explanation
Indices: 4715640--4715666 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4715630 GTGGTTGTTG
4715640 CAAACCAGCT
1 CAAACCAGCT
4715650 CAAACCAGCT
1 CAAACCAGCT
4715660 CAAACCA
1 CAAACCA
4715667 CAGCCTTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.41, G:0.07, T:0.07
Consensus pattern (10 bp):
CAAACCAGCT
Found at i:4718732 original size:18 final size:18
Alignment explanation
Indices: 4718709--4718801 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
4718699 CCCAACTACT
* *
4718709 GTATACGTGAACAGTATC
1 GTATACGTGAATAGTACC
*
4718727 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
4718745 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
4718763 GTATACATGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
4718781 GTATACATAAATAGTACC
1 GTATACGTGAATAGTACC
4718799 GTA
1 GTA
4718802 AACGGTCGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:4718766 original size:36 final size:36
Alignment explanation
Indices: 4718709--4718801 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
4718699 CCCAACTACT
* * *
4718709 GTATACGTGAACAGTATCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCC
4718745 GTATACGTGAATAGTACCGTATACATGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCC
* *
4718781 GTATACATAAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
4718802 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACATGAATAGTGCC
Found at i:4722367 original size:9 final size:10
Alignment explanation
Indices: 4722356--4722420 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 10
4722346 GGTATAAATA
4722356 AATAAATAA-
1 AATAAATAAT
*
4722365 AATGCAATAAT
1 AAT-AAATAAT
4722376 AATAATGATAAT
1 AATAA--ATAAT
4722388 AATAATAATAAT
1 AAT-A-AATAAT
4722400 AATAAATTCAAT
1 AATAAA-T-AAT
4722412 AATAAATAA
1 AATAAATAA
4722421 AATGACAGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
9 3 0.07
10 10 0.22
11 6 0.13
12 25 0.54
13 1 0.02
14 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (10 bp):
AATAAATAAT
Found at i:4722416 original size:3 final size:3
Alignment explanation
Indices: 4722370--4722404 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
4722360 AATAAAATGC
*
4722370 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4722405 ATTCAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4723226 original size:33 final size:33
Alignment explanation
Indices: 4723184--4723257 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
4723174 TTGTAAAAAA
*
4723184 AATGTACAGAGATATTGTTTGGCTTTTATAGCC
1 AATGTACAGAGACATTGTTTGGCTTTTATAGCC
*
4723217 AATGTACAGATACATTGTTTGGCTTTTATAGCC
1 AATGTACAGAGACATTGTTTGGCTTTTATAGCC
*
4723250 AATTTACA
1 AATGTACA
4723258 TGTATTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (33 bp):
AATGTACAGAGACATTGTTTGGCTTTTATAGCC
Found at i:4724085 original size:44 final size:44
Alignment explanation
Indices: 4724027--4724448 Score: 220
Period size: 44 Copynumber: 9.6 Consensus size: 44
4724017 TTTTAATCCG
* *
4724027 CTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
* * * ** *
4724071 CTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTCGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTCAATCTA
* * * * * * *
4724117 TTCCACTGTAATCTCAGGGAAATAGGA--CCT-GGTGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
* * * *** *
4724158 CTCTACTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTCTAATCCA
1 CTCCACTGTAATC-TCAGGGAGATAAGATTACTAGCTTC-AATCTA
* * *
4724202 CTCCACTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
* * * ** *
4724246 CTCCGCTGTAATCTCAGGGAGATAAGATTTGA-AATTCTTCGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGA-TT-ACTA-GCTTCAATCTA
* * * * * *
4724292 TTCCACTGTAATCTCAGGGAAATAAGA--CCT-GGTGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
* * * * * * **
4724333 CTCTACTGTAA-CTTCAGAGAGATAAGA-TCCTTGGTTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATTAC-TAGCTTCAATCTA
* * * *
4724377 CTCCACTGTAACCCCAGGGAGATAGGATTACCAGCTTCAATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
*
4724421 CTCCGCTGTAATCTCAGGGAGATAAGAT
1 CTCCACTGTAATCTCAGGGAGATAAGAT
4724449 CTGAAATTCT
Statistics
Matches: 279, Mismatches: 79, Indels: 40
0.70 0.20 0.10
Matches are distributed among these distances:
40 2 0.01
41 53 0.19
42 5 0.02
43 3 0.01
44 137 0.49
45 15 0.05
46 64 0.23
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
Found at i:4724185 original size:87 final size:87
Alignment explanation
Indices: 4724066--4724461 Score: 306
Period size: 88 Copynumber: 4.5 Consensus size: 87
4724056 ACTAGCTTCA
* *
4724066 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCT
1 ATCTACTCCACTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCT
4724131 CAGGGAAATAGGACCTGGTGCG
66 CAGGGAAATAGGACCTGGTGCG
* ** ** ***
4724153 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTC-T-AATCCACTCCACTGTAAT
1 ATCTACTCCACTGTAATC-TCAGAGAGATAAGAT-CTGAAATTCTTCGGTCTGTTCCACTGTAAT
* * * * * *
4724214 CTCAGAGAGATAGGATTACTAGCTTCA
64 CTCAGGGAAATAGGA--CCT-GGTGCG
* * * *
4724241 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAATTCTTCGGTCTGTTCCACTGTAATCT
1 ATCTACTCCACTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCT
*
4724306 CAGGGAAATAAGACCTGGTGCG
66 CAGGGAAATAGGACCTGGTGCG
* * ** * *
4724328 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTG--GTT-TT-AATCCGCTCCACTGTAA
1 ATCTACTCCACTGTAATC-TCAGAGAGATAAGAT-C-TGAAATTCTTCGGTCTGTTCCACTGTAA
* * * * * * *
4724388 CCCCAGGGAGATAGGATTACCAGCTTCA
63 TCTCAGGGAAATAGG---ACCTGGTGCG
* *
4724416 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTACTCCACTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCG
4724462 ATCTACTTTG
Statistics
Matches: 231, Mismatches: 58, Indels: 37
0.71 0.18 0.11
Matches are distributed among these distances:
85 50 0.22
86 7 0.03
87 68 0.29
88 74 0.32
89 7 0.03
90 25 0.11
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (87 bp):
ATCTACTCCACTGTAATCTCAGAGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCT
CAGGGAAATAGGACCTGGTGCG
Found at i:4724185 original size:175 final size:175
Alignment explanation
Indices: 4723976--4724461 Score: 846
Period size: 175 Copynumber: 2.8 Consensus size: 175
4723966 AGATCTGAAA
* * *
4723976 CGATCTACTCTACTGTAACCTCAGAGAAATAAGATCCTTTATTTTAATCCGCTCCACTATAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
4724041 CAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
*
4724106 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAGGACCTGGTG
131 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
* *
4724151 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTCTAATCCACTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
* * *
4724216 CAGAGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAAT
66 CAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
4724281 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
131 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
** * *
4724326 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAATCCGCTCCACTGTAACCC
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
*
4724391 CAGGGAGATAGGATTACCAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
4724456 TCTTCG
131 TCTTCG
4724462 ATCTACTTTG
Statistics
Matches: 292, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 292 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (175 bp):
CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
CAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
Found at i:4737150 original size:9 final size:10
Alignment explanation
Indices: 4737139--4737200 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 10
4737129 GGTATAAATA
4737139 AATAAATAA-
1 AATAAATAAT
*
4737148 AATGCAATAAT
1 AAT-AAATAAT
4737159 AATAATGATAAT
1 AATAA--ATAAT
4737171 AAT-AATAAT
1 AATAAATAAT
4737180 AATAAATTCAAT
1 AATAAA-T-AAT
4737192 AATAAATAA
1 AATAAATAA
4737201 AATGACAGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
9 11 0.25
10 10 0.23
11 6 0.14
12 17 0.39
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (10 bp):
AATAAATAAT
Found at i:4737196 original size:3 final size:3
Alignment explanation
Indices: 4737153--4737184 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4737143 AATAAAATGC
*
4737153 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4737185 ATTCAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4740631 original size:21 final size:21
Alignment explanation
Indices: 4740583--4740623 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4740573 ATACGTGTCT
*
4740583 ATATATATATTTATATATTAAA
1 ATATGTATA-TTATATATTAAA
4740605 ATATGTATATTATATATTA
1 ATATGTATATTATATATTA
4740624 TTTTATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATGTATATTATATATTAAA
Found at i:4752830 original size:46 final size:44
Alignment explanation
Indices: 4752763--4753348 Score: 256
Period size: 46 Copynumber: 13.7 Consensus size: 44
4752753 ATTATACAGG
* *
4752763 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAAAAGTGCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCG-AAAA-TGCAGA
* *
4752809 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAAATGCA-GA
* * *
4752852 TCCTATCTCCCTGA-AGTTACAGCGGAGCGGAT--TAAA-G--GA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAAATGCAGA
* * * * *
4752891 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG--CAT-CAGG
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAAATGCAGA
* * * * *
4752932 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAA-AA-TGCAGA
* ** * * *
4752978 TCTTATCTCCCTGAGGTTACAATGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAA-AA-TGCAGA
* * * *
4753024 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G-AGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAA--AATGCAGA
* *
4753068 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAAATGCA-GA
* * *
4753111 TCCTATCTCCCTGA-AGTTACAGTGGAGCAGAT--TAAA-G--GA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAAATGCAGA
* * * * **
4753150 TCTTATCTCTCTGA-AGTTATAGCAGAGTAGATCG--CGT-C-GA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAAATGCAGA
* * * *
4753190 GTCTTATTTCCCTGAGATTACAGTGGAACAGATTG--AA-G--GA
1 -TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAAATGCAGA
* * * **
4753230 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG--CGT-CA-A
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAAATGCAGA
* * * * * * *
4753270 GTCATATTTCCCTGAGGTTACAGTGGAACAGACCGAAGAATTTCAGA
1 -TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAA-AA-TGCAGA
4753317 TCTTATCTCCCTGAGATTACAGCGGAGCAGAT
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGAT
4753349 TGAAGCCAGT
Statistics
Matches: 417, Mismatches: 85, Indels: 76
0.72 0.15 0.13
Matches are distributed among these distances:
38 1 0.00
39 81 0.19
40 5 0.01
41 81 0.19
42 7 0.02
43 58 0.14
44 37 0.09
45 5 0.01
46 140 0.34
47 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAAATGCAGA
Found at i:4753143 original size:87 final size:85
Alignment explanation
Indices: 4752766--4753353 Score: 365
Period size: 80 Copynumber: 6.9 Consensus size: 85
4752756 ATACAGGTCT
** *
4752766 TATCTCCCTG-AGATTACAGTGGAGCAGACCGAAAAAGTGCAGATCTTATCTCCCTGAGATTACA
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTG---AAGAG-AGATCTTATCTCCCTGAGATTACA
*
4752830 GCGGAGCAGATCGAAGACACTATCC
61 GCGGAGCAGATCGAAGACACGATCC
* * * *
4752855 TATCTCCCTGAAGTTACAGCGGAGCGGATT-AA-AG-GATCTTATCTCTCTGA-AGTTACAGCAG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAGAGATCTTATCTCCCTGAGA-TTACAGCGG
* * * * *
4752916 AGTAGATCGCA-TCA-GGTCT
65 AGCAGATCGAAGACACGATCC
* * ** * * *
4752935 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG-A---GAGATCTTATCTCCCTGAGATTACAG
* * * *
4753000 TGGAGTAGACCGAAGA-ATTTCAGATCT
62 CGGAGCAGATCGAAGACA---C-GATCC
*
4753027 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG--AGAGATCTTATCTCCCTGAGATTACAGCG
*
4753092 GAGCAGATCGAAGACACTATCC
64 GAGCAGATCGAAGACACGATCC
* * *
4753114 TATCTCCCTGAAGTTACAGTGGAGCAGATT-AA-AG-GATCTTATCTCTCTGA-AGTTATAGCAG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAGAGATCTTATCTCCCTGAGA-TTACAGCGG
* * * *
4753175 AGTAGATCG-CG--TCGAGTCT
65 AGCAGATCGAAGACACGA-TCC
* * * *
4753194 TATTTCCCTG-AGATTACAGTGGAACAGATTG-A-AG-GATCTTATCTCTCTGA-AGTTACAGCA
1 TATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGAGAGATCTTATCTCCCTGAGA-TTACAGCG
* * * * *
4753254 GAGTAGATCG-CGTCAAG-TCA
64 GAGCAGATCGAAGACACGATCC
* * * ** *
4753274 TATTTCCCTGAGGTTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG-A---GAGATCTTATCTCCCTGAGATTACAG
*
4753339 CGGAGCAGATTGAAG
62 CGGAGCAGATCGAAG
4753354 CCAGTAATTC
Statistics
Matches: 400, Mismatches: 65, Indels: 69
0.75 0.12 0.13
Matches are distributed among these distances:
79 4 0.01
80 121 0.30
81 9 0.02
82 63 0.16
83 4 0.01
84 1 0.00
85 2 0.00
86 2 0.00
87 93 0.23
88 3 0.01
89 23 0.06
90 38 0.09
91 1 0.00
92 35 0.09
93 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (85 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAGAGATCTTATCTCCCTGAGATTACAGCGGA
GCAGATCGAAGACACGATCC
Found at i:4755143 original size:21 final size:21
Alignment explanation
Indices: 4755096--4755135 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4755086 ATACGTGTCT
*
4755096 ATATATATATTATATATTAAA
1 ATATGTATATTATATATTAAA
4755117 ATATGTATATTATATATTA
1 ATATGTATATTATATATTA
4755136 TTTTATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
ATATGTATATTATATATTAAA
Found at i:4762082 original size:21 final size:21
Alignment explanation
Indices: 4762056--4762096 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4762046 AGACGAGCAA
* *
4762056 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4762077 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4762097 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4763649 original size:20 final size:20
Alignment explanation
Indices: 4763624--4763664 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4763614 GTTGTTCAAA
4763624 GTCACATAAGTTTATATTGT
1 GTCACATAAGTTTATATTGT
4763644 GTCACATAAGTTTATATTGT
1 GTCACATAAGTTTATATTGT
4763664 G
1 G
4763665 ACAGTCAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (20 bp):
GTCACATAAGTTTATATTGT
Found at i:4766446 original size:11 final size:11
Alignment explanation
Indices: 4766419--4766461 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
4766409 TGACCTTTCC
4766419 AAGGTATGGG-
1 AAGGTATGGGA
*
4766429 TAGGTATGGGA
1 AAGGTATGGGA
*
4766440 AAGGTATGGGC
1 AAGGTATGGGA
4766451 AAGGTATGGGA
1 AAGGTATGGGA
4766462 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:4766458 original size:22 final size:21
Alignment explanation
Indices: 4766419--4766461 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4766409 TGACCTTTCC
*
4766419 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
4766440 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
4766462 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:4770525 original size:18 final size:18
Alignment explanation
Indices: 4770502--4770590 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
4770492 CCCAACTACT
*
4770502 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
4770520 GTATACGTGAATAGTAAT
1 GTATACGTGAATAGTACC
*
4770538 GTATACATGAATAGTACC
1 GTATACGTGAATAGTACC
***
4770556 GTATACGTGAATAGTGTT
1 GTATACGTGAATAGTACC
4770574 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
4770591 GTGTGAAAGA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:4770554 original size:36 final size:36
Alignment explanation
Indices: 4770501--4770590 Score: 144
Period size: 36 Copynumber: 2.5 Consensus size: 36
4770491 TCCCAACTAC
*
4770501 TGTATACGTGAACAGTACCGTATACGTGAATAGTAA
1 TGTATACGTGAATAGTACCGTATACGTGAATAGTAA
* **
4770537 TGTATACATGAATAGTACCGTATACGTGAATAGTGT
1 TGTATACGTGAATAGTACCGTATACGTGAATAGTAA
4770573 TGTATACGTGAATAGTAC
1 TGTATACGTGAATAGTAC
4770591 GTGTGAAAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (36 bp):
TGTATACGTGAATAGTACCGTATACGTGAATAGTAA
Found at i:4771095 original size:11 final size:11
Alignment explanation
Indices: 4771066--4771108 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
4771056 TGACCTTTCC
4771066 AAGGTATGGG-
1 AAGGTATGGGA
* *
4771076 TATGTATGGGA
1 AAGGTATGGGA
*
4771087 AAGGTATGGGC
1 AAGGTATGGGA
4771098 AAGGTATGGGA
1 AAGGTATGGGA
4771109 TATATTCTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.30, C:0.02, G:0.44, T:0.23
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:4791583 original size:21 final size:22
Alignment explanation
Indices: 4791554--4791600 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4791544 CAGAAGGAGT
*
4791554 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4791576 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4791597 GAGT
1 GAGT
4791601 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:4802875 original size:34 final size:35
Alignment explanation
Indices: 4802831--4802897 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
4802821 CAGTAAAATA
*
4802831 TTTTCCGTAAAATGA-TTTCTGGAAAAGATTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAAGATTTTAC
* *
4802865 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAAGATTTT
4802898 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAAGATTTTAC
Found at i:4807950 original size:134 final size:133
Alignment explanation
Indices: 4807803--4808072 Score: 522
Period size: 134 Copynumber: 2.0 Consensus size: 133
4807793 CAAATTGTTC
4807803 ATACATTTTTATAATATATATTTACGTACATACTTTTCATTTATTATAAATATATACTTTTTATA
1 ATACATTTTTATAATATATATTTACGTACATACTTTTCATTTATTATAAATATATACTTTTTATA
4807868 TTTTATATTTCATATTTTTATATATACATAGAGATAGATATAAATATACACATTTTAATTCATAT
66 TTTTATATTTCATA-TTTTATATATACATAGAGATAGATATAAATATACACATTTTAATTCATAT
4807933 ATAT
130 ATAT
*
4807937 ATACATTTTTATAATATATATTTATGTACATACTTTTCATTTATTATAAATATATACTTTTTATA
1 ATACATTTTTATAATATATATTTACGTACATACTTTTCATTTATTATAAATATATACTTTTTATA
4808002 TTTTATATTTCATATTTTATATATACATAGAGATAGATATAAATATACACATTTTAATTCATATA
66 TTTTATATTTCATATTTTATATATACATAGAGATAGATATAAATATACACATTTTAATTCATATA
4808067 TAT
131 TAT
4808070 ATA
1 ATA
4808073 TGTGTACTTG
Statistics
Matches: 135, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
133 57 0.42
134 78 0.58
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (133 bp):
ATACATTTTTATAATATATATTTACGTACATACTTTTCATTTATTATAAATATATACTTTTTATA
TTTTATATTTCATATTTTATATATACATAGAGATAGATATAAATATACACATTTTAATTCATATA
TAT
Found at i:4808128 original size:133 final size:132
Alignment explanation
Indices: 4807812--4808115 Score: 409
Period size: 134 Copynumber: 2.3 Consensus size: 132
4807802 CATACATTTT
* * * *
4807812 TATAATATATATTTACGTACATACTTTTCATTTATTATAAATATATACTTTTTATATTTTATATT
1 TATAATACATACTTA-GAACATACTTTTCATTTATCATAAATATATACTTTTTATATTTTATATT
4807877 TCATATTTTTATATATACATAGAGATAGATATAAATATACACATTTTAATTCATATATATATACA
65 TCATATTTTTATATATACATAGAGATAGATATAAATATACACATTTTAATTCATATATATATA-A
* *
4807942 TTTT
129 TGTG
* * * *
4807946 TATAATATATATTTATGTACATACTTTTCATTTATTATAAATATATACTTTTTATATTTTATATT
1 TATAATACATACTTA-GAACATACTTTTCATTTATCATAAATATATACTTTTTATATTTTATATT
4808011 TCATA-TTTTATATATACATAGAGATAGATATAAATATACACATTTTAATTCATATATATAT-AT
65 TCATATTTTTATATATACATAGAGATAGATATAAATATACACATTTTAATTCATATATATATAAT
4808074 GTG
130 GTG
** * *
4808077 TACTTGTACATACTTA-AATATATTTTTCATATT-TCATAA
1 TA-TAATACATACTTAGAACATACTTTTCAT-TTATCATAA
4808116 TTCTTATATA
Statistics
Matches: 157, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
130 16 0.10
131 7 0.04
132 9 0.06
133 56 0.36
134 69 0.44
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.50
Consensus pattern (132 bp):
TATAATACATACTTAGAACATACTTTTCATTTATCATAAATATATACTTTTTATATTTTATATTT
CATATTTTTATATATACATAGAGATAGATATAAATATACACATTTTAATTCATATATATATAATG
TG
Found at i:4808194 original size:22 final size:23
Alignment explanation
Indices: 4808169--4808228 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
4808159 ACATACTTAT
*
4808169 ATATATTCTTTATATTCTCA-AA
1 ATATATTCTTTATATTCACATAA
* *
4808191 ATAT-TTTTTTATAATTCACATAC
1 ATATATTCTTTAT-ATTCACATAA
4808214 ATATATTC-TTATATT
1 ATATATTCTTTATATT
4808229 ATTACAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 7 0.23
22 13 0.42
23 9 0.29
24 2 0.06
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATATTCTTTATATTCACATAA
Found at i:4808225 original size:23 final size:23
Alignment explanation
Indices: 4808169--4808235 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
4808159 ACATACTTAT
*
4808169 ATATATTCTT-TATATTCTCAAA
1 ATATATTCTTATATATTCACAAA
* * *
4808191 ATATTTTTTTATA-ATTCACATAC
1 ATATATTCTTATATATTCACA-AA
4808214 ATATATTCTTATATTATT-ACAA
1 ATATATTCTTATA-TATTCACAA
4808236 TTTGTAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
22 14 0.40
23 15 0.43
24 3 0.09
25 3 0.09
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATATTCTTATATATTCACAAA
Found at i:4808304 original size:24 final size:22
Alignment explanation
Indices: 4808260--4808304 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
4808250 TACACACACA
* *
4808260 TACTTACATTTTTATTTTATAG
1 TACTTACATTTTTAATATATAG
4808282 TACTTACAGATTTTTAATATATA
1 TACTTAC--ATTTTTAATATATA
4808305 TATTTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.53
Consensus pattern (22 bp):
TACTTACATTTTTAATATATAG
Found at i:4808321 original size:26 final size:26
Alignment explanation
Indices: 4808292--4808350 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
4808282 TACTTACAGA
4808292 TTTT-TAATATATATATTTATATACAT
1 TTTTATAATATATA-ATTTATATACAT
* * *
4808318 TTTTATACTCTATAATTTATATGCAT
1 TTTTATAATATATAATTTATATACAT
4808344 TTCTTAT
1 TT-TTAT
4808351 TTTCATAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTTATAATATATAATTTATATACAT
Found at i:4808823 original size:107 final size:106
Alignment explanation
Indices: 4808637--4808955 Score: 446
Period size: 108 Copynumber: 3.0 Consensus size: 106
4808627 GGTTTTTTCT
* * * *
4808637 AAATAAGGCAATATTTTGCGTTTGGAAAATTGA-GAAAGCGTGTCCTAACGTGCTGGGTTTCGAT
1 AAATAAGGCAATATCTCGCGTTT-GAAAATCGAGGAAA-CGTGCCCTAACGTGCTGGGTTTCGAT
4808701 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
64 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
* *
4808744 AAATAAGGCAATATCTCGCGTTTGAAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCAATT
1 AAATAAGGCAATATCTCGCGTTTG-AAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATT
*
4808809 TCTCGCTT-GACCAAATAGCCAAATATCCTTTTTAAAACGTTTA
65 TCTCG-TTCGACCAAATAGCCAAATATCCTTTTT-AAACTTTTA
* *
4808852 AAATAAGGCAATA-CTTCACGTTTCGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGTT
1 AAATAAGGCAATATC-TCGCGTTT-GAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
* * *
4808916 TTCTCGTTCGACTAAATAGCCAAATATCCTCTTAAAACTT
64 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTT
4808956 CAAAGTATGG
Statistics
Matches: 190, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
106 1 0.01
107 90 0.47
108 98 0.52
109 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (106 bp):
AAATAAGGCAATATCTCGCGTTTGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGATTT
CTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTA
Found at i:4817777 original size:26 final size:26
Alignment explanation
Indices: 4817736--4817802 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 26
4817726 AAATAAAAAA
*
4817736 TTATCAAAATGTTATAATTTTT-TTAT
1 TTATCAAAAT-ATATAATTTTTATTAT
*
4817762 TTATCAAAAATATATATTTTTTATTAT
1 TTATC-AAAATATATAATTTTTATTAT
4817789 TTATCAAAATATAT
1 TTATCAAAATATAT
4817803 CAAAAATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 23 0.62
27 14 0.38
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (26 bp):
TTATCAAAATATATAATTTTTATTAT
Found at i:4817917 original size:27 final size:27
Alignment explanation
Indices: 4817879--4817931 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
4817869 TGACGGCACC
4817879 TGCCAAAGCCATTGGCGGCACCAATGG
1 TGCCAAAGCCATTGGCGGCACCAATGG
4817906 TGCCAATA-CCATTGGCGGCACCAATG
1 TGCCAA-AGCCATTGGCGGCACCAATG
4817932 TATATTGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.17
Consensus pattern (27 bp):
TGCCAAAGCCATTGGCGGCACCAATGG
Found at i:4817980 original size:4 final size:4
Alignment explanation
Indices: 4817971--4818089 Score: 86
Period size: 4 Copynumber: 29.0 Consensus size: 4
4817961 GAAGGAGAGG
* * *
4817971 GAAA GAAA GAAA GAAA GAAA GGAAG GAGAG GAAA GAAA G-AA -AAA GAAG
1 GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA GAAA
*
4818019 GAAA GAAAA GGAAA TG--A GAAGA GAAA AAAA GAAA GAAA GGAGAA GAAA
1 GAAA G-AAA -GAAA -GAAA GAA-A GAAA GAAA GAAA GAAA -GA-AA GAAA
*
4818067 -AAA GAAA GAAA GAAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA
4818090 AGGAAAGGAG
Statistics
Matches: 94, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
2 1 0.01
3 8 0.09
4 60 0.64
5 22 0.23
6 3 0.03
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:4817994 original size:21 final size:21
Alignment explanation
Indices: 4817970--4818089 Score: 95
Period size: 22 Copynumber: 5.6 Consensus size: 21
4817960 AGAAGGAGAG
4817970 GGAAAGAAAGAAAGAAAGAAA
1 GGAAAGAAAGAAAGAAAGAAA
* *
4817991 GGAAGGAGAGGAAAGAAAGAAAA
1 GGAAAGA-AAGAAAGAAAG-AAA
* * *
4818014 AGAAGGAAAG-AA-AAGGAAA
1 GGAAAGAAAGAAAGAAAGAAA
*
4818033 TGAGAAGAGAAAAAAAGAAAGAAA
1 -G-GAA-AGAAAGAAAGAAAGAAA
4818057 GGAGAAGAAA-AAAGAAAGAAA
1 GGA-AAGAAAGAAAGAAAGAAA
*
4818078 -GAAGGAAAGAAA
1 GGAAAGAAAGAAA
4818090 AGGAAAGGAG
Statistics
Matches: 80, Mismatches: 10, Indels: 19
0.73 0.09 0.17
Matches are distributed among these distances:
19 8 0.10
20 8 0.10
21 22 0.28
22 23 0.29
23 13 0.16
24 6 0.08
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (21 bp):
GGAAAGAAAGAAAGAAAGAAA
Found at i:4818006 original size:18 final size:19
Alignment explanation
Indices: 4817976--4818095 Score: 75
Period size: 21 Copynumber: 6.1 Consensus size: 19
4817966 AGAGGGAAAG
*
4817976 AAAGAAAGAAAGAAAGGAA
1 AAAGAAGGAAAGAAAGGAA
**
4817995 GGAG-AGGAAAGAAA-GAA
1 AAAGAAGGAAAGAAAGGAA
4818012 AAAGAAGGAAAGAAAAGGAA
1 AAAGAAGGAAAG-AAAGGAA
* * *
4818032 ATGAGAAGAGAAAAAAAGAAA
1 A-AAGAAG-GAAAGAAAGGAA
* *
4818053 GAAAGGAGAAGAAA-AAAGAAA
1 -AAA-GA-AGGAAAGAAAGGAA
4818074 GAAAGAAGGAAAGAAAAGGAA
1 -AAAGAAGGAAAG-AAAGGAA
4818095 A
1 A
4818096 GGAGAAGAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
17 5 0.06
18 16 0.20
19 10 0.13
20 7 0.09
21 29 0.37
22 11 0.14
23 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (19 bp):
AAAGAAGGAAAGAAAGGAA
Found at i:4818094 original size:63 final size:62
Alignment explanation
Indices: 4817974--4818111 Score: 208
Period size: 63 Copynumber: 2.2 Consensus size: 62
4817964 GGAGAGGGAA
* * * *
4817974 AGAA-AGAAAGAAAGAAAGGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAATG
1 AGAAGAGAAAAAAAGAAAGAAAGGAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
4818035 AGAAGAGAAAAAAAGAAAGAAAGGAGAAGAAA-AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGG
1 AGAAGAGAAAAAAAGAAAGAAAGGAGAAGAAAGAAAG-AA-AAAGAAGGAAAGAAAAGGAAAGG
4818098 AGAAGAGAAAAAAA
1 AGAAGAGAAAAAAA
4818112 AAGAAGAAGA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
61 8 0.11
62 26 0.37
63 36 0.51
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (62 bp):
AGAAGAGAAAAAAAGAAAGAAAGGAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
Found at i:4818096 original size:18 final size:18
Alignment explanation
Indices: 4817975--4818096 Score: 72
Period size: 18 Copynumber: 6.3 Consensus size: 18
4817965 GAGAGGGAAA
*
4817975 GAAAGAAAGAAAG-AAAG
1 GAAAGAAGGAAAGAAAAG
*
4817992 GAAGGAGAGGAAAG-AAAG
1 GAAAGA-AGGAAAGAAAAG
*
4818010 AAAAAGAAGGAAAGAAAAG
1 -GAAAGAAGGAAAGAAAAG
4818029 GAAATGAGAAGAGAAA-AAAA-
1 G-AA--AGAAG-GAAAGAAAAG
4818049 GAAAGAAAGGAGAAGAAAAAAG
1 GAAAG-AAGGA-AAG--AAAAG
4818071 AAAGAAAGAAGGAAAGAAAAG
1 ---GAAAGAAGGAAAGAAAAG
4818092 GAAAG
1 GAAAG
4818097 GAGAAGAGAA
Statistics
Matches: 84, Mismatches: 5, Indels: 31
0.70 0.04 0.26
Matches are distributed among these distances:
17 9 0.11
18 27 0.32
19 12 0.14
20 1 0.01
21 18 0.21
22 4 0.05
23 3 0.04
24 5 0.06
25 5 0.06
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (18 bp):
GAAAGAAGGAAAGAAAAG
Found at i:4818096 original size:39 final size:37
Alignment explanation
Indices: 4818046--4818120 Score: 107
Period size: 39 Copynumber: 2.0 Consensus size: 37
4818036 GAAGAGAAAA
*
4818046 AAAGAAAGAAAGGAGAAGA-AAAAAGAAAGAAAGAAGG
1 AAAGAAAGAAAGGAGAAGAGAAAAAAAAAG-AAGAAGG
4818083 AAAGAAAAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAG
1 AAAG-AAA-GAAAGGAGAAGAGAAAAAAAAAGAAGAAG
4818121 AGGGAAGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 4 0.12
38 3 0.09
39 18 0.53
40 9 0.26
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (37 bp):
AAAGAAAGAAAGGAGAAGAGAAAAAAAAAGAAGAAGG
Found at i:4818106 original size:18 final size:18
Alignment explanation
Indices: 4818050--4818122 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
4818040 AGAAAAAAAG
*
4818050 AAAGAAAGGAGAAGA-AA
1 AAAGAAAGAAGAAGAGAA
4818067 AAAGAAAGAAAGAAGGAAAGAA
1 AAAGAAAG-AAGAA-G--AGAA
* *
4818089 AAGGAAAGGAGAAGAGAA
1 AAAGAAAGAAGAAGAGAA
*
4818107 AAAAAAAGAAGAAGAG
1 AAAGAAAGAAGAAGAG
4818123 GGAAGGAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
17 8 0.18
18 21 0.47
19 1 0.02
20 1 0.02
21 5 0.11
22 9 0.20
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAGAAGAGAA
Found at i:4823637 original size:18 final size:18
Alignment explanation
Indices: 4823614--4823658 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
4823604 ATCCCAATGA
* *
4823614 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTATTAT
*
4823632 TCGCCAGCACCTTATTAT
1 TCGCCACCACCTTATTAT
*
4823650 TCACCACCA
1 TCGCCACCA
4823659 ACCATGTCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.44, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACCTTATTAT
Found at i:4824259 original size:15 final size:12
Alignment explanation
Indices: 4824216--4824252 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
4824206 TTACTTAAAA
* *
4824216 AAAATTATACTC
1 AAAATAATACAC
4824228 AAAATAATACAC
1 AAAATAATACAC
4824240 AAAATAATACAC
1 AAAATAATACAC
4824252 A
1 A
4824253 CTAAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAATAATACAC
Found at i:4824446 original size:3 final size:3
Alignment explanation
Indices: 4824438--4824469 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4824428 TCTTAATACT
4824438 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
4824470 TAATAATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:4824557 original size:19 final size:21
Alignment explanation
Indices: 4824533--4824571 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4824523 ACTAAAACAA
*
4824533 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
4824552 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
4824572 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:4824612 original size:10 final size:11
Alignment explanation
Indices: 4824595--4824623 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
4824585 TAAAAAATAC
4824595 CTTCTTTTTCT
1 CTTCTTTTTCT
4824606 C-TCTTTTTCT
1 CTTCTTTTTCT
4824616 CTTCTTTT
1 CTTCTTTT
4824624 CCGCAGCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:4824752 original size:27 final size:27
Alignment explanation
Indices: 4824706--4824806 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
4824696 AATACGAGTA
4824706 GTGCCGCCAAT--CAATATGGCACCATTG
1 GTGCCGCCAATGGC-AT-TGGCACCATTG
4824733 GTGCCGCCAATGGCATTGGCACCATTG
1 GTGCCGCCAATGGCATTGGCACCATTG
* ** *
4824760 GTGTCGCCAATGGTTTTGGCACCTTTG
1 GTGCCGCCAATGGCATTGGCACCATTG
**
4824787 GTGCCGCCAATCCCATTGGC
1 GTGCCGCCAATGGCATTGGC
4824807 GTGACCAAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 60 0.95
28 2 0.03
29 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.26
Consensus pattern (27 bp):
GTGCCGCCAATGGCATTGGCACCATTG
Found at i:4824909 original size:28 final size:27
Alignment explanation
Indices: 4824871--4824939 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
4824861 TTTTTGTTTT
4824871 TATATATTTTGGTAAATAATAAAAAATA
1 TATATATTTTGGTAAATAA-AAAAAATA
*
4824899 TATATTTTTTGGTAAAT-AAAAAAAT-
1 TATATATTTTGGTAAATAAAAAAAATA
*
4824924 TATAGCATTTTGGTAA
1 TATA-TATTTTGGTAA
4824940 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 4 0.11
26 16 0.43
27 1 0.03
28 16 0.43
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.42
Consensus pattern (27 bp):
TATATATTTTGGTAAATAAAAAAAATA
Found at i:4825381 original size:27 final size:27
Alignment explanation
Indices: 4825351--4825425 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
4825341 CCTATTTGGT
* *
4825351 AGGCGCGACTAGTTGAGCCTATCTTAG
1 AGGCGCGACTAGTTGAGCCTATCTGAC
**
4825378 AGGCGAAACTAGTTGAGCCTATCTGAC
1 AGGCGCGACTAGTTGAGCCTATCTGAC
** *
4825405 AGGAACGACTAGTTGTGCCTA
1 AGGCGCGACTAGTTGAGCCTA
4825426 ACTCAGAAGC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (27 bp):
AGGCGCGACTAGTTGAGCCTATCTGAC
Found at i:4826250 original size:27 final size:27
Alignment explanation
Indices: 4826212--4826276 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
4826202 ACCATTCACG
*
4826212 CCTACCTGACAGGCTCGATTAGTCGCT
1 CCTATCTGACAGGCTCGATTAGTCGCT
*
4826239 CCTATCTGACAGGCTTGATTAGTCGCT
1 CCTATCTGACAGGCTCGATTAGTCGCT
*
4826266 CCTGTCTGACA
1 CCTATCTGACA
4826277 AGCGCGACCG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (27 bp):
CCTATCTGACAGGCTCGATTAGTCGCT
Found at i:4830755 original size:9 final size:9
Alignment explanation
Indices: 4830741--4830780 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
4830731 AAAACTGAGT
4830741 AAAAGAAAA
1 AAAAGAAAA
4830750 AAAAGAAAA
1 AAAAGAAAA
4830759 AAAAGAAAA
1 AAAAGAAAA
4830768 AAAA-AAAGA
1 AAAAGAAA-A
4830777 AAAA
1 AAAA
4830781 CACCCTCTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 3 0.10
9 27 0.90
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:4832066 original size:38 final size:38
Alignment explanation
Indices: 4832017--4832089 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
4832007 GATAATTCAC
*
4832017 TATGTGAAATTCGAATGATTACAAGAGAAGTAGACTAT
1 TATGTGAAATTCGAATGATTACAAGAAAAGTAGACTAT
*
4832055 TATGTGGAATTCGAATGATTACAAGAAAAGTAGAC
1 TATGTGAAATTCGAATGATTACAAGAAAAGTAGAC
4832090 CATGTCTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.27
Consensus pattern (38 bp):
TATGTGAAATTCGAATGATTACAAGAAAAGTAGACTAT
Found at i:4832520 original size:17 final size:17
Alignment explanation
Indices: 4832485--4832516 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4832475 TAATACATAA
4832485 AATATTATATTTAAAAT
1 AATATTATATTTAAAAT
4832502 AATA-TATATTTAAAA
1 AATATTATATTTAAAA
4832517 ATAAACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTATATTTAAAAT
Found at i:4839992 original size:30 final size:30
Alignment explanation
Indices: 4839935--4839993 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
4839925 CATTTATGGG
* **
4839935 TATTAATTAATTAAAATTTATTTATATTAT
1 TATTAATTAATTAAAATATATAAATATTAT
4839965 TATTAAATT-ATTAAAATATATAAATATTA
1 TATT-AATTAATTAAAATATATAAATATTA
4839994 ATAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TATTAATTAATTAAAATATATAAATATTAT
Found at i:4840388 original size:9 final size:9
Alignment explanation
Indices: 4840369--4840405 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
4840359 TGAGTTTTCG
*
4840369 AATTTGAAT
1 AATTCGAAT
*
4840378 AACTCGAAT
1 AATTCGAAT
4840387 AATTCGAAT
1 AATTCGAAT
4840396 AATTCGAAT
1 AATTCGAAT
4840405 A
1 A
4840406 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:4840954 original size:17 final size:17
Alignment explanation
Indices: 4840900--4840980 Score: 69
Period size: 17 Copynumber: 4.6 Consensus size: 17
4840890 TTATATCTAC
4840900 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
* *
4840917 TAAATTTCACATT-TTATAT
1 T--ATTT-ATATTATTAAAT
4840936 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
*
4840953 TATTTAGTCA-TATTGAA-
1 TATTTA-T-ATTATTAAAT
4840970 TATTTATATTA
1 TATTTATATTA
4840981 AAATTAAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
15 1 0.02
16 7 0.13
17 22 0.42
18 7 0.13
19 11 0.21
20 4 0.08
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTTATATTATTAAAT
Found at i:4842436 original size:15 final size:15
Alignment explanation
Indices: 4842416--4842449 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4842406 TAATAAAATC
4842416 AATATAAAAATTAAA
1 AATATAAAAATTAAA
* *
4842431 AATATATATATTAAA
1 AATATAAAAATTAAA
4842446 AATA
1 AATA
4842450 ATACTTTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATATAAAAATTAAA
Found at i:4845280 original size:19 final size:21
Alignment explanation
Indices: 4845256--4845296 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
4845246 AGATAAACTA
4845256 ATAATAACCA-AAA-ACAAAG
1 ATAATAACCATAAACACAAAG
*
4845275 ATAATACCCATAAACACAAAG
1 ATAATAACCATAAACACAAAG
4845296 A
1 A
4845297 ATCAACAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.63, C:0.20, G:0.05, T:0.12
Consensus pattern (21 bp):
ATAATAACCATAAACACAAAG
Found at i:4851733 original size:23 final size:23
Alignment explanation
Indices: 4851683--4851733 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
4851673 ATAAAGAATG
*
4851683 ATTAATCTAAATTTAAACTTGAA
1 ATTAGTCTAAATTTAAACTTGAA
4851706 ATTAGTCTAAATTTAAACTTGAA
1 ATTAGTCTAAATTTAAACTTGAA
4851729 ATTAG
1 ATTAG
4851734 AAAGATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (23 bp):
ATTAGTCTAAATTTAAACTTGAA
Found at i:4851768 original size:18 final size:19
Alignment explanation
Indices: 4851738--4851774 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
4851728 AATTAGAAAG
4851738 ATAAATAAAAAAA-CTCTT
1 ATAAATAAAAAAATCTCTT
4851756 ATAAA-AAATAAAATCTCTT
1 ATAAATAAA-AAAATCTCTT
4851775 CAAAATAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 9 0.53
19 5 0.29
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAAATAAAAAAATCTCTT
Found at i:4853413 original size:5 final size:5
Alignment explanation
Indices: 4853405--4853431 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4853395 TAAGATAAGT
4853405 ATTAA ATTAA ATTAA ATTAA ATTAA AT
1 ATTAA ATTAA ATTAA ATTAA ATTAA AT
4853432 ATTAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:4853435 original size:22 final size:20
Alignment explanation
Indices: 4853410--4853455 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
4853400 TAAGTATTAA
*
4853410 ATTAAATTAAATTAAATTAAAT
1 ATTAAATT-AATTAAAAT-AAT
*
4853432 ATTAAATTTATTAAAATAAT
1 ATTAAATTAATTAAAATAAT
4853452 ATTA
1 ATTA
4853456 TTTTTGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 7 0.32
22 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTAAATTAATTAAAATAAT
Found at i:4853449 original size:17 final size:17
Alignment explanation
Indices: 4853405--4853439 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
4853395 TAAGATAAGT
4853405 ATTAAATT-AA-ATTAA
1 ATTAAATTAAATATTAA
4853420 ATTAAATTAAATATTAA
1 ATTAAATTAAATATTAA
4853437 ATT
1 ATT
4853440 TATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 2 0.11
17 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAAATTAAATATTAA
Found at i:4853455 original size:27 final size:27
Alignment explanation
Indices: 4853404--4853455 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4853394 TTAAGATAAG
*
4853404 TATTAAATTAAATTAAATTAAATTAAA
1 TATTAAATTAAATTAAAATAAATTAAA
*
4853431 TATTAAATT-TATTAAAATAATATTA
1 TATTAAATTAAATTAAAATAA-ATTA
4853456 TTTTTGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TATTAAATTAAATTAAAATAAATTAAA
Found at i:4861919 original size:21 final size:21
Alignment explanation
Indices: 4861893--4861933 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4861883 AGACGAGCAA
* *
4861893 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4861914 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4861934 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4871034 original size:31 final size:29
Alignment explanation
Indices: 4870970--4871035 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
4870960 ACGATAACGT
** *
4870970 AAGTGACTAAAATGTAATATTTCAAACAT
1 AAGTGACTAAAATGTAATATGACAAACAA
*
4870999 AAGTGACTAAAATGTAATCTGAGACAAACAA
1 AAGTGACTAAAATGTAATAT--GACAAACAA
4871030 AAGTGA
1 AAGTGA
4871036 TTATTTTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 19 0.61
31 12 0.39
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.24
Consensus pattern (29 bp):
AAGTGACTAAAATGTAATATGACAAACAA
Found at i:4874614 original size:20 final size:20
Alignment explanation
Indices: 4874586--4874625 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4874576 TGGAAAAGTT
* *
4874586 ATTTTTATATATATTAATAA
1 ATTTATATACATATTAATAA
4874606 ATTTATATACATATTAATAA
1 ATTTATATACATATTAATAA
4874626 TTTTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTATATACATATTAATAA
Found at i:4877477 original size:15 final size:15
Alignment explanation
Indices: 4877453--4877482 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4877443 AAATGTTTTG
*
4877453 TGGAATCTTCAACAA
1 TGGAAGCTTCAACAA
4877468 TGGAAGCTTCAACAA
1 TGGAAGCTTCAACAA
4877483 ACAATTTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (15 bp):
TGGAAGCTTCAACAA
Found at i:4877713 original size:21 final size:21
Alignment explanation
Indices: 4877687--4877728 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4877677 GGAAGAAAAT
4877687 TTGCTTAGAAGAGAAAAGAGA
1 TTGCTTAGAAGAGAAAAGAGA
*
4877708 TTGCTTAGAAGAGAAAGGAGA
1 TTGCTTAGAAGAGAAAAGAGA
4877729 AAGGGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.31, T:0.19
Consensus pattern (21 bp):
TTGCTTAGAAGAGAAAAGAGA
Found at i:4885228 original size:39 final size:39
Alignment explanation
Indices: 4885174--4885252 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
4885164 AAGTTGCAGT
4885174 TGCAAGACGGCAAACTGTGAATATGGGAGCAAAAACAAG
1 TGCAAGACGGCAAACTGTGAATATGGGAGCAAAAACAAG
4885213 TGCAAGACGGCAAACTGTGAATATGGGAGCAAAAACAAG
1 TGCAAGACGGCAAACTGTGAATATGGGAGCAAAAACAAG
4885252 T
1 T
4885253 ACGGGAGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.43, C:0.15, G:0.28, T:0.14
Consensus pattern (39 bp):
TGCAAGACGGCAAACTGTGAATATGGGAGCAAAAACAAG
Found at i:4897461 original size:16 final size:17
Alignment explanation
Indices: 4897431--4897478 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
4897421 TATATAATAT
* *
4897431 ATAAATAATTTTAAAAA
1 ATAAAAAATTCTAAAAA
*
4897448 AT-TAAAATTCT-AAAA
1 ATAAAAAATTCTAAAAA
4897463 ATAAAAAATTCTAAAA
1 ATAAAAAATTCTAAAA
4897479 CATATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 6 0.24
16 14 0.56
17 5 0.20
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAAAATTCTAAAAA
Found at i:4897653 original size:29 final size:29
Alignment explanation
Indices: 4897621--4897676 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
4897611 ATTTCTTCCA
*
4897621 AAAATTATAAAT-TTTAAAAATTAAAAAAG
1 AAAA-TATAAATCTCTAAAAATTAAAAAAG
* *
4897650 AAAATCTAAATCTCTAAAAATTTAAAA
1 AAAATATAAATCTCTAAAAATTAAAAA
4897677 CTTTATTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAATATAAATCTCTAAAAATTAAAAAAG
Found at i:4897882 original size:19 final size:20
Alignment explanation
Indices: 4897846--4897884 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4897836 TTTTAATTCT
*
4897846 TATAATTTTTTTCAATTTTTA
1 TATAATATTTTT-AATTTTTA
4897867 TATAATATTTTT-ATTTTT
1 TATAATATTTTTAATTTTT
4897885 TTAATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (20 bp):
TATAATATTTTTAATTTTTA
Found at i:4897882 original size:29 final size:30
Alignment explanation
Indices: 4897845--4897915 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 30
4897835 TTTTTAATTC
* *
4897845 TTATAATTTTTTTCAATTTTTA-TATAATATT
1 TTATCATTTTTTT-AATTTATATTAT-ATATT
4897876 TT-T-ATTTTTTTAATTTATATTATATATT
1 TTATCATTTTTTTAATTTATATTATATATT
4897904 TTATCATTTTTT
1 TTATCATTTTTT
4897916 AAAACTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 14 0.39
29 12 0.33
30 8 0.22
31 2 0.06
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (30 bp):
TTATCATTTTTTTAATTTATATTATATATT
Found at i:4897892 original size:26 final size:28
Alignment explanation
Indices: 4897863--4897917 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
4897853 TTTTTCAATT
4897863 TTTATATAATAT-TTTTAT-TTTTTTAA
1 TTTATATAATATATTTTATATTTTTTAA
*
4897889 TTTATATTATATATTTTATCATTTTTTAA
1 TTTATATAATATATTTTAT-ATTTTTTAA
4897918 AACTTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 11 0.44
27 6 0.24
29 8 0.32
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTATATAATATATTTTATATTTTTTAA
Found at i:4898143 original size:49 final size:49
Alignment explanation
Indices: 4898071--4898169 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
4898061 ATTTTTTATT
4898071 TTAAATAATCCTAAGTGCCATGTGGCTCATTTTAGTTGGTTGAAAGATG
1 TTAAATAATCCTAAGTGCCATGTGGCTCATTTTAGTTGGTTGAAAGATG
4898120 TTAAATAATCCTAAGTGCCATGTGGCTCATTTTAGTTGGTTGAAAGATG
1 TTAAATAATCCTAAGTGCCATGTGGCTCATTTTAGTTGGTTGAAAGATG
4898169 T
1 T
4898170 CACGTGGCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.37
Consensus pattern (49 bp):
TTAAATAATCCTAAGTGCCATGTGGCTCATTTTAGTTGGTTGAAAGATG
Found at i:4901543 original size:23 final size:23
Alignment explanation
Indices: 4901515--4901562 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
4901505 ATATTTGGAA
* *
4901515 TTTAGTTTTTTTTTTTTTTACAT
1 TTTAGTTTTTTTGTTTTTTAAAT
4901538 TTTAGTTTTTTTGTTTTTTAAAT
1 TTTAGTTTTTTTGTTTTTTAAAT
4901561 TT
1 TT
4901563 CAAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (23 bp):
TTTAGTTTTTTTGTTTTTTAAAT
Found at i:4908445 original size:34 final size:34
Alignment explanation
Indices: 4908402--4908471 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
4908392 GAATTGAAGA
4908402 AAATTATATAGAAGTTTGCAAGCAAAGATGGCAT
1 AAATTATATAGAAGTTTGCAAGCAAAGATGGCAT
4908436 AAATTATATAGAAGTTTGCAAGCAAAGATGGCAT
1 AAATTATATAGAAGTTTGCAAGCAAAGATGGCAT
4908470 AA
1 AA
4908472 GTATAGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.26
Consensus pattern (34 bp):
AAATTATATAGAAGTTTGCAAGCAAAGATGGCAT
Found at i:4910644 original size:20 final size:20
Alignment explanation
Indices: 4910619--4910668 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
4910609 TGGCTTAAAA
4910619 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
4910639 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
4910656 GTGGTAGTGGATT
1 TTGGTAGTGGATT
4910669 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:4915272 original size:20 final size:20
Alignment explanation
Indices: 4915247--4915296 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
4915237 TGGCTTAAAA
4915247 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
4915267 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
4915284 GTGGTAGTGGATT
1 TTGGTAGTGGATT
4915297 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:4916788 original size:71 final size:71
Alignment explanation
Indices: 4916672--4916805 Score: 268
Period size: 71 Copynumber: 1.9 Consensus size: 71
4916662 CGGCTGTTGA
4916672 AAAAAGGTAATAAGCATAATTAGCTTGTAAACAATTTCGGGATGAGCATGAAATTAAGACCATAA
1 AAAAAGGTAATAAGCATAATTAGCTTGTAAACAATTTCGGGATGAGCATGAAATTAAGACCATAA
4916737 ACCAAT
66 ACCAAT
4916743 AAAAAGGTAATAAGCATAATTAGCTTGTAAACAATTTCGGGATGAGCATGAAATTAAGACCAT
1 AAAAAGGTAATAAGCATAATTAGCTTGTAAACAATTTCGGGATGAGCATGAAATTAAGACCAT
4916806 GAATCCATTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (71 bp):
AAAAAGGTAATAAGCATAATTAGCTTGTAAACAATTTCGGGATGAGCATGAAATTAAGACCATAA
ACCAAT
Found at i:4937494 original size:18 final size:19
Alignment explanation
Indices: 4937457--4937495 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4937447 ATTACAAAAT
*
4937457 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
*
4937476 AATTTAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
4937494 AA
1 AA
4937496 AATTCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Done.