Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 189 of 292
Found at i:56369701 original size:28 final size:26
Alignment explanation
Indices: 56369649--56369718 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 26
56369639 TTACATTGTG
*
56369649 TATATTTTGAATTTATATATATATAT
1 TATATTTTAAATTTATATATATATAT
*
56369675 TATATTTTAAACTATTATATGTATATATT
1 TATATTTTAAA-T-TTATATATATATA-T
*
56369704 GTCTATTTTAAATTT
1 -TATATTTTAAATTT
56369719 CATGTGTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 10 0.27
27 1 0.03
28 14 0.38
29 2 0.05
30 10 0.27
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (26 bp):
TATATTTTAAATTTATATATATATAT
Found at i:56370284 original size:3 final size:3
Alignment explanation
Indices: 56370266--56370354 Score: 76
Period size: 3 Copynumber: 30.0 Consensus size: 3
56370256 TATTTACTTA
* * * *
56370266 TAT TAT TACT TA- TAT TAT TAT TAC TAT TAT CAT TAT GATT TAT TAC
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
56370312 T-T TAT TAT TAT CAT TAT TAC TAC TAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56370355 ATTTTTGCCC
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
2 5 0.07
3 59 0.86
4 5 0.07
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:56374799 original size:47 final size:47
Alignment explanation
Indices: 56374690--56374800 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
56374680 CCGGGATAAG
*
56374690 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
56374737 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
56374784 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
56374801 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:56382052 original size:47 final size:47
Alignment explanation
Indices: 56381943--56382053 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
56381933 CCGGGATAAG
*
56381943 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
56381990 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
56382037 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
56382054 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:56383414 original size:12 final size:13
Alignment explanation
Indices: 56383396--56383427 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
56383386 TCGATATCTC
56383396 AATTTCAATTCAT
1 AATTTCAATTCAT
56383409 -ATTTCAATTCAT
1 AATTTCAATTCAT
56383421 AATTTCA
1 AATTTCA
56383428 CTTTCTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTCAATTCAT
Found at i:56385084 original size:2 final size:2
Alignment explanation
Indices: 56385077--56385108 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
56385067 TTATACCTTT
56385077 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56385109 CGCTTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56385386 original size:23 final size:24
Alignment explanation
Indices: 56385330--56385388 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
56385320 AAATAAATTA
* *
56385330 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
56385354 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
56385378 TTTTATTACAA
1 TTTTATTACAA
56385389 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:56385603 original size:3 final size:3
Alignment explanation
Indices: 56385595--56385655 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
56385585 GGCTTCATTT
56385595 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
56385643 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
56385656 TAAATCTACT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:56395956 original size:14 final size:15
Alignment explanation
Indices: 56395932--56395964 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
56395922 TATCATCATT
56395932 TCATGTTTTCATATA
1 TCATGTTTTCATATA
*
56395947 TCAT-TTTTCATGTA
1 TCATGTTTTCATATA
56395961 TCAT
1 TCAT
56395965 CATTTGCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (15 bp):
TCATGTTTTCATATA
Found at i:56395964 original size:21 final size:23
Alignment explanation
Indices: 56395921--56395964 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
56395911 CCATATACAA
*
56395921 ATATCATCATTTCATGTTTTCAT
1 ATATCATCATTTCATGTTATCAT
*
56395944 ATATCAT-TTTTCATG-TATCAT
1 ATATCATCATTTCATGTTATCAT
56395965 CATTTGCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 7 0.37
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (23 bp):
ATATCATCATTTCATGTTATCAT
Found at i:56403084 original size:3 final size:3
Alignment explanation
Indices: 56403076--56403124 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
56403066 CCTCTTTTGT
56403076 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56403124 A
1 A
56403125 AAGCAGTCTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56406297 original size:14 final size:14
Alignment explanation
Indices: 56406278--56406304 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56406268 TCTATAAAAG
56406278 TGAACCTTTACTTT
1 TGAACCTTTACTTT
56406292 TGAACCTTTACTT
1 TGAACCTTTACTT
56406305 GATGGCAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (14 bp):
TGAACCTTTACTTT
Found at i:56409214 original size:27 final size:27
Alignment explanation
Indices: 56409184--56409248 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
56409174 GATCACTGAA
* *
56409184 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
*
56409211 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
56409238 CACTTTGCCAT
1 CACTTTGCCAT
56409249 AGTTCAACTA
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:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:56409381 original size:31 final size:31
Alignment explanation
Indices: 56409338--56409485 Score: 251
Period size: 31 Copynumber: 4.8 Consensus size: 31
56409328 CTTTTCACTT
*
56409338 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
56409369 GTAGCTGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56409400 GTAGCTGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56409431 GTAGCCGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
56409462 GTAGCCGAAGCTACCACTTTTCAC
1 GTAGCCGAAGCTACCACTTTTCAC
56409486 ATTGTACACA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 111 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:56409466 original size:93 final size:94
Alignment explanation
Indices: 56409305--56409485 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 94
56409295 TCAGATAAAT
** * *
56409305 GTAGCTAAAGCTACCACTTATCACTTTTCACTTGTAGCCGAAGCTACCACTATTCACTGATCAGG
1 GTAGCTAAAGCTACCACTTATCACTGATCAC-GGTAGCCGAAGCTACCACTATTCACTGATCAAG
* *
56409370 TAGCTGGAGCTACCACTTTTCACTGATCAG
65 TAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
56409400 GTAGCTGAAGCTACCACTTTTCACTGATCA-GGTAGCCGAAGCTACCACTTTTCACTGATCAAGT
1 GTAGCTAAAGCTACCACTTATCACTGATCACGGTAGCCGAAGCTACCACTATTCACTGATCAAGT
56409464 AGCCGAAGCTACCACTTTTCAC
66 AGCCGAAGCTACCACTTTTCAC
56409486 ATTGTACACA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 51 0.66
95 26 0.34
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (94 bp):
GTAGCTAAAGCTACCACTTATCACTGATCACGGTAGCCGAAGCTACCACTATTCACTGATCAAGT
AGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:56409568 original size:33 final size:33
Alignment explanation
Indices: 56409478--56409590 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 33
56409468 GAAGCTACCA
* *
56409478 CTTTTCACA-TTGTACACACAAGGCGTACATTTC
1 CTTTTCA-AGTTGTACACACAAAGTGTACATTTC
56409511 CTTTTCAAG-TGTACACACAAAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
* * *
56409543 CTTTTTAAGTTGTATACACACAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
*
56409576 CTTTTCCAGTTGTAC
1 CTTTTCAAGTTGTAC
56409591 CTTTTAGGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
32 30 0.43
33 40 0.57
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (33 bp):
CTTTTCAAGTTGTACACACAAAGTGTACATTTC
Found at i:56409901 original size:19 final size:19
Alignment explanation
Indices: 56409877--56409917 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
56409867 CATTTTCATA
56409877 CTTAATTAAGTTATATGAG
1 CTTAATTAAGTTATATGAG
56409896 CTTAATTAAGTTATATGAG
1 CTTAATTAAGTTATATGAG
56409915 CTT
1 CTT
56409918 CCCTGGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (19 bp):
CTTAATTAAGTTATATGAG
Found at i:56410723 original size:21 final size:21
Alignment explanation
Indices: 56410698--56410740 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
56410688 CTTACACCAT
56410698 TTCTTCTATGAAAAACTAGAC
1 TTCTTCTATGAAAAACTAGAC
56410719 TTCTTCTATGAAAAACTAGAC
1 TTCTTCTATGAAAAACTAGAC
56410740 T
1 T
56410741 CAGTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (21 bp):
TTCTTCTATGAAAAACTAGAC
Found at i:56411330 original size:11 final size:11
Alignment explanation
Indices: 56411314--56411363 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
56411304 TATACTAAAT
56411314 AAATATTAATA
1 AAATATTAATA
56411325 AAATATTAAT-
1 AAATATTAATA
*
56411335 AAATATCTCATTA
1 AAATAT-T-AATA
56411348 AAATATTAATA
1 AAATATTAATA
56411359 AAATA
1 AAATA
56411364 ATATTTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 6 0.18
11 19 0.56
12 3 0.09
13 6 0.18
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATATTAATA
Found at i:56411353 original size:23 final size:21
Alignment explanation
Indices: 56411311--56411360 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 21
56411301 TTATATACTA
56411311 AATAAATATTAATAAAATATT
1 AATAAATATTAATAAAATATT
*
56411332 AATAAATATCTCATTAAAATATT
1 AATAAATAT-T-AATAAAATATT
56411355 AATAAA
1 AATAAA
56411361 ATAATATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 9 0.35
22 1 0.04
23 16 0.62
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
AATAAATATTAATAAAATATT
Found at i:56412764 original size:39 final size:39
Alignment explanation
Indices: 56412716--56412799 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
56412706 ATTTTGAGTC
56412716 ATATTTGGTTTAGGTCAATTTTGAATGCAAATTATTTTA
1 ATATTTGGTTTAGGTCAATTTTGAATGCAAATTATTTTA
56412755 ATATTTGGTTTAGGTCAATTTTGAATGCAAATTATTTTA
1 ATATTTGGTTTAGGTCAATTTTGAATGCAAATTATTTTA
56412794 AT-TTTG
1 ATATTTG
56412800 AGTCATATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 4 0.09
39 41 0.91
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (39 bp):
ATATTTGGTTTAGGTCAATTTTGAATGCAAATTATTTTA
Found at i:56414914 original size:27 final size:26
Alignment explanation
Indices: 56414884--56414954 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 26
56414874 GTGTGGGTCC
56414884 CAGAGGCCGCACCGGTTGTGCCTCTGG
1 CAGAGG-CGCACCGGTTGTGCCTCTGG
* *
56414911 CAGAGGTGGCACTGGTTGTGCCTCTGG
1 CAGAGG-CGCACCGGTTGTGCCTCTGG
*
56414938 CATAGGCGACACCGGTT
1 CAGAGGCG-CACCGGTT
56414955 TTGCTATACT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (26 bp):
CAGAGGCGCACCGGTTGTGCCTCTGG
Found at i:56415302 original size:25 final size:27
Alignment explanation
Indices: 56415273--56415332 Score: 70
Period size: 30 Copynumber: 2.2 Consensus size: 27
56415263 ATTATGTACT
56415273 AAAATA-ATA-TAAAAAATAAAATACG
1 AAAATAGATATTAAAAAATAAAATACG
*
56415298 AAAATAGTATATTTTAAAAAATAAAATTCG
1 AAAATAG-ATA--TTAAAAAATAAAATACG
56415328 AAAAT
1 AAAAT
56415333 TTTAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.21
27 3 0.10
30 20 0.69
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (27 bp):
AAAATAGATATTAAAAAATAAAATACG
Found at i:56415339 original size:151 final size:151
Alignment explanation
Indices: 56415083--56415943 Score: 1290
Period size: 151 Copynumber: 5.7 Consensus size: 151
56415073 TCGGTTTTTT
* *
56415083 ATATAAAAAATACTAAAATAATACATTTGAAACATTATGTACTTAAATAATAT---AAA-AAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* * * *
56415144 ACGAAAATTGTATATTTTAAAAAATAAAATTCGAAAATATTAAAAATACAAACAAAAGGCCAAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAATTTTAAAAATACAAACAAAGGGCCAAAA
*
56415209 TCAGGGTTATTTATTAAATTA
131 TCAGGGTTATTTACTAAATTA
* * *
56415230 ATATAAAAAACACTAAATTAATACATGTGAAATATTATGTACTAAAATAATATAAAAAATAAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* *
56415295 ACGAAAATAGTATATTTTAAAAAATAAAATTCGAAAATTTTAAAAATACAAAGAAAGGGCCAAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAATTTTAAAAATACAAACAAAGGGCCAAAA
*
56415360 TCAGGATTATTTACTAAATTA
131 TCAGGGTTATTTACTAAATTA
56415381 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* *
56415446 ACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAACTTTAAAAATATAAAGC-AAGGGCCAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAATTTTAAAAATACAAA-CAAAGGGCCAAA
56415510 ATCAGGGTTATTTACTAAATTA
130 ATCAGGGTTATTTACTAAATTA
* * *
56415532 ATATAAAAAACACTAAAATAATATATTTGAAATATTATGTACTAAAATAATGTAAAAAATAAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* * * * *
56415597 ATGAAAATAATATATTTTTAAAAATAAAATCTTG-GAATTTTAAAAATACAAACAAAGGGACAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAAT-TCGAAAATTTTAAAAATACAAACAAAGGGCCAAA
* * *
56415661 TTTAGGTTTATTTACTAAATTA
130 ATCAGGGTTATTTACTAAATTA
*
56415683 ATATAAAAAAACACT--AATAATACATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAA
1 ATAT-AAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAA
* * *
56415746 TATGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAAGGGCCAA
65 TACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAATTTTAAAAATACAAA-CAAAGGGCCAA
56415811 AATCAGGGTTATTTACTAAATTA
129 AATCAGGGTTATTTACTAAATTA
* * *
56415834 ATATAAAAAAACACTAAAATAATACATTTGAAACATTATATTCTAAAATAATA-AAAAAACAAAA
1 ATAT-AAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAA
* * *
56415898 TATGAAAATAGTATATTTTTAAAAATAAGATCCGAAAATTTTAAAA
65 TACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAATTTTAAAA
56415944 TACGAAATTT
Statistics
Matches: 652, Mismatches: 50, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
147 48 0.07
149 1 0.00
150 95 0.15
151 408 0.63
152 67 0.10
153 33 0.05
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (151 bp):
ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
ACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAATTTTAAAAATACAAACAAAGGGCCAAAA
TCAGGGTTATTTACTAAATTA
Found at i:56416146 original size:15 final size:15
Alignment explanation
Indices: 56416126--56416158 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
56416116 TAAATATATT
56416126 ATATTTTAAATTAAA
1 ATATTTTAAATTAAA
*
56416141 ATATTTTAAATTATA
1 ATATTTTAAATTAAA
56416156 ATA
1 ATA
56416159 AAAATATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTTTAAATTAAA
Found at i:56416299 original size:16 final size:15
Alignment explanation
Indices: 56416274--56416313 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
56416264 ACAACCCCTT
*
56416274 TTTTTTATTTTTTTC
1 TTTTTAATTTTTTTC
56416289 GTTTTTAATTTTTTTTC
1 -TTTTTAA-TTTTTTTC
56416306 TTTTTAAT
1 TTTTTAAT
56416314 AGAAAATGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 13 0.59
17 8 0.36
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTAATTTTTTTC
Found at i:56416301 original size:17 final size:16
Alignment explanation
Indices: 56416281--56416313 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
56416271 CTTTTTTTTA
56416281 TTTTTTTCGTTTTTAAT
1 TTTTTTTC-TTTTTAAT
56416298 TTTTTTTCTTTTTAAT
1 TTTTTTTCTTTTTAAT
56416314 AGAAAATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTTTTCTTTTTAAT
Found at i:56416627 original size:20 final size:20
Alignment explanation
Indices: 56416592--56416634 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
56416582 CATTTTATGT
56416592 AAAAAATTTAAAAAATA-TA
1 AAAAAATTTAAAAAATATTA
*
56416611 AAAAAATTTAAGCAAATATTA
1 AAAAAATTTAA-AAAATATTA
56416632 AAA
1 AAA
56416635 TCAAACTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 5 0.24
21 5 0.24
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAAATTTAAAAAATATTA
Found at i:56420455 original size:20 final size:20
Alignment explanation
Indices: 56420427--56420472 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
56420417 TAATAATTAT
* *
56420427 TTTTA-ATATTTAAAATATA
1 TTTTATATATTCAAAATAAA
*
56420446 TTTTATATATTCAAATTAAA
1 TTTTATATATTCAAAATAAA
56420466 TTTTATA
1 TTTTATA
56420473 AACAATTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTATATATTCAAAATAAA
Found at i:56421140 original size:23 final size:22
Alignment explanation
Indices: 56421100--56421143 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
56421090 ACATCAAAGA
**
56421100 ATAATTTTAAAATGATATAAAT
1 ATAATTTTAAAAAAATATAAAT
56421122 ATAATTTTAAAAAAAATATAAA
1 ATAATTTT-AAAAAAATATAAA
56421144 AAATTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAATTTTAAAAAAATATAAAT
Found at i:56427316 original size:30 final size:31
Alignment explanation
Indices: 56427268--56427325 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
56427258 TTCAATTTCG
* *
56427268 TAATTGTTTTTTTATTGGG-TCTAAATTAAA
1 TAATTATTTTTATATTGGGATCTAAATTAAA
* *
56427298 TAATTATTTTTATGTTGGGATTTAAATT
1 TAATTATTTTTATATTGGGATCTAAATT
56427326 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 16 0.70
31 7 0.30
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.55
Consensus pattern (31 bp):
TAATTATTTTTATATTGGGATCTAAATTAAA
Found at i:56427458 original size:2 final size:2
Alignment explanation
Indices: 56427451--56427480 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56427441 GACTAACCTA
56427451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56427481 CAAAAGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56433054 original size:21 final size:21
Alignment explanation
Indices: 56432988--56433060 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
56432978 TTTATTTCTC
* *
56432988 TTTTGGGTCTTG-GTTTTCAAT
1 TTTTGGGTTTTGAATTTT-AAT
* *
56433009 TTTTGGCTTTTGAATTTTAAA
1 TTTTGGGTTTTGAATTTTAAT
*
56433030 TTTTGGGTTTT-AAGTTTTGAT
1 TTTTGGGTTTTGAA-TTTTAAT
*
56433051 TTTTGAGTTT
1 TTTTGGGTTT
56433061 CGGTTTGATG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.05
21 36 0.86
22 4 0.10
ACGTcount: A:0.15, C:0.04, G:0.21, T:0.60
Consensus pattern (21 bp):
TTTTGGGTTTTGAATTTTAAT
Found at i:56435838 original size:28 final size:28
Alignment explanation
Indices: 56435779--56435841 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
56435769 AAAGGCCCTT
* * *
56435779 TTTTTAATTAATTAGGTTTTTAGGTATT
1 TTTTAAATTAATTAGGTCTTTAGGTATG
56435807 TTTTAAATTAATTAGGTCTTTAGGT-TGG
1 TTTTAAATTAATTAGGTCTTTAGGTAT-G
56435835 TTTTAAA
1 TTTTAAA
56435842 ATTATTAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.56
Consensus pattern (28 bp):
TTTTAAATTAATTAGGTCTTTAGGTATG
Found at i:56435838 original size:29 final size:28
Alignment explanation
Indices: 56435777--56435831 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
56435767 GTAAAGGCCC
* *
56435777 TTTTTTTAATTAATTAGGTTTTTAGGTA
1 TTTTTTAAATTAATTAGGTCTTTAGGTA
56435805 TTTTTTAAATTAATTAGGTCTTTAGGT
1 TTTTTTAAATTAATTAGGTCTTTAGGT
56435832 TGGTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (28 bp):
TTTTTTAAATTAATTAGGTCTTTAGGTA
Found at i:56436806 original size:30 final size:30
Alignment explanation
Indices: 56436772--56436828 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
56436762 AGGCACTTCT
56436772 ACACGGGT-GAGCCACACGCCCGTGTGTGAC
1 ACACGGGTAGA-CCACACGCCCGTGTGTGAC
56436802 ACACGGGTAGACCACACGCCCGTGTGT
1 ACACGGGTAGACCACACGCCCGTGTGT
56436829 CATGGCCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.33, G:0.32, T:0.14
Consensus pattern (30 bp):
ACACGGGTAGACCACACGCCCGTGTGTGAC
Found at i:56438040 original size:16 final size:15
Alignment explanation
Indices: 56438000--56438048 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
56437990 TTAGTGAAAG
56438000 ATATTTAT-TAAATAA
1 ATATTTATAT-AATAA
*
56438015 ATAATTATATAATAA
1 ATATTTATATAATAA
*
56438030 TATATTTATATGATAA
1 -ATATTTATATAATAA
56438046 ATA
1 ATA
56438049 AATGTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
ATATTTATATAATAA
Found at i:56440335 original size:46 final size:46
Alignment explanation
Indices: 56440287--56440467 Score: 229
Period size: 46 Copynumber: 3.8 Consensus size: 46
56440277 GCTCTCTGAT
** *
56440287 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATAGTTGAAAGATACCATGGCAACGTGAC
*
56440333 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATAGTTGAAAGATACCATGGCAACGTGAC
* * *
56440379 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATAGTTGAAAGATACCATGGCAACGTGAC
* *
56440425 A-GAAAATGAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATG-A--A-TAAGACCATAGTTGAAAGATACCATGGCA
56440468 TCATGTTAAA
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
45 1 0.01
46 91 0.76
47 1 0.01
49 1 0.01
50 26 0.22
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATAGTTGAAAGATACCATGGCAACGTGAC
Found at i:56442124 original size:46 final size:46
Alignment explanation
Indices: 56442069--56442234 Score: 260
Period size: 46 Copynumber: 3.6 Consensus size: 46
56442059 AACTGTGTAT
* * **
56442069 GACCATGGTTAAAAGATACCATGGCAACCTGATATGAAATGTGTAA
1 GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAA
56442115 GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAA
* * *
56442161 AACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAA
*
56442207 GACCATAGTTGAAAGATACCATGGCAAC
1 GACCATGGTTGAAAGATACCATGGCAAC
56442235 ATGACAAAAA
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 111 1.00
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (46 bp):
GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAA
Found at i:56442247 original size:92 final size:95
Alignment explanation
Indices: 56442069--56442282 Score: 272
Period size: 92 Copynumber: 2.3 Consensus size: 95
56442059 AACTGTGTAT
* * * ** *
56442069 GACCATGGTTAAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
1 GACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATAGTTGAAAGATAC
* * **
56442134 CATGGCAACGTGATATGAAATGAAT-A-AA
66 CATGGCAACATGACAAAAAATGAATGAGAA
*
56442162 -ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATAGTTGAAAGATAC
1 GACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATAGTTGAAAGATAC
56442226 CATGGCAACATGACAAAAAATGAATGAGTAA
66 CATGGCAACATGACAAAAAATGAATGAG-AA
* * *
56442257 GACCATAGTTGAAAGACACTATGGCA
1 GACCATGGTTGAAAGATACCATGGCA
56442283 TGATGTCAAA
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
92 78 0.76
93 1 0.01
95 2 0.02
96 22 0.21
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (95 bp):
GACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATAGTTGAAAGATAC
CATGGCAACATGACAAAAAATGAATGAGAA
Found at i:56455693 original size:12 final size:12
Alignment explanation
Indices: 56455678--56455703 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56455668 AATTACTCCT
56455678 TAAAACTCTAAC
1 TAAAACTCTAAC
56455690 TAAAACTCTAAC
1 TAAAACTCTAAC
56455702 TA
1 TA
56455704 TTCAACAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAACTCTAAC
Found at i:56456114 original size:38 final size:38
Alignment explanation
Indices: 56456069--56456144 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
56456059 TTAAGGGTAT
56456069 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
1 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
56456107 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
1 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
56456145 ATTCCTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (38 bp):
GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
Found at i:56457586 original size:12 final size:13
Alignment explanation
Indices: 56457569--56457598 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
56457559 TTTCACTTTG
56457569 TTTTAG-TTTTAA
1 TTTTAGTTTTTAA
56457581 TTTTAGTTTTTAA
1 TTTTAGTTTTTAA
56457594 TTTTA
1 TTTTA
56457599 AACCTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTAGTTTTTAA
Found at i:56457860 original size:43 final size:43
Alignment explanation
Indices: 56457801--56458020 Score: 323
Period size: 43 Copynumber: 5.1 Consensus size: 43
56457791 AAAAATTTGT
* * *
56457801 GGCGTTTATTGGAAAAGCGCCGCAAAAGGTCAAGGCTTTTAGT
1 GGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
56457844 GGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* * *
56457887 GGCGTTTGTGGGAAACAACGCCGCTAAAGATCAAGGCTTTTAGC
1 GGCGTTTGTTGGAAA-AGCGCCGCTAAAGGTCAAGGCTTTTAGC
* * *
56457931 GGCGTTTGTTGGAAAAGCGCCCCTAAAGATCAAGGCTTTTAGT
1 GGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
** *
56457974 GGCGTTTGCGGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
56458017 GGCG
1 GGCG
56458021 CTTTTTCTAC
Statistics
Matches: 160, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 120 0.75
44 40 0.25
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (43 bp):
GGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
Found at i:56457922 original size:87 final size:86
Alignment explanation
Indices: 56457801--56458020 Score: 341
Period size: 87 Copynumber: 2.5 Consensus size: 86
56457791 AAAAATTTGT
* * * * * *
56457801 GGCGTTTATTGGAAAAGCGCCGCAAAAGGTCAAGGCTTTTAGTGGCGTTTGTTGGAAAAGCGCCG
1 GGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGGAAAAGCGCCC
*
56457866 CTAAAGGTCAAGGCTTTTAGC
66 CTAAAGATCAAGGCTTTTAGC
*
56457887 GGCGTTTGTGGGAAACAACGCCGCTAAAGATCAAGGCTTTTAGCGGCGTTTGTTGGAAAAGCGCC
1 GGCGTTTGTGGGAAA-AACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGGAAAAGCGCC
*
56457952 CCTAAAGATCAAGGCTTTTAGT
65 CCTAAAGATCAAGGCTTTTAGC
*
56457974 GGCGTTTGCGGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 GGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
56458021 CTTTTTCTAC
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
86 44 0.36
87 78 0.64
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (86 bp):
GGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGGAAAAGCGCCC
CTAAAGATCAAGGCTTTTAGC
Found at i:56458130 original size:31 final size:31
Alignment explanation
Indices: 56458095--56458161 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
56458085 CTTCCTACAT
* *
56458095 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
56458126 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
56458157 TAAAA
1 TAAAA
56458162 AATACAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:56458173 original size:33 final size:31
Alignment explanation
Indices: 56458096--56458173 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
56458086 TTCCTACATT
* * *
56458096 AAAATCCAACCAAATACAACAAATATAATAT
1 AAAATACAACCAAAAACAACAAATATAATAA
* * * *
56458127 AAAATGCAGCCAAAAACAGCAAATTTAACATAA
1 AAAATACAACCAAAAACAACAAATAT-A-ATAA
56458160 AAAATACAACCAAA
1 AAAATACAACCAAA
56458174 GTCATTAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 21 0.57
32 1 0.03
33 15 0.41
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (31 bp):
AAAATACAACCAAAAACAACAAATATAATAA
Found at i:56463917 original size:9 final size:9
Alignment explanation
Indices: 56463903--56464030 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
56463893 ATGTATTAGT
56463903 TAAGTTATG
1 TAAGTTATG
56463912 TAAGTTGTAATG
1 TAAG-T-T-ATG
*
56463924 TACGTTATG
1 TAAGTTATG
*
56463933 TGAGTTATG
1 TAAGTTATG
*
56463942 TAAATTATG
1 TAAGTTATG
56463951 TAAGTTATG
1 TAAGTTATG
*
56463960 TGAGTTATG
1 TAAGTTATG
56463969 TAAGTTGTTATG
1 TAA---GTTATG
*
56463981 TAAATTATG
1 TAAGTTATG
*
56463990 TAAGTTATA
1 TAAGTTATG
*
56463999 TGAGTTATG
1 TAAGTTATG
56464008 TAAGTTATG
1 TAAGTTATG
* *
56464017 TAATTTATT
1 TAAGTTATG
56464026 TAAGT
1 TAAGT
56464031 AATGATTAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 77 0.80
10 2 0.02
11 2 0.02
12 15 0.16
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:56464030 original size:57 final size:57
Alignment explanation
Indices: 56463903--56464030 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
56463893 ATGTATTAGT
** * *
56463903 TAAGTTATGTAAGTTGTAATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTAATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * * *
56463960 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTAATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
56464017 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
56464031 AATGATTAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTAATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:56464575 original size:241 final size:241
Alignment explanation
Indices: 56464152--56464856 Score: 1320
Period size: 241 Copynumber: 2.9 Consensus size: 241
56464142 AATATAGTAT
*
56464152 TTTTTTAAGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTATAGCTC
1 TTTTTTAAGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
**
56464217 GATATAAGGCAACCAATCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAG
66 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAG
* *
56464282 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATGAATAT
131 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAATAT
56464347 TCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
196 TCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
* *
56464393 TTTTTTAAGATTCATCATACGTGACGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
1 TTTTTTAAGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
56464458 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAG
66 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAG
56464523 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAATAT
131 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAATAT
56464588 TCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
196 TCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
* *
56464634 TTTTTTAAGATTCATCATACGTGGCCTTGTTACACCTAGGAAGGATCCATTATATCTTACAGCTC
1 TTTTTTAAGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
56464699 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAG
66 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAG
56464764 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAATAT
131 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAATAT
*
56464829 TCAATAGTAAATGAGCTCGATAAAACTT
196 TCAATAGTAAATGAGCTCGATAGAACTT
56464857 AAAAATGTAT
Statistics
Matches: 453, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 453 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (241 bp):
TTTTTTAAGATTCATCATACGTGGCATTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAG
GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAATAT
TCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
Found at i:56464930 original size:24 final size:24
Alignment explanation
Indices: 56464898--56464957 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
56464888 TTAACTTAAA
**
56464898 TGATAAAACGGACGGTAATATTTG
1 TGATAAAACGGACAATAATATTTG
*
56464922 TGATAAAACAGACAATAATATTTG
1 TGATAAAACGGACAATAATATTTG
56464946 TGATAAAACGGA
1 TGATAAAACGGA
56464958 AGAGAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.27
Consensus pattern (24 bp):
TGATAAAACGGACAATAATATTTG
Found at i:56464965 original size:24 final size:24
Alignment explanation
Indices: 56464898--56464968 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
56464888 TTAACTTAAA
*
56464898 TGATAAAACGGACG-GTAATATTTG
1 TGATAAAACGGAAGAG-AATATTTG
* *
56464922 TGATAAAACAGACA-ATAATATTTG
1 TGATAAAACGGA-AGAGAATATTTG
56464946 TGATAAAACGGAAGAGAATATTT
1 TGATAAAACGGAAGAGAATATTT
56464969 CAATAATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 1 0.03
24 38 0.97
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGAAGAGAATATTTG
Found at i:56465104 original size:64 final size:64
Alignment explanation
Indices: 56465016--56465149 Score: 241
Period size: 64 Copynumber: 2.1 Consensus size: 64
56465006 ATATTTTATT
*
56465016 AAATATTTGTATATTAGATGAGACATATTATATTAATAAATAAATTTATCAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAG
* *
56465080 AAATATTTTTATATTAGATGAGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAG
56465144 AAATAT
1 AAATAT
56465150 AGAAATATTA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (64 bp):
AAATATTTGTATATTAGATGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAG
Found at i:56468917 original size:18 final size:17
Alignment explanation
Indices: 56468894--56468928 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
56468884 AAAATCAGTT
*
56468894 TCAAATATCAAAATAAAA
1 TCAAAT-TCAAAACAAAA
56468912 TCAAATTCAAAACAAAA
1 TCAAATTCAAAACAAAA
56468929 ATAAGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (17 bp):
TCAAATTCAAAACAAAA
Found at i:56471040 original size:37 final size:37
Alignment explanation
Indices: 56470981--56471089 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
56470971 AGCTCAGACG
* * *
56470981 AAATCTCCACACGAAGTTATCGGGTCTCACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
56471018 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
56471055 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56471090 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:56471257 original size:47 final size:47
Alignment explanation
Indices: 56471183--56471450 Score: 484
Period size: 47 Copynumber: 5.7 Consensus size: 47
56471173 CATGCATATT
* * *
56471183 TCACATTC-GCCATTCGGCTTTACCACATATATACACTTTCACATTCA
1 TCACA-TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
56471230 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
56471277 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
56471324 TCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
56471371 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
56471418 TCACATCGGCCATTAGGCCTTATCACATATATA
1 TCACATCGGCCATTAGGCCTTATCACATATATA
56471451 TATCTCATAC
Statistics
Matches: 215, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
46 2 0.01
47 213 0.99
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
Found at i:56478992 original size:29 final size:29
Alignment explanation
Indices: 56478898--56479027 Score: 156
Period size: 29 Copynumber: 4.5 Consensus size: 29
56478888 GACAAGATTG
* * * * *
56478898 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* *
56478928 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
56478956 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
*
56478985 GCACTAAGTGTGCGAGCTGAAAATTTATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
56479014 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56479028 GATTCACTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
27 2 0.02
28 20 0.22
29 50 0.56
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:56486887 original size:29 final size:29
Alignment explanation
Indices: 56486793--56486922 Score: 156
Period size: 29 Copynumber: 4.5 Consensus size: 29
56486783 GACAAGATTG
* * * * *
56486793 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* *
56486823 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
56486851 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
*
56486880 GCACTAAGTGTGCGAGCTGAAAATTTATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
56486909 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56486923 GATTCACTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
27 2 0.02
28 20 0.22
29 50 0.56
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:56492498 original size:40 final size:40
Alignment explanation
Indices: 56492407--56492602 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 40
56492397 GCTACTCGTT
* *
56492407 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
56492447 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
56492487 CAAATGCCTTCGGATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTC----G-----GGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
56492537 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
56492578 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56492603 CATCATTCGA
Statistics
Matches: 132, Mismatches: 11, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
40 83 0.63
41 12 0.09
44 1 0.01
49 3 0.02
50 33 0.25
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:56492525 original size:50 final size:50
Alignment explanation
Indices: 56492450--56492551 Score: 161
Period size: 50 Copynumber: 2.0 Consensus size: 50
56492440 ACTCGCACAA
56492450 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
** *
56492500 ATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTACAAATGCCTTCGG
1 ATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
56492550 AT
1 AT
56492552 CTTAGTCCGG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
49 3 0.06
50 45 0.94
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (50 bp):
ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
Found at i:56492563 original size:90 final size:90
Alignment explanation
Indices: 56492410--56492589 Score: 224
Period size: 90 Copynumber: 2.0 Consensus size: 90
56492400 ACTCGTTCAA
*
56492410 ATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 ATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
*
56492475 TAGTAAC-TCGCACAAATGCCTTCGG
66 TAGTAACTTAGCACAAA-GCCTTCGG
* * * **
56492500 ATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGTACAAATGCCTTC-GGATCTTAGTCCGG
1 ATGCCTTCAGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
56492562 ATATAGTCACTTAGCACAAAGCCTTCGG
63 ATATAGTAACTTAGCACAAAGCCTTCGG
56492590 GACTTAGCCC
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
89 6 0.08
90 62 0.79
91 10 0.13
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (90 bp):
ATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATA
TAGTAACTTAGCACAAAGCCTTCGG
Found at i:56494927 original size:141 final size:142
Alignment explanation
Indices: 56494701--56494995 Score: 556
Period size: 141 Copynumber: 2.1 Consensus size: 142
56494691 TGAGTTAAAT
*
56494701 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTATTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTATTTTGA-GTTGTTGTGATGAAAGCATGGAGAT
56494766 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
65 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
56494831 GTGTGCATGAGTA
130 GTGTGCATGAGTA
*
56494844 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGA-TTGTTGTGATGAAAGCATGGAGATG
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTATTTTGAGTTGTTGTGATGAAAGCATGGAGATG
56494908 AGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGTG
66 AGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGTG
56494973 TGTGCATGAGTA
131 TGTGCATGAGTA
56494985 TTCGGCCATGC
1 TTCGGCCATGC
56494996 TATAGAATTT
Statistics
Matches: 150, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
141 113 0.75
143 37 0.25
ACGTcount: A:0.22, C:0.11, G:0.29, T:0.39
Consensus pattern (142 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTATTTTGAGTTGTTGTGATGAAAGCATGGAGATG
AGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGTG
TGTGCATGAGTA
Found at i:56495672 original size:29 final size:29
Alignment explanation
Indices: 56495639--56495799 Score: 232
Period size: 29 Copynumber: 5.6 Consensus size: 29
56495629 GTGACGAGAT
56495639 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
56495668 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
56495697 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
56495726 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
56495755 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
56495784 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
56495800 AGCTCGAAGG
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 122 1.00
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:56495827 original size:87 final size:87
Alignment explanation
Indices: 56495635--56495819 Score: 228
Period size: 87 Copynumber: 2.1 Consensus size: 87
56495625 TATGGTGACG
* * * ** * *
56495635 AGAT-TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATG
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATACG
* *
56495699 GCACTAAGTGTGCGTGCTGGAA
66 GCACTAAGTGTGCGAGCTCGAA
* *
56495721 ATATATGGCACTAAGTGTGCATGCTGGAAAAATATGACACTATGTGTGCAAGCTGGAAAAATACG
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATACG
**
56495786 GCACTGGGTGTGCGAGCTCGAA
66 GCACTAAGTGTGCGAGCTCGAA
* *
56495808 GGGTATGGCACT
1 AGATATGGCACT
56495820 GTGTGTGCGG
Statistics
Matches: 82, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
86 3 0.04
87 79 0.96
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (87 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGACACTAAGTGTGCAAGCTGGAAAAATACG
GCACTAAGTGTGCGAGCTCGAA
Found at i:56503724 original size:78 final size:79
Alignment explanation
Indices: 56503622--56503842 Score: 274
Period size: 78 Copynumber: 2.8 Consensus size: 79
56503612 GCTACTCGTT
*
56503622 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
56503687 TTTAGTAACT-GCA
66 TTTAGTAACTCGCA
* *
56503700 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTT--GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACC
*
56503762 GGATTTAGTAACTCGCA
63 CGATTTAGTAACTCGCA
* * * * *
56503779 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
56503842 G
64 G
56503843 GACATCATTC
Statistics
Matches: 123, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
76 3 0.02
77 4 0.03
78 63 0.51
79 38 0.31
80 12 0.10
81 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
TTTAGTAACTCGCA
Found at i:56503844 original size:40 final size:40
Alignment explanation
Indices: 56503622--56503844 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
56503612 GCTACTCGTT
*
56503622 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
56503662 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
56503700 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
56503740 CAAATGCCTT--GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
56503779 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
56503820 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56503845 CATCATTCGA
Statistics
Matches: 168, Mismatches: 8, Indels: 14
0.88 0.04 0.07
Matches are distributed among these distances:
38 29 0.17
39 54 0.32
40 74 0.44
41 11 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:56504559 original size:2 final size:2
Alignment explanation
Indices: 56504552--56504585 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
56504542 ATGTGCAAAC
*
56504552 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56504586 GTGCAAGAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:56510219 original size:44 final size:45
Alignment explanation
Indices: 56510124--56510252 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
56510114 ACAGGACAGA
* *
56510124 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
56510170 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
56510214 ACAGGAATAATTCATGTAAGTCCATGTCAAAGATATGGC
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGC
56510253 TAAGTCCATG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:56510260 original size:23 final size:23
Alignment explanation
Indices: 56510230--56510275 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
56510220 ATAATTCATG
56510230 TAAGTCCATGTCAAAGATATGGC
1 TAAGTCCATGTCAAAGATATGGC
56510253 TAAGTCCATGTCAAAGATATGGC
1 TAAGTCCATGTCAAAGATATGGC
56510276 ATTGGCAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (23 bp):
TAAGTCCATGTCAAAGATATGGC
Found at i:56533338 original size:4 final size:4
Alignment explanation
Indices: 56533329--56533514 Score: 309
Period size: 4 Copynumber: 46.5 Consensus size: 4
56533319 ATTACTACCA
*
56533329 GTAT GTAT GTAT GTAT GTAC GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
56533377 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
56533425 GTAT GTAT GCAT GTAT GCAT GTAT GCAT GTAT GCAT GTAT GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
56533473 GCAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
56533515 TTTTTTTTTA
Statistics
Matches: 168, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 168 1.00
ACGTcount: A:0.25, C:0.04, G:0.25, T:0.46
Consensus pattern (4 bp):
GTAT
Found at i:56537376 original size:50 final size:49
Alignment explanation
Indices: 56537238--56537437 Score: 226
Period size: 49 Copynumber: 4.0 Consensus size: 49
56537228 AATGATCTAT
* * * *
56537238 TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA
1 TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGA
* **
56537290 CTGTGA--TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA
1 -TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
56537338 TGGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
1 T-GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
* * * *
56537388 CTGT-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 -TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
56537437 T
1 T
56537438 AGCTTCGGCT
Statistics
Matches: 129, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
47 1 0.01
48 7 0.05
49 41 0.32
50 41 0.32
51 34 0.26
53 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
Found at i:56537421 original size:49 final size:49
Alignment explanation
Indices: 56537243--56537436 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 49
56537233 TCTATTGTGA
* * *
56537243 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGTT
* * * ** *
56537294 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
*
56537344 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* *
56537393 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
56537437 TAGCTTCGGC
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 41 0.34
50 42 0.34
51 35 0.29
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:56539128 original size:23 final size:22
Alignment explanation
Indices: 56539102--56539170 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
56539092 ACTCCAAATC
56539102 AAAATAATAAACATAAATGAAAG
1 AAAATAATAAA-ATAAATGAAAG
*
56539125 AAAATAAACAAAAATAAAT-AAAG
1 AAAAT-AA-TAAAATAAATGAAAG
*
56539148 AACATAATAGAAATAAAGTGAAA
1 AAAATAATA-AAATAAA-TGAAA
56539171 AATAAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 1 0.03
22 9 0.24
23 14 0.37
24 11 0.29
25 3 0.08
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (22 bp):
AAAATAATAAAATAAATGAAAG
Found at i:56544018 original size:30 final size:29
Alignment explanation
Indices: 56543927--56544011 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 29
56543917 ACACACAGGC
*
56543927 GTGTGTACTGCCGTGTGCCTCACACGAGT
1 GTGTGTACTACCGTGTGCCTCACACGAGT
56543956 GTGTGTACTACTCGTGTGCCTCACACGAGT
1 GTGTGTACTAC-CGTGTGCCTCACACGAGT
56543986 GTGTGTACTACCAG-GTGCCTCACACG
1 GTGTGTACTACC-GTGTGCCTCACACG
56544012 GCGTGTGGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
29 23 0.43
30 30 0.57
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.27
Consensus pattern (29 bp):
GTGTGTACTACCGTGTGCCTCACACGAGT
Found at i:56546688 original size:49 final size:49
Alignment explanation
Indices: 56546632--56546992 Score: 614
Period size: 49 Copynumber: 7.4 Consensus size: 49
56546622 TACATATATG
* * **
56546632 TGTGATAAGGCCGAATGGCCAATGCAATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
56546681 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
56546730 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
56546779 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
56546828 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
56546877 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
56546926 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
56546975 TGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGG
56546993 TTAATGTAAA
Statistics
Matches: 301, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 301 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:56546781 original size:27 final size:27
Alignment explanation
Indices: 56546751--56546835 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
56546741 CTAATGGCCG
56546751 ATGTGATGAATGTGAAAGTGGATGTAT
1 ATGTGATGAATGTGAAAGTGGATGTAT
* *** **
56546778 ATGTGATG-AGGCCTAA-TGGCCG---
1 ATGTGATGAATGTGAAAGTGGATGTAT
56546800 ATGTGATGAATGTGAAAGTGGATGTAT
1 ATGTGATGAATGTGAAAGTGGATGTAT
56546827 ATGTGATGA
1 ATGTGATGA
56546836 GGCCTAATGG
Statistics
Matches: 41, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
22 8 0.20
23 4 0.10
24 4 0.10
25 4 0.10
26 4 0.10
27 17 0.41
ACGTcount: A:0.31, C:0.05, G:0.34, T:0.31
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGGATGTAT
Found at i:56547145 original size:37 final size:37
Alignment explanation
Indices: 56547095--56547216 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
56547085 GGAATATGTT
*
56547095 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56547132 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56547169 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56547206 CCGGGTAAGAC
1 CCGGGTAAGAC
56547217 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56558846 original size:22 final size:22
Alignment explanation
Indices: 56558821--56558864 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
56558811 ATTTCACCTC
56558821 CCAATTTTTTTAGAATTTTTGA
1 CCAATTTTTTTAGAATTTTTGA
56558843 CCAATTTTTTTAGAATTTTTGA
1 CCAATTTTTTTAGAATTTTTGA
56558865 ATTACCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (22 bp):
CCAATTTTTTTAGAATTTTTGA
Found at i:56562160 original size:32 final size:31
Alignment explanation
Indices: 56562109--56562168 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
56562099 AAATTTTTTA
*
56562109 AAAATTTTATGAGAATTAA-TAAGAATTTCCC
1 AAAATTTTAGGAGAATTAATTAA-AATTTCCC
*
56562140 AAAATTTTAGGAGAGTTTAATTAAAATTT
1 AAAATTTTAGGAGA-ATTAATTAAAATTT
56562169 TTAAAAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 13 0.52
32 9 0.36
33 3 0.12
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (31 bp):
AAAATTTTAGGAGAATTAATTAAAATTTCCC
Found at i:56562945 original size:30 final size:30
Alignment explanation
Indices: 56562873--56563169 Score: 144
Period size: 34 Copynumber: 9.8 Consensus size: 30
56562863 TAAAAATGAT
*
56562873 TTAAATTAGGGTTTAT-GATTTTGAAATAGA
1 TTAAATTAGGGTTTATGGATTTT-AAATAAA
56562903 TTAAGCAAATTAGGGTTCTA-GGATTTTAAATAAA
1 TT----AAATTAGGGTT-TATGGATTTTAAATAAA
*
56562937 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAA
1 TTAAATTAGGGTTTATGGATTTTAAAT--A--AA
* * *
56562971 GTAAATTAGGGTTCTATGG-TTTTAGATAAC
1 TTAAATTAGGGTT-TATGGATTTTAAATAAA
56563001 TTAAATTAGGG-TT-T--A----AAATAAA
1 TTAAATTAGGGTTTATGGATTTTAAATAAA
56563023 TTAAA-TAGGGTTTAT-GATTTTTAAATAGATTAA
1 TTAAATTAGGGTTTATGGA-TTTTAAAT--A--AA
* * * *
56563056 GTAAATTAGGGTTT-TGG-GTTAAAATTAA
1 TTAAATTAGGGTTTATGGATTTTAAATAAA
56563084 TTAAATTAGGGTTTATGG-TTTTAAAATAGATTAA
1 TTAAATTAGGGTTTATGGATTTT-AAAT--A--AA
* * * *
56563118 GTAAATTAGAGTTCTATGG-TTTTAGATAAG
1 TTAAATTAGGGTT-TATGGATTTTAAATAAA
*
56563148 TTAAATTAGGGTTT-TAGATTTT
1 TTAAATTAGGGTTTATGGATTTT
56563170 GGGTTAAAAA
Statistics
Matches: 209, Mismatches: 23, Indels: 71
0.69 0.08 0.23
Matches are distributed among these distances:
21 5 0.02
22 12 0.06
23 1 0.00
24 1 0.00
27 1 0.00
28 18 0.09
29 17 0.08
30 50 0.24
31 1 0.00
32 9 0.04
33 7 0.03
34 65 0.31
35 22 0.11
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (30 bp):
TTAAATTAGGGTTTATGGATTTTAAATAAA
Found at i:56562945 original size:64 final size:64
Alignment explanation
Indices: 56562873--56563015 Score: 225
Period size: 64 Copynumber: 2.2 Consensus size: 64
56562863 TAAAAATGAT
56562873 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTA-GGATTTTAAATAAA
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTATGG-TTTTAAATAAA
* * * * *
56562937 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTATGGTTTTAGATAAC
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTATGGTTTTAAATAAA
56563001 TTAAATTAGGGTTTA
1 TTAAATTAGGGTTTA
56563016 AAATAAATTA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 71 0.97
65 2 0.03
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.42
Consensus pattern (64 bp):
TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTATGGTTTTAAATAAA
Found at i:56563031 original size:21 final size:22
Alignment explanation
Indices: 56562996--56563036 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
56562986 ATGGTTTTAG
*
56562996 ATAACTTAAATTAGGGTTTAAA
1 ATAAATTAAATTAGGGTTTAAA
56563018 ATAAATTAAA-TAGGGTTTA
1 ATAAATTAAATTAGGGTTTA
56563037 TGATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (22 bp):
ATAAATTAAATTAGGGTTTAAA
Found at i:56563032 original size:85 final size:84
Alignment explanation
Indices: 56562921--56563098 Score: 261
Period size: 85 Copynumber: 2.1 Consensus size: 84
56562911 ATTAGGGTTC
* * *
56562921 TAGGATTTTAAATAAATTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCT
1 TAGGGTTTAAAATAAATTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTT-T
* * *
56562986 ATGGTTTTAGA-TAACTTAAAT
65 -TGGGTTAAAATTAA-TTAAAT
56563007 TAGGGTTTAAAATAAATTAAA-TAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTTT
1 TAGGGTTTAAAATAAATTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTTT
56563071 GGGTTAAAATTAATTAAAT
66 GGGTTAAAATTAATTAAAT
56563090 TAGGGTTTA
1 TAGGGTTTA
56563099 TGGTTTTAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
83 22 0.26
84 4 0.05
85 40 0.47
86 19 0.22
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (84 bp):
TAGGGTTTAAAATAAATTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTTT
GGGTTAAAATTAATTAAAT
Found at i:56563104 original size:35 final size:34
Alignment explanation
Indices: 56563065--56563197 Score: 82
Period size: 35 Copynumber: 4.0 Consensus size: 34
56563055 AGTAAATTAG
56563065 GGTTTTGGGTTAAAATTAATTAAATTAGGGTTTAT
1 GGTTTTGGGTT-AAATTAATTAAATTAGGGTTTAT
**** * * *
56563100 GGTTTTAAAATAGATTAAGTAAATTAGAGTTCTAT
1 GGTTTTGGGTTAAATTAATTAAATTAGGGTT-TAT
*
56563135 GG--TT---TTAGA-TAAGTTAAATTAGGGTTT-T
1 GGTTTTGGGTTAAATTAA-TTAAATTAGGGTTTAT
* *
56563163 AGATTTTGGGTTAAAAATAATTAAATTAGGGTTTA
1 -GGTTTTGGGTT-AAATTAATTAAATTAGGGTTTA
56563198 GTTTTTTTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 21
0.69 0.11 0.19
Matches are distributed among these distances:
28 1 0.01
29 5 0.07
30 15 0.20
31 2 0.03
33 2 0.03
34 19 0.25
35 28 0.37
36 3 0.04
ACGTcount: A:0.35, C:0.01, G:0.21, T:0.43
Consensus pattern (34 bp):
GGTTTTGGGTTAAATTAATTAAATTAGGGTTTAT
Found at i:56563111 original size:62 final size:64
Alignment explanation
Indices: 56563013--56563169 Score: 198
Period size: 62 Copynumber: 2.5 Consensus size: 64
56563003 AAATTAGGGT
* * *
56563013 TTAAAATAAATTAAA-TAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTT-T-TGGG
1 TTAAAATTAATTAAATTAGGGTTTATGATTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGG
* *
56563074 TTAAAATTAATTAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGT
1 TTAAAATTAATTAAATTAGGGTTTATGATTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGG
* *
56563138 TTTAGA-TAAGTTAAATTAGGGTTT-TAGATTTT
1 TTAAAATTAA-TTAAATTAGGGTTTAT-GATTTT
56563170 GGGTTAAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
61 14 0.17
62 38 0.46
63 5 0.06
64 26 0.31
ACGTcount: A:0.38, C:0.01, G:0.18, T:0.43
Consensus pattern (64 bp):
TTAAAATTAATTAAATTAGGGTTTATGATTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGG
Found at i:56563152 original size:147 final size:150
Alignment explanation
Indices: 56562873--56563161 Score: 476
Period size: 147 Copynumber: 1.9 Consensus size: 150
56562863 TAAAAATGAT
* *
56562873 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGATTTTAAATAAAT
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGAGTTAAAATAAAT
* *
56562938 TAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTATGGTTTTAGATAACTT
66 TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAACTT
56563003 AAATTAGGGTTTAAAATAAA
131 AAATTAGGGTTTAAAATAAA
* * * *
56563023 TTAAA-TAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTT-TTGG-GTTAAAATTAAT
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGAGTTAAAATAAAT
*
56563085 TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAAGTT
66 TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAACTT
56563150 AAATTAGGGTTT
131 AAATTAGGGTTT
56563162 TAGATTTTGG
Statistics
Matches: 130, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
147 83 0.64
148 3 0.02
149 39 0.30
150 5 0.04
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (150 bp):
TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGAGTTAAAATAAAT
TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAACTT
AAATTAGGGTTTAAAATAAA
Found at i:56563169 original size:29 final size:30
Alignment explanation
Indices: 56563110--56563169 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
56563100 GGTTTTAAAA
*
56563110 TAGATTAAGTAAATTAGAGTTCTATGGTTT
1 TAGATTAAGTAAATTAGAGTTCTATGATTT
* *
56563140 TAGA-TAAGTTAAATTAGGGTTTTA-GATTT
1 TAGATTAAG-TAAATTAGAGTTCTATGATTT
56563169 T
1 T
56563170 GGGTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (30 bp):
TAGATTAAGTAAATTAGAGTTCTATGATTT
Found at i:56563414 original size:126 final size:126
Alignment explanation
Indices: 56563254--56564012 Score: 1131
Period size: 126 Copynumber: 6.0 Consensus size: 126
56563244 CTATTTTTAC
* * *
56563254 CCTGAAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTATCAAAAACGCTTCAAGCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
*
56563319 GCACTGTCAGCAAAAATACAGAAAAAAGCTACCACGTGGACGCTTTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATACAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * *
56563380 CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTTAATCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* * *
56563445 GCACTGTCAGCAAAAATATAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATACAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * * *
56563506 CTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATTAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* * *
56563571 GCACTGCCAGCAAAAATATAGAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATACAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * *
56563632 CCTGAAAAAATAATTTTAAGAAGACGTTTCTAAACAAATAGTGTCAAAAATGCTTCAATCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* * *
56563697 GCACTATCAGCAAAAATACAGAAAAAAAAGCTACCACGTAGATGCTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATACAG--AAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * *
56563760 CTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* *
56563825 GCACTGTCAGCAAAAATATAGAAAAAAGCTACTACGTGGACGCTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATACAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * * *
56563886 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAATATATAGTGTCAAAAACACTTCAAGCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* * * * * * * * *
56563951 GCAATATCATCAAAATTTCTGAAAAATGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAATACAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
56564012 C
1 C
56564013 ATGCTTGGCC
Statistics
Matches: 572, Mismatches: 59, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
126 455 0.80
128 117 0.20
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (126 bp):
CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
GCACTGTCAGCAAAAATACAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
Found at i:56563840 original size:254 final size:253
Alignment explanation
Indices: 56563256--56564012 Score: 1205
Period size: 254 Copynumber: 3.0 Consensus size: 253
56563246 ATTTTTACCC
* * * * *
56563256 TGAAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTATCAAAAACGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
* *
56563321 ACTGTCAGCAAAAATACAGAAAAAAGCTACCACGTGGACGCTTTTTTGCTACAGTAGTTCCTGAA
66 ACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
* *
56563386 AAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTTAATCAGGATGCACTG
131 AAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAATCAGGATGCACTA
*
56563451 TCAGCAAAAAT-ATAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTCT
196 TCAGCAAAAATCAGAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTCT
*
56563508 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATTAGGATGC
1 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
* *
56563573 ACTGCCAGCAAAAATATAGAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTCCTGAA
66 ACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
*
56563638 AAAATAATTTTAAGAAGACGTTTCTAAACAAATAGTGTCAAAAATGCTTCAATCAGGATGCACTA
131 AAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAATCAGGATGCACTA
*
56563703 TCAGCAAAAATACAGAAAAAAAAGCTACCACGTAGATGCTCTTTTGCTACAGTAGTTCT
196 TCAGCAAAAAT-CAGAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTCT
56563762 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
1 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
*
56563827 ACTGTCAGCAAAAATATAGAAAAAAGCTACTACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
66 ACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
* * * ** * *
56563892 AAAATAATTTTGAGAAGACGTTTCTGAATATATAGTGTCAAAAACACTTCAAGCAGGATGCAATA
131 AAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAATCAGGATGCACTA
* * * * * * *
56563957 TCATCAAAATTTCTG--AAAAATGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
196 TCAGCAAAA-ATCAGAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTC
56564013 ATGCTTGGCC
Statistics
Matches: 467, Mismatches: 35, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
252 229 0.49
254 237 0.51
255 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (253 bp):
TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
ACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
AAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAATCAGGATGCACTA
TCAGCAAAAATCAGAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTCT
Found at i:56563953 original size:380 final size:378
Alignment explanation
Indices: 56563254--56564012 Score: 1151
Period size: 380 Copynumber: 2.0 Consensus size: 378
56563244 CTATTTTTAC
* * *
56563254 CCTGAAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTATCAAAAACGCTTCAAGCAGGAT
1 CCTGAAAAAATAATTTTAAGAAGACGTTTCTAAACAAATAGTATCAAAAACGCTTCAAGCAGGAT
* * *
56563319 GCACTGTCAGCAAAAATACAGAAAAAAGCTACCACGTGGACGCTTTTTTGCTACAGTAGTTCCTG
66 GCACTATCAGCAAAAATACAGAAAAAAGCTACCACGTAGACGCTCTTTTGCTACAGTAGTTCCTG
* * *
56563384 AAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTTAATCAGGATGCAC
131 AAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGCAC
* *
56563449 TGTCAGCAAAAATATAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTTCTTGAAAA
196 TGTCAGCAAAAATATAAAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAA
* * ** * *
56563514 AATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATTAGGATGCACTGCC
261 AATAATTTTGAGAAGACGTTTCTGAACAAATAATGTCAAAAACACTTCAAGCAGGATGCAATACC
*
56563579 AGCAAAAATAT-AGAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTT
326 AGC-AAAATATCAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * *
56563632 CCTGAAAAAATAATTTTAAGAAGACGTTTCTAAACAAATAGTGTCAAAAATGCTTCAATCAGGAT
1 CCTGAAAAAATAATTTTAAGAAGACGTTTCTAAACAAATAGTATCAAAAACGCTTCAAGCAGGAT
* *
56563697 GCACTATCAGCAAAAATACAGAAAAAAAAGCTACCACGTAGATGCTCTTTTGCTACAGTAGTTCT
66 GCACTATCAGCAAAAATACAG--AAAAAAGCTACCACGTAGACGCTCTTTTGCTACAGTAGTTCC
* *
56563762 TGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
129 TGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGC
* *
56563827 ACTGTCAGCAAAAATATAGAAAAAAGCTACTACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
194 ACTGTCAGCAAAAATATAAAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAA
* * *
56563892 AAAATAATTTTGAGAAGACGTTTCTGAATATATAGTGTCAAAAACACTTCAAGCAGGATGCAATA
259 AAAATAATTTTGAGAAGACGTTTCTGAACAAATAATGTCAAAAACACTTCAAGCAGGATGCAATA
* * * * * * *
56563957 TCATCAAAATTTCTGAAAAATGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
324 CCAGCAAAATATCAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
56564012 C
1 C
56564013 ATGCTTGGCC
Statistics
Matches: 341, Mismatches: 37, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
378 79 0.23
379 6 0.02
380 256 0.75
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (378 bp):
CCTGAAAAAATAATTTTAAGAAGACGTTTCTAAACAAATAGTATCAAAAACGCTTCAAGCAGGAT
GCACTATCAGCAAAAATACAGAAAAAAGCTACCACGTAGACGCTCTTTTGCTACAGTAGTTCCTG
AAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGATGCAC
TGTCAGCAAAAATATAAAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAA
AATAATTTTGAGAAGACGTTTCTGAACAAATAATGTCAAAAACACTTCAAGCAGGATGCAATACC
AGCAAAATATCAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
Found at i:56567282 original size:21 final size:21
Alignment explanation
Indices: 56567244--56567297 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
56567234 GATTCCTCCT
** *
56567244 TGGTTGCTCTGGCAGGGGTTG
1 TGGTTGCTCCAGCGGGGGTTG
*
56567265 TGGTTTCTCCAGCGGGGGTTG
1 TGGTTGCTCCAGCGGGGGTTG
56567286 TGGTTGCTCCAG
1 TGGTTGCTCCAG
56567298 TTGTAGGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.06, C:0.19, G:0.43, T:0.33
Consensus pattern (21 bp):
TGGTTGCTCCAGCGGGGGTTG
Found at i:56567566 original size:18 final size:18
Alignment explanation
Indices: 56567540--56567581 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
56567530 GACTAAGAAA
* * *
56567540 AGGAAACATATATGGGTT
1 AGGATACATATAAGGGCT
56567558 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
56567576 AGGATA
1 AGGATA
56567582 TGTAGCTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.29, T:0.24
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:56567676 original size:30 final size:30
Alignment explanation
Indices: 56567642--56567700 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
56567632 TATTGAGCTC
* **
56567642 GGTGATTGTGTGGGTGCTGTTGATGGGCCA
1 GGTGATTGTGTGGCTAATGTTGATGGGCCA
56567672 GGTGATTGTGTGGCTAATGTTGATGGGCC
1 GGTGATTGTGTGGCTAATGTTGATGGGCC
56567701 CGTGCCTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.10, G:0.44, T:0.34
Consensus pattern (30 bp):
GGTGATTGTGTGGCTAATGTTGATGGGCCA
Found at i:56569189 original size:19 final size:20
Alignment explanation
Indices: 56569167--56569205 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
56569157 ATTAATTAAA
*
56569167 ATTACATAA-ATGAAAAAAT
1 ATTAAATAATATGAAAAAAT
*
56569186 ATTAAATAATATTAAAAAAT
1 ATTAAATAATATGAAAAAAT
56569206 TAAAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (20 bp):
ATTAAATAATATGAAAAAAT
Found at i:56569204 original size:20 final size:19
Alignment explanation
Indices: 56569167--56569248 Score: 57
Period size: 19 Copynumber: 4.5 Consensus size: 19
56569157 ATTAATTAAA
* *
56569167 ATTACATAAATGAAAAAAT
1 ATTAAATAAATTAAAAAAT
56569186 ATTAAATAATATTAAAAAAT
1 ATTAAATAA-ATTAAAAAAT
* *
56569206 -TAAAATTAATT---AAA-
1 ATTAAATAAATTAAAAAAT
* *
56569220 ATTACATAAATGAAAAAAAT
1 ATTAAATAAAT-TAAAAAAT
56569240 ATTAAATAA
1 ATTAAATAA
56569249 TATTCAAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 13
0.68 0.13 0.19
Matches are distributed among these distances:
15 10 0.21
18 3 0.06
19 17 0.36
20 17 0.36
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
ATTAAATAAATTAAAAAAT
Found at i:56569225 original size:53 final size:54
Alignment explanation
Indices: 56569143--56569265 Score: 212
Period size: 53 Copynumber: 2.3 Consensus size: 54
56569133 GTTATAAAAA
*
56569143 ATTATAAAATTAAAATTAATTAAAATTACATAAATG-AAAAAATATTAAATAAT
1 ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
56569196 ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
1 ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
* *
56569250 ATTCAAAATTTAAAAT
1 ATTAAAAAATTAAAAT
56569266 AAACTGTTAC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
53 35 0.53
54 31 0.47
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (54 bp):
ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
Found at i:56569238 original size:18 final size:18
Alignment explanation
Indices: 56569164--56569239 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 18
56569154 AAAATTAATT
56569164 AAAATTACATAAATGAAA
1 AAAATTACATAAATGAAA
* *
56569182 AAATATTAAATAATAT-TAA
1 AAA-ATTACATAA-ATGAAA
* *
56569201 AAAATT--A-AAATTAATT
1 AAAATTACATAAATGAA-A
56569217 AAAATTACATAAATGAAA
1 AAAATTACATAAATGAAA
56569235 AAAAT
1 AAAAT
56569240 ATTAAATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
14 2 0.04
15 3 0.07
16 7 0.16
18 12 0.27
19 19 0.42
20 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAATTACATAAATGAAA
Found at i:56576762 original size:27 final size:27
Alignment explanation
Indices: 56576694--56576763 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
56576684 GTCACATCAT
* * *
56576694 GGTGTTGCCGGTGGCAGTGGCACCAGC
1 GGTGCTGCCAGTGGCACTGGCACCAGC
* * *
56576721 GGTGCCGCCACTGGCACTGGCACCATC
1 GGTGCTGCCAGTGGCACTGGCACCAGC
*
56576748 GGTGCTGCCTGTGGCA
1 GGTGCTGCCAGTGGCA
56576764 GGCCCACCAC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.11, C:0.31, G:0.39, T:0.19
Consensus pattern (27 bp):
GGTGCTGCCAGTGGCACTGGCACCAGC
Found at i:56582909 original size:19 final size:19
Alignment explanation
Indices: 56582875--56582922 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
56582865 AGAATTATCA
*
56582875 AATAATTATA-ACTATTTG
1 AATAATTGTATACTATTTG
56582893 AATAATTGTATACTATTTG
1 AATAATTGTATACTATTTG
56582912 AATAATTGTAT
1 AATAATTGTAT
56582923 CTTTTACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (19 bp):
AATAATTGTATACTATTTG
Found at i:56597935 original size:10 final size:10
Alignment explanation
Indices: 56597920--56597945 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
56597910 CAAATTAGTC
56597920 AAAAATAATA
1 AAAAATAATA
56597930 AAAAATAATA
1 AAAAATAATA
56597940 AAAAAT
1 AAAAAT
56597946 TATTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATAATA
Found at i:56597960 original size:22 final size:22
Alignment explanation
Indices: 56597930--56597973 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
56597920 AAAAATAATA
56597930 AAAAATAATAAAAAATT-ATTAT
1 AAAAATAAT-AAAAATTCATTAT
* *
56597952 AAAATTAATTAAAATTCATTAT
1 AAAAATAATAAAAATTCATTAT
56597974 TTTAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAATAATAAAAATTCATTAT
Found at i:56602304 original size:17 final size:18
Alignment explanation
Indices: 56602259--56602305 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
56602249 AACAATACCT
56602259 AATAAAAGAAA-GATAAAA
1 AATAAAA-AAATGATAAAA
*
56602277 AATAAACAAAATGA-AAAC
1 AATAAA-AAAATGATAAAA
56602295 AATAAAAAAAT
1 AATAAAAAAAT
56602306 ATTAAGCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.19
18 18 0.69
19 3 0.12
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (18 bp):
AATAAAAAAATGATAAAA
Found at i:56602509 original size:7 final size:7
Alignment explanation
Indices: 56602497--56602532 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
56602487 TTTTTTATAC
56602497 TAATAAA
1 TAATAAA
56602504 TAATAAA
1 TAATAAA
56602511 TAATGAAA
1 TAAT-AAA
*
56602519 TAATATA
1 TAATAAA
56602526 TAATAAA
1 TAATAAA
56602533 AGGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:56602521 original size:15 final size:14
Alignment explanation
Indices: 56602497--56602532 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
56602487 TTTTTTATAC
56602497 TAATAAATAATAAA
1 TAATAAATAATAAA
*
56602511 TAATGAAATAATATA
1 TAAT-AAATAATAAA
56602526 TAATAAA
1 TAATAAA
56602533 AGGAAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:56602564 original size:10 final size:10
Alignment explanation
Indices: 56602517--56602621 Score: 65
Period size: 10 Copynumber: 10.2 Consensus size: 10
56602507 TAAATAATGA
56602517 AATAATATAT
1 AATAATATAT
* *
56602527 AATAAAAGGA-
1 AATAATA-TAT
56602537 AGATAATATAGGT
1 A-ATAATATA--T
56602550 AATAATATAT
1 AATAATATAT
56602560 AATAATATAT
1 AATAATATAT
* *
56602570 GAT-ATGTAAT
1 AATAATAT-AT
*
56602580 AAAAATATA-
1 AATAATATAT
*
56602589 AATAAAATAT
1 AATAATATAT
56602599 AATGAA-ATAT
1 AAT-AATATAT
56602609 AATAATATGAT
1 AATAATAT-AT
56602620 AA
1 AA
56602622 CTATCATATA
Statistics
Matches: 73, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
9 12 0.16
10 37 0.51
11 15 0.21
12 8 0.11
13 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (10 bp):
AATAATATAT
Found at i:56602718 original size:26 final size:25
Alignment explanation
Indices: 56602670--56602731 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 25
56602660 ATTTAATAAT
* **
56602670 AATTAA-AAAAATAAAATTTTACAC
1 AATTAATAATAATAAAATAATACAC
*
56602694 AATTAATGAATAATAAAATAATACAT
1 AATTAAT-AATAATAAAATAATACAC
*
56602720 AATTTATAATAA
1 AATTAATAATAA
56602732 AATAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 6 0.19
25 5 0.16
26 20 0.65
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (25 bp):
AATTAATAATAATAAAATAATACAC
Found at i:56602815 original size:16 final size:16
Alignment explanation
Indices: 56602799--56602857 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 16
56602789 AAAGTTTATA
*
56602799 AATAAAAT-GTATAAT
1 AATAAAATAATATAAT
56602814 AATAAAATAATATAAT
1 AATAAAATAATATAAT
*
56602830 GAATAATAT-ATA-AAT
1 -AATAAAATAATATAAT
56602845 AA-AAAATAATATA
1 AATAAAATAATATA
56602858 TATTATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 4 0.11
14 5 0.14
15 12 0.32
16 9 0.24
17 7 0.19
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAAAATAATATAAT
Found at i:56602825 original size:23 final size:23
Alignment explanation
Indices: 56602799--56602860 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
56602789 AAAGTTTATA
*
56602799 AATAAAATGTATAATA-ATAAAAT
1 AATAAAATGAATAATATAT-AAAT
*
56602822 AATATAATGAATAATATATAAAT
1 AATAAAATGAATAATATATAAAT
56602845 AA-AAAAT-AAT-ATATAT
1 AATAAAATGAATAATATAT
56602861 TATTTTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 6 0.17
21 3 0.09
22 4 0.11
23 20 0.57
24 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (23 bp):
AATAAAATGAATAATATATAAAT
Found at i:56602860 original size:20 final size:20
Alignment explanation
Indices: 56602795--56602860 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 20
56602785 TAATAAAGTT
*
56602795 TATAAATAAAATGTATAATA-A
1 TATAAATAAAA--AATAATATA
*
56602816 TA-AAATAATATAATGAATAATA
1 TATAAATAA-AAAAT-AAT-ATA
56602838 TATAAATAAAAAATAATATA
1 TATAAATAAAAAATAATATA
56602858 TAT
1 TAT
56602861 TATTTTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
19 2 0.05
20 15 0.41
21 7 0.19
22 7 0.19
23 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAATAAAAAATAATATA
Found at i:56604682 original size:39 final size:40
Alignment explanation
Indices: 56604639--56604723 Score: 120
Period size: 39 Copynumber: 2.1 Consensus size: 40
56604629 TGGAAATTAT
*
56604639 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCA-GTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCACGTGGCTAC
* *
56604678 ATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGCTAC
56604718 ATCCGG
1 ATCCGG
56604724 TTGTATTCCG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
38 3 0.07
39 26 0.63
40 12 0.29
ACGTcount: A:0.24, C:0.25, G:0.31, T:0.21
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGCTAC
Found at i:56611830 original size:28 final size:28
Alignment explanation
Indices: 56611796--56611891 Score: 86
Period size: 28 Copynumber: 3.2 Consensus size: 28
56611786 TTTGCACATG
56611796 ATGTTTGGTTATGAACTAAGTGATGAAT
1 ATGTTTGGTTATGAACTAAGTGATGAAT
* * * *
56611824 ATGTTTGTTTAAAGAA-AAGATGTGAAGAACAT
1 ATGTTTGGTT-ATGAACTA-A-GTGATG-A-AT
*
56611856 GATTTTTGGTTATGAACTAAGTGATGAAT
1 -ATGTTTGGTTATGAACTAAGTGATGAAT
56611885 ATGTTTG
1 ATGTTTG
56611892 TTTAAAGAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
28 16 0.31
29 7 0.14
30 6 0.12
31 6 0.12
32 7 0.14
33 9 0.18
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (28 bp):
ATGTTTGGTTATGAACTAAGTGATGAAT
Found at i:56611886 original size:61 final size:62
Alignment explanation
Indices: 56611791--56611906 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 62
56611781 ATATGTTTGC
56611791 ACATGATGTTTGGTTATGAACTAAGTGATGAATATGTTTGTTTAAAGAA-AAGATGTGAAGA
1 ACATGATGTTTGGTTATGAACTAAGTGATGAATATGTTTGTTTAAAGAAGAAGATGTGAAGA
*
56611852 ACATGATTTTTGGTTATGAACTAAGTGATGAATATGTTTGTTTAAAGAAGAAGAT
1 ACATGATGTTTGGTTATGAACTAAGTGATGAATATGTTTGTTTAAAGAAGAAGAT
56611907 TGAGAATGAT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
61 48 0.91
62 5 0.09
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.36
Consensus pattern (62 bp):
ACATGATGTTTGGTTATGAACTAAGTGATGAATATGTTTGTTTAAAGAAGAAGATGTGAAGA
Found at i:56612602 original size:120 final size:119
Alignment explanation
Indices: 56612386--56612604 Score: 291
Period size: 120 Copynumber: 1.8 Consensus size: 119
56612376 GAATTATGTG
* * * * * * *
56612386 AAATGAAATATGGATGTGTATTGATTATTGATTATGTGTGTATGAGTATTTGAATGATACCTGGG
1 AAATGAAATATGAATGTCTAATGATTATTGATCATGTGTGCATGAGCAATTGAATGATACC-GGG
*
56612451 CTAAGTCCCGAAGGCGATTATGCTGTGATTATATTTGCGTTTGAGCCTTTAACGA
65 CTAAGTCCCGAAGACGATTATGCTGTGATTATATTTGCGTTTGAGCCTTTAACGA
56612506 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCC-G
1 AAATGAAATATGAATGTCTAATGATTATTGAT-CATGTGTGCATGAGCAATTGAATGATA-CCGG
*
56612570 GCTAAGTCTCGAAGACG-TTATTGCTG-GAATTATAT
64 GCTAAGTCCCGAAGACGATTA-TGCTGTG-ATTATAT
56612605 CCGGGTTAAG
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
119 4 0.05
120 57 0.66
121 23 0.27
122 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.36
Consensus pattern (119 bp):
AAATGAAATATGAATGTCTAATGATTATTGATCATGTGTGCATGAGCAATTGAATGATACCGGGC
TAAGTCCCGAAGACGATTATGCTGTGATTATATTTGCGTTTGAGCCTTTAACGA
Found at i:56612686 original size:39 final size:40
Alignment explanation
Indices: 56612599--56612687 Score: 112
Period size: 39 Copynumber: 2.2 Consensus size: 40
56612589 ATTGCTGGAA
*
56612599 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCCAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCCAGTGG
* *
56612639 CTACATCCGGGCTAAGA-CCGAAGGC-ATTCGTG-CACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCCA-GTGG
56612678 TTATATCCGG
1 TTATATCCGG
56612688 TTGTATTCCG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
38 5 0.12
39 23 0.55
40 14 0.33
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCCAGTGG
Found at i:56616201 original size:44 final size:44
Alignment explanation
Indices: 56615561--56616199 Score: 938
Period size: 44 Copynumber: 14.5 Consensus size: 44
56615551 ACTCAAGAAT
* * *
56615561 GCCAAATCTGTTATCTCCGACCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
56615605 GCCGAATCTGCTATCTGT-GATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCT-TCGATCTGCTCTCTGACAATACAGAGAC
* * *
56615649 ACCAAATCTGTTATCTTCGATCTGCTTTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
56615693 GCCAAATCTGCTATCTTTGATCTGCTCTCTAACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
56615737 GCCAAATCTGCTACCTTCGATCTGCTCTCTAACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
*
56615781 GCCAAATCTGCTATCTTCGATCTGCTCCCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* **
56615825 GCCAAATCTGCTATTTTCGATCTGCTCTCTGACAATACAGAGGT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
56615869 GCCAAATTTGCTATCTTCGATTTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
56615913 GCTAAATCTGTTCTCTTCGATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
*
56615957 GCCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
*
56616001 GCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
56616045 GTCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
** * * * *
56616089 GCCAAATCTATTCTCTTCAATCTGCTCTTTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
56616133 GCCAAATCTGTTCTCTTCGATCTACTCTCTGATAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
56616177 GCCAAATCTGCTATCTTCGATCT
1 GCCAAATCTGCTATCTTCGATCT
56616200 ACATTTTCTT
Statistics
Matches: 536, Mismatches: 57, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
43 1 0.00
44 535 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
Found at i:56620942 original size:13 final size:13
Alignment explanation
Indices: 56620924--56620950 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56620914 TAACAACCTC
56620924 CTTCTTCAAGCAA
1 CTTCTTCAAGCAA
56620937 CTTCTTCAAGCAA
1 CTTCTTCAAGCAA
56620950 C
1 C
56620951 CCTCCTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.33, G:0.07, T:0.30
Consensus pattern (13 bp):
CTTCTTCAAGCAA
Found at i:56628110 original size:7 final size:7
Alignment explanation
Indices: 56628098--56628135 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
56628088 AATTTTTTAT
56628098 AATAATA
1 AATAATA
56628105 AATAATA
1 AATAATA
56628112 AATAATGA
1 AATAAT-A
56628120 AATAATA
1 AATAATA
*
56628127 TATAATA
1 AATAATA
56628134 AA
1 AA
56628136 AGAAAGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:56628167 original size:10 final size:10
Alignment explanation
Indices: 56628095--56628225 Score: 72
Period size: 10 Copynumber: 12.5 Consensus size: 10
56628085 TTAAATTTTT
56628095 TATAATAATA
1 TATAATAATA
*
56628105 AATAATAA-A
1 TATAATAATA
56628114 TAATGAAATAATA
1 T-AT--AATAATA
*
56628127 TATAATAAAA
1 TATAATAATA
* *
56628137 GAAAGATAATA
1 TATA-ATAATA
56628148 TAGGTAATAATA
1 TA--TAATAATA
56628160 TATAATAATA
1 TATAATAATA
* *
56628170 TATGAT-ATG
1 TATAATAATA
*
56628179 TAATAA-AAAA
1 T-ATAATAATA
*
56628189 TATAAATAAAA
1 TAT-AATAATA
56628200 TATAATGAA-A
1 TATAAT-AATA
56628210 TATAATAATA
1 TATAATAATA
56628220 TGATAA
1 T-ATAA
56628226 CTATCATATA
Statistics
Matches: 94, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
9 8 0.09
10 49 0.52
11 19 0.20
12 15 0.16
13 3 0.03
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (10 bp):
TATAATAATA
Found at i:56628320 original size:26 final size:25
Alignment explanation
Indices: 56628272--56628333 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 25
56628262 ATTTAATAAT
* **
56628272 AATTAA-AAAAATAAAATTTTACAC
1 AATTAATAATAATAAAATAATACAC
*
56628296 AATTAATGAATAATAAAATAATACAT
1 AATTAAT-AATAATAAAATAATACAC
*
56628322 AATTTATAATAA
1 AATTAATAATAA
56628334 AATAAAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 6 0.19
25 5 0.16
26 20 0.65
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (25 bp):
AATTAATAATAATAAAATAATACAC
Found at i:56628400 original size:12 final size:12
Alignment explanation
Indices: 56628381--56628417 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
56628371 TAAAACATAT
56628381 AATGTATAATAA
1 AATGTATAATAA
*
56628393 AATTTATAAATAA
1 AATGTAT-AATAA
56628406 AATGTATAATAA
1 AATGTATAATAA
56628418 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Done.