Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 24 of 433
Found at i:6405437 original size:2 final size:2
Alignment explanation
Indices: 6405430--6405463 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6405420 TGTTGTAATC
*
6405430 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6405464 ATAAAATTTG
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6405541 original size:13 final size:13
Alignment explanation
Indices: 6405523--6405554 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
6405513 GAATCGGTTT
6405523 TCAATTAATGACA
1 TCAATTAATGACA
6405536 TCAATTAATGACA
1 TCAATTAATGACA
6405549 TCAATT
1 TCAATT
6405555 CAATCAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (13 bp):
TCAATTAATGACA
Found at i:6414616 original size:31 final size:30
Alignment explanation
Indices: 6414541--6414616 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 30
6414531 AAGGTAACTT
*
6414541 AATAACTTAGTGACTTAAATAAAAACTCTCG
1 AATAA-TTAGTGATTTAAATAAAAACTCTCG
* *
6414572 AATAATTTAGTGATTTAAATGAAAACTTTCG
1 AATAA-TTAGTGATTTAAATAAAAACTCTCG
6414603 AATAATTCAGTGAT
1 AATAATT-AGTGAT
6414617 AATTTTGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 2 0.05
31 38 0.95
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (30 bp):
AATAATTAGTGATTTAAATAAAAACTCTCG
Found at i:6418396 original size:42 final size:43
Alignment explanation
Indices: 6418284--6418440 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
6418274 TGTGTTATCG
* * * * *
6418284 TGTAAGACCACGTCTAGGACATTGACATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACAGTGGCATCGA-TATTTGA-TTACA
* ** * * *
6418328 TATAAGTGCACGTCTGGGACATTGGCATCG-TATTTGATTTCC
1 TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTACA
** *
6418370 TGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTTATTACA
1 TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTACA
6418413 TGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
6418441 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 29 0.32
43 37 0.41
44 25 0.27
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:6428653 original size:26 final size:26
Alignment explanation
Indices: 6428617--6428726 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
6428607 CATGAAATTC
6428617 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6428643 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6428669 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
6428695 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6428721 TTATCA
1 TTATCA
6428727 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6434450 original size:26 final size:26
Alignment explanation
Indices: 6434414--6434523 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
6434404 CATGAAATTC
6434414 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6434440 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6434466 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
6434492 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6434518 TTATCA
1 TTATCA
6434524 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6439200 original size:66 final size:67
Alignment explanation
Indices: 6439103--6439258 Score: 169
Period size: 66 Copynumber: 2.4 Consensus size: 67
6439093 TAGTTTTGAC
* * * * *
6439103 CACGGGCTAGACACACGGGTGTGTGA-CTGGCCGTGT-GACCCAAGTCAGTA-GCCT-CCCTAAT
1 CACGGCCTAGACACACGGGCGTGTTATGTGGCCGTGTGGA--CAAGTCAGTATGCATGCCCT-AT
6439164 TTTCA
63 TTTCA
* * *
6439169 CACGGCCT-GGCACACGGGCGTGTTATGTGGCCGTGTGGACAAGTTAGTATGTATGCCCTATTTT
1 CACGGCCTAGACACACGGGCGTGTTATGTGGCCGTGTGGACAAGTCAGTATGCATGCCCTATTTT
*
6439233 GA
66 CA
6439235 CACGGCCTAGACACACGGGCGTGT
1 CACGGCCTAGACACACGGGCGTGT
6439259 CTAAGCTGTG
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
65 23 0.31
66 32 0.43
67 20 0.27
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (67 bp):
CACGGCCTAGACACACGGGCGTGTTATGTGGCCGTGTGGACAAGTCAGTATGCATGCCCTATTTT
CA
Found at i:6439535 original size:24 final size:25
Alignment explanation
Indices: 6439497--6439544 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
6439487 TTTCGTTTGG
*
6439497 TTTTCTCTGTTTCTTTCTTTCTTTC
1 TTTTCTCTATTTCTTTCTTTCTTTC
*
6439522 TTTT-TCTATTTCTTTTTTTCTTT
1 TTTTCTCTATTTCTTTCTTTCTTT
6439545 TTATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTCTCTATTTCTTTCTTTCTTTC
Found at i:6439594 original size:18 final size:20
Alignment explanation
Indices: 6439558--6439603 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 20
6439548 TTTATTTGTT
6439558 TTATTATAATAATACAATATA
1 TTATTATAATAATA-AATATA
6439579 TTATTATATAATAATATAATATA
1 TTA-T-TATAATAATA-AATATA
6439602 TT
1 TT
6439604 TACTTAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 1 0.05
23 18 0.82
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTATTATAATAATAAATATA
Found at i:6439971 original size:40 final size:40
Alignment explanation
Indices: 6439916--6440144 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
6439906 GATTTAGTGG
* * * *
6439916 CATTAGCGGCGCTTTTTTAAAAACGCTGCTATAGATCAAA
1 CATTAGCGGCACTTTTTAAAAAACGCCGCTATAGATCGAA
* * * *
6439956 CATTAACGGCACTTTTCAAAAAACGCCGCTATAGGTCGAG
1 CATTAGCGGCACTTTTTAAAAAACGCCGCTATAGATCGAA
* *
6439996 CATTAGCGACACTTTTTAAAAAACGCCACTATAGATCGAA
1 CATTAGCGGCACTTTTTAAAAAACGCCGCTATAGATCGAA
* ** * * *
6440036 CATTAGCGTCGTTTTTTGAAAAACACCGCTATAGATCGAG
1 CATTAGCGGCACTTTTTAAAAAACGCCGCTATAGATCGAA
* * * * * *
6440076 CATTAGCGTCGCTTTTTGAAAAACGCCACTATTGATCGAG
1 CATTAGCGGCACTTTTTAAAAAACGCCGCTATAGATCGAA
* * * *
6440116 CATTAGTGACACTTTTTGAAAATCGCCGC
1 CATTAGCGGCACTTTTTAAAAAACGCCGC
6440145 AAAAAAAATT
Statistics
Matches: 159, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 159 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (40 bp):
CATTAGCGGCACTTTTTAAAAAACGCCGCTATAGATCGAA
Found at i:6440058 original size:120 final size:120
Alignment explanation
Indices: 6439916--6440142 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 120
6439906 GATTTAGTGG
* *
6439916 CATTAGCGGCGCTTTTTTAAAAACGCTGCTATAGATCAAACATTAACGGCACTTTTCAAAAAACG
1 CATTAGCGGCGCTTTTTTAAAAACACCGCTATAGATCAAACATTAACGGCACTTTTCAAAAAACG
* *
6439981 CCGCTATAGGTCGAGCATTAGCGACACTTTTTAAAAAACGCCACTATAGATCGAA
66 CCACTATAGATCGAGCATTAGCGACACTTTTTAAAAAACGCCACTATAGATCGAA
* * * * * * **
6440036 CATTAGCGTCG-TTTTTTGAAAAACACCGCTATAGATCGAGCATTAGCGTCGCTTTTTGAAAAAC
1 CATTAGCGGCGCTTTTTT-AAAAACACCGCTATAGATCAAACATTAACGGCACTTTTCAAAAAAC
* * * *
6440100 GCCACTATTGATCGAGCATTAGTGACACTTTTTGAAAATCGCC
65 GCCACTATAGATCGAGCATTAGCGACACTTTTTAAAAAACGCC
6440143 GCAAAAAAAA
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
119 6 0.07
120 84 0.93
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (120 bp):
CATTAGCGGCGCTTTTTTAAAAACACCGCTATAGATCAAACATTAACGGCACTTTTCAAAAAACG
CCACTATAGATCGAGCATTAGCGACACTTTTTAAAAAACGCCACTATAGATCGAA
Found at i:6440132 original size:80 final size:80
Alignment explanation
Indices: 6439915--6440137 Score: 266
Period size: 80 Copynumber: 2.8 Consensus size: 80
6439905 AGATTTAGTG
* * ** * * * **
6439915 GCATTAGCGGCGCTTTTTTAAAAACGCTGCTATAGATCAAACATTAACGGCACTTTTCAAAAAAC
1 GCATTAGCGACGCTTTTTAAAAAACGCCACTATAGATCGAACATTAGCGACACTTTTTGAAAAAC
* *
6439980 GCCGCTATAGGTCGA
66 ACCGCTATAGATCGA
* * **
6439995 GCATTAGCGACACTTTTTAAAAAACGCCACTATAGATCGAACATTAGCGTCGTTTTTTGAAAAAC
1 GCATTAGCGACGCTTTTTAAAAAACGCCACTATAGATCGAACATTAGCGACACTTTTTGAAAAAC
6440060 ACCGCTATAGATCGA
66 ACCGCTATAGATCGA
* * * * *
6440075 GCATTAGCGTCGCTTTTTGAAAAACGCCACTATTGATCGAGCATTAGTGACACTTTTTGAAAA
1 GCATTAGCGACGCTTTTTAAAAAACGCCACTATAGATCGAACATTAGCGACACTTTTTGAAAA
6440138 TCGCCGCAAA
Statistics
Matches: 120, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 120 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (80 bp):
GCATTAGCGACGCTTTTTAAAAAACGCCACTATAGATCGAACATTAGCGACACTTTTTGAAAAAC
ACCGCTATAGATCGA
Found at i:6440236 original size:17 final size:16
Alignment explanation
Indices: 6440210--6440241 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6440200 GCACAACGTC
6440210 ACAAAAAAAATTAAGA
1 ACAAAAAAAATTAAGA
6440226 ACAATAAAAAATTAAG
1 ACAA-AAAAAATTAAG
6440242 CACTACATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (16 bp):
ACAAAAAAAATTAAGA
Found at i:6440542 original size:25 final size:25
Alignment explanation
Indices: 6440514--6440581 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 25
6440504 TTTGAGAAGT
6440514 TAAATTTTATCAAAATCAATTTCGA
1 TAAATTTTATCAAAATCAATTTCGA
6440539 TAAATTTTATCAGTATCAAAATCAATTTCGA
1 TAAA--TT-T---TATCAAAATCAATTTCGA
6440570 TAAATTTTATCA
1 TAAATTTTATCA
6440582 GCTACACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
25 9 0.24
27 2 0.05
28 2 0.05
29 2 0.05
31 22 0.59
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (25 bp):
TAAATTTTATCAAAATCAATTTCGA
Found at i:6440558 original size:31 final size:31
Alignment explanation
Indices: 6440521--6440582 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
6440511 AGTTAAATTT
6440521 TATCAAAATCAATTTCGATAAATTTTATCAG
1 TATCAAAATCAATTTCGATAAATTTTATCAG
6440552 TATCAAAATCAATTTCGATAAATTTTATCAG
1 TATCAAAATCAATTTCGATAAATTTTATCAG
6440583 CTACACAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (31 bp):
TATCAAAATCAATTTCGATAAATTTTATCAG
Found at i:6440852 original size:19 final size:18
Alignment explanation
Indices: 6440830--6440868 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
6440820 CAATTTGATC
6440830 AATTTTGTTGAATTTTATA
1 AATTTTGTTGAATTTT-TA
6440849 AATTTTGTTGAATTTTTA
1 AATTTTGTTGAATTTTTA
6440867 AA
1 AA
6440869 AATTAATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
AATTTTGTTGAATTTTTA
Found at i:6442282 original size:2 final size:2
Alignment explanation
Indices: 6442275--6442321 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
6442265 ATCATTTTGG
*
6442275 AT AT AT AT AC AT 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 AT AT AT AT AT AT
6442317 AT AT A
1 AT AT A
6442322 CACATAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6444402 original size:14 final size:15
Alignment explanation
Indices: 6444377--6444405 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6444367 TTAGGAAACG
6444377 TACATAAAAAATATA
1 TACATAAAAAATATA
6444392 TACAT-AAAAATATA
1 TACATAAAAAATATA
6444406 CAACAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
TACATAAAAAATATA
Found at i:6444442 original size:2 final size:2
Alignment explanation
Indices: 6444435--6444482 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
6444425 ATATGTACAA
* *
6444435 AT AT AT AT AT AT AT AT AT GT 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 AT AT AT AT
*
6444477 AC AT AT
1 AT AT AT
6444483 GTACATAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6444590 original size:33 final size:33
Alignment explanation
Indices: 6444546--6444618 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
6444536 AATAATTTGT
*
6444546 AATA-ATAATATATACACAAT-ATGGTATTTAA-
1 AATATATAATATATACA-AATAATAGTATTTAAG
* *
6444577 AATATATATATATATATATATAATAGTATTTAAG
1 AATATATA-ATATATACAAATAATAGTATTTAAG
6444611 AATATATA
1 AATATATA
6444619 CATAATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 4 0.11
32 5 0.14
33 18 0.51
34 8 0.23
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (33 bp):
AATATATAATATATACAAATAATAGTATTTAAG
Found at i:6444682 original size:24 final size:24
Alignment explanation
Indices: 6444588--6444683 Score: 70
Period size: 24 Copynumber: 4.0 Consensus size: 24
6444578 ATATATATAT
* * * *
6444588 ATATATATATAATAGTATTTAAGA
1 ATATATACATAATAATATTAAAAA
* *
6444612 ATATATACATAATAATACATAAGAA
1 ATATATACATAATAATA-TTAAAAA
***
6444637 ATATATA-ACTAATGGCATTAAAAA
1 ATATATACA-TAATAATATTAAAAA
6444661 ATATATACATAAT-ATATATAAAA
1 ATATATACATAATAATAT-TAAAA
6444684 TACCTAAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
23 2 0.04
24 37 0.67
25 16 0.29
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (24 bp):
ATATATACATAATAATATTAAAAA
Found at i:6445230 original size:15 final size:16
Alignment explanation
Indices: 6445197--6445231 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6445187 TTTCTTCTTT
*
6445197 TTTTTTTGGGGTTAGG
1 TTTTTTTGGGGTTAAG
6445213 TTTTTTTGGGG-TAAG
1 TTTTTTTGGGGTTAAG
6445228 TTTT
1 TTTT
6445232 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.09, C:0.00, G:0.31, T:0.60
Consensus pattern (16 bp):
TTTTTTTGGGGTTAAG
Found at i:6445248 original size:17 final size:17
Alignment explanation
Indices: 6445228--6445262 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6445218 TTGGGGTAAG
6445228 TTTTCTTT-TTCTTTTTT
1 TTTTCTTTGTT-TTTTTT
6445245 TTTTCTTTGTTTTTTTT
1 TTTTCTTTGTTTTTTTT
6445262 T
1 T
6445263 GGGTTAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTCTTTGTTTTTTTT
Found at i:6446015 original size:88 final size:83
Alignment explanation
Indices: 6445908--6446485 Score: 290
Period size: 88 Copynumber: 7.0 Consensus size: 83
6445898 AACAGACATT
** * *
6445908 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
6445973 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * * ** *
6445996 AAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
6446060 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * * ** *** *
6446079 AAATTAAAAGA--CT-CAACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
6446140 ATGAGTTGAATTTTTTTG-AAAA---
60 ATGAGTTG-A-TTTTTTGAAAAACTG
** * *
6446162 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
6446227 TTGA-TTTTTGAAAACAGAATTTG
65 TTGATTTTTTG--AA-A-AA-CTG
* * * * * * *
6446250 AAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATATCGCAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
6446315 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** *** * *
6446333 --ATA-A-ATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
6446393 GTTGATTTTTTTG--AAA--G
64 GTTGA-TTTTTTGAAAAACTG
* * * * * * *
6446410 ATAGA-A-A--TTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
6446471 TTGATTTTTTGAAAA
65 TTGATTTTTTGAAAA
6446486 CAGAAATTGA
Statistics
Matches: 382, Mismatches: 71, Indels: 84
0.71 0.13 0.16
Matches are distributed among these distances:
76 9 0.02
77 47 0.12
78 2 0.01
79 63 0.16
80 3 0.01
81 11 0.03
82 38 0.10
83 14 0.04
84 41 0.11
85 9 0.02
86 6 0.02
87 19 0.05
88 114 0.30
90 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:6446112 original size:30 final size:30
Alignment explanation
Indices: 6446076--6446137 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
6446066 TTTTGAAAAA
6446076 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
6446106 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
6446136 CA
1 CA
6446138 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:6446256 original size:14 final size:14
Alignment explanation
Indices: 6446233--6446267 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6446223 TGAGTTGATT
6446233 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
6446246 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
6446260 TTTGAAAA
1 TTTGAAAA
6446268 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:6446457 original size:77 final size:75
Alignment explanation
Indices: 6446287--6446626 Score: 361
Period size: 72 Copynumber: 4.5 Consensus size: 75
6446277 ATGTAACCCG
* * * * *
6446287 AGGCTCAACTCACATATCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCT
* *
6446352 CAGTGTGTGATCTGA
63 CA--GCGTGATCTCA
* *
6446367 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
*
6446431 GCGCATGAGC-CA
65 GCG--TGATCTCA
* * *
6446443 AGGGTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
**
6446507 CGTG-TCTTG
66 CGTGATCTCA
** * * *
6446516 AGGCTCAACTCATTTCTCACAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
* *
6446579 CGTG-TCCCG
66 CGTGATCTCA
6446588 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
6446627 TTTTTTTTTG
Statistics
Matches: 223, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
72 65 0.29
73 29 0.13
74 4 0.02
75 23 0.10
76 12 0.05
77 42 0.19
78 3 0.01
79 44 0.20
80 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
CGTGATCTCA
Found at i:6446568 original size:72 final size:72
Alignment explanation
Indices: 6446246--6446624 Score: 344
Period size: 72 Copynumber: 5.0 Consensus size: 72
6446236 GAAAACAGAA
** * * * * *
6446246 TTTGAAAAACAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATATCGCAATG
1 TTTG-AAAACAGAAATTGAAAATACCTCAACGTGT--CCCGAGGCTCAACTCACCTCTCGCAATA
6446311 TGAGTTGATTTT
63 TGAGTTGA--TT
* * ** * * *
6446323 TTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAA
1 TTTG-AAAACAGAAATTG--AAAATACCTCAACGTGT--CCCGAGGCTCAACTCACCTCTCGCAA
6446388 TATGAGTTGATTTT
61 TATGAGTTGA--TT
* * * ** * *
6446402 TTTGAAAGATAGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATA
1 TTTGAAA-ACAGAAATTGAAAATACCTCAACG--TGTCCCGAGGCTCAACTCACCTCTCGCAATA
*
6446467 TAAGTTGATTT
63 TGAGTTGA-TT
** ** *
6446478 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
*
6446543 GTTGAAT
66 GTTGATT
* *
6446550 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
6446615 GTTGATT
66 GTTGATT
6446622 TTT
1 TTT
6446625 TTTTTTTTTT
Statistics
Matches: 250, Mismatches: 47, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
72 68 0.27
73 29 0.12
75 21 0.08
76 10 0.04
77 56 0.22
78 3 0.01
79 63 0.25
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (72 bp):
TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATT
Found at i:6446774 original size:174 final size:168
Alignment explanation
Indices: 6446482--6446962 Score: 697
Period size: 165 Copynumber: 2.9 Consensus size: 168
6446472 TGATTTTTTG
* * * ** * *
6446482 AAAACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCATTTCTCACAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* * *
6446545 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
66 TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
* *
6446609 ATATGAGTTGATTTTTTTTTTTTTTTTGAAATGCAGAAATTGA
131 ATATGAGTTGA-----TTTTTTTTTTTGAAAGGCAAAAATTGA
*
6446652 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
6446717 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
6446782 AATATGAGTTGA----TTTTTTTGAAAGGCAAAAATTGA
130 AATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
* * * *
6446817 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
6446882 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
6446947 AATATGAGTTGATTTT
130 AATATGAGTTGATTTT
6446963 GAAAAAGTAG
Statistics
Matches: 284, Mismatches: 19, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
165 157 0.55
170 27 0.10
171 1 0.00
172 30 0.11
174 69 0.24
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (168 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTTTTGAAAGGCAAAAATTGA
Found at i:6446781 original size:74 final size:75
Alignment explanation
Indices: 6446658--6446819 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
6446648 TTGAAAAATG
*
6446658 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
6446723 TTTTGACAACA
65 TTTTGACAACA
* * *
6446734 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
6446797 TTTTGA-AAGGCA
65 TTTTGACAA--CA
*
6446809 AAAATTGAAAA
1 GAAATTGAAAA
6446820 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
73 2 0.03
74 42 0.55
75 12 0.16
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:6446948 original size:74 final size:75
Alignment explanation
Indices: 6446823--6446962 Score: 219
Period size: 74 Copynumber: 1.9 Consensus size: 75
6446813 TTGAAAAACG
* *
6446823 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
6446888 TTTTGACAACA
65 TTTTGACAACA
* * *
6446899 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
6446963 GAAAAAGTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 37 0.63
76 22 0.37
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:6447150 original size:210 final size:214
Alignment explanation
Indices: 6446762--6447218 Score: 588
Period size: 210 Copynumber: 2.1 Consensus size: 214
6446752 GCGTGTCCTG
* * * *
6446762 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAAAAATTGAAAAACGGAAA
1 AGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTCTTGAAAGACAAAAATTGAAAAACAGAAA
* * **
6446827 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTTTTTT
65 TTGAAAATACCTCAGCG-GTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGA--TAATT
* * * ** * *
6446892 GACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
127 GAAAACAAAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTT
* *
6446957 GATTTTGAAAAAGTAGAAATTAAA
192 GATTTTGAAAAA-CAAAAATTAAA
**
6446981 AGG-TTCAAC-CTACCTCTCGCAATATGAGTTGA-TTCTTGAACA-ACGTAAATTG-AAAACAGA
1 AGGCTT-AACTC-ACCTCTCGCAATATGAGTTGATTTCTTGAA-AGACAAAAATTGAAAAACAGA
* *
6447041 AATTGAAAATACCTCAGC-GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-
63 AATTGAAAATACCTCAGCGGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATAATTG
6447103 AAAACAAAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
128 AAAACAAAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
6447168 ATTTTGAAAAACAAAAATTAAA
193 ATTTTGAAAAACAAAAATTAAA
*
6447190 AGGCTTAACTCACCTCTCGTAATATGAGT
1 AGGCTTAACTCACCTCTCGCAATATGAGT
6447219 CAATTTAAAA
Statistics
Matches: 211, Mismatches: 22, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
209 32 0.15
210 72 0.34
211 2 0.01
214 37 0.18
216 24 0.11
217 14 0.07
218 3 0.01
219 27 0.13
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.26
Consensus pattern (214 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTTGATTTCTTGAAAGACAAAAATTGAAAAACAGAAAT
TGAAAATACCTCAGCGGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATAATTGAAA
ACAAAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATT
TTGAAAAACAAAAATTAAA
Found at i:6447346 original size:71 final size:70
Alignment explanation
Indices: 6447225--6447447 Score: 306
Period size: 70 Copynumber: 3.1 Consensus size: 70
6447215 GAGTCAATTT
*
6447225 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG
1 AAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTG
6447290 AAAACA
65 AAAACA
* * ** *
6447296 ACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTA
1 AAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTG
6447359 AAACACA
65 AAA-ACA
* * *
6447366 AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG
1 AAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTG
6447431 AAAAACA
65 -AAAACA
6447438 AAAATTAAAA
1 AAAATTAAAA
6447448 GGCTTAACTC
Statistics
Matches: 131, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
69 5 0.04
70 55 0.42
71 53 0.40
72 15 0.11
73 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (70 bp):
AAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTGA
AAACA
Found at i:6447486 original size:257 final size:256
Alignment explanation
Indices: 6447030--6447511 Score: 851
Period size: 257 Copynumber: 1.9 Consensus size: 256
6447020 ACAACGTAAA
* *
6447030 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTAAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
6447095 TTGAAATTAAAACAAAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTG-AATTAAAACAAAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTAGCAAT
*
6447160 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGTAATATGAGTCAATTT
130 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
6447225 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
195 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
* * *
6447287 TTGAAAACA-ACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGA
1 TTGAAAACAGA-AATTAAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
*
6447351 GTTG-ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
65 GTTGAATT-AAA-ACAAAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTAGCA
6447415 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
128 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
6447480 TTAAAACTAAAAATACCTCAGCGTGTCCCGAG
193 TTAAAACTAAAAATACCTCAGCGTGTCCCGAG
6447512 ACATCCATGC
Statistics
Matches: 215, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
255 3 0.01
256 4 0.02
257 208 0.97
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (256 bp):
TTGAAAACAGAAATTAAAAATACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGAATTAAAACAAAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTAGCAATA
TGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTA
AAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:6454298 original size:14 final size:15
Alignment explanation
Indices: 6454273--6454301 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6454263 TTAGGAAACG
6454273 TACATAAAAAATATA
1 TACATAAAAAATATA
6454288 TACAT-AAAAATATA
1 TACATAAAAAATATA
6454302 CAACAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
TACATAAAAAATATA
Found at i:6454340 original size:2 final size:2
Alignment explanation
Indices: 6454333--6454378 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
6454323 ATATGTACAA
* * *
6454333 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AC AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6454375 AT AT
1 AT AT
6454379 GTACATAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6454489 original size:34 final size:32
Alignment explanation
Indices: 6454442--6454513 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 32
6454432 AATAATTTGT
6454442 AATA-ATA-ATATATACACAATATGGTATTTAA-
1 AATATATATATATATACACAATA--GTATTTAAG
* *
6454473 ATATATATATATATATATATAATAGTATTTAAG
1 A-ATATATATATATATACACAATAGTATTTAAG
6454506 AATATATA
1 AATATATA
6454514 CATAATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
31 1 0.03
32 18 0.51
33 4 0.11
34 12 0.34
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (32 bp):
AATATATATATATATACACAATAGTATTTAAG
Found at i:6454578 original size:24 final size:24
Alignment explanation
Indices: 6454483--6454579 Score: 63
Period size: 24 Copynumber: 4.0 Consensus size: 24
6454473 ATATATATAT
* * * *
6454483 ATATATATATAATAGTATTTAAGA
1 ATATATACATAATAATATTAAAAA
* *
6454507 ATATATACATAATAAATACATAAGAA
1 ATATATACATAAT-AATA-TTAAAAA
***
6454533 ATATATA-ACTAATGGCATTAAAAA
1 ATATATACA-TAATAATATTAAAAA
6454557 ATATATACATAAT-ATATATAAAA
1 ATATATACATAATAATAT-TAAAA
6454580 TACCTAAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
23 2 0.04
24 33 0.60
25 6 0.11
26 14 0.25
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (24 bp):
ATATATACATAATAATATTAAAAA
Found at i:6455140 original size:16 final size:17
Alignment explanation
Indices: 6455103--6455140 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
6455093 TTCTTCTTTT
*
6455103 TTTTTTTTGGGGGTTAG
1 TTTTTTTTGGGGGTAAG
*
6455120 GTTTTTTT-GGGGTAAG
1 TTTTTTTTGGGGGTAAG
6455136 TTTTT
1 TTTTT
6455141 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.61
Consensus pattern (17 bp):
TTTTTTTTGGGGGTAAG
Found at i:6455167 original size:13 final size:13
Alignment explanation
Indices: 6455136--6455169 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6455126 TTGGGGTAAG
*
6455136 TTTTTCTTTTTCT
1 TTTTTTTTTTTCT
*
6455149 TTTTTTTTTTTGT
1 TTTTTTTTTTTCT
6455162 TTTTTTTT
1 TTTTTTTT
6455170 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTTTCT
Found at i:6455974 original size:20 final size:18
Alignment explanation
Indices: 6455951--6455989 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6455941 AAATAAATTT
6455951 AATTCATAAAAATATATATA
1 AATTCA-AAAAATAT-TATA
*
6455971 AATTCAAAACATATTATA
1 AATTCAAAAAATATTATA
6455989 A
1 A
6455990 CCAAAACAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTCAAAAAATATTATA
Found at i:6456135 original size:9 final size:9
Alignment explanation
Indices: 6456103--6456244 Score: 142
Period size: 9 Copynumber: 15.6 Consensus size: 9
6456093 GTTTAAATTT
6456103 CATAACTTA
1 CATAACTTA
* **
6456112 TATATTTTA
1 CATAACTTA
*
6456121 CGTAACTTA
1 CATAACTTA
*
6456130 CATAACTCA
1 CATAACTTA
*
6456139 CACAACTTA
1 CATAACTTA
6456148 CATAACTTA
1 CATAACTTA
6456157 -ATAACTTA
1 CATAACTTA
* *
6456165 TATATATCATA
1 CATA-A-CTTA
6456176 TCATAACTTA
1 -CATAACTTA
6456186 CATAACTTA
1 CATAACTTA
*
6456195 CATAACTCA
1 CATAACTTA
*
6456204 CATAACTCA
1 CATAACTTA
**
6456213 CATAACCCA
1 CATAACTTA
6456222 CATAACTTA
1 CATAACTTA
6456231 CATAACTTA
1 CATAACTTA
6456240 CATAA
1 CATAA
6456245 TACATAAATA
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
8 8 0.07
9 91 0.83
10 4 0.04
11 4 0.04
12 3 0.03
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:6456260 original size:83 final size:84
Alignment explanation
Indices: 6456123--6456285 Score: 206
Period size: 83 Copynumber: 2.0 Consensus size: 84
6456113 ATATTTTACG
* * * * *
6456123 TAACTTACATAACTCACACAACTTACATAACTTAATAACTTATATATATCATATCATAACTTA-C
1 TAACTCACATAACCCACACAACTTACATAACTTAATAACTCATAAATATCATATCATAACATATC
6456187 ATAACTTACATAACTCACA
66 ATAACTTACATAACTCACA
* * *
6456206 TAACTCACATAACCCACATAACTTACATAACTTACATAA-TACATAAATA-GATATCATATCATA
1 TAACTCACATAACCCACACAACTTACATAACTTA-ATAACT-CATAAATATCATATCATAACATA
*
6456269 TCATAATTTACATAACT
64 TCATAACTTACATAACT
6456286 TAATTATACT
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
83 43 0.63
84 25 0.37
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (84 bp):
TAACTCACATAACCCACACAACTTACATAACTTAATAACTCATAAATATCATATCATAACATATC
ATAACTTACATAACTCACA
Found at i:6458012 original size:12 final size:12
Alignment explanation
Indices: 6457995--6458020 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6457985 AAGATCGAGG
6457995 GATGAATCTGAT
1 GATGAATCTGAT
6458007 GATGAATCTGAT
1 GATGAATCTGAT
6458019 GA
1 GA
6458021 AGAGAATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:6460743 original size:26 final size:26
Alignment explanation
Indices: 6460714--6460823 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
6460704 TGATACAAAT
6460714 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6460740 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6460766 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6460792 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6460818 TGATAA
1 TGATAA
6460824 GAATATCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6462852 original size:136 final size:137
Alignment explanation
Indices: 6462607--6462892 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
6462597 GAGTAGTCTC
6462607 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
6462672 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6462737 ACTGTTA
131 ACTGTTA
*
6462744 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
6462808 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6462873 ACTGTTA
131 ACTGTTA
**
6462880 CCTGAATGGGCTT
1 CCCAAATGGGCTT
6462893 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:6464563 original size:13 final size:14
Alignment explanation
Indices: 6464545--6464574 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6464535 TATTTTAAAT
6464545 ATTATAAT-GTTTA
1 ATTATAATGGTTTA
6464558 ATTATAATGGTTTA
1 ATTATAATGGTTTA
6464572 ATT
1 ATT
6464575 CTTCATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (14 bp):
ATTATAATGGTTTA
Found at i:6465353 original size:43 final size:43
Alignment explanation
Indices: 6465292--6465445 Score: 218
Period size: 43 Copynumber: 3.6 Consensus size: 43
6465282 TCGTAAAAAT
* *
6465292 GCCGCTAAAGGACATGTTCTTTAGCTGCATTTGTGGTGAAAGC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGTGAAAGC
* * *
6465335 GCCGCTAAAGGTCGTGTTCTTTAGCGGCATTTGTGCTGAAAGT
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGTGAAAGC
* * *
6465378 GCCGTTAAATGTCATGTTCTTTAGCGGCGTTTGTGGTGAAAGC
1 GCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGTGAAAGC
*
6465421 GCCGCCAAAAGGTCATGTTCTTTAG
1 GCCG-CTAAAGGTCATGTTCTTTAG
6465446 TGGCTTTTTT
Statistics
Matches: 96, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 79 0.82
44 17 0.18
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (43 bp):
GCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGGTGAAAGC
Found at i:6465742 original size:6 final size:6
Alignment explanation
Indices: 6465731--6465776 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
6465721 GAGTCGTTAC
* *
6465731 AATTAT AATTAT AATTAT AATTCT ATATTA- AATCAT AATTA- AATTA
1 AATTAT AATTAT AATTAT AATTAT A-ATTAT AATTAT AATTAT AATTA
6465777 AATCAAACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
5 8 0.24
6 23 0.68
7 3 0.09
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTAT
Found at i:6467131 original size:22 final size:21
Alignment explanation
Indices: 6467091--6467129 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6467081 AACATAATAA
6467091 TAGTATTAAAAAGTATATACG
1 TAGTATTAAAAAGTATATACG
*
6467112 TAGTATTGAAAA-TATATA
1 TAGTATTAAAAAGTATATA
6467130 TATAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (21 bp):
TAGTATTAAAAAGTATATACG
Found at i:6467228 original size:22 final size:21
Alignment explanation
Indices: 6467127--6467239 Score: 54
Period size: 24 Copynumber: 5.0 Consensus size: 21
6467117 TTGAAAATAT
*
6467127 ATATATAATATATACATATTAGAA
1 ATATATAA-ATA-A-ATATTAAAA
6467151 ATA-AT-AAT-AATATTAAAA
1 ATATATAAATAAATATTAAAA
* *
6467169 ACAACTATTAAT-AATATTACATAA
1 A-TA-TATAAATAAATATTA-A-AA
*
6467193 ATATACACATATAACATATTAAAA
1 ATATATA-A-ATAA-ATATTAAAA
6467217 ATATATAAATAATAATATTAAAA
1 ATATATAAAT-A-AATATTAAAA
6467240 GTATGTACGT
Statistics
Matches: 71, Mismatches: 6, Indels: 25
0.70 0.06 0.25
Matches are distributed among these distances:
18 9 0.13
19 2 0.03
21 4 0.06
22 15 0.21
23 16 0.23
24 17 0.24
25 2 0.03
26 6 0.08
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (21 bp):
ATATATAAATAAATATTAAAA
Found at i:6467253 original size:23 final size:23
Alignment explanation
Indices: 6467153--6467239 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 23
6467143 TATTAGAAAT
*
6467153 AATAATAATATTAAAAACA-ACT-
1 AATAATAATATTAAAAATATA-TA
* *
6467175 ATTAATAATATTACATAAATATACA
1 AATAATAATATTA-A-AAATATATA
*
6467200 CATATAA-CATATTAAAAATATATA
1 -A-ATAATAATATTAAAAATATATA
6467224 AATAATAATATTAAAA
1 AATAATAATATTAAAA
6467240 GTATGTACGT
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
22 16 0.31
23 11 0.22
24 12 0.24
25 2 0.04
26 7 0.14
27 3 0.06
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAATAATATTAAAAATATATA
Found at i:6467412 original size:23 final size:23
Alignment explanation
Indices: 6467382--6467446 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 23
6467372 TTAAAAAGAT
*
6467382 ATATATACGTAATATATATAAAA
1 ATATATACATAATATATATAAAA
**
6467405 ATATATACATAATATAGTATTGAA
1 ATATATACATAATATA-TATAAAA
* *
6467429 ATATTTACATAGTATATA
1 ATATATACATAATATATA
6467447 CATATTAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 17 0.47
24 19 0.53
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (23 bp):
ATATATACATAATATATATAAAA
Found at i:6467529 original size:21 final size:20
Alignment explanation
Indices: 6467499--6467671 Score: 84
Period size: 23 Copynumber: 7.8 Consensus size: 20
6467489 ATATTACTAA
*
6467499 ATATATATATATATAAAAGAT
1 ATATACATATATATAAAA-AT
6467520 ATATACATATATAATAAAACAT
1 ATATACATATAT-ATAAAA-AT
*
6467542 ATACTA-ATAT-TAATAATAAT
1 ATA-TACATATAT-ATAAAAAT
*
6467562 AATAATA-AGGATAATATAAAAAT
1 -AT-ATACA-TAT-ATATAAAAAT
6467585 ATATACATAAAATAGTATAAAAGAT
1 ATATACAT---ATA-TATAAAA-AT
6467610 ATATA-ACTAATAATATTAAAAAT
1 ATATACA-T-AT-ATA-TAAAAAT
*
6467633 ATATACATAATATATATACAAAC
1 ATATACAT-ATATATA-A-AAAT
6467656 ATATACGATATATATA
1 ATATAC-ATATATATA
6467672 TATTAGAAAT
Statistics
Matches: 125, Mismatches: 7, Indels: 38
0.74 0.04 0.22
Matches are distributed among these distances:
20 2 0.02
21 28 0.22
22 25 0.20
23 42 0.34
24 20 0.16
25 8 0.06
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
ATATACATATATATAAAAAT
Found at i:6467611 original size:25 final size:23
Alignment explanation
Indices: 6467507--6467661 Score: 103
Period size: 23 Copynumber: 6.8 Consensus size: 23
6467497 AAATATATAT
*
6467507 ATATATAAAAGATATATACAT-AT
1 ATATATAAAA-ATATATACATAAA
* *
6467530 ATA-AT-AAAACATATAC-TAAT
1 ATATATAAAAATATATACATAAA
* *
6467550 AT-TAATAATAATA-ATA-ATAAGG
1 ATAT-ATAAAAATATATACATAA-A
6467572 ATAATATAAAAATATATACATAAA
1 AT-ATATAAAAATATATACATAAA
6467596 ATAGTATAAAAGATATATA-ACTAATA
1 ATA-TATAAAA-ATATATACA-TAA-A
*
6467622 ATAT-TAAAAATATATACATAAT
1 ATATATAAAAATATATACATAAA
* *
6467644 ATATATACAAACATATAC
1 ATATATAAAAATATATAC
6467662 GATATATATA
Statistics
Matches: 107, Mismatches: 9, Indels: 32
0.72 0.06 0.22
Matches are distributed among these distances:
19 1 0.01
20 11 0.10
21 11 0.10
22 12 0.11
23 33 0.31
24 20 0.19
25 15 0.14
26 4 0.04
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (23 bp):
ATATATAAAAATATATACATAAA
Found at i:6467671 original size:59 final size:57
Alignment explanation
Indices: 6467498--6467673 Score: 132
Period size: 59 Copynumber: 3.0 Consensus size: 57
6467488 AATATTACTA
*
6467498 AATATATATATATATAAAAGATATATACAT-ATATA-ATA-AAACATATACTAATAT-TAAT
1 AATA-ATA-ATAT-TAAAA-ATATATACATAATATATATACAAACATATACAAATATAT-AT
* ** * * *
6467556 AATAATAATAATAAGGATAATATA-A-AA-ATATATACATAAAATAGTATAAAAGATATAT
1 AATAATAATATTAAAAAT-ATATACATAATATATATACA-AACATA-TA-CAAATATATAT
*
6467614 AACTAATAATATTAAAAATATATACATAATATATATACAAACATATACGATATATATAT
1 AA-TAATAATATTAAAAATATATACATAATATATATACAAACATATAC-AAATATATAT
6467673 A
1 A
6467674 TTAGAAATGA
Statistics
Matches: 91, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
53 3 0.03
54 7 0.08
55 9 0.10
56 8 0.09
57 5 0.05
58 17 0.19
59 26 0.29
60 7 0.08
61 9 0.10
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (57 bp):
AATAATAATATTAAAAATATATACATAATATATATACAAACATATACAAATATATAT
Found at i:6467840 original size:22 final size:20
Alignment explanation
Indices: 6467805--6467844 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
6467795 GAAGAATGGA
6467805 TATAATAATAAATAATAAAT
1 TATAATAATAAATAATAAAT
6467825 TATAATAGTATAAATAATAA
1 TATAATA--ATAAATAATAA
6467845 TAAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
TATAATAATAAATAATAAAT
Found at i:6467852 original size:15 final size:15
Alignment explanation
Indices: 6467806--6467856 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
6467796 AAGAATGGAT
6467806 ATAATAATAAATAATAA
1 ATAATAAT-AA-AATAA
* **
6467823 ATTATAATAGTATAA
1 ATAATAATAAAATAA
6467838 ATAATAATAAAATAA
1 ATAATAATAAAATAA
6467853 ATAA
1 ATAA
6467857 AAAGAGAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
15 20 0.71
16 1 0.04
17 7 0.25
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAATAATAAAATAA
Found at i:6467883 original size:18 final size:20
Alignment explanation
Indices: 6467855--6467892 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6467845 TAAAATAAAT
6467855 AAAAAGAGAAAAG-GAAAAA
1 AAAAAGAGAAAAGTGAAAAA
6467874 AAAAAG-GAAAAGTGAAAAA
1 AAAAAGAGAAAAGTGAAAAA
6467893 GGACGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (20 bp):
AAAAAGAGAAAAGTGAAAAA
Found at i:6469095 original size:14 final size:14
Alignment explanation
Indices: 6469073--6469117 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
6469063 TTAATTATCA
*
6469073 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
6469087 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
6469101 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
6469115 TTA
1 TTA
6469118 AGCAGGTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:6469108 original size:21 final size:21
Alignment explanation
Indices: 6469084--6469168 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 21
6469074 TATAGTTTAA
*
6469084 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
*
6469105 GGTTTAGGGTTTAAGCAGGTTTAT
1 GGTTTAGGGTTTAAG-A--TATAT
*
6469129 GAGTTAACTATGGTTTAAGATATAT
1 G-GTT---TAGGGTTTAAGATATAT
*
6469154 AGTTTAGGGTTTAAG
1 GGTTTAGGGTTTAAG
6469169 GTTTAAGAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 24 0.47
22 1 0.02
24 8 0.16
25 7 0.14
27 1 0.02
28 10 0.20
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.42
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:6469146 original size:49 final size:46
Alignment explanation
Indices: 6469088--6469183 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 46
6469078 GTTTAAGGTT
* *
6469088 TATGGTTTAAGATATATGGTTTAGGGTTTAAGCAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTT-A--AGGTTTAAGAGTTAAC
6469137 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
1 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
6469183 T
1 T
6469184 TGTATTTGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
46 16 0.36
48 1 0.02
49 28 0.62
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.42
Consensus pattern (46 bp):
TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
Found at i:6469233 original size:14 final size:15
Alignment explanation
Indices: 6469206--6469234 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6469196 TTTGTAATGA
6469206 ATTATGATTTTAGGG
1 ATTATGATTTTAGGG
6469221 ATTATGA-TTTAGGG
1 ATTATGATTTTAGGG
6469235 TTTAAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (15 bp):
ATTATGATTTTAGGG
Found at i:6470101 original size:16 final size:16
Alignment explanation
Indices: 6470080--6470123 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
6470070 ATTCTTTTTT
6470080 TATAAATTTAAAAAAA
1 TATAAATTTAAAAAAA
* *
6470096 TATAAATTTAAAATAT
1 TATAAATTTAAAAAAA
*
6470112 TATAAATATAAA
1 TATAAATTTAAA
6470124 TTTAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TATAAATTTAAAAAAA
Found at i:6474393 original size:22 final size:23
Alignment explanation
Indices: 6474351--6474393 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6474341 TTTCAAAAAT
*
6474351 TAAACATAATATAATATTTAACA
1 TAAAAATAATATAATATTTAACA
*
6474374 TAAAAATAA-ATATTATTTAA
1 TAAAAATAATATAATATTTAA
6474394 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAAAATAATATAATATTTAACA
Found at i:6474476 original size:43 final size:43
Alignment explanation
Indices: 6474414--6474522 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
6474404 ATAATTTTTT
* * * *
6474414 TAAAGTTCATGATTTTTAGCGGCGTTTGCAAGAAAAGCGTCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGCAAAAAAAGCGCCGC
* * *
6474457 TAAAGGTCCTGGTCTTTAGCGGCGTTTGTAAAAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGCAAAAAAAGCGCCGC
*
6474500 TAAATGTCATGATCTTTAGCGGC
1 TAAAGGTCATGATCTTTAGCGGC
6474523 ATTTTTTTCT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGCAAAAAAAGCGCCGC
Found at i:6474732 original size:15 final size:16
Alignment explanation
Indices: 6474695--6474734 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
6474685 AATATGTATG
*
6474695 AATTATTTAAAATAAT
1 AATTAATTAAAATAAT
6474711 AATTAATTAAAATAAT
1 AATTAATTAAAATAAT
6474727 -ATTAATTA
1 AATTAATTA
6474735 TTTTGATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAATTAAAATAAT
Found at i:6480458 original size:14 final size:14
Alignment explanation
Indices: 6480419--6480466 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
6480409 GATGAATCAG
6480419 TTATTTATTT-TAT
1 TTATTTATTTATAT
*
6480432 TTA-TTACTGTATAT
1 TTATTTA-TTTATAT
6480446 TTATTTATTTATAT
1 TTATTTATTTATAT
6480460 TTGATTT
1 TT-ATTT
6480467 TTTGTAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 3 0.10
13 5 0.17
14 14 0.48
15 7 0.24
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (14 bp):
TTATTTATTTATAT
Found at i:6480929 original size:27 final size:25
Alignment explanation
Indices: 6480885--6480938 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
6480875 CATTTACTTG
* *
6480885 TTAAGTTATAACTATTTTAGTTGTAT
1 TTAAGTTATAAATATTTTA-ATGTAT
*
6480911 TTAAGTATATAAATTTTTTAATGTAT
1 TTAAGT-TATAAATATTTTAATGTAT
6480937 TT
1 TT
6480939 TTAATTTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (25 bp):
TTAAGTTATAAATATTTTAATGTAT
Found at i:6481955 original size:13 final size:14
Alignment explanation
Indices: 6481934--6481972 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
6481924 TTAAATGTTT
6481934 TAATT-AATAATAA
1 TAATTAAATAATAA
6481947 -AATTAAAT-ATAA
1 TAATTAAATAATAA
6481959 TAATTAAA-AATAA
1 TAATTAAATAATAA
6481972 T
1 T
6481973 TTAATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATTAAATAATAA
Found at i:6481962 original size:25 final size:25
Alignment explanation
Indices: 6481918--6481971 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
6481908 AAATTATTTT
* ** *
6481918 ATAAAATTAAATGTTTTAATTAATA
1 ATAAAATTAAATATAATAATTAAAA
6481943 ATAAAATTAAATATAATAATTAAAA
1 ATAAAATTAAATATAATAATTAAAA
6481968 ATAA
1 ATAA
6481972 TTTAATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
ATAAAATTAAATATAATAATTAAAA
Found at i:6481977 original size:18 final size:18
Alignment explanation
Indices: 6481937--6481979 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6481927 AATGTTTTAA
*
6481937 TTAATAATAAAATTAAAT
1 TTAATAATAAAAATAAAT
*
6481955 ATAATAATTAAAAAT-AAT
1 TTAATAA-TAAAAATAAAT
6481973 TTAATAA
1 TTAATAA
6481980 ATTTAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAATAATAAAAATAAAT
Found at i:6485657 original size:2 final size:2
Alignment explanation
Indices: 6485650--6485681 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6485640 AAAATTAATA
6485650 AT 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 AT
6485682 CAATAGTCCA
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):
AT
Found at i:6486561 original size:15 final size:15
Alignment explanation
Indices: 6486528--6486567 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
6486518 CTGTGAATGC
*
6486528 AAATATAATA-ATTT
1 AAATATAAAATATTT
6486542 AAATATAAAATATTT
1 AAATATAAAATATTT
*
6486557 CAATATAAAAT
1 AAATATAAAAT
6486568 TATATATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATAAAATATTT
Found at i:6486840 original size:15 final size:15
Alignment explanation
Indices: 6486820--6486850 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6486810 CTGATACATT
*
6486820 TTTTATTGTTTAGGA
1 TTTTATTGCTTAGGA
6486835 TTTTATTGCTTAGGA
1 TTTTATTGCTTAGGA
6486850 T
1 T
6486851 CCATGTCGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.19, T:0.58
Consensus pattern (15 bp):
TTTTATTGCTTAGGA
Found at i:6489475 original size:14 final size:14
Alignment explanation
Indices: 6489458--6489510 Score: 79
Period size: 14 Copynumber: 3.7 Consensus size: 14
6489448 TATTTTTCGA
6489458 AAAATGATTTCTGG
1 AAAATGATTTCTGG
* *
6489472 AAAATAATTTATTGG
1 AAAATGATTT-CTGG
6489487 AAAATGATTTCTGG
1 AAAATGATTTCTGG
6489501 AAAATGATTT
1 AAAATGATTT
6489511 ACTTTTCTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:6490581 original size:11 final size:11
Alignment explanation
Indices: 6490565--6490599 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
6490555 CCAGATTCCC
6490565 CTCCCTTCTCT
1 CTCCCTTCTCT
6490576 CTCCCTTCTCT
1 CTCCCTTCTCT
6490587 CTTCCC-TCTCT
1 C-TCCCTTCTCT
6490598 CT
1 CT
6490600 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:6491086 original size:3 final size:3
Alignment explanation
Indices: 6491062--6491135 Score: 69
Period size: 3 Copynumber: 24.3 Consensus size: 3
6491052 AATATCCTTG
* * * *
6491062 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
6491109 TTA TGTA TTA GTA TATA TTT TTA TTA T
1 TTA T-TA TTA TTA T-TA TTA TTA TTA T
6491136 GTACGTGTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.04
3 48 0.86
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:6491145 original size:23 final size:23
Alignment explanation
Indices: 6491080--6491146 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
6491070 ATATTATTAG
* * *
6491080 TATTATTAGTAT-TACTATTAT-
1 TATTATTATTATGTAGTAGTATA
*
6491101 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
6491124 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
6491147 CATATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 11 0.29
22 7 0.18
23 19 0.50
24 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:6491248 original size:3 final size:3
Alignment explanation
Indices: 6491235--6491264 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6491225 TATTCCAATG
*
6491235 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6491265 GTTTATGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:6491529 original size:16 final size:16
Alignment explanation
Indices: 6491469--6491528 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 16
6491459 TATGTTGTAT
6491469 TATTATATTTTAATATTA
1 TATTATATTTT-ATA-TA
6491487 TATTATATATTTATATA
1 TATTATAT-TTTATATA
*
6491504 TACATATATCTTTTATATA
1 T--AT-TATATTTTATATA
6491523 TATTAT
1 TATTAT
6491529 CATGTATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 3 0.08
17 5 0.14
18 11 0.30
19 14 0.38
20 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATATTTTATATA
Found at i:6491598 original size:63 final size:63
Alignment explanation
Indices: 6491472--6491602 Score: 155
Period size: 63 Copynumber: 2.1 Consensus size: 63
6491462 GTTGTATTAT
* *
6491472 TATATTTTAATATTATATTATATATTTATATATACATATATCTTTTATATATATTATCATGTA
1 TATATTTTAATATTATATTATATATCTATATATACATATATCTTCTATATATATTATCATGTA
*
6491535 TATATTTTAATATTATCAGTTATATATCT-T-TATACTATATGAT-TTCTA-ATACTATTAT-TT
1 TATATTTTAATATTAT-A-TTATATATCTATATATAC-ATAT-ATCTTCTATATA-TATTATCAT
6491595 GTA
61 GTA
6491598 TATAT
1 TATAT
6491603 ATATGTGTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
63 33 0.55
64 16 0.27
65 11 0.18
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (63 bp):
TATATTTTAATATTATATTATATATCTATATATACATATATCTTCTATATATATTATCATGTA
Found at i:6491695 original size:11 final size:11
Alignment explanation
Indices: 6491681--6491707 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6491671 GCATGTATTG
6491681 TATATGTTCTA
1 TATATGTTCTA
6491692 TATATGTTCTA
1 TATATGTTCTA
6491703 TATAT
1 TATAT
6491708 TTTTAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
TATATGTTCTA
Found at i:6491819 original size:38 final size:40
Alignment explanation
Indices: 6491775--6491865 Score: 98
Period size: 38 Copynumber: 2.3 Consensus size: 40
6491765 CCATCTTATG
* *
6491775 TATATATTTTTAAATACTATATT-GTATATAT-ATATATA
1 TATATATTTTTAAATACCACATTAGTATATATCATATATA
* *
6491813 TATATATTTCTT-AGTACCACATTACGTATATATCATGTATA
1 TATATATTT-TTAAATACCACATTA-GTATATATCATATATA
*
6491854 TATTTATTTTTA
1 TATATATTTTTA
6491866 CCCATATTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
38 17 0.40
39 2 0.05
40 10 0.23
41 14 0.33
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (40 bp):
TATATATTTTTAAATACCACATTAGTATATATCATATATA
Found at i:6492995 original size:22 final size:22
Alignment explanation
Indices: 6492970--6493058 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
6492960 ATCCAAGTGC
*
6492970 ATAACTAATATTACACCATATG
1 ATAACTAATATTACACCACATG
6492992 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
* **
6493014 ATAACAACAATATT-GTCCA-AGTG
1 ATAAC--TAATATTACACCACA-TG
6493037 CATAACTAATATTACACCACAT
1 -ATAACTAATATTACACCACAT
6493059 TAAAAGTATC
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
22 33 0.61
23 9 0.17
24 12 0.22
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:6494055 original size:32 final size:32
Alignment explanation
Indices: 6494009--6494069 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
6493999 TGTCAATCAT
6494009 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
6494041 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
6494070 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:6494076 original size:27 final size:30
Alignment explanation
Indices: 6494009--6494082 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
6493999 TGTCAATCAT
*
6494009 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
6494041 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
6494069 -TCAATATCTAACAA
1 TTCAATATCTAACAA
6494083 AATCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:6495619 original size:12 final size:12
Alignment explanation
Indices: 6495602--6495627 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6495592 ATGAAAGTTT
6495602 CTCAAGCAATGA
1 CTCAAGCAATGA
6495614 CTCAAGCAATGA
1 CTCAAGCAATGA
6495626 CT
1 CT
6495628 AAAATTACCA
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:0.38, C:0.27, G:0.15, T:0.19
Consensus pattern (12 bp):
CTCAAGCAATGA
Found at i:6496253 original size:10 final size:11
Alignment explanation
Indices: 6496228--6496258 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
6496218 ATTTACTTTT
6496228 AAATATATCAA
1 AAATATATCAA
6496239 AAATATATCAA
1 AAATATATCAA
6496250 AATATATAT
1 AA-ATATAT
6496259 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATATATCAA
Found at i:6496256 original size:2 final size:2
Alignment explanation
Indices: 6496251--6496285 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6496241 ATATATCAAA
6496251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6496286 ACATGTAGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6498223 original size:19 final size:21
Alignment explanation
Indices: 6498199--6498253 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
6498189 TTTTTGTTTC
*
6498199 ATTATTA-AAA-ATTGTTATT
1 ATTATTATAAATATTGTCATT
6498218 ATTATTATTAAATATTGTCATT
1 ATTATTA-TAAATATTGTCATT
*
6498240 ATTATTCT-AATATT
1 ATTATTATAAATATT
6498254 ATTAATGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 7 0.23
20 6 0.19
21 4 0.13
22 14 0.45
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
ATTATTATAAATATTGTCATT
Found at i:6498227 original size:22 final size:22
Alignment explanation
Indices: 6498199--6498245 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
6498189 TTTTTGTTTC
*
6498199 ATTATTAAAAATTGTTATTATT
1 ATTATTAAAAATTGTCATTATT
*
6498221 ATTATTAAATATTGTCATTATT
1 ATTATTAAAAATTGTCATTATT
6498243 ATT
1 ATT
6498246 CTAATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTATTAAAAATTGTCATTATT
Found at i:6498641 original size:20 final size:20
Alignment explanation
Indices: 6498618--6498683 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
6498608 TTTTAAATAC
6498618 TCTTATATTATGTATATTAT
1 TCTTATATTATGTATATTAT
* *
6498638 TCTTTTAAATAT-TATATT-T
1 TCTTAT-ATTATGTATATTAT
*
6498657 TCTATATATCATGTATA-TAT
1 TCT-TATATTATGTATATTAT
6498677 T-TTATAT
1 TCTTATAT
6498684 ATTACGTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
18 5 0.14
19 9 0.24
20 19 0.51
21 4 0.11
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (20 bp):
TCTTATATTATGTATATTAT
Found at i:6498684 original size:20 final size:20
Alignment explanation
Indices: 6498650--6498699 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
6498640 TTTTAAATAT
*
6498650 TATAT-TTTCTATATATCATG
1 TATATATTT-TATATATCACG
*
6498670 TATATATTTTATATATTACG
1 TATATATTTTATATATCACG
*
6498690 TACATATTTT
1 TATATATTTT
6498700 TTTAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (20 bp):
TATATATTTTATATATCACG
Found at i:6498733 original size:59 final size:60
Alignment explanation
Indices: 6498621--6498737 Score: 150
Period size: 59 Copynumber: 2.0 Consensus size: 60
6498611 TAAATACTCT
* * * *
6498621 TATATTATGTATATTATTCTTTTAAATATTATATTTTCTATATATCATGTATATATTTTA
1 TATATTACGTACATTATTCTTTTAAATATTATATCTTCTATACATCATGTATATATTTTA
*
6498681 TATATTACGTACA-TATT-TTTTTAATATTATATCTT-TATACACGTCATGTATATATTT
1 TATATTACGTACATTATTCTTTTAAATATTATATCTTCTATACA--TCATGTATATATTT
6498738 CAAATACCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
57 5 0.10
58 16 0.32
59 18 0.36
60 11 0.22
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (60 bp):
TATATTACGTACATTATTCTTTTAAATATTATATCTTCTATACATCATGTATATATTTTA
Found at i:6498813 original size:24 final size:24
Alignment explanation
Indices: 6498750--6498816 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 24
6498740 AATACCATAT
* *
6498750 TATATTTTTTATATTTATTATGTA
1 TATATTTTTAATATATATTATGTA
6498774 TATACTTTTTTTAATATGATA-TATGTA
1 TATA---TTTTTAATAT-ATATTATGTA
6498801 TATATTTTTAATATAT
1 TATATTTTTAATATAT
6498817 TTGCGTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 2 0.05
24 14 0.38
27 19 0.51
28 2 0.05
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (24 bp):
TATATTTTTAATATATATTATGTA
Found at i:6498942 original size:21 final size:21
Alignment explanation
Indices: 6498901--6498943 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6498891 ATTATGTAGG
**
6498901 TATATATATATATATTTTTTT
1 TATATATATATATATCATTTT
6498922 TATATATAT-TATATACATTTT
1 TATATATATATATAT-CATTTT
6498943 T
1 T
6498944 CTAAGAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TATATATATATATATCATTTT
Found at i:6500141 original size:60 final size:59
Alignment explanation
Indices: 6500012--6500153 Score: 153
Period size: 60 Copynumber: 2.4 Consensus size: 59
6500002 TTTAGTGTTA
*
6500012 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAACCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATTAATCTGGGCCATAACCCATTACAGT-ACAGAGTAT
* * ** *
6500073 ACTAGGCCTAGCCCATATCAGTATTAATCTGGGCTGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATTAATCTGGGCCATAACCC-ATTAC-AGTACAGAG-TAT
* *
6500133 ATTGGGCCTTGCCCATATCAA
1 ACTGGGCCTAGCCCATATCAA
6500154 CACAGTTGGG
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
59 3 0.04
60 51 0.75
61 11 0.16
62 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATTAATCTGGGCCATAACCCATTACAGTACAGAGTAT
Found at i:6503127 original size:23 final size:22
Alignment explanation
Indices: 6503092--6503148 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
6503082 TTTACCCTAC
6503092 TATATTTACTATTAATATTAGTACA
1 TATATTT--TATTAATATT-GTACA
* *
6503117 TATATTTTATTATTCTTGTACA
1 TATATTTTATTAATATTGTACA
*
6503139 CATATTTTAT
1 TATATTTTAT
6503149 ATATAGTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.48
23 8 0.28
25 7 0.24
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (22 bp):
TATATTTTATTAATATTGTACA
Found at i:6503281 original size:11 final size:11
Alignment explanation
Indices: 6503258--6503287 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
6503248 CATTTTTCAC
6503258 ATATATATATGT
1 ATATAT-TATGT
6503270 ATATATTATGT
1 ATATATTATGT
6503281 ATATATT
1 ATATATT
6503288 TTAGCAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (11 bp):
ATATATTATGT
Found at i:6507086 original size:4 final size:4
Alignment explanation
Indices: 6507079--6507114 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
6507069 TCATGATTGG
* *
6507079 CATT CATT TATG CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT CATT
6507115 GCATATCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.03, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:6507095 original size:12 final size:12
Alignment explanation
Indices: 6507078--6507118 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
6507068 TTCATGATTG
*
6507078 GCATTCATTTAT
1 GCATTCATTCAT
6507090 GCATTCATTCAT
1 GCATTCATTCAT
*
6507102 TCATTCATTCATT
1 GCATTCATTCA-T
6507115 GCAT
1 GCAT
6507119 ATCCCATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.46
Consensus pattern (12 bp):
GCATTCATTCAT
Found at i:6510034 original size:17 final size:17
Alignment explanation
Indices: 6510012--6510046 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
6510002 GAAAAATCAA
6510012 GATCCCTCTAGAAGTGG
1 GATCCCTCTAGAAGTGG
6510029 GATCCCTCTAGAAGTGG
1 GATCCCTCTAGAAGTGG
6510046 G
1 G
6510047 TCCTTACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (17 bp):
GATCCCTCTAGAAGTGG
Found at i:6515571 original size:86 final size:86
Alignment explanation
Indices: 6515430--6516166 Score: 733
Period size: 86 Copynumber: 8.5 Consensus size: 86
6515420 TAATTCCGTT
* *
6515430 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTAATGTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATGTCA
6515495 ATTTCTATCTTTAATTTCTAC
66 ATTTCTATCTTTAATTTCTAC
* *
6515516 TTTTCCAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCTGAGGTAATGTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATGTCA
*
6515581 ATTTCTGTCTTTAATTTCTAC
66 ATTTCTATCTTTAATTTCTAC
*
6515602 TTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATGTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATGTCA
*
6515667 ATTTCTGTCTTTAATTTCTAC
66 ATTTCTATCTTTAATTTCTAC
* * * * *
6515688 TTTTCCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCCCAAGG-CACGCTGAGGTATTTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATGTC
** * * *
6515752 AATTTCCGT-TCTCCAACTTATGC
65 AATTT-C-TATCTTTAATTTCTAC
* * * *
6515775 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGTCGCACGCTGAGGTATT
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAAT
* * * *
6515840 GT-TAGTT-TA--TAT-ATTTC-AA
62 GTCAATTTCTATCTTTAATTTCTAC
***** * * * *
6515859 AAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCA-GAGCACACTGAGGTATTTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTAATGTC
**
6515923 AATTTCTA-CTTTTCAATTTCTGT
65 AATTTCTATC-TTT-AATTTCTAC
* * * *
6515946 TTTTCAAAACAATAAACTCATATTGCGAGGGGTGAGTTGAGCCTTAGGACACGCTGAGGT-ATCT
1 TTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT-G
* * * *
6516010 TCAATTTCCGT-TTTTTAAGTTATGC
63 TCAATTT-C-TATCTTTAATTTCTAC
* * * * *
6516035 TTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATGTCA
* * * *
6516100 ATTTCTGTTTTTTTCAATTTATAT
66 ATTTC--TATCTTT-AATTTCTAC
* *
6516124 TTTTCAAAAATCAACTTATATTGCAAGAGGTGAGTTGAGCCTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
6516167 GGGTCACACG
Statistics
Matches: 549, Mismatches: 74, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
80 14 0.03
81 4 0.01
82 38 0.07
84 2 0.00
85 3 0.01
86 234 0.43
87 73 0.13
88 16 0.03
89 140 0.26
90 9 0.02
91 16 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (86 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATGTCA
ATTTCTATCTTTAATTTCTAC
Found at i:6515704 original size:172 final size:174
Alignment explanation
Indices: 6515430--6516166 Score: 825
Period size: 172 Copynumber: 4.2 Consensus size: 174
6515420 TAATTCCGTT
* *
6515430 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGGTAATGTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATGTCA
* * * *
6515495 ATTTCTATCTTTAATTTCTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCA
66 ATTTCTGTCTTTAATTTCTACTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCA
* * *
6515560 GGACACGCTGAGGTAATGTCAATTTCTG-TCTTT-AATTTCTAC
131 GGACACGCTGAGGTATTTTCAATTTCTGTTCTTTCAATTTATAC
*
6515602 TTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATGTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATGTCA
* *
6515667 ATTTCTGTCTTTAATTTCTACTTTTCCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCCCA
66 ATTTCTGTCTTTAATTTCTACTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC-
* * * *
6515732 AGG-CACGCTGAGGTATTTTCAATTTCCGTTC-TCCAACTTATGC
130 AGGACACGCTGAGGTATTTTCAATTTCTGTTCTTTCAATTTATAC
* * * *
6515775 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGTCGCACGCTGAGGTATT
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAAT
* * * * ******
6515840 GT-TA-GT-T-TATAT-ATTTC-AAAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
62 GTCAATTTCTGTCTTTAATTTCTACTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
* ** * **
6515899 CTCA-GAGCACACTGAGGTATTTTCAATTTCTACT-TTTCAATTTCTGT
127 CTCAGGA-CACGCTGAGGTATTTTCAATTTCTGTTCTTTCAATTTATAC
* * * *
6515946 TTTTCAAAACAATAAACTCATATTGCGAGGGGTGAGTTGAGCCTTAGGACACGCTGAGGT-ATCT
1 TTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT-G
* * * * *
6516010 TCAATTTCCGTTTTTTAAGTTATGCTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
63 TCAATTTCTG-TCTTTAATTTCTACTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
* * * *
6516075 TTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTTTTCAATTTATAT
127 CTCAGGACACGCTGAGGTATTTTCAATTTCTG-TTCTTTCAATTTATAC
* *
6516124 TTTTCAAAAATCAACTTATATTGCAAGAGGTGAGTTGAGCCTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
6516167 GGGTCACACG
Statistics
Matches: 470, Mismatches: 73, Indels: 40
0.81 0.13 0.07
Matches are distributed among these distances:
168 1 0.00
169 13 0.03
170 6 0.01
171 107 0.23
172 150 0.32
173 19 0.04
174 4 0.01
175 42 0.09
176 92 0.20
177 20 0.04
178 16 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (174 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATGTCA
ATTTCTGTCTTTAATTTCTACTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCA
GGACACGCTGAGGTATTTTCAATTTCTGTTCTTTCAATTTATAC
Found at i:6516070 original size:347 final size:342
Alignment explanation
Indices: 6515522--6516186 Score: 908
Period size: 347 Copynumber: 1.9 Consensus size: 342
6515512 CTACTTTTCC
*
6515522 AAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCTGAGGTAATGTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACACTGAGGTAATGTCAATTTCT
* * *
6515587 GTCTTTAATTTCTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
66 CTCTTTAATTTCTACTTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * * *
6515652 GCTGAGGTAATGTCAATTTCTGTCTTTAATTTCTACTTTTCCAAAATCAACTCATATTGTGAGAG
131 GCTGAGGTAATGTCAATTTCCGTCTTTAAGTTATACTTTTCAAAAATCAACTCATATTGTGAGAG
*
6515717 GTGAGTTGAGCCCCAAGGCACGCTGAGGTATTTTCAATTTCCG-TTCTCCAACTTATGCTTTTCA
196 GTGAGTTGAGCCCCAAGGCACGCTGAGGTATTTTCAATTTCCGTTTCTCCAACTTATACTTTTC-
* *
6515781 AAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGTCGCACG-CTGAGGTATTGTTAG
260 -AAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCGGGTCACACGAC-GAGGTATTGTTAG
6515845 TTTATATATTTCAAAAAAAA
323 TTTATATATTTCAAAAAAAA
* * * *
6515865 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCA-GAGCACACTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGA-CACACTGAGGTAATGTCAATTTC
** * *
6515929 TACT-TTTCAATTTCTGTTTTTCAAAACAATAAACTCATATTGCGAGGGGTGAGTTGAGCCTTAG
65 T-CTCTTT-AATTTCTACTTTTC-AAA-AATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * *
6515993 GACACGCTGAGGT-ATCTTCAATTTCCGTTTTTTAAGTTATGCTTTTCAAAAATCAACTCATATT
126 GACACGCTGAGGTAAT-GTCAATTTCCG-TCTTTAAGTTATACTTTTCAAAAATCAACTCATATT
** * * * * *
6516057 GTGAGAGGTGAGTTGAGCTTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTTTTCAATTTAT
189 GTGAGAGGTGAGTTGAGCCCCAAGGCACGCTGAGGTATTTTCAATTTCCG-TTTCTCCAACTTAT
* * *
6516122 ATTTTTCAAAAATCAACTTATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACACGACGAGGTATT
253 ACTTTTCAAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCGGGTCACACGACGAGGTATT
6516187 TTCAAAATCT
Statistics
Matches: 280, Mismatches: 32, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
342 2 0.01
343 60 0.21
344 13 0.05
345 4 0.01
346 56 0.20
347 129 0.46
348 1 0.00
349 15 0.05
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (342 bp):
AAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACACTGAGGTAATGTCAATTTCT
CTCTTTAATTTCTACTTTTCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAATGTCAATTTCCGTCTTTAAGTTATACTTTTCAAAAATCAACTCATATTGTGAGAG
GTGAGTTGAGCCCCAAGGCACGCTGAGGTATTTTCAATTTCCGTTTCTCCAACTTATACTTTTCA
AAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCGGGTCACACGACGAGGTATTGTTAGTTT
ATATATTTCAAAAAAAA
Found at i:6516126 original size:16 final size:16
Alignment explanation
Indices: 6516094--6516127 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6516084 CGCTGAGGTA
* *
6516094 TTTTCAATTTCTGTTT
1 TTTTCAATTTATATTT
6516110 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
6516126 TT
1 TT
6516128 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:6518063 original size:19 final size:21
Alignment explanation
Indices: 6518039--6518093 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
6518029 TTTTTGTTTC
*
6518039 ATTATTA-AAA-ATTGTTATT
1 ATTATTATAAATATTGTCATT
6518058 ATTATTATTAAATATTGTCATT
1 ATTATTA-TAAATATTGTCATT
*
6518080 ATTATTCT-AATATT
1 ATTATTATAAATATT
6518094 ATTAAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 7 0.23
20 6 0.19
21 4 0.13
22 14 0.45
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
ATTATTATAAATATTGTCATT
Found at i:6518067 original size:22 final size:22
Alignment explanation
Indices: 6518039--6518085 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
6518029 TTTTTGTTTC
*
6518039 ATTATTAAAAATTGTTATTATT
1 ATTATTAAAAATTGTCATTATT
*
6518061 ATTATTAAATATTGTCATTATT
1 ATTATTAAAAATTGTCATTATT
6518083 ATT
1 ATT
6518086 CTAATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTATTAAAAATTGTCATTATT
Found at i:6518480 original size:20 final size:20
Alignment explanation
Indices: 6518457--6518522 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
6518447 TTTTAAATAC
6518457 TCTTATATTATGTATATTAT
1 TCTTATATTATGTATATTAT
* *
6518477 TCTTTTAAATAT-TATATT-T
1 TCTTAT-ATTATGTATATTAT
*
6518496 TCTATATATCATGTATA-TAT
1 TCT-TATATTATGTATATTAT
6518516 T-TTATAT
1 TCTTATAT
6518523 ATTACGTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
18 5 0.14
19 9 0.24
20 19 0.51
21 4 0.11
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (20 bp):
TCTTATATTATGTATATTAT
Found at i:6518572 original size:59 final size:60
Alignment explanation
Indices: 6518460--6518576 Score: 157
Period size: 59 Copynumber: 2.0 Consensus size: 60
6518450 TAAATACTCT
* * * *
6518460 TATATTATGTATATTATTCTTTTAAATATTATATTTTCTATATATCATGTATATATTTTA
1 TATATTACGTACATTATTCTTTTAAATATTATATTTTATACATATCATGTATATATTTTA
* *
6518520 TATATTACGTACA-TATT-TTTTTAATATTATATCTTTATACATGTCATGTATATATTT
1 TATATTACGTACATTATTCTTTTAAATATTATAT-TTTATACATATCATGTATATATTT
6518577 CAAATACCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
58 14 0.28
59 25 0.50
60 11 0.22
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.56
Consensus pattern (60 bp):
TATATTACGTACATTATTCTTTTAAATATTATATTTTATACATATCATGTATATATTTTA
Found at i:6518623 original size:27 final size:27
Alignment explanation
Indices: 6518593--6518657 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
6518583 CCATATTATG
*
6518593 TTTTTTATATTTAT-TATGTATATACT
1 TTTTTTATATTTATATATGTATATATT
*
6518619 TTTTTTA-ATATGATATATGTATATATT
1 TTTTTTATAT-TTATATATGTATATATT
**
6518646 TTTAATATATTT
1 TTTTTTATATTT
6518658 GCGTATATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.06
26 10 0.32
27 17 0.55
28 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (27 bp):
TTTTTTATATTTATATATGTATATATT
Found at i:6519235 original size:11 final size:11
Alignment explanation
Indices: 6519212--6519241 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
6519202 CATTTTTCAC
6519212 ATATATATATGT
1 ATATAT-TATGT
6519224 ATATATTATGT
1 ATATATTATGT
6519235 ATATATT
1 ATATATT
6519242 TTAGCAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (11 bp):
ATATATTATGT
Found at i:6521196 original size:37 final size:37
Alignment explanation
Indices: 6521146--6521218 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
6521136 AATCTGAACA
6521146 TGTGACATCATATTACGTTATCGAAACAACTCTAACG
1 TGTGACATCATATTACGTTATCGAAACAACTCTAACG
6521183 TGTGACATCATATTACGTTATCGAAACAACTCTAAC
1 TGTGACATCATATTACGTTATCGAAACAACTCTAAC
6521219 TAATTTAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (37 bp):
TGTGACATCATATTACGTTATCGAAACAACTCTAACG
Found at i:6524155 original size:2 final size:2
Alignment explanation
Indices: 6524148--6524206 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
6524138 AGCAATACCA
6524148 AT AT AT AT AT AT 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 AT AT AT AT AT AT
6524190 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
6524207 CCAATTGTCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6524917 original size:23 final size:23
Alignment explanation
Indices: 6524891--6524943 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
6524881 TTTTTTTCAA
*
6524891 AGAATATCCACTGTTCATGCCAG
1 AGAATATCCACTGTTCACGCCAG
** * *
6524914 AGAATATTTATTGTTCACGTCAG
1 AGAATATCCACTGTTCACGCCAG
6524937 AGAATAT
1 AGAATAT
6524944 TTACTGGGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (23 bp):
AGAATATCCACTGTTCACGCCAG
Found at i:6524944 original size:23 final size:23
Alignment explanation
Indices: 6524902--6524946 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6524892 GAATATCCAC
*
6524902 TGTTCATGCCAGAGAATATTTAT
1 TGTTCACGCCAGAGAATATTTAT
*
6524925 TGTTCACGTCAGAGAATATTTA
1 TGTTCACGCCAGAGAATATTTA
6524947 CTGGGATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (23 bp):
TGTTCACGCCAGAGAATATTTAT
Found at i:6530506 original size:16 final size:19
Alignment explanation
Indices: 6530469--6530507 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
6530459 ATTGTTTGGA
6530469 TATTGTATAAAACTTATTT
1 TATTGTATAAAACTTATTT
6530488 TATTGT-TAAAA-TT-TTT
1 TATTGTATAAAACTTATTT
6530504 TATT
1 TATT
6530508 ATTTTAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 2 0.10
18 5 0.25
19 6 0.30
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTGTATAAAACTTATTT
Found at i:6530703 original size:14 final size:15
Alignment explanation
Indices: 6530684--6530712 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6530674 TTTTAAAATT
6530684 ATATAAAAA-TAATA
1 ATATAAAAATTAATA
6530698 ATATAAAAATTAATA
1 ATATAAAAATTAATA
6530713 TAGGCAGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATAAAAATTAATA
Found at i:6545259 original size:3 final size:3
Alignment explanation
Indices: 6545251--6545278 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6545241 TTTTTAATTT
6545251 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
6545279 TTTAAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Done.