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 411 of 433
Found at i:126662179 original size:18 final size:18
Alignment explanation
Indices: 126662152--126662196 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
126662142 TATATTACTG
* *
126662152 TATATTTTTATGTATATA
1 TATATATTTATATATATA
*
126662170 TATATATTTATATTTATA
1 TATATATTTATATATATA
126662188 TATAGTATT
1 TATA-TATT
126662197 GTTTTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
TATATATTTATATATATA
Found at i:126662295 original size:2 final size:2
Alignment explanation
Indices: 126662290--126662325 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
126662280 GTATTTCTAT
* *
126662290 TA TA TA CA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
126662326 GTATTATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:126664503 original size:30 final size:30
Alignment explanation
Indices: 126664463--126664528 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
126664453 TTTTACAGTT
*
126664463 TAAAAAAATCAAATAAGTCATTTAAATGAG
1 TAAAACAATCAAATAAGTCATTTAAATGAG
126664493 TAAAACAATCAAATAAGTCATTTAAATGAG
1 TAAAACAATCAAATAAGTCATTTAAATGAG
126664523 TAAAAC
1 TAAAAC
126664529 GTAAACTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (30 bp):
TAAAACAATCAAATAAGTCATTTAAATGAG
Found at i:126665104 original size:33 final size:30
Alignment explanation
Indices: 126665047--126665108 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
126665037 TTAATAAAAT
**
126665047 TTTATAATTTTAATTTTTTTATAAATTTTG
1 TTTATAATTTTAATTTTTAAATAAATTTTG
126665077 TTTATAATTTTTATGATTTTTAAATAAATTTT
1 TTTATAA-TTTTA--ATTTTTAAATAAATTTT
126665109 TAATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 5 0.19
33 15 0.56
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (30 bp):
TTTATAATTTTAATTTTTAAATAAATTTTG
Found at i:126666616 original size:21 final size:21
Alignment explanation
Indices: 126666571--126666611 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
126666561 CCCATTATAA
126666571 AATATTTAATTATATATTATT
1 AATATTTAATTATATATTATT
*
126666592 AATATTTTATT-T-TATTATT
1 AATATTTAATTATATATTATT
126666611 A
1 A
126666612 TAATAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
AATATTTAATTATATATTATT
Found at i:126666734 original size:16 final size:17
Alignment explanation
Indices: 126666703--126666735 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
126666693 ATATTTTAGG
126666703 TGAAAGAAAATAAAAAT
1 TGAAAGAAAATAAAAAT
*
126666720 TGAAA-AAAATTAAAAT
1 TGAAAGAAAATAAAAAT
126666736 ATTATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (17 bp):
TGAAAGAAAATAAAAAT
Found at i:126670219 original size:13 final size:13
Alignment explanation
Indices: 126670196--126670226 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
126670186 ATCAATTGTT
126670196 TATAT-GTGTATA
1 TATATAGTGTATA
126670208 TATATAGTGTATA
1 TATATAGTGTATA
126670221 TATATA
1 TATATA
126670227 TATAAGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (13 bp):
TATATAGTGTATA
Found at i:126671711 original size:130 final size:130
Alignment explanation
Indices: 126671320--126671713 Score: 477
Period size: 130 Copynumber: 3.0 Consensus size: 130
126671310 TTGCCCTCAT
* * * * *
126671320 TTTAAAGGATTTTTAGAAGAGC-CGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAAC-AAT
1 TTTAAGGGA-TTTTAAAAGA-CACGAATGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAAT
* * * * * *
126671383 CGAGAAATTGCTACCCAACACGTTAGGGCACGATCCCACGAATTGCCAAATACCACATATCGCCT
64 -GAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACACCAAATATCGTCT
126671448 TCG
128 TCG
* ** * * *
126671451 TTTTAGGGATTTTAAAAGACACGAGCGAAATTTTAAAGTGATATTTGATTATTTTGAGCAAATGC
1 TTTAAGGGATTTTAAAAGACACGAATGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAATGA
* * * * *
126671516 GAAATTGCAACCCAACACGTTAGGGCACAATTTCGCGAATTGCCAAACACCAAATCTCATTTTCG
66 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACACCAAATATCGTCTTCG
* * * * *
126671581 TTTAAGGGATTTTAAAAGATATGAATGAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGA
1 TTTAAGGGATTTTAAAAGACACGAATGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAATGA
* * *
126671646 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCGAACATCAAATTTCGTCTTCG
66 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACACCAAATATCGTCTTCG
126671711 TTT
1 TTT
126671714 TGAAGAATTT
Statistics
Matches: 223, Mismatches: 38, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
129 1 0.00
130 212 0.95
131 10 0.04
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (130 bp):
TTTAAGGGATTTTAAAAGACACGAATGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAATGA
GAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACACCAAATATCGTCTTCG
Found at i:126672449 original size:2 final size:2
Alignment explanation
Indices: 126672442--126672470 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
126672432 TGAATGTAAA
126672442 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 A
126672471 ATAGCTTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:126679667 original size:24 final size:25
Alignment explanation
Indices: 126679631--126679677 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
126679621 AAAAGCAATT
126679631 TAAAAAAATTAAAGGAAAAAAATCA
1 TAAAAAAATTAAAGGAAAAAAATCA
* *
126679656 TAAAAGAA-TAAAGGACAAAAAT
1 TAAAAAAATTAAAGGAAAAAAAT
126679678 ACACAGCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.70, C:0.04, G:0.11, T:0.15
Consensus pattern (25 bp):
TAAAAAAATTAAAGGAAAAAAATCA
Found at i:126679745 original size:54 final size:54
Alignment explanation
Indices: 126679663--126679771 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
126679653 TCATAAAAGA
126679663 ATAAAGGACAAAAATACACAGCTCCCTTTTGTTGTTATAAATGATTAAACACCT
1 ATAAAGGACAAAAATACACAGCTCCCTTTTGTTGTTATAAATGATTAAACACCT
126679717 ATAAAGGACAAAAATACACAGCTCCCTTTTGTTGTTATAAATGATTAAACACCT
1 ATAAAGGACAAAAATACACAGCTCCCTTTTGTTGTTATAAATGATTAAACACCT
126679771 A
1 A
126679772 CCTCCATGGC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.29
Consensus pattern (54 bp):
ATAAAGGACAAAAATACACAGCTCCCTTTTGTTGTTATAAATGATTAAACACCT
Found at i:126689778 original size:29 final size:29
Alignment explanation
Indices: 126689736--126689810 Score: 150
Period size: 29 Copynumber: 2.6 Consensus size: 29
126689726 AAGTATTGCC
126689736 TTACATACGAATATACAGAAAATTAATAG
1 TTACATACGAATATACAGAAAATTAATAG
126689765 TTACATACGAATATACAGAAAATTAATAG
1 TTACATACGAATATACAGAAAATTAATAG
126689794 TTACATACGAATATACA
1 TTACATACGAATATACA
126689811 TACATATACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (29 bp):
TTACATACGAATATACAGAAAATTAATAG
Found at i:126692192 original size:22 final size:21
Alignment explanation
Indices: 126692164--126692216 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
126692154 AAACTCGTCC
126692164 ATATTATTTTTTTTAAATATTT
1 ATATTATTTTTTTT-AATATTT
*
126692186 ATATTATATTATTTTAATATTT
1 ATATTAT-TTTTTTTAATATTT
*
126692208 A-ATAATTTT
1 ATATTATTTT
126692217 ATATTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.07
21 4 0.15
22 15 0.56
23 6 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
ATATTATTTTTTTTAATATTT
Found at i:126692223 original size:23 final size:23
Alignment explanation
Indices: 126692164--126692208 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
126692154 AAACTCGTCC
*
126692164 ATATTAT-TTTTTTTAAATATTT
1 ATATTATATTATTTTAAATATTT
126692186 ATATTATATTATTTT-AATATTT
1 ATATTATATTATTTTAAATATTT
126692208 A
1 A
126692209 ATAATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATTATATTATTTTAAATATTT
Found at i:126692606 original size:23 final size:22
Alignment explanation
Indices: 126692576--126692639 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
126692566 AAAATTTCTA
126692576 AAATATAACTTTATTAAA-TAGT
1 AAATATAACTTTATTAAACTA-T
* *
126692598 AAATGATAATTTTTTTAAACTAT
1 AAAT-ATAACTTTATTAAACTAT
126692621 AAATATTAA-TTCTATTAAA
1 AAATA-TAACTT-TATTAAA
126692640 ATTTGGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 7 0.20
23 26 0.74
24 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (22 bp):
AAATATAACTTTATTAAACTAT
Found at i:126703305 original size:9 final size:9
Alignment explanation
Indices: 126703287--126703339 Score: 51
Period size: 8 Copynumber: 6.2 Consensus size: 9
126703277 TTATATTTTG
126703287 AAAT-TATA
1 AAATATATA
126703295 AAATATATA
1 AAATATATA
*
126703304 AAATAT-TT
1 AAATATATA
126703312 AAATATAT-
1 AAATATATA
*
126703320 AAATTTACTA
1 AAATATA-TA
126703330 AAA-ATATA
1 AAATATATA
126703338 AA
1 AA
126703340 TATTTATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 21 0.55
9 14 0.37
10 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (9 bp):
AAATATATA
Found at i:126703334 original size:19 final size:19
Alignment explanation
Indices: 126703312--126703353 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
126703302 TAAAATATTT
126703312 AAATATATAA-ATTTACTAA
1 AAATATA-AATATTTACTAA
*
126703331 AAATATAAATATTTATTAA
1 AAATATAAATATTTACTAA
126703350 AAAT
1 AAAT
126703354 CAAGCAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATAAATATTTACTAA
Found at i:126704445 original size:14 final size:14
Alignment explanation
Indices: 126704426--126704456 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
126704416 TCTTTTTTTA
126704426 CTTAGTGAAATCTC
1 CTTAGTGAAATCTC
126704440 CTTAGTGAAATCTC
1 CTTAGTGAAATCTC
126704454 CTT
1 CTT
126704457 TTGCCTATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (14 bp):
CTTAGTGAAATCTC
Found at i:126707010 original size:14 final size:14
Alignment explanation
Indices: 126706991--126707017 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
126706981 GGAGAAATTA
126706991 TTTTATATATATAT
1 TTTTATATATATAT
126707005 TTTTATATATATA
1 TTTTATATATATA
126707018 ACCTATTATA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTATATATATAT
Found at i:126708057 original size:2 final size:2
Alignment explanation
Indices: 126708050--126708077 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
126708040 TATTTTCCTT
126708050 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
126708078 AAGGAAGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:126708738 original size:24 final size:24
Alignment explanation
Indices: 126708709--126708756 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
126708699 AGTGCCACAT
126708709 AACTAACAATGCAGTGCCTTGTAA
1 AACTAACAATGCAGTGCCTTGTAA
126708733 AACTAACAATGCAGTGCCTTGTAA
1 AACTAACAATGCAGTGCCTTGTAA
126708757 GTTTATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
AACTAACAATGCAGTGCCTTGTAA
Found at i:126710291 original size:2 final size:2
Alignment explanation
Indices: 126710284--126710321 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
126710274 AAGTTCTAAG
126710284 TA TA TA 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 TA TA TA
126710322 AATAAGGGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:126711144 original size:20 final size:20
Alignment explanation
Indices: 126711121--126711186 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
126711111 TTTTTTAATT
126711121 TTTAATAAAAA-TATTAAAAA
1 TTTAATAAAAATTA-TAAAAA
*
126711141 TTTATTAAAAATTATAAAAA
1 TTTAATAAAAATTATAAAAA
*
126711161 -TT-GTAAAAATTAT-AAAA
1 TTTAATAAAAATTATAAAAA
*
126711178 TTTTATAAA
1 TTTAATAAA
126711187 GTAGTAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 12 0.30
19 6 0.15
20 16 0.40
21 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
TTTAATAAAAATTATAAAAA
Found at i:126711157 original size:29 final size:30
Alignment explanation
Indices: 126711094--126711171 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
126711084 TTTTGTACAC
* ***
126711094 TTAAT-AAAA-ATTAAAAATTTTTTAATTT
1 TTAATAAAAATATTAAAAATTTATTAAAAA
126711122 TTAATAAAAATATTAAAAATTTATTAAAAA
1 TTAATAAAAATATTAAAAATTTATTAAAAA
126711152 TT-ATAAAAAT-TGTAAAAATT
1 TTAATAAAAATAT-TAAAAATT
126711172 ATAAAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 6 0.14
29 20 0.47
30 17 0.40
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (30 bp):
TTAATAAAAATATTAAAAATTTATTAAAAA
Found at i:126711169 original size:10 final size:9
Alignment explanation
Indices: 126711125--126711208 Score: 64
Period size: 9 Copynumber: 8.9 Consensus size: 9
126711115 TTAATTTTTA
126711125 ATAAAAA-T
1 ATAAAAATT
126711133 ATTAAAAATTT
1 A-TAAAAA-TT
126711144 ATTAAAAATT
1 A-TAAAAATT
126711154 ATAAAAATT
1 ATAAAAATT
*
126711163 GTAAAAATT
1 ATAAAAATT
126711172 AT-AAAATT
1 ATAAAAATT
* * *
126711180 TTATAAAGT
1 ATAAAAATT
126711189 AGTAAGAAAATT
1 A-T-A-AAAATT
126711201 ATAAAAAT
1 ATAAAAAT
126711209 GTAAAGAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
8 8 0.13
9 32 0.52
10 5 0.08
11 11 0.18
12 5 0.08
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:126712213 original size:2 final size:2
Alignment explanation
Indices: 126712206--126712235 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
126712196 ATTTATAACT
*
126712206 TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
126712236 AACATGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:126712580 original size:34 final size:34
Alignment explanation
Indices: 126712528--126712598 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
126712518 CTCTTATCTC
* *
126712528 TAAAGTTTGATTCTAAATTTTCTTTTTGAAAGTG
1 TAAAATTTAATTCTAAATTTTCTTTTTGAAAGTG
126712562 TAAAATTTAATTCTAAATTTTCTTTTTGAAAGTG
1 TAAAATTTAATTCTAAATTTTCTTTTTGAAAGTG
126712596 TAA
1 TAA
126712599 TATGTCTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (34 bp):
TAAAATTTAATTCTAAATTTTCTTTTTGAAAGTG
Found at i:126712653 original size:2 final size:2
Alignment explanation
Indices: 126712646--126712676 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
126712636 AAAAGAAACA
126712646 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 A
126712677 AAACAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:126713121 original size:95 final size:95
Alignment explanation
Indices: 126713003--126713192 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
126712993 ATACATATAT
126713003 ATATATATATATATATGTAACTCTCAGCTTTTTCACTTCTAGCAAAACTTGTTTGTGTTTGGCCT
1 ATATATATATATATATGTAACTCTCAGCTTTTTCACTTCTAGCAAAACTTGTTTGTGTTTGGCCT
126713068 TTGGGTTTCATTAGTTTTCCATTTAGAGTC
66 TTGGGTTTCATTAGTTTTCCATTTAGAGTC
126713098 ATATATATATATATATGTAACTCTCAGCTTTTTCACTTCTAGCAAAACTTGTTTGTGTTTGGCCT
1 ATATATATATATATATGTAACTCTCAGCTTTTTCACTTCTAGCAAAACTTGTTTGTGTTTGGCCT
126713163 TTGGGTTTCATTAGTTTTCCATTTAGAGTC
66 TTGGGTTTCATTAGTTTTCCATTTAGAGTC
126713193 TAAAAACTTT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.46
Consensus pattern (95 bp):
ATATATATATATATATGTAACTCTCAGCTTTTTCACTTCTAGCAAAACTTGTTTGTGTTTGGCCT
TTGGGTTTCATTAGTTTTCCATTTAGAGTC
Found at i:126723435 original size:366 final size:366
Alignment explanation
Indices: 126722718--126724190 Score: 2252
Period size: 366 Copynumber: 4.0 Consensus size: 366
126722708 AGCTCTAACA
* * * *
126722718 GTTGCAATTTCATGTTCAACTCGAGGAACTCCCTTTTG-TCCCATAACTGCCTCTGAAAGCACAT
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCT-CCATAACTGCCTCTGAAAGCGCAT
* * *
126722782 CAGAACTAACAACAGAAAGACAATCTGTGCTTCTCTTTGAATTAACCGGCTCCTGTGCACAAAAG
65 CAGAACTAACAACAGAAAGACAATCCGCGCTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAG
* * *
126722847 TTGGCAACAGCAGCGCTAGCAATGCTGCTGCTGCCCCACCGTTTTTTCCTCCTACTGTAAACTAA
130 TTGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCT-C--CTGTAAACTAA
* * *
126722912 AATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTCGGGTAAGG
192 AATCGGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGG
* ** *
126722977 GAAGGCGTGAATCCTCAGCCTCTTTACATCCAGGTTGTGAAGTACTATCACATTTAGGAGTCATC
257 GAAGGCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATC
* ** * *
126723042 CGGAAAGTTTCATTATCAGATATCCAATCACATAAAGAAATCTTT
322 TGCCAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
* *
126723087 GTTGCAGTTTCATGATCAACTTGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
*
126723152 AGAACTAACGACAGAAAGACAATCCGCGCTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
66 AGAACTAACAACAGAAAGACAATCCGCGCTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
* * * * *
126723217 TGGCAACAACAGCGTTAGCACTGCTGCTTCTGCCCCACCGTTTCTTCATCCTGTAAATTAAGATC
131 TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
* * * *
126723282 GGAATAGGACTTTCAAACCTCATACTTACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAG
196 GGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAG
126723347 GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTTG-
261 GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATC-TGC
126723411 CAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
325 CAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
* * *
126723453 GTTGCAGTTTCATGTTCAACTTGAGAAACTCCCTTTCGCTCCATAACTGCCTCCGAAAGTGCATC
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
* * *
126723518 AGAACTAACAACAGAAAGACAATCCGCCCTTCTCTTTGAATTAA-CATGCTCCCGTGCATAAAAG
66 AGAACTAACAACAGAAAGACAATCCGCGCTTCTCTTTGAATTAACCA-GCTCCTGTGCACAAAAG
* * * *
126723582 TTGGCAACAACAGAGCTAGCGCTGCTGCTGCTGCCCCACCGTTTCTTCCCCCTACTGTAAACTGA
130 TTGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTT---CCTCCTGTAAACTAA
*
126723647 AATCGGCATAGGACTTTCAAACATCACACTCACAGATGGCTGCTGAGAACCAGTTTTGGGTAAGG
192 AATCGGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGG
*
126723712 GAAGGCATGAATCCTCAGCCTCTTTACATCCAGC-TTGTGAAGTACCATCACATTTAGGAATCAT
257 GAAGGCATGAATCCTCAGCCTCTTTACATCCA-CTTTGTGAAGTACCATCACATTTAGGAGTCAT
*
126723776 CTGCCAAGTTTCATTACCAGACATCCAATCACATAAAGAAGTCTTT
321 CTGCCAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
* * *
126723822 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGTGCATT
1 GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
* * * *
126723887 AGAACTAAGAACAGAAAAACAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
66 AGAACTAACAACAGAAAGACAATCCGCGCTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
* *
126723952 TGGCAACAACAGCACTAGCACTGCTGCTGCAGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
131 TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
* * * * * *
126724017 GGCGTTGGACTTTCAAACATCATACTCACAGATGACTGTTGAGAACCAATTTTGGGAAAGGGAAG
196 GGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAG
* *
126724082 GCATGAATCCCCAGCCTCTTTACAACCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCC
261 GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCC
126724147 AAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
326 AAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
126724188 GTT
1 GTT
126724191 TCCTGCATTC
Statistics
Matches: 1011, Mismatches: 83, Indels: 23
0.91 0.07 0.02
Matches are distributed among these distances:
365 3 0.00
366 507 0.50
367 1 0.00
368 3 0.00
369 493 0.49
370 4 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (366 bp):
GTTGCAGTTTCATGTTCAACTCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATC
AGAACTAACAACAGAAAGACAATCCGCGCTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGT
TGGCAACAACAGCGCTAGCACTGCTGCTGCTGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATC
GGCATAGGACTTTCAAACATCACACTCACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAG
GCATGAATCCTCAGCCTCTTTACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCC
AAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTT
Found at i:126724135 original size:735 final size:735
Alignment explanation
Indices: 126722718--126724190 Score: 2358
Period size: 735 Copynumber: 2.0 Consensus size: 735
126722708 AGCTCTAACA
* * *
126722718 GTTGCAATTTCATGTTCAACTCGAGGAACTCCCTTTTGTCCCATAACTGCCTCTGAAAGCACATC
1 GTTGCAATTTCATGTTCAACTCGAGAAACTCCCTTTCGTCCCATAACTGCCTCCGAAAGCACATC
* ** * *
126722783 AGAACTAACAACAGAAAGACAATCTGTGCTTCTCTTTGAATTAACCGGCTCCTGTGCACAAAAGT
66 AGAACTAACAACAGAAAGACAATCCGCCCTTCTCTTTGAATTAACAGGCTCCCGTGCACAAAAGT
* * * *
126722848 TGGCAACAGCAGCGCTAGCAATGCTGCTGCTGCCCCACCGTTTTTTCCTCCTACTGTAAACTAAA
131 TGGCAACAACAGAGCTAGCAATGCTGCTGCTGCCCCACCGTTTCTTCCCCCTACTGTAAACTAAA
126722913 ATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTCGGGTAAGGG
196 ATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTCGGGTAAGGG
* * * *
126722978 AAGGCGTGAATCCTCAGCCTCTTTACATCCAGGTTGTGAAGTACTATCACATTTAGGAGTCATCC
261 AAGGCATGAATCCTCAGCCTCTTTACATCCAGCTTGTGAAGTACCATCACATTTAGGAATCATCC
* * *
126723043 GGAAAGTTTCATTATCAGATATCCAATCACATAAAGAAATCTTTGTTGCAGTTTCATGATCAACT
326 GCAAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTTGTTGCAGTTTCATGATCAACT
* *
126723108 TGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATCAGAACTAACGACAGAAAGACA
391 CGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATCAGAACTAACGACAGAAAAACA
* * **
126723173 ATCCGCGCTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCGTTAGCAC
456 ATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAGCAC
* * * * *
126723238 TGCTGCTTCTGCCCCACCGTTTCTTCATCCTGTAAATTAAGATCGGAATAGGACTTTCAAACCTC
521 TGCTGCTGCAGCCCCACCGTTTCTTCATCCTGTAAACTAAAATCGGAATAGGACTTTCAAACATC
* * * *
126723303 ATACTTACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAGGCATGAATCCTCAGCCTCTTT
586 ATACTCACAGATGACTGCTGAGAACCAATTTTGGGAAAGGGAAGGCATGAATCCCCAGCCTCTTT
*
126723368 ACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTTG-CAAGTTTCATTACCAGACATC
651 ACAACCACTTTGTGAAGTACCATCACATTTAGGAGTCATC-TGCCAAGTTTCATTACCAGACATC
126723432 CAATCACATAAAGAAATCTTT
715 CAATCACATAAAGAAATCTTT
* * **
126723453 GTTGCAGTTTCATGTTCAACTTGAGAAACTCCCTTTCG-CTCCATAACTGCCTCCGAAAGTGCAT
1 GTTGCAATTTCATGTTCAACTCGAGAAACTCCCTTTCGTC-CCATAACTGCCTCCGAAAGCACAT
* *
126723517 CAGAACTAACAACAGAAAGACAATCCGCCCTTCTCTTTGAATTAACATGCTCCCGTGCATAAAAG
65 CAGAACTAACAACAGAAAGACAATCCGCCCTTCTCTTTGAATTAACAGGCTCCCGTGCACAAAAG
** *
126723582 TTGGCAACAACAGAGCTAGCGCTGCTGCTGCTGCCCCACCGTTTCTTCCCCCTACTGTAAACTGA
130 TTGGCAACAACAGAGCTAGCAATGCTGCTGCTGCCCCACCGTTTCTTCCCCCTACTGTAAACTAA
** * *
126723647 AATCGGCATAGGACTTTCAAACATCACACTCACAGATGGCTGCTGAGAACCAGTTTTGGGTAAGG
195 AATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTCGGGTAAGG
126723712 GAAGGCATGAATCCTCAGCCTCTTTACATCCAGCTTGTGAAGTACCATCACATTTAGGAATCATC
260 GAAGGCATGAATCCTCAGCCTCTTTACATCCAGCTTGTGAAGTACCATCACATTTAGGAATCATC
* * * *
126723777 TGCCAAGTTTCATTACCAGACATCCAATCACATAAAGAAGTCTTTGTTGCAGTTTCATGTTCAAC
325 CGCAAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTTGTTGCAGTTTCATGATCAAC
* * *
126723842 TCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGTGCATTAGAACTAA-GAACAGAAAAA
390 TCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATCAGAACTAACG-ACAGAAAAA
126723906 CAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAGC
454 CAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAGC
* ** *
126723971 ACTGCTGCTGCAGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATCGGCGTTGGACTTTCAAACA
519 ACTGCTGCTGCAGCCCCACCGTTTCTTCATCCTGTAAACTAAAATCGGAATAGGACTTTCAAACA
*
126724036 TCATACTCACAGATGACTGTTGAGAACCAATTTTGGGAAAGGGAAGGCATGAATCCCCAGCCTCT
584 TCATACTCACAGATGACTGCTGAGAACCAATTTTGGGAAAGGGAAGGCATGAATCCCCAGCCTCT
126724101 TTACAACCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCCAAGTTTCATTACCAGACAT
649 TTACAACCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCCAAGTTTCATTACCAGACAT
126724166 CCAATCACATAAAGAAATCTTT
714 CCAATCACATAAAGAAATCTTT
126724188 GTT
1 GTT
126724191 TCCTGCATTC
Statistics
Matches: 675, Mismatches: 60, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
734 4 0.01
735 671 0.99
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (735 bp):
GTTGCAATTTCATGTTCAACTCGAGAAACTCCCTTTCGTCCCATAACTGCCTCCGAAAGCACATC
AGAACTAACAACAGAAAGACAATCCGCCCTTCTCTTTGAATTAACAGGCTCCCGTGCACAAAAGT
TGGCAACAACAGAGCTAGCAATGCTGCTGCTGCCCCACCGTTTCTTCCCCCTACTGTAAACTAAA
ATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTCGGGTAAGGG
AAGGCATGAATCCTCAGCCTCTTTACATCCAGCTTGTGAAGTACCATCACATTTAGGAATCATCC
GCAAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTTGTTGCAGTTTCATGATCAACT
CGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATCAGAACTAACGACAGAAAAACA
ATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAGCAC
TGCTGCTGCAGCCCCACCGTTTCTTCATCCTGTAAACTAAAATCGGAATAGGACTTTCAAACATC
ATACTCACAGATGACTGCTGAGAACCAATTTTGGGAAAGGGAAGGCATGAATCCCCAGCCTCTTT
ACAACCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCCAAGTTTCATTACCAGACATCC
AATCACATAAAGAAATCTTT
Found at i:126724402 original size:127 final size:127
Alignment explanation
Indices: 126724178--126724682 Score: 879
Period size: 127 Copynumber: 4.0 Consensus size: 127
126724168 AATCACATAA
* *
126724178 AGAAATCTTTGTTTCCTGCATTCAAACACAT--AATAGGATTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAAGACTGTTTCAATTGAACTAGAAATTTG
*
126724241 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
66 AAGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
* * *
126724303 AGAAATCTTTGTTTCCTGCATTCAAACAAATAAAATAAGACTGTTTTAACTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAAGACTGTTTCAATTGAACTAGAAATTTG
*
126724368 AAGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGTGTTTCTCTCTT
66 AAGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
*
126724430 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAAGACTGTTTAAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAAGACTGTTTCAATTGAACTAGAAATTTG
* *
126724495 AAGTCCCAATCTAAATCTCAACAAATATAATTCAACAAACACAAAATCAGCGTTTCTCTCTT
66 AAGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
* *
126724557 AGAAATCTTTGTTTCCTGCAGTCAAACACATAAAATAGGACTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAAGACTGTTTCAATTGAACTAGAAATTTG
*
126724622 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
66 AAGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
126724683 AACTTCCACC
Statistics
Matches: 360, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
125 30 0.08
127 330 0.92
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (127 bp):
AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAAGACTGTTTCAATTGAACTAGAAATTTG
AAGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
Found at i:126727363 original size:22 final size:21
Alignment explanation
Indices: 126727333--126727398 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
126727323 TACAAATTAA
126727333 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
126727355 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
126727376 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
126727395 ATCT
1 ATCT
126727399 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:126727385 original size:19 final size:19
Alignment explanation
Indices: 126727350--126727446 Score: 162
Period size: 19 Copynumber: 5.1 Consensus size: 19
126727340 AGATTACAAG
126727350 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
126727371 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
126727390 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
126727407 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
126727426 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
126727445 AT
1 AT
126727447 TCTTAAAGAT
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:126727414 original size:36 final size:37
Alignment explanation
Indices: 126727350--126727446 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 37
126727340 AGATTACAAG
126727350 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
126727390 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
126727426 ATCATATCTAAGATTGCATAT
1 ATCATATCTAAGATTG-ATAT
126727447 TCTTAAAGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.65
38 10 0.18
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:126727446 original size:14 final size:15
Alignment explanation
Indices: 126727372--126727428 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
126727362 AGATTGCATA
126727372 TCATATCTAAGATTG
1 TCATATCTAAGATTG
126727387 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
126727406 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
126727423 -CATATC
1 TCATATC
126727429 ATATCTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:126728083 original size:44 final size:44
Alignment explanation
Indices: 126728033--126728646 Score: 555
Period size: 44 Copynumber: 14.0 Consensus size: 44
126728023 CTAGATTTGT
126728033 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
* * * *
126728077 TATCTTCAACTTGTTCCCTATAAACATAGGGATGCC--ATGCTGA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAAT-CTGC
* * ** * * * * *
126728120 AATCTTCGATATGCTTTGCTATAAGCATAGGAATGTCAGATCTGC
1 TATCTTCGATTTG-TTCCCTATAAACACAGGGATGCCAAATCTGC
126728165 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
* *
126728209 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
* * * *
126728253 TATCTTCAACTTGTTCCCTATAAACACAGGGATACC--ATGCTGA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAAT-CTGC
* * * * * * * * *
126728296 AATCTTCGATCTGCTTCGCTGTAATCACAAGAATGTCAGATCTGC
1 TATCTTCGATTTG-TTCCCTATAAACACAGGGATGCCAAATCTGC
126728341 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
* * * *
126728385 TATATTCAACTTGTTCCCTATAAACACAGGGATGCC--ATGCTGA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAAT-CTGC
* * * * * * ** *
126728428 AATCTTCAATCTGCTTCGCTGTAATCACA-GGAGTGTTAGATCTGC
1 TATCTTCGATTTG-TTCCCTATAAACACAGGGA-TGCCAAATCTGC
*
126728473 TATCTTCGATTTGTGCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
* * * **
126728517 TATCTTCAACTTGTTCTCTATAAACACAGGGATGCC--ATGCTAA
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAAT-CTGC
* * * * * * * * *
126728560 AATCTTTGATCTGCTTCTCTGTAAGCACA-GAAGTGTCAGATCTGC
1 TATCTTCGATTTG-TTCCCTATAAACACAGGGA-TGCCAAATCTGC
*
126728605 TATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
1 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
126728647 TGTTTCTCTG
Statistics
Matches: 453, Mismatches: 97, Indels: 40
0.77 0.16 0.07
Matches are distributed among these distances:
42 8 0.02
43 51 0.11
44 327 0.72
45 59 0.13
46 8 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (44 bp):
TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
Found at i:126728227 original size:176 final size:176
Alignment explanation
Indices: 126728033--126728421 Score: 679
Period size: 176 Copynumber: 2.2 Consensus size: 176
126728023 CTAGATTTGT
* *
126728033 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
* * * * *
126728098 AAACATAGGGATGCCATGCTGAAATCTTCGATATGCTTTGCTATAAGCATAGGAATGTCAGATCT
66 AAACACAGGGATACCATGCTGAAATCTTCGATATGCTTCGCTATAAGCACAAGAATGTCAGATCT
126728163 GCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
131 GCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
126728209 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
* * *
126728274 AAACACAGGGATACCATGCTGAAATCTTCGATCTGCTTCGCTGTAATCACAAGAATGTCAGATCT
66 AAACACAGGGATACCATGCTGAAATCTTCGATATGCTTCGCTATAAGCACAAGAATGTCAGATCT
126728339 GCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
131 GCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
*
126728385 TATATTCAACTTGTTCCCTATAAACACAGGGATGCCA
1 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
126728422 TGCTGAAATC
Statistics
Matches: 202, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
176 202 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (176 bp):
TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
AAACACAGGGATACCATGCTGAAATCTTCGATATGCTTCGCTATAAGCACAAGAATGTCAGATCT
GCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
Found at i:126728274 original size:132 final size:131
Alignment explanation
Indices: 126728034--126728646 Score: 718
Period size: 132 Copynumber: 4.6 Consensus size: 131
126728024 TAGATTTGTT
* * * * *
126728034 ATCTTCGATTTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 ATCTTCGATCTGCTTCCCTGTAAACACA-GGATGTCAGATCTGCTATCTTCGACTTGTTCCCTAT
* ** * ** * * * *
126728098 AAACATAGGGATGCC--ATGCTGAAATCTTCGA-TATGCTTTGCTATAAGCATAGGAATGTCA-G
65 AAACACAGGGATGCCAAAT-CTGCTATCTTCAACT-TG-TTCCCTATAAACACAGGGATGCCATG
**
126728159 ATCTGCT
127 --CTGAA
* * * * *
126728166 ATCTTCGATTTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTAT
1 ATCTTCGATCTGCTTCCCTGTAAACACA-GGATGTCAGATCTGCTATCTTCGACTTGTTCCCTAT
*
126728230 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATACCATGCTG
65 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
126728295 AA
130 AA
* * * *
126728297 ATCTTCGATCTGCTTCGCTGTAATCACAAGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTCGATCTGCTTCCCTGTAAACAC-AGGATGTCAGATCTGCTATCTTCGACTTGTTCCCTAT
*
126728362 AAACACAGGGATGCCAAATCTGCTATATTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
65 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
126728427 AA
130 AA
* * * * * *
126728429 ATCTTCAATCTGCTTCGCTGTAATCACAGGAGTGTTAGATCTGCTATCTTCGATTTGTGCCCTAT
1 ATCTTCGATCTGCTTCCCTGTAAACACAGGA-TGTCAGATCTGCTATCTTCGACTTGTTCCCTAT
* *
126728494 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCTCTATAAACACAGGGATGCCATGCTA
65 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
126728559 AA
130 AA
* * * *
126728561 ATCTTTGATCTGCTTCTCTGTAAGCACAGAAGTGTCAGATCTGCTATCTTCGA-TCTGTTCCCTA
1 ATCTTCGATCTGCTTCCCTGTAAACACAGGA-TGTCAGATCTGCTATCTTCGACT-TGTTCCCTA
126728625 TAAACACAGGGATGCCAAATCT
64 TAAACACAGGGATGCCAAATCT
126728647 TGTTTCTCTG
Statistics
Matches: 435, Mismatches: 38, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
131 18 0.04
132 400 0.92
133 14 0.03
134 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (131 bp):
ATCTTCGATCTGCTTCCCTGTAAACACAGGATGTCAGATCTGCTATCTTCGACTTGTTCCCTATA
AACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGA
A
Found at i:126729572 original size:23 final size:22
Alignment explanation
Indices: 126729527--126729573 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
126729517 GGCCTCTCCA
*
126729527 TTTTTTTTTCTTTTTATTATTT
1 TTTTTTTTTCTTTTCATTATTT
*
126729549 TTTTCTTTTTCTTTTCCTT-TTT
1 TTTT-TTTTTCTTTTCATTATTT
126729571 TTT
1 TTT
126729574 GAAATAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTTTTTTCTTTTCATTATTT
Found at i:126735244 original size:22 final size:21
Alignment explanation
Indices: 126735214--126735260 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
126735204 TACAAATTAA
126735214 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
126735236 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
126735257 ATCT
1 ATCT
126735261 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:126735254 original size:16 final size:16
Alignment explanation
Indices: 126735233--126735283 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
126735223 ATTACAAGAT
126735233 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
126735249 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
126735268 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
126735284 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:126735266 original size:19 final size:21
Alignment explanation
Indices: 126735231--126735273 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
126735221 AGATTACAAG
126735231 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
126735252 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
126735271 ATC
1 ATC
126735274 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:126736087 original size:2 final size:2
Alignment explanation
Indices: 126736080--126736107 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
126736070 AATTTCATGA
126736080 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
126736108 GTGACGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126742995 original size:26 final size:26
Alignment explanation
Indices: 126742959--126743011 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
126742949 TTGAAAGAGT
*
126742959 ATAAAAATTATTGTGGTGTAAATAGG
1 ATAAAAATTATTGTAGTGTAAATAGG
126742985 ATAAAAATTATTGTAGTGTAAATAGG
1 ATAAAAATTATTGTAGTGTAAATAGG
126743011 A
1 A
126743012 ATTTAGAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (26 bp):
ATAAAAATTATTGTAGTGTAAATAGG
Found at i:126745167 original size:23 final size:23
Alignment explanation
Indices: 126745120--126745168 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
126745110 TATATGAATA
*
126745120 TATTATTTAATTATAAAGTATTT
1 TATTATTTAATTATAAAGTAATT
* **
126745143 TATTATTTTATTATATTGTAATT
1 TATTATTTAATTATAAAGTAATT
126745166 TAT
1 TAT
126745169 ATTAAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
TATTATTTAATTATAAAGTAATT
Found at i:126746485 original size:15 final size:16
Alignment explanation
Indices: 126746465--126746498 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
126746455 ATTGGCAATA
126746465 GAATTGAT-ATTGAAT
1 GAATTGATAATTGAAT
126746480 GAATTGATAAATTGAAT
1 GAATTGAT-AATTGAAT
126746497 GA
1 GA
126746499 TTTTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (16 bp):
GAATTGATAATTGAAT
Found at i:126750190 original size:3 final size:3
Alignment explanation
Indices: 126750182--126750237 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
126750172 AAGGAAATAC
* *
126750182 AAT AAT AAT AAT AAT AGT AAT -AT AA- AATT AAT GAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
126750225 -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
126750238 GCATAAAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 8 0.18
3 35 0.78
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:126750226 original size:8 final size:8
Alignment explanation
Indices: 126750186--126750233 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
126750176 AAATACAATA
126750186 ATAATAAT
1 ATAATAAT
*
126750194 AATAGTAAT
1 -ATAATAAT
126750203 ATAA-AAT
1 ATAATAAT
*
126750210 -TAATGAT
1 ATAATAAT
126750217 ATAATAAT
1 ATAATAAT
126750225 ATAATAAT
1 ATAATAAT
126750233 A
1 A
126750234 ATAAGCATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
6 3 0.09
7 5 0.15
8 18 0.55
9 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (8 bp):
ATAATAAT
Found at i:126753441 original size:10 final size:10
Alignment explanation
Indices: 126753418--126753473 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
126753408 ATTCTAAAAT
126753418 ATAAATACAA-
1 ATAAATA-AAG
126753428 ATAAATAAAG
1 ATAAATAAAG
*
126753438 ATAATTAAAG
1 ATAAATAAAG
126753448 ATAAATAAAG
1 ATAAATAAAG
*
126753458 ATGAATGAAA-
1 ATAAAT-AAAG
126753468 ATAAAT
1 ATAAAT
126753474 CCTAGAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 35 0.88
11 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:126754292 original size:96 final size:97
Alignment explanation
Indices: 126754127--126754313 Score: 288
Period size: 96 Copynumber: 1.9 Consensus size: 97
126754117 ATTTTATTTA
* * ** *
126754127 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGATAGCCAAGCACCCTA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTA
126754192 CCCCGGTTACTCAGCCCAACACATTCCTAATT
66 CCCCGGTTACTCAGCCCAACACATTCCTAATT
* *
126754224 TTTATTTTT-CTTAAGAACATATCAAATCTTTTGACGCGAAGAGAGATGACAGCCAAGCA-TCTC
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCT-
126754287 ACCCCGGTTACTCAGCCCAACACATTC
65 ACCCCGGTTACTCAGCCCAACACATTC
126754314 TTAAAAATTA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
95 2 0.02
96 71 0.87
97 9 0.11
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTA
CCCCGGTTACTCAGCCCAACACATTCCTAATT
Found at i:126755080 original size:15 final size:16
Alignment explanation
Indices: 126755060--126755089 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
126755050 TTAATATCTG
126755060 AAAATAATAA-ATAAT
1 AAAATAATAAGATAAT
126755075 AAAATAATAAGATAA
1 AAAATAATAAGATAA
126755090 AATAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATAATAAGATAAT
Found at i:126755106 original size:12 final size:11
Alignment explanation
Indices: 126755065--126755110 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 11
126755055 ATCTGAAAAT
126755065 AATAAATAATAA
1 AATAAA-AATAA
126755077 AATAATAAGATAA
1 AATAA-AA-ATAA
126755090 AATAAAAATAGA
1 AATAAAAATA-A
126755102 AATAAAAAT
1 AATAAAAAT
126755111 TGGGTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.10
12 18 0.58
13 10 0.32
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:126761245 original size:10 final size:10
Alignment explanation
Indices: 126761226--126761285 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
126761216 TGAAATTCGA
126761226 AAAGATAAAT
1 AAAGATAAAT
126761236 ACAA-ATAAAT
1 A-AAGATAAAT
*
126761246 AAAGATAATT
1 AAAGATAAAT
*
126761256 AAATATAAAT
1 AAAGATAAAT
126761266 AAAGATAAAT
1 AAAGATAAAT
126761276 GAAA-ATAAAT
1 -AAAGATAAAT
126761286 CCTAGAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:126761249 original size:20 final size:19
Alignment explanation
Indices: 126761226--126761285 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 19
126761216 TGAAATTCGA
126761226 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
*
126761246 AAAGATAATTAAATATAAAT
1 AAAGATAAATAAA-ATAAAT
126761266 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
126761286 CCTAGAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 31 0.86
21 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:126764304 original size:28 final size:28
Alignment explanation
Indices: 126764254--126764358 Score: 112
Period size: 27 Copynumber: 3.9 Consensus size: 28
126764244 GGTTGCCAAA
* *
126764254 ACAGATAA-TGTGACAGAGTCACCAGAT
1 ACAGATAATTGTGGCAGAGCCACCAGAT
*
126764281 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAATTGTGGCAGAGCCACCAGAT
*
126764308 ACA-A-AATATGTGGCACAGCCACCAGAT
1 ACAGATAAT-TGTGGCAGAGCCACCAGAT
* *
126764335 -CAGATAATTGTAGCATAGCCACCA
1 ACAGATAATTGTGGCAGAGCCACCA
126764359 AGACGCTTCC
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.05
26 19 0.29
27 26 0.39
28 18 0.27
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (28 bp):
ACAGATAATTGTGGCAGAGCCACCAGAT
Found at i:126773965 original size:14 final size:14
Alignment explanation
Indices: 126773946--126773975 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
126773936 GGGGATTTAG
126773946 CCTGGACTGGTAAT
1 CCTGGACTGGTAAT
126773960 CCTGGACTGGTAAT
1 CCTGGACTGGTAAT
126773974 CC
1 CC
126773976 CGACAATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (14 bp):
CCTGGACTGGTAAT
Found at i:126774194 original size:47 final size:46
Alignment explanation
Indices: 126774069--126774251 Score: 224
Period size: 46 Copynumber: 4.0 Consensus size: 46
126774059 GCTCTCTGAT
* * *
126774069 AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 AGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
126774115 ATG-AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 A-GAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
126774161 GGGAAAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGAC
1 -AGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
126774208 AGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
126774252 TCGAAGATAA
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
46 79 0.67
47 39 0.33
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (46 bp):
AGAAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:126774232 original size:93 final size:93
Alignment explanation
Indices: 126774070--126774246 Score: 248
Period size: 93 Copynumber: 1.9 Consensus size: 93
126774060 CTCTCTGATA
** * * * *
126774070 GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAGACCATG
1 GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAACGAGTAAGACCATA
*
126774135 GTTGAAAGATACCATGGCAACGTGACGG
66 GTTGAAAGACACCATGGCAACGTGACGG
* *
126774163 GAAAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-GAAAATGAGTAAGACCAT
1 GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAACGAGTAAGACCAT
*
126774227 AGTTGAAAGACACTATGGCA
65 AGTTGAAAGACACCATGGCA
126774247 TCATGTCGAA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (93 bp):
GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAACGAGTAAGACCATA
GTTGAAAGACACCATGGCAACGTGACGG
Found at i:126775718 original size:27 final size:27
Alignment explanation
Indices: 126775620--126775728 Score: 96
Period size: 27 Copynumber: 4.0 Consensus size: 27
126775610 AGCATGGCTG
* ** *
126775620 CCAGAACAGATAA-TGTTACAGAGTCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
* *
126775646 CCAGATACAGATAATCGTGGCAGAGTCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
* * *
126775674 CCATAACAGA-AATATGTGGTAGAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
*
126775701 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
126775728 C
1 C
126775729 TAGGATGCTT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
26 8 0.12
27 41 0.62
28 17 0.26
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:126780927 original size:2 final size:2
Alignment explanation
Indices: 126780889--126780918 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
126780879 ATATGTACCA
126780889 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
126780919 GCATATATAG
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:126784486 original size:6 final size:6
Alignment explanation
Indices: 126784477--126784511 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
126784467 AAAAATAAAA
126784477 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAA
126784512 ATAAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
ATTAAT
Found at i:126784519 original size:18 final size:18
Alignment explanation
Indices: 126784471--126784514 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
126784461 AAAAGTAAAA
*
126784471 ATAAAAATTAATATTAAT
1 ATAAATATTAATATTAAT
*
126784489 ATTAATATTAATATTAAT
1 ATAAATATTAATATTAAT
126784507 ATTAAATA
1 A-TAAATA
126784515 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAAATATTAATATTAAT
Found at i:126784564 original size:21 final size:22
Alignment explanation
Indices: 126784524--126784565 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
126784514 AAAATAAAAA
126784524 TCTCCCGCCTCATTTCTCTCCC
1 TCTCCCGCCTCATTTCTCTCCC
126784546 TCTCCC-CCTCAGTTT-TCTCC
1 TCTCCCGCCTCA-TTTCTCTCC
126784566 ACAAATTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.05, C:0.52, G:0.05, T:0.38
Consensus pattern (22 bp):
TCTCCCGCCTCATTTCTCTCCC
Found at i:126787152 original size:136 final size:136
Alignment explanation
Indices: 126786908--126787329 Score: 781
Period size: 136 Copynumber: 3.1 Consensus size: 136
126786898 TATTGGGCCT
**
126786908 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
126786973 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
*
126787038 ATGTGC
131 ATATGC
126787044 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
126787109 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
126787174 ATATGC
131 ATATGC
* *
126787180 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
126787245 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
126787310 CATATGC
130 CATATGC
126787317 AAGCCCATTTGGG
1 AAGCCCATTTGGG
126787330 GAGACTACTC
Statistics
Matches: 279, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
136 257 0.92
137 22 0.08
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:126789185 original size:26 final size:26
Alignment explanation
Indices: 126789115--126789223 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
126789105 CATGATATTC
126789115 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
126789141 TTAT-ATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
126789166 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
126789192 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
126789218 TTATCA
1 TTATCA
126789224 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 25 0.32
26 53 0.68
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:126789223 original size:52 final size:51
Alignment explanation
Indices: 126789115--126789223 Score: 191
Period size: 51 Copynumber: 2.1 Consensus size: 51
126789105 CATGATATTC
126789115 TTATCATGAAACATTTACCTAACCCATTATATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATATGAAACATTTACCTAACCCA
* *
126789166 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTAT-ATGAAACATTTACCTAACCCA
126789218 TTATCA
1 TTATCA
126789224 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 28 0.51
52 27 0.49
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCCATTATATGAAACATTTACCTAACCCA
Found at i:126791279 original size:8 final size:8
Alignment explanation
Indices: 126791262--126791291 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
126791252 GATGCTAAAT
126791262 ATAATATA
1 ATAATATA
*
126791270 ATATTATA
1 ATAATATA
126791278 ATAATATA
1 ATAATATA
126791286 ATAATA
1 ATAATA
126791292 AAACATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:126791283 original size:11 final size:11
Alignment explanation
Indices: 126791259--126791292 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
126791249 CCTGATGCTA
126791259 AATATAAT-AT
1 AATATAATAAT
*
126791269 AATATTATAAT
1 AATATAATAAT
126791280 AATATAATAAT
1 AATATAATAAT
126791291 AA
1 AA
126791293 AACATACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATATAATAAT
Found at i:126792516 original size:16 final size:17
Alignment explanation
Indices: 126792495--126792528 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
126792485 GTTTAATGAG
126792495 AAATTTAA-AAAATTTT
1 AAATTTAATAAAATTTT
126792511 AAATTTAATTAAAATTTT
1 AAATTTAA-TAAAATTTT
126792529 CAAAAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTAATAAAATTTT
Found at i:126795086 original size:19 final size:19
Alignment explanation
Indices: 126795044--126795086 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
126795034 AGTGGGAGGG
* *
126795044 AGTAAAAATTATGGGGAAA
1 AGTAAAAATTATGAGAAAA
*
126795063 A-TAAAAATTTTGAGAAAA
1 AGTAAAAATTATGAGAAAA
126795081 AGTAAA
1 AGTAAA
126795087 TGGGAGAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (19 bp):
AGTAAAAATTATGAGAAAA
Found at i:126795265 original size:9 final size:9
Alignment explanation
Indices: 126795251--126795287 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
126795241 TATAGTTTAA
126795251 TATTCGAAT
1 TATTCGAAT
126795260 TATTCGAAT
1 TATTCGAAT
*
126795269 TATTCGAGT
1 TATTCGAAT
126795278 TATTCGAAT
1 TATTCGAAT
126795287 T
1 T
126795288 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:126796149 original size:15 final size:16
Alignment explanation
Indices: 126796119--126796151 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
126796109 CAGACTCGTG
*
126796119 TATTTAATTTATTATA
1 TATTTAATTAATTATA
126796135 TATTTAA-TAATTATA
1 TATTTAATTAATTATA
126796150 TA
1 TA
126796152 ATAATTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTTAATTAATTATA
Found at i:126801152 original size:15 final size:16
Alignment explanation
Indices: 126801122--126801154 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
126801112 CAAACTCGTG
*
126801122 TATTTAATTTATTATA
1 TATTTAATTAATTATA
126801138 TATTTAA-TAATTATA
1 TATTTAATTAATTATA
126801153 TA
1 TA
126801155 ATAATTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTTAATTAATTATA
Found at i:126807734 original size:35 final size:35
Alignment explanation
Indices: 126807695--126807763 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
126807685 ACTTGCCTCT
* *
126807695 TCCCATTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTATCTGCCACCAGCACCAC
*
126807730 TCCCACTCTCCCATGCTATTTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTATCTGCCACCAGCACCA
126807764 TCACACACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.19, C:0.48, G:0.10, T:0.23
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTATCTGCCACCAGCACCAC
Found at i:126808618 original size:3 final size:3
Alignment explanation
Indices: 126808603--126808829 Score: 131
Period size: 3 Copynumber: 72.7 Consensus size: 3
126808593 GTTATTTTCA
* *
126808603 TAT TAT TAA TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
126808651 TAT TAT TAT TAT TGT TAT TAT TGT ACAT TAGT GTAT ATCT TCAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T -TAT -TAT T-AT -TAT
* * * * *
126808699 GTAT ATAT ATAT GTAG TAA TGT T-T CTAT TAC T-T TAT T-T TAA TAT
1 -TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * ** * *
126808743 TTT TAT TAT AAT GGCT T-T TGT GT-T TCAA TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT -TAT T-AT TAT TAT TAT TAT TAT TAT
*
126808789 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
126808830 ATGTTACTAT
Statistics
Matches: 177, Mismatches: 33, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
2 7 0.04
3 142 0.80
4 25 0.14
5 3 0.02
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:126809046 original size:22 final size:23
Alignment explanation
Indices: 126809018--126809072 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
126809008 AATTTTTTTA
126809018 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
126809040 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
126809064 -TA-ATATTAT
1 ATATATATTAT
126809073 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:126811773 original size:29 final size:30
Alignment explanation
Indices: 126811741--126811809 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
126811731 AAAAAATATT
126811741 AATATATAAATTT-AAAAATATATAA-AATA
1 AATATATAAATTTCAAAAA-ATATAATAATA
* *
126811770 AATAAAT-ATTTTCAAAAAATATAATAATA
1 AATATATAAATTTCAAAAAATATAATAATA
126811799 AAT-T-TAAATTT
1 AATATATAAATTT
126811810 TTATTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
27 1 0.03
28 14 0.42
29 18 0.55
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (30 bp):
AATATATAAATTTCAAAAAATATAATAATA
Found at i:126812749 original size:21 final size:23
Alignment explanation
Indices: 126812707--126812749 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
126812697 ATTGCCACTC
**
126812707 TTTTCTCTACTTTGATTTTAATG
1 TTTTCTCTACTTTGATCATAATG
126812730 TTTTCT-TA-TTTGATCATAAT
1 TTTTCTCTACTTTGATCATAAT
126812750 CTGATTGACG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 2 0.11
23 6 0.33
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTTCTCTACTTTGATCATAATG
Found at i:126816573 original size:2 final size:2
Alignment explanation
Indices: 126816566--126816594 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
126816556 TACATAATAC
126816566 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 A
126816595 ACATATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:126817571 original size:34 final size:35
Alignment explanation
Indices: 126817533--126817603 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
126817523 ATATACATAT
* * *
126817533 TAAAAATAATTATAATGA-AATACTAATAAATAAA
1 TAAAAATAATAATAATAACAATAATAATAAATAAA
*
126817567 T-AAAATAATAATAATAACAATAATAATAGATAAA
1 TAAAAATAATAATAATAACAATAATAATAAATAAA
126817601 TAA
1 TAA
126817604 TATTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
33 14 0.45
34 16 0.52
35 1 0.03
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (35 bp):
TAAAAATAATAATAATAACAATAATAATAAATAAA
Found at i:126817578 original size:3 final size:3
Alignment explanation
Indices: 126817537--126817605 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
126817527 ACATATTAAA
* * *
126817537 AAT AAT TAT AAT GA- AAT ACT AAT AAAT AAAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT
*
126817582 AAC AAT AAT AAT AGAT AAAT AAT A
1 AAT AAT AAT AAT A-AT -AAT AAT A
126817606 TTAAAATTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 3 0.06
3 38 0.72
4 11 0.21
5 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:126817582 original size:14 final size:14
Alignment explanation
Indices: 126817535--126817605 Score: 63
Period size: 15 Copynumber: 4.6 Consensus size: 14
126817525 ATACATATTA
*
126817535 AAAATAATTATAAT
1 AAAATAATAATAAT
126817549 GAAATACTAATAAATAAAT
1 -AAA-A-TAAT-AAT-AAT
126817568 AAAATAATAATAAT
1 AAAATAATAATAAT
126817582 AACAATAATAATAGAT
1 AA-AATAATAATA-AT
126817598 -AAATAATA
1 AAAATAATA
126817606 TTAAAATTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 13
0.78 0.02 0.21
Matches are distributed among these distances:
14 12 0.24
15 17 0.35
16 7 0.14
17 5 0.10
18 5 0.10
19 3 0.06
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:126819712 original size:22 final size:21
Alignment explanation
Indices: 126819684--126819727 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
126819674 CCATTTATCG
126819684 TGTTCTTTTTGT-TCCTTTTTAT
1 TGTTCTTTTT-TAT-CTTTTTAT
126819706 TGTTCTTTTTTATCTTTTTAT
1 TGTTCTTTTTTATCTTTTTAT
126819727 T
1 T
126819728 TTTTATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.75
Consensus pattern (21 bp):
TGTTCTTTTTTATCTTTTTAT
Found at i:126820421 original size:16 final size:16
Alignment explanation
Indices: 126820400--126820470 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
126820390 ATTTTAAACA
*
126820400 ATTTTATATATTATTT
1 ATTTTATGTATTATTT
* *
126820416 ATTTTAGGTATTTTTT
1 ATTTTATGTATTATTT
* *
126820432 ATTAGTTCT-T-TTAAATT
1 ATT--TTATGTATT-ATTT
126820449 ATTTTATGTATTATTT
1 ATTTTATGTATTATTT
126820465 ATTTTA
1 ATTTTA
126820471 AAATTGCTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
15 3 0.07
16 28 0.68
17 8 0.20
18 2 0.05
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (16 bp):
ATTTTATGTATTATTT
Found at i:126820469 original size:26 final size:26
Alignment explanation
Indices: 126820339--126820472 Score: 100
Period size: 26 Copynumber: 5.2 Consensus size: 26
126820329 CCTTTTAAAA
* *
126820339 TTAAATTGTTTTATATATTCTACTTA-T
1 TTAAATTATTTTATATA-T-TATTTATT
126820366 TT--ATTATTTATATATATATATATTATT
1 TTAAATTATTT-TATATAT-TAT-TTATT
**
126820393 TTAAACAATTTTATATATTATTTATT
1 TTAAATTATTTTATATATTATTTATT
** * *
126820419 TT-AGGTATTTT-T-TATTAGTTCTT
1 TTAAATTATTTTATATATTATTTATT
*
126820442 TTAAATTATTTTATGTATTATTTATT
1 TTAAATTATTTTATATATTATTTATT
126820468 TTAAA
1 TTAAA
126820473 ATTGCTTTGT
Statistics
Matches: 85, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
23 11 0.13
24 8 0.09
25 16 0.19
26 30 0.35
27 8 0.09
28 7 0.08
29 5 0.06
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (26 bp):
TTAAATTATTTTATATATTATTTATT
Found at i:126820623 original size:26 final size:26
Alignment explanation
Indices: 126820559--126820624 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
126820549 TTTGCATTTT
*
126820559 TTTAAAATTCTTTTACATATTATTTAT
1 TTTAAAATT-TTTTACATATTATTTAC
* * *
126820586 TTTAAAAATTTTTATATGTTATTTAC
1 TTTAAAATTTTTTACATATTATTTAC
*
126820612 TTTAAACTTTTTT
1 TTTAAAATTTTTT
126820625 TTTATATGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 25 0.76
27 8 0.24
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTAAAATTTTTTACATATTATTTAC
Found at i:126820924 original size:25 final size:24
Alignment explanation
Indices: 126820896--126820944 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
126820886 ATTGTTTTGA
126820896 ATATTAATGATTTTTAAATTGCTTT
1 ATATTAATGA-TTTTAAATTGCTTT
* *
126820921 ATATTATTTATTTTAAATTGCTTT
1 ATATTAATGATTTTAAATTGCTTT
126820945 TATAGTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (24 bp):
ATATTAATGATTTTAAATTGCTTT
Found at i:126820939 original size:24 final size:25
Alignment explanation
Indices: 126820907--126820962 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
126820897 TATTAATGAT
* *
126820907 TTTTAAATTGC-TTTATATTATTTA
1 TTTTAAATTGCTTTTATAGTATCTA
126820931 TTTTAAATTGCTTTTATAGTATCTA
1 TTTTAAATTGCTTTTATAGTATCTA
*
126820956 TTCTAAA
1 TTTTAAA
126820963 CCTTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (25 bp):
TTTTAAATTGCTTTTATAGTATCTA
Found at i:126822960 original size:15 final size:16
Alignment explanation
Indices: 126822924--126822975 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
126822914 TATTTTAAAT
126822924 TATTATTCACTTTTTA
1 TATTATTCACTTTTTA
*
126822940 TATTATTCATTTTTTA
1 TATTATTCACTTTTTA
**
126822956 T-TTATTTTCTTTTTTA
1 TATTATTCAC-TTTTTA
126822972 TATT
1 TATT
126822976 TTTTAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 5 0.17
16 23 0.77
17 2 0.07
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTATTCACTTTTTA
Found at i:126823161 original size:2 final size:2
Alignment explanation
Indices: 126823154--126823204 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
126823144 TCTCTTGTAG
126823154 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
126823196 AC AC AC AC A
1 AC AC AC AC A
126823205 TATATATATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:126823209 original size:2 final size:2
Alignment explanation
Indices: 126823204--126823251 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
126823194 ACACACACAC
126823204 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
126823246 AT AT AT
1 AT AT AT
126823252 TTATGTTACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126829634 original size:209 final size:208
Alignment explanation
Indices: 126829276--126829947 Score: 957
Period size: 206 Copynumber: 3.2 Consensus size: 208
126829266 GCCGTAGCAT
* *
126829276 AGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATTCAAGATGACAGATCTTATCTCTCTGT
1 AGCAGATCTCACCTTCAGATGATTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTCTGT
126829341 ATTCGATAGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAT
66 ATTCG-T-GGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAT
* * *
126829406 CTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATTTCCACTTTGAT
129 CTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAAT
* *
126829471 GGA-AGGCAGACACAT
194 GGAGA-GCAGATACAC
*
126829486 AGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTCTGT
1 AGCAGATCTCACCTTCAGATGATTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTCTGT
*
126829551 ATTCGGTGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTAAGATGAAGCAAATC
66 ATTC-GTGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
* * *
126829616 TAAGATGATTTGTCGTCTCTGTATTGTTAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAATG
130 TAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATG
126829681 GAGAGCAGATACAC
195 GAGAGCAGATACAC
* ** *
126829695 AGCAGATC-CGACCTTCAGATGATTA-GACTGAAGCAAGATCCAAGATGATTTG-GC--ATC-CT
1 AGCAGATCTC-ACCTTCAGATGATTACG-CTAAAGC-AGATCCAAGATGA-CAGATCTTATCTCT
** * * * *
126829754 -TGTACTTAC-AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGC
62 CTGTA-TT-CGTGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGC
*
126829817 AAATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTT
125 AAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTT
126829882 TAATGGAGAGCAGATACAC
190 TAATGGAGAGCAGATACAC
* * *
126829901 AGTAGATCTCACCTTCAGATGATTATGCTGAAGCAGATCCAAGATGA
1 AGCAGATCTCACCTTCAGATGATTACGCTAAAGCAGATCCAAGATGA
126829948 TTTGGCATTC
Statistics
Matches: 425, Mismatches: 27, Indels: 25
0.89 0.06 0.05
Matches are distributed among these distances:
205 13 0.03
206 160 0.38
207 6 0.01
208 6 0.01
209 154 0.36
210 84 0.20
211 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (208 bp):
AGCAGATCTCACCTTCAGATGATTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTCTGT
ATTCGTGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGG
AGAGCAGATACAC
Found at i:126829856 original size:206 final size:205
Alignment explanation
Indices: 126829357--126830064 Score: 927
Period size: 206 Copynumber: 3.5 Consensus size: 205
126829347 TAGGGAGCAG
* *
126829357 ATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* * * * *
126829422 TCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATTTCCACTTTGATGGA-AGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGA-GCAGATACAC
* * ** *
126829486 AGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGA-CAGATCTTATCTCTCTG
130 AGCAGATCTCACCTTCAGATGATTACGCTGAAGCAGATCCAAGATGATTTG-GC--ATC-CT-TG
** * *
126829550 TA-TT-CGGTGGGAGCAG
190 TACTTAC--AAGGAACAA
* * *
126829566 ATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTAAGATGAAGCAAATCTAAGATGATTTGTCG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* * *
126829631 TCTCTGTATTGTTAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAATGGAGAGCAGATACACA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACACA
126829696 GCAGATC-CGACCTTCAGATGATTA-GACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTAC
131 GCAGATCTC-ACCTTCAGATGATTACG-CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTAC
126829759 TTACAAGGAACAA
193 TTACAAGGAACAA
*
126829772 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
126829837 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACACA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACACA
* * * **
126829902 GTAGATCTCACCTTCAGATGATTATGCTGAAGCAGATCCAAGATGATTTGGCATTCTTGCGCTTA
131 GCAGATCTCACCTTCAGATGATTACGCTGAAGCAGATCCAAGATGATTTGGCATCCTTGTACTTA
*
126829967 TAAGGAACAA
196 CAAGGAACAA
* * *
126829977 AT------CATAGCTGATTTGGCTTTCGCGTGCTTACGATGAAGCAAGTCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
**
126830036 TCTCTGTATTGTCAGAGAATGAATCGAAG
66 TCTCTGTATTGTCAGAGAACAAATCGAAG
126830065 AAGCAGATTT
Statistics
Matches: 454, Mismatches: 36, Indels: 28
0.88 0.07 0.05
Matches are distributed among these distances:
199 80 0.18
205 40 0.09
206 160 0.35
207 6 0.01
208 6 0.01
209 146 0.32
210 15 0.03
211 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACACA
GCAGATCTCACCTTCAGATGATTACGCTGAAGCAGATCCAAGATGATTTGGCATCCTTGTACTTA
CAAGGAACAA
Found at i:126831740 original size:27 final size:26
Alignment explanation
Indices: 126831691--126831748 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
126831681 TACCCTACTT
126831691 TTATATTATATATTGAAAAATTATTTTA
1 TTATATTATATATT-AAAAATTA-TTTA
*
126831719 TTATATATATATATT-AATATTATTTA
1 TTATAT-TATATATTAAAAATTATTTA
126831745 TTAT
1 TTAT
126831749 CTATTGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 8 0.29
27 6 0.21
28 6 0.21
29 8 0.29
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TTATATTATATATTAAAAATTATTTA
Found at i:126832019 original size:32 final size:27
Alignment explanation
Indices: 126831994--126832045 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
126831984 TATGTATATC
126831994 ATATATTA-TCTATTATATTATTTATGT
1 ATATATTATTC-ATTATATTATTTATGT
*
126832021 TTATATTATTCATTATATTATTTAT
1 ATATATTATTCATTATATTATTTAT
126832046 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATATTATTCATTATATTATTTATGT
Found at i:126845011 original size:15 final size:14
Alignment explanation
Indices: 126844962--126845012 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
126844952 AAAATTTTCA
*
126844962 ATAAATAAAAATAT
1 ATAAATTAAAATAT
126844976 ATAGAATTATTAAATAT
1 ATA-AATTA--AAATAT
126844993 -TAAATTAAAATAAT
1 ATAAATTAAAAT-AT
126845007 ATAAAT
1 ATAAAT
126845013 CATGTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.13
14 5 0.16
15 14 0.45
16 2 0.06
17 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
ATAAATTAAAATAT
Found at i:126850122 original size:30 final size:29
Alignment explanation
Indices: 126850086--126850152 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 29
126850076 AATTTATAAA
126850086 GATAAAA-TTACATTTTAATCCCCTT-AAAAT
1 GATAAAATTTA-A-TTTAAT-CCCTTAAAAAT
*
126850116 GATAAAAATTTAATTTAATCCTTTAAAAAT
1 GAT-AAAATTTAATTTAATCCCTTAAAAAT
126850146 GATAAAA
1 GATAAAA
126850153 ACATAAGCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
29 8 0.24
30 17 0.52
31 5 0.15
32 3 0.09
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.36
Consensus pattern (29 bp):
GATAAAATTTAATTTAATCCCTTAAAAAT
Found at i:126851917 original size:2 final size:2
Alignment explanation
Indices: 126851910--126851944 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
126851900 TTGTTTATGC
126851910 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
126851945 CATGTGTGTG
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:126851952 original size:2 final size:2
Alignment explanation
Indices: 126851947--126851971 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
126851937 TATATATACA
126851947 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
126851972 TTATGAGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:126856272 original size:17 final size:16
Alignment explanation
Indices: 126856250--126856281 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
126856240 TTTAAAAGTA
126856250 AAAATTAAAAATAAAAT
1 AAAATTAAAAA-AAAAT
126856267 AAAATTAAAAAAAAA
1 AAAATTAAAAAAAAA
126856282 GAGAGAGTGG
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATTAAAAAAAAAT
Found at i:126856416 original size:54 final size:54
Alignment explanation
Indices: 126856357--126856465 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
126856347 AATTCTTTTT
* * *
126856357 TAATATTTTGATTAATTCCACCGGACGTCCCCAAATTATAGTTCATATTCTAAG
1 TAATATTTTGATTAATTCCACCGAACCTCCCCAAATTATAGTTCATATTCAAAG
*
126856411 TAATATTTTGATTAATTCCACCGAACCTCTCCAAATTATAGTTCATATTCAAAG
1 TAATATTTTGATTAATTCCACCGAACCTCCCCAAATTATAGTTCATATTCAAAG
126856465 T
1 T
126856466 TGATCCTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (54 bp):
TAATATTTTGATTAATTCCACCGAACCTCCCCAAATTATAGTTCATATTCAAAG
Found at i:126860963 original size:26 final size:26
Alignment explanation
Indices: 126860933--126861041 Score: 137
Period size: 26 Copynumber: 4.0 Consensus size: 26
126860923 CAGTGTTCAA
*
126860933 TGTAAATAAATATTATTTGAAGGTGT
1 TGTAAATAAATAATATTTGAAGGTGT
*
126860959 TGTAAATAAAGAATATTTGAAGGTGT
1 TGTAAATAAATAATATTTGAAGGTGT
* *
126860985 CCAATGTAAAAAAAATATTATTTGAAGGTGT
1 ----TGT-AAATAAATAATATTTGAAGGTGT
126861016 TGTAAATAAATAATATTTGAAGGTGT
1 TGTAAATAAATAATATTTGAAGGTGT
126861042 CCAATGTAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
26 45 0.63
27 3 0.04
30 3 0.04
31 20 0.28
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (26 bp):
TGTAAATAAATAATATTTGAAGGTGT
Found at i:126861017 original size:57 final size:57
Alignment explanation
Indices: 126860925--126861051 Score: 220
Period size: 57 Copynumber: 2.2 Consensus size: 57
126860915 TGTGAACCCA
* *
126860925 GTGTTCAATGT-AAATAAATATTATTTGAAGGTGTTGTAAATAAAGAATATTTGAAG
1 GTGTCCAATGTAAAAAAAATATTATTTGAAGGTGTTGTAAATAAAGAATATTTGAAG
*
126860981 GTGTCCAATGTAAAAAAAATATTATTTGAAGGTGTTGTAAATAAATAATATTTGAAG
1 GTGTCCAATGTAAAAAAAATATTATTTGAAGGTGTTGTAAATAAAGAATATTTGAAG
126861038 GTGTCCAATGTAAA
1 GTGTCCAATGTAAA
126861052 TAAGAAAACT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
56 10 0.15
57 57 0.85
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (57 bp):
GTGTCCAATGTAAAAAAAATATTATTTGAAGGTGTTGTAAATAAAGAATATTTGAAG
Found at i:126861051 original size:26 final size:26
Alignment explanation
Indices: 126860936--126861054 Score: 80
Period size: 26 Copynumber: 4.4 Consensus size: 26
126860926 TGTTCAATGT
* **
126860936 AAATAAATATTATTTGAAGGTGTTGT
1 AAATAAATAATATTTGAAGGTGTTCC
*
126860962 AAATAAAGAATATTTGAAGGTG-TCC
1 AAATAAATAATATTTGAAGGTGTTCC
* * **
126860987 AATGTAAAAAAAATATTATTTGAAGGTGTTGT
1 ------AAATAAATAATATTTGAAGGTGTTCC
126861019 AAATAAATAATATTTGAAGGTG-TCC
1 AAATAAATAATATTTGAAGGTGTTCC
*
126861044 AATGTAAATAA
1 AA-ATAAATAA
126861055 GAAAACTATT
Statistics
Matches: 71, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
25 4 0.06
26 47 0.66
31 19 0.27
32 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (26 bp):
AAATAAATAATATTTGAAGGTGTTCC
Found at i:126861633 original size:24 final size:23
Alignment explanation
Indices: 126861606--126861682 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 23
126861596 TAATGTTAAA
126861606 ATTATTATCATTTAATTAGATTTT
1 ATTATTATCATTTAATTA-ATTTT
* *
126861630 ATTATTATAATTAAACTTGATATTTT
1 ATTATTATCATTTAA-TT-A-ATTTT
*
126861656 AGTATAATTATCAATTAATTAATTTT
1 A-T-T-ATTATCATTTAATTAATTTT
126861682 A
1 A
126861683 CGATTATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
24 13 0.31
25 2 0.05
26 13 0.31
27 2 0.05
28 3 0.07
29 9 0.21
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (23 bp):
ATTATTATCATTTAATTAATTTT
Found at i:126861680 original size:26 final size:24
Alignment explanation
Indices: 126861606--126861682 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 24
126861596 TAATGTTAAA
*
126861606 ATTATTATCATTTAATTAGATTTT
1 ATTATTATCAATTAATTAGATTTT
*
126861630 ATTATTAT-AATTAAACTTGATATTTT
1 ATTATTATCAATT-AA-TT-AGATTTT
126861656 AGTATAATTATCAATTAATTA-ATTTT
1 A-T-T-ATTATCAATTAATTAGATTTT
126861682 A
1 A
126861683 CGATTATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
23 3 0.07
24 10 0.23
25 2 0.05
26 13 0.30
27 2 0.05
28 3 0.07
29 7 0.16
30 4 0.09
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (24 bp):
ATTATTATCAATTAATTAGATTTT
Found at i:126868628 original size:17 final size:19
Alignment explanation
Indices: 126868586--126868631 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
126868576 ATGAAATTTT
*
126868586 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
126868605 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
126868623 AA-TATTATT
1 AATTATTATT
126868632 GTATGTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:126872013 original size:26 final size:26
Alignment explanation
Indices: 126871976--126872111 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
126871966 TGATACAAAT
* *
126871976 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
126872002 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * *
126872028 TGATAATAGGTTAGCTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
126872054 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
126872080 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
126872106 TGATAA
1 TGATAA
126872112 GAATATCATG
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:126874142 original size:137 final size:137
Alignment explanation
Indices: 126873896--126874183 Score: 540
Period size: 137 Copynumber: 2.1 Consensus size: 137
126873886 GAGTAGTCTC
*
126873896 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTACATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
126873961 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
126874026 ACTGTTA
131 ACTGTTA
126874033 CCCAAATGGGCTTACATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTACATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
126874098 TGTTCTCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
126874163 ACTGTTA
131 ACTGTTA
**
126874170 CCTGAATGGGCTTA
1 CCCAAATGGGCTTA
126874184 GGCCCAATAG
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTACATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:126878342 original size:2 final size:2
Alignment explanation
Indices: 126878335--126878368 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
126878325 ATTTATGTGC
126878335 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
126878369 GCGAATTGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126882068 original size:21 final size:21
Alignment explanation
Indices: 126882042--126882083 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
126882032 TGATTTCCTC
126882042 GATGTTTTCTCTTATGTTATG
1 GATGTTTTCTCTTATGTTATG
126882063 GATGTTTTCTCTTATGTTATG
1 GATGTTTTCTCTTATGTTATG
126882084 AAGCACACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.10, G:0.19, T:0.57
Consensus pattern (21 bp):
GATGTTTTCTCTTATGTTATG
Found at i:126884010 original size:51 final size:51
Alignment explanation
Indices: 126883950--126884051 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
126883940 ATAGGGCTAC
*
126883950 GAGGCATTACTGGACTTATACACTAACATTTATACAAAACCGAGTCATAAA
1 GAGGCATTACTAGACTTATACACTAACATTTATACAAAACCGAGTCATAAA
*
126884001 GAGGCATTACTAGACTTATACACTAACATTTATACAAAATCGAGTCATAAA
1 GAGGCATTACTAGACTTATACACTAACATTTATACAAAACCGAGTCATAAA
126884052 CTTTACATTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (51 bp):
GAGGCATTACTAGACTTATACACTAACATTTATACAAAACCGAGTCATAAA
Found at i:126884213 original size:20 final size:20
Alignment explanation
Indices: 126884188--126884243 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
126884178 AGATTGGGGC
*
126884188 ACATGCCCTTGTGGCCTGGG
1 ACATGCCCGTGTGGCCTGGG
**
126884208 ACATGCTAGTGTGGCCTGGG
1 ACATGCCCGTGTGGCCTGGG
*
126884228 ACATGCCCGTGGGGCC
1 ACATGCCCGTGTGGCC
126884244 AGCCCGTGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.12, C:0.29, G:0.38, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGG
Found at i:126886285 original size:21 final size:19
Alignment explanation
Indices: 126886250--126886289 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
126886240 CTCTTTCTTT
126886250 TTCTTTTTTATTTTATTTA
1 TTCTTTTTTATTTTATTTA
126886269 TTCTTTATTTCATTTTATTTA
1 TTCTTT-TTT-ATTTTATTTA
126886290 CTTAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 3 0.16
21 10 0.53
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (19 bp):
TTCTTTTTTATTTTATTTA
Found at i:126886431 original size:3 final size:3
Alignment explanation
Indices: 126886423--126886459 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
126886413 TTGATAAAAT
126886423 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
126886460 ATAAACAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:126889455 original size:3 final size:3
Alignment explanation
Indices: 126889447--126889559 Score: 53
Period size: 3 Copynumber: 38.0 Consensus size: 3
126889437 AAGTAAAAAT
* * * *
126889447 ATA ATA ATA ATA TATAA ATA ATA AT- GTA A-A ATA ATA ATA GTTT GTA
1 ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
126889493 A-A A-A ATA ATA TATA ATAA ATA ATA AT- ATA A-A ATA ATGT ATA ATA
1 ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA AT-A ATA ATA
*
126889537 A-A ATA ATT AT- ATA ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA
126889560 TAAAGATATA
Statistics
Matches: 86, Mismatches: 10, Indels: 28
0.69 0.08 0.23
Matches are distributed among these distances:
2 15 0.17
3 54 0.63
4 16 0.19
5 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:126889479 original size:27 final size:26
Alignment explanation
Indices: 126889446--126889607 Score: 91
Period size: 27 Copynumber: 6.0 Consensus size: 26
126889436 CAAGTAAAAA
126889446 TATAATAATAATATATAAATAATAATG
1 TATAATAATAATATATAAA-AATAATG
* * *
126889473 TAAAATAATAATAGTTTGTAAAAAATAATA
1 TATAATAATAATA---TAT-AAAAATAATG
126889503 TATAATAAATAATA-ATATAAAATAATG
1 TATAAT-AATAATATATA-AAAATAATG
* * *
126889530 TATAATAA-AATA-AT-TATATAATA
1 TATAATAATAATATATAAAAATAATG
* * *
126889553 TATAATATAAAGATATATAAACATTATG
1 TATAATA-ATA-ATATATAAAAATAATG
*
126889581 TGATAAAAAT-ATATTATAATAAATAAT
1 T-ATAATAATAATA-TATAA-AAATAAT
126889608 AAGTAATGAT
Statistics
Matches: 104, Mismatches: 17, Indels: 27
0.70 0.11 0.18
Matches are distributed among these distances:
23 13 0.12
24 1 0.01
25 7 0.07
26 9 0.09
27 34 0.33
28 12 0.12
29 5 0.05
30 13 0.12
31 10 0.10
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (26 bp):
TATAATAATAATATATAAAAATAATG
Found at i:126889485 original size:50 final size:49
Alignment explanation
Indices: 126889396--126889528 Score: 134
Period size: 50 Copynumber: 2.7 Consensus size: 49
126889386 TATGTAAAAT
* *
126889396 AATAT-ATAATATATATAAATAAT-ATAAAGAATACGTAATA-CAAGTAAA
1 AATATAATAATATATATAAATAATAATTAA-AATA-ATAATAGCAAGTAAA
***
126889444 AATATAATAATAATATATAAATAATAATGTAAAATAATAATAGTTTGTAAA
1 AATATAATAAT-ATATATAAATAATAAT-TAAAATAATAATAGCAAGTAAA
126889495 AA-ATAAT-ATATA-ATAAATAATAATATAAAATAAT
1 AATATAATAATATATATAAATAATAAT-TAAAATAAT
126889529 GTATAATAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
47 21 0.28
48 8 0.11
49 7 0.09
50 23 0.31
51 13 0.18
52 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (49 bp):
AATATAATAATATATATAAATAATAATTAAAATAATAATAGCAAGTAAA
Found at i:126889557 original size:20 final size:19
Alignment explanation
Indices: 126889344--126889562 Score: 83
Period size: 20 Copynumber: 10.8 Consensus size: 19
126889334 AAAAGATGAC
126889344 ATAATAATATAAAATAAT-T
1 ATAAT-ATATAAAATAATAT
*
126889363 ATAATATATAATATGAA-AGT
1 ATAATATATAAAAT-AATA-T
*
126889383 AT-ATATGTAAAATAATAT
1 ATAATATATAAAATAATAT
126889401 ATAATATATATAAATAATAT
1 ATAATATATA-AAATAATAT
* * *
126889421 A-AAGAATACGTAATACAAGTA-
1 ATAA-TATA--TAAAATAA-TAT
* *
126889442 AAAATATAATAATAATATATAA
1 ATAATAT-ATAA-AATA-ATAT
*
126889464 ATAATAATGTAAAATAATA-
1 ATAAT-ATATAAAATAATAT
* * *
126889483 ATAGTTTGTAAAAAATAATAT
1 ATA--ATATATAAAATAATAT
* *
126889504 ATAATAAATAATAAT-ATAAA
1 ATAATATATAA-AATAAT-AT
126889524 ATAATGTATAATAAAATAATTAT
1 ATAA--TAT-ATAAAATAA-TAT
*
126889547 ATAATATATAATATAA
1 ATAATATATAAAATAA
126889563 AGATATATAA
Statistics
Matches: 150, Mismatches: 24, Indels: 51
0.67 0.11 0.23
Matches are distributed among these distances:
18 13 0.09
19 34 0.23
20 48 0.32
21 22 0.15
22 20 0.13
23 12 0.08
24 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (19 bp):
ATAATATATAAAATAATAT
Done.