Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 110 of 295
Found at i:33041170 original size:30 final size:30
Alignment explanation
Indices: 33041096--33041158 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
33041086 CAATTTTCGT
* * * *
33041096 AAGGAAGCATTTGTAGTTATCTCTATTAAA
1 AAGGAAGCCTTTGTGGTGATCTCTAATAAA
*
33041126 AAGGAAGCCCTTGTGGTGATCTCTAATAAA
1 AAGGAAGCCTTTGTGGTGATCTCTAATAAA
33041156 AAG
1 AAG
33041159 AATGCTTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (30 bp):
AAGGAAGCCTTTGTGGTGATCTCTAATAAA
Found at i:33042167 original size:33 final size:33
Alignment explanation
Indices: 33042116--33042190 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
33042106 ATGGAATCAA
* *
33042116 AGAACAGAGTAAGAACAAATGACCATCCTATCT
1 AGAAAAGATTAAGAACAAATGACCATCCTATCT
*
33042149 ATAAAAGATTAAGAACAAATGACCATCCTATCT
1 AGAAAAGATTAAGAACAAATGACCATCCTATCT
33042182 AGAAAAGAT
1 AGAAAAGAT
33042191 GTCCTACTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.20
Consensus pattern (33 bp):
AGAAAAGATTAAGAACAAATGACCATCCTATCT
Found at i:33045297 original size:48 final size:48
Alignment explanation
Indices: 33045224--33045360 Score: 220
Period size: 48 Copynumber: 2.9 Consensus size: 48
33045214 CTCGCACTTT
33045224 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCG
* * **
33045272 AGGTGCCAATATCATGGCTCGAAGCCAAATCAATGAAGCTCGTACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCG
* *
33045320 AAGTACCAATATCATGGCCCAAAGCCAAATCAATGAAGCTC
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTC
33045361 CTAATGACAT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCTCACACCCG
Found at i:33050383 original size:48 final size:48
Alignment explanation
Indices: 33050312--33050506 Score: 273
Period size: 48 Copynumber: 4.1 Consensus size: 48
33050302 GCTCGGGAGT
* *
33050312 CTCGCACCCTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATAAAG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATAAAG
* * *
33050360 CTCGCACCCGAAGTGCCAATATCATGGCTCGAAGCCAAATCAATGAAG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATAAAG
* * * *
33050408 CCCGTACCCGAAGTGCAAATGTCATGGCCCAAAGCCAAATCAATAAAG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATAAAG
* * * *
33050456 CTCTCACCCAAAGTTCCAATATCATGGCCCAAAGCCAAATCAATGAAG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATAAAG
33050504 CTC
1 CTC
33050507 CTAATGACAT
Statistics
Matches: 129, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 129 1.00
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATAAAG
Found at i:33050403 original size:24 final size:24
Alignment explanation
Indices: 33050328--33050403 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
33050318 CCCTAAGTGC
*
33050328 CAATATCATGGCCCGAAGCCAAAT
1 CAATATCATGGCTCGAAGCCAAAT
* * * *
33050352 CAATA--A-AGCTCGCACCCGAAGT
1 CAATATCATGGCTCGAAGCC-AAAT
33050374 GCCAATATCATGGCTCGAAGCCAAAT
1 --CAATATCATGGCTCGAAGCCAAAT
33050400 CAAT
1 CAAT
33050404 GAAGCCCGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 12
0.64 0.16 0.21
Matches are distributed among these distances:
21 7 0.19
22 4 0.11
24 14 0.38
26 4 0.11
27 8 0.22
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (24 bp):
CAATATCATGGCTCGAAGCCAAAT
Found at i:33058902 original size:27 final size:27
Alignment explanation
Indices: 33058871--33059048 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33058861 TAAATTGTAC
33058871 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33058898 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33058924 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33058952 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33058980 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33059007 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33059034 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33059049 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33058985 original size:82 final size:81
Alignment explanation
Indices: 33058872--33059027 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33058862 AAATTGTACA
* *
33058872 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33058936 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33058953 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33059018 TGCGAGTTGA
65 TGCGAATTGA
33059028 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33059039 original size:82 final size:81
Alignment explanation
Indices: 33058868--33059048 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33058858 GATTAAATTG
* *
33058868 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33058933 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33058949 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33059013 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33059031 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33059049 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33068297 original size:6 final size:6
Alignment explanation
Indices: 33068274--33068326 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
33068264 CAGTCAGAAA
* * * * *
33068274 CAGATA CAGTTT CAGATT CAGATT CAAATC CAGATT CAGTTT CAGATT
1 CAGATT CAGATT CAGATT CAGATT CAGATT CAGATT CAGATT CAGATT
33068322 ACAGA
1 -CAGA
33068327 AACAGTTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
6 33 0.89
7 4 0.11
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (6 bp):
CAGATT
Found at i:33069173 original size:26 final size:27
Alignment explanation
Indices: 33069144--33069199 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
33069134 TCAATTGGAG
33069144 AAAAAG-GACTAAATCGCATAAAATGC
1 AAAAAGTGACTAAATCGCATAAAATGC
* *
33069170 -AAAAGTTACTAAATCGCGTAAAATGC
1 AAAAAGTGACTAAATCGCATAAAATGC
33069196 AAAA
1 AAAA
33069200 GTTGCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 5 0.19
26 18 0.69
27 3 0.12
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (27 bp):
AAAAAGTGACTAAATCGCATAAAATGC
Found at i:33069200 original size:26 final size:26
Alignment explanation
Indices: 33069151--33069202 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
33069141 GAGAAAAAGG
33069151 ACTAAATCGCATAAAATGCAAAAGTT
1 ACTAAATCGCATAAAATGCAAAAGTT
*
33069177 ACTAAATCGCGTAAAATGCAAAAGTT
1 ACTAAATCGCATAAAATGCAAAAGTT
33069203 GCATTTTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.23
Consensus pattern (26 bp):
ACTAAATCGCATAAAATGCAAAAGTT
Found at i:33075589 original size:34 final size:34
Alignment explanation
Indices: 33075551--33075618 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
33075541 AAAATAAAGT
* **
33075551 AAAATAAAATATTTGAATTCCCCCTAAATCCCAC
1 AAAATAAAAGATTCAAATTCCCCCTAAATCCCAC
33075585 AAAATAAAAGATTCAAATTCCCCCTAAATCCCAC
1 AAAATAAAAGATTCAAATTCCCCCTAAATCCCAC
33075619 TAATTCCACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.46, C:0.28, G:0.03, T:0.24
Consensus pattern (34 bp):
AAAATAAAAGATTCAAATTCCCCCTAAATCCCAC
Found at i:33076135 original size:20 final size:20
Alignment explanation
Indices: 33076110--33076163 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
33076100 TTTAAGAGCC
33076110 ACACGCCCGTGTGGCGTGGG
1 ACACGCCCGTGTGGCGTGGG
33076130 ACACGCCCGTGTGGCGTGGG
1 ACACGCCCGTGTGGCGTGGG
33076150 ACACGCCCGTGTGG
1 ACACGCCCGTGTGG
33076164 GCAGGCCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.11, C:0.31, G:0.43, T:0.15
Consensus pattern (20 bp):
ACACGCCCGTGTGGCGTGGG
Found at i:33077367 original size:42 final size:42
Alignment explanation
Indices: 33077304--33077459 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 42
33077294 AGTACCACAC
* * ** *
33077304 CAATGTCATATCCCAGATATGGTCTTACATGGGATCTCATAT
1 CAATGTCATAGCCCAGATATGGTCTTACACGAAATATCATAT
* *
33077346 CAATG-CAATAGCCTAGCTATGGTCTTACACGAAATATCATAT
1 CAATGTC-ATAGCCCAGATATGGTCTTACACGAAATATCATAT
* * *
33077388 CAATGTCATATCCCAGATATGGTCTTACACGAAATCTCGTAAT
1 CAATGTCATAGCCCAGATATGGTCTTACACGAAATATCAT-AT
* * * *
33077431 -GATGCCATAACCCAAATATGGTCTTACAC
1 CAATGTCATAGCCCAGATATGGTCTTACAC
33077460 ATAGTCTCGG
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 91 0.96
43 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (42 bp):
CAATGTCATAGCCCAGATATGGTCTTACACGAAATATCATAT
Found at i:33077451 original size:84 final size:84
Alignment explanation
Indices: 33077304--33077459 Score: 206
Period size: 84 Copynumber: 1.9 Consensus size: 84
33077294 AGTACCACAC
* ** * * **
33077304 CAATGTCATATCCCAGATATGGTCTTACATGGGATCTCATATCAATGCAATAGCCTAGCTATGGT
1 CAATGTCATATCCCAGATATGGTCTTACACGAAATCTCATATCAATGCAATAACCCAAATATGGT
33077369 CTTACACGAAATATCATAT
66 CTTACACGAAATATCATAT
* * *
33077388 CAATGTCATATCCCAGATATGGTCTTACACGAAATCTCGTAAT-GATGCCATAACCCAAATATGG
1 CAATGTCATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCAATGCAATAACCCAAATATGG
33077452 TCTTACAC
65 TCTTACAC
33077460 ATAGTCTCGG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
84 59 0.97
85 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (84 bp):
CAATGTCATATCCCAGATATGGTCTTACACGAAATCTCATATCAATGCAATAACCCAAATATGGT
CTTACACGAAATATCATAT
Found at i:33096695 original size:46 final size:46
Alignment explanation
Indices: 33096643--33096732 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
33096633 GAAGGAAATA
*
33096643 AAAACCTAATATAATAGAA-AAAATAAGTAAAACTAAAAATCTTAAT
1 AAAACCTAATATAATA-AAGAAAATAAATAAAACTAAAAATCTTAAT
* *
33096689 AAAACCTTATATAATAAAGAAAATAAATAAAACTAAAACTCTTA
1 AAAACCTAATATAATAAAGAAAATAAATAAAACTAAAAATCTTA
33096733 TTGCAATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.24
Consensus pattern (46 bp):
AAAACCTAATATAATAAAGAAAATAAATAAAACTAAAAATCTTAAT
Found at i:33098400 original size:36 final size:36
Alignment explanation
Indices: 33098343--33098441 Score: 155
Period size: 36 Copynumber: 2.8 Consensus size: 36
33098333 TGCACATATC
* *
33098343 ACAATGCCATAGCCCCGCTATGGTCTTTCAATTTAT
1 ACAATCCCATAGCCCCACTATGGTCTTTCAATTTAT
*
33098379 ACGATCCCATAGCCCCACTATGGTCTTTCAATTTAT
1 ACAATCCCATAGCCCCACTATGGTCTTTCAATTTAT
33098415 ACAATCCCATAG-CCCAGCTATGGTCTT
1 ACAATCCCATAGCCCCA-CTATGGTCTT
33098442 ACACGTATAC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 4 0.07
36 54 0.93
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.31
Consensus pattern (36 bp):
ACAATCCCATAGCCCCACTATGGTCTTTCAATTTAT
Found at i:33102351 original size:14 final size:14
Alignment explanation
Indices: 33102332--33102362 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
33102322 ATATTTCATA
33102332 TATTTTAATAAAAT
1 TATTTTAATAAAAT
33102346 TATTTTAATAAAAT
1 TATTTTAATAAAAT
33102360 TAT
1 TAT
33102363 CTTGAAGTCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTTAATAAAAT
Found at i:33102460 original size:16 final size:16
Alignment explanation
Indices: 33102439--33102469 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33102429 TTTAAATGAT
33102439 TTTTTTAAAATTTTTA
1 TTTTTTAAAATTTTTA
*
33102455 TTTTTTGAAATTTTT
1 TTTTTTAAAATTTTT
33102470 GAATTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTTTAAAATTTTTA
Found at i:33102517 original size:20 final size:18
Alignment explanation
Indices: 33102481--33102541 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
33102471 AATTTTATTC
* *
33102481 AATACTTTTAAAAATTTT
1 AATATTTTTCAAAATTTT
33102499 AATATTTTTCTACAAATTTAT
1 AATATTTTTC-A-AAATTT-T
*
33102520 AAT-TTTTTCAAAATTTA
1 AATATTTTTCAAAATTTT
33102537 AATAT
1 AATAT
33102542 ATATTATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 3 0.08
18 15 0.42
19 2 0.06
20 12 0.33
21 4 0.11
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (18 bp):
AATATTTTTCAAAATTTT
Found at i:33103470 original size:27 final size:29
Alignment explanation
Indices: 33103440--33103503 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 29
33103430 GGTATTCTTT
**
33103440 TTTTATTTATTTATTCTAA-ATTTTAGA-
1 TTTTATTTAAGTATTCTAATATTTTAGAG
*
33103467 TTTTTTTTAAGTATTCTAAGTTATTTTAGAG
1 TTTTATTTAAGTATTCTAA--TATTTTAGAG
33103498 TTTTAT
1 TTTTAT
33103504 GTTTCTTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 16 0.55
30 8 0.28
31 5 0.17
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (29 bp):
TTTTATTTAAGTATTCTAATATTTTAGAG
Found at i:33103671 original size:19 final size:19
Alignment explanation
Indices: 33103647--33103685 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
33103637 TTAAGAATAC
*
33103647 TTTTGTCCCAAAAGTATTT
1 TTTTGTCCCAAAAGCATTT
*
33103666 TTTTGTCCCCAAAGCATTT
1 TTTTGTCCCAAAAGCATTT
33103685 T
1 T
33103686 GTAGAAGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTTGTCCCAAAAGCATTT
Found at i:33107656 original size:17 final size:17
Alignment explanation
Indices: 33107624--33107672 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
33107614 CGCACATCTA
*
33107624 CGAGCTCATTCAAAGATG
1 CGAGCTCA-CCAAAGATG
*
33107642 CGAGCTCAGCAAAGATG
1 CGAGCTCACCAAAGATG
33107659 CGAAGCTCACCAAA
1 CG-AGCTCACCAAA
33107673 TTTGCAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.36
18 18 0.64
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (17 bp):
CGAGCTCACCAAAGATG
Found at i:33108351 original size:26 final size:26
Alignment explanation
Indices: 33108322--33108372 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
33108312 CTCATTTCCC
33108322 TTTTAAAATTTCTCATGTTATTTTTG
1 TTTTAAAATTTCTCATGTTATTTTTG
* * *
33108348 TTTTCATATTTCTCATTTTATTTTT
1 TTTTAAAATTTCTCATGTTATTTTT
33108373 AAATTTCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.10, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTTAAAATTTCTCATGTTATTTTTG
Found at i:33110018 original size:16 final size:16
Alignment explanation
Indices: 33109999--33110051 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
33109989 AATAGGATTA
33109999 TAATCGAATAGAGTTG
1 TAATCGAATAGAGTTG
* * *
33110015 TAATTGAATAGAGCTA
1 TAATCGAATAGAGTTG
* *
33110031 TAATAGAATAGAATTG
1 TAATCGAATAGAGTTG
33110047 TAATC
1 TAATC
33110052 AGTAATTCAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (16 bp):
TAATCGAATAGAGTTG
Found at i:33113794 original size:19 final size:20
Alignment explanation
Indices: 33113772--33113811 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
33113762 TCTGTAACTT
33113772 TTTTTA-ATTTAAAATTTAG
1 TTTTTATATTTAAAATTTAG
* *
33113791 TTTTTATATTTTAATTTTAG
1 TTTTTATATTTAAAATTTAG
33113811 T
1 T
33113812 AGATTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTTATATTTAAAATTTAG
Found at i:33113907 original size:31 final size:31
Alignment explanation
Indices: 33113872--33113932 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
33113862 AATTTTTTCG
*
33113872 TTAAAGTTAACAGTGTTAAAGGTAGAATAAC
1 TTAAAGTTAACAGTGTCAAAGGTAGAATAAC
*
33113903 TTAAAGTTAACGGTGTCAAAGGTAGAATAA
1 TTAAAGTTAACAGTGTCAAAGGTAGAATAA
33113933 TTTTTAAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (31 bp):
TTAAAGTTAACAGTGTCAAAGGTAGAATAAC
Found at i:33118120 original size:19 final size:19
Alignment explanation
Indices: 33118096--33118186 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
33118086 AATCATATCT
*
33118096 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
33118115 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
33118133 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
33118150 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33118169 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
33118187 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:33118154 original size:35 final size:37
Alignment explanation
Indices: 33118089--33118186 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
33118079 ATTACAAAAT
33118089 CATATC-T-TCTAAGATTGTATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
33118125 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
33118160 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
33118187 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:33118898 original size:23 final size:23
Alignment explanation
Indices: 33118867--33118922 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
33118857 AAAAATTCAA
33118867 ATTTCGAGTTAA-TCAAATAGACTT
1 ATTT-GAGTTAACTCAAATA-ACTT
*
33118891 ATTTGAGTTAACTCGAATAACTT
1 ATTTGAGTTAACTCAAATAACTT
*
33118914 ATTCGAGTT
1 ATTTGAGTT
33118923 TTGAGTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (23 bp):
ATTTGAGTTAACTCAAATAACTT
Found at i:33119052 original size:12 final size:12
Alignment explanation
Indices: 33119032--33119061 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33119022 TTAGTCTCTC
*
33119032 TCAACAAAAAAT
1 TCAAAAAAAAAT
33119044 TCAAAAAAAAAT
1 TCAAAAAAAAAT
33119056 TCAAAA
1 TCAAAA
33119062 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (12 bp):
TCAAAAAAAAAT
Found at i:33119075 original size:19 final size:19
Alignment explanation
Indices: 33119050--33119106 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
33119040 AAATTCAAAA
33119050 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
33119069 AATAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
33119088 AAAAATTTAAAAT-TTTAT
1 AAAAATTCAAAATATTTAT
33119106 A
1 A
33119107 TTTTTAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.29
19 24 0.71
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:33119668 original size:29 final size:27
Alignment explanation
Indices: 33119613--33119668 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
33119603 TACTATTTCA
* *
33119613 AATTTTAAAATTTAGTTTTTATACTTT
1 AATTTTAAAATTGAGTGTTTATACTTT
*
33119640 AATTTTGAAAGATTGAGTGTTTGTACTTT
1 AATTTT-AAA-ATTGAGTGTTTATACTTT
33119669 TTTTGTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.25
28 3 0.12
29 15 0.62
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (27 bp):
AATTTTAAAATTGAGTGTTTATACTTT
Found at i:33120586 original size:14 final size:15
Alignment explanation
Indices: 33120559--33120590 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
33120549 TTTTAGAATT
33120559 TTTTTAATATTTTTA
1 TTTTTAATATTTTTA
33120574 TTTTTAATA-TTTTA
1 TTTTTAATATTTTTA
33120588 TTT
1 TTT
33120591 GCCTTGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTAATATTTTTA
Found at i:33139307 original size:33 final size:33
Alignment explanation
Indices: 33139270--33139337 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
33139260 TTCGAGTCAA
*
33139270 AGAGTCAATTTTGATAAATCCACGGTGTTCTTT
1 AGAGTCAATTTTGATAAATCCACAGTGTTCTTT
33139303 AGAGTCAATTTTGATAAATCCACAGTGTTCTTT
1 AGAGTCAATTTTGATAAATCCACAGTGTTCTTT
33139336 AG
1 AG
33139338 CTCTAATACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (33 bp):
AGAGTCAATTTTGATAAATCCACAGTGTTCTTT
Found at i:33143328 original size:18 final size:18
Alignment explanation
Indices: 33143281--33143329 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
33143271 ATGAAAATAG
33143281 AAAATATTGTTTAAAATTA
1 AAAATATT-TTTAAAATTA
* *
33143300 AAAGA-AATTTTAAATTTA
1 AAA-ATATTTTTAAAATTA
33143318 AAAATATTTTTA
1 AAAATATTTTTA
33143330 TTTTTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.04
18 18 0.72
19 5 0.20
20 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (18 bp):
AAAATATTTTTAAAATTA
Found at i:33145697 original size:13 final size:13
Alignment explanation
Indices: 33145681--33145708 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33145671 TTTAAAGGCC
33145681 TAAATTAAAATTT
1 TAAATTAAAATTT
33145694 TAAATTAAAATTT
1 TAAATTAAAATTT
33145707 TA
1 TA
33145709 TTATATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATTAAAATTT
Found at i:33146037 original size:21 final size:20
Alignment explanation
Indices: 33146008--33146047 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
33145998 TATTCATTTG
* *
33146008 AATTCTATTATGTCTTTTTTT
1 AATTATATTATAT-TTTTTTT
33146029 AATTATATTATATTTTTTT
1 AATTATATTATATTTTTTT
33146048 ATTTTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
AATTATATTATATTTTTTTT
Found at i:33147322 original size:18 final size:19
Alignment explanation
Indices: 33147282--33147327 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
33147272 TTAGACCTTC
*
33147282 AAAATTTTTAAATCTCTTT
1 AAAATTTTAAAATCTCTTT
33147301 AAAATTTTAAAAT-T-TTT
1 AAAATTTTAAAATCTCTTT
33147318 GAAAATTTTA
1 -AAAATTTTA
33147328 TTACACCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 10 0.40
19 12 0.48
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (19 bp):
AAAATTTTAAAATCTCTTT
Found at i:33147893 original size:35 final size:35
Alignment explanation
Indices: 33147841--33147908 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
33147831 AGCAGTTGAT
* *
33147841 TTTCCTTTTATGTTTTTGGAAAATTAAAAATACCG
1 TTTCCTTTTATGGTTTTGGAAAACTAAAAATACCG
*
33147876 TTTCTTTTTATGGTTTTGGAAAACTAAAAATAC
1 TTTCCTTTTATGGTTTTGGAAAACTAAAAATAC
33147909 TCCACTTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTCCTTTTATGGTTTTGGAAAACTAAAAATACCG
Found at i:33163006 original size:40 final size:40
Alignment explanation
Indices: 33162951--33163057 Score: 153
Period size: 40 Copynumber: 2.7 Consensus size: 40
33162941 TATTCAGATG
33162951 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* *
33162991 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* **
33163031 ATAACCGGGTTAAG-TCCCGAAGGCATT
1 ATATCCGGACTAAGAT-CCGAAGGCATT
33163058 CGTGTGGGTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.02
40 59 0.98
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
Found at i:33163069 original size:40 final size:40
Alignment explanation
Indices: 33163025--33163101 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
33163015 AATTGTGCTA
33163025 GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGG
1 GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGG
33163065 GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTG
1 GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTG
33163102 CTGGTTGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (40 bp):
GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGG
Found at i:33171135 original size:40 final size:41
Alignment explanation
Indices: 33171084--33171272 Score: 190
Period size: 40 Copynumber: 4.7 Consensus size: 41
33171074 CAGATGATAT
* *
33171084 CCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGACTAAGATCCCGAAGGCATTTGTGCTAGTTATTATAA
*
33171124 CCGGACTAAGAT-CCGAAGGCAATTGTGCTAGTTATTATAA
1 CCGGACTAAGATCCCGAAGGCATTTGTGCTAGTTATTATAA
** * **
33171164 CCGGGTTAAG-TCCCGAAGGCATTCGTGCGGGTTATTATAA
1 CCGGACTAAGATCCCGAAGGCATTTGTGCTAGTTATTATAA
** * * **
33171204 CCGGGTTAA-ATCCCGAAGGCATTCGTCCGGGTTATTATAA
1 CCGGACTAAGATCCCGAAGGCATTTGTGCTAGTTATTATAA
** *
33171244 CCGGGTTAAG-TCCCGAAGGCATTCGTGCT
1 CCGGACTAAGATCCCGAAGGCATTTGTGCT
33171273 GGTTGTTACA
Statistics
Matches: 134, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 133 0.99
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (41 bp):
CCGGACTAAGATCCCGAAGGCATTTGTGCTAGTTATTATAA
Found at i:33175069 original size:26 final size:26
Alignment explanation
Indices: 33175040--33175147 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
33175030 TGATACAAAT
* *
33175040 TGATAATGGGTTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33175066 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33175092 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33175118 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33175144 TGAT
1 TGAT
33175148 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33178782 original size:117 final size:118
Alignment explanation
Indices: 33178545--33178782 Score: 284
Period size: 117 Copynumber: 2.0 Consensus size: 118
33178535 TAAATCGAAT
** * *
33178545 AAAAAACGAAGCCCTGTACGGTAGGGCACGTTTTTTAAAATGATTAAGTATAAAAAATTGTCCTT
1 AAAAAACGAAGCCCAATACGGTAGGGCACGTTTTTTAAAACGATTAAGTATAAAAAATTATCCTT
* * * * * * *
33178610 ATTAAAAACTATTTGGGAATAAAATGTTGAATAAAATACTTAAATCGAATATA
66 ATTAAAAACAAATTGAGAATAAAATGTGGAATAAAAGAATTAAAACGAATATA
* * * *
33178663 AAAAAACGAA-CCCAATATGGTAGGGCACGTTTTTTAAAACGGTTAAGTATAGAAAATTATCTTT
1 AAAAAACGAAGCCCAATACGGTAGGGCACGTTTTTTAAAACGATTAAGTATAAAAAATTATCCTT
* *
33178727 ATGTTAAAAACAAATTGAGAATACATTGTGGAATAAAAGAATTAAAAC-AAT-TA
66 A--TTAAAAACAAATTGAGAATAAAATGTGGAATAAAAGAATTAAAACGAATATA
33178780 AAA
1 AAA
33178783 TTTGGGGAGG
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
117 52 0.51
118 13 0.13
119 36 0.36
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (118 bp):
AAAAAACGAAGCCCAATACGGTAGGGCACGTTTTTTAAAACGATTAAGTATAAAAAATTATCCTT
ATTAAAAACAAATTGAGAATAAAATGTGGAATAAAAGAATTAAAACGAATATA
Found at i:33178945 original size:46 final size:45
Alignment explanation
Indices: 33178870--33178963 Score: 104
Period size: 46 Copynumber: 2.1 Consensus size: 45
33178860 AATATAGAGA
*
33178870 AAATTAGCAATAGCAATAATAATGATAAAAATATAAAA-AT-ATGAT
1 AAATTAGCAATAACAATAATAATGAT-AAAATA-AAAACATAATGAT
* *
33178915 AAATATAGCAATAATAATATTAAT-AGTAAAATAAAAACATAATGAT
1 AAAT-TAGCAATAACAATAATAATGA-TAAAATAAAAACATAATGAT
33178961 AAA
1 AAA
33178964 ATAATATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
44 4 0.10
45 13 0.31
46 25 0.60
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (45 bp):
AAATTAGCAATAACAATAATAATGATAAAATAAAAACATAATGAT
Found at i:33179042 original size:22 final size:22
Alignment explanation
Indices: 33179007--33179048 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33178997 GATAAAAGTG
33179007 AAAATTAAAATAATAACTATACT
1 AAAATTAAAATAATAA-TATACT
*
33179030 AAAA-TAACATAATAATATA
1 AAAATTAAAATAATAATATA
33179049 GTATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATTAAAATAATAATATACT
Found at i:33179190 original size:21 final size:22
Alignment explanation
Indices: 33179160--33179204 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
33179150 TAATAAAAAT
*
33179160 ATAATGAATAT-ATAATATTAA
1 ATAATGAATATAATAATATGAA
*
33179181 ATAATTAATATAATAATATGAA
1 ATAATGAATATAATAATATGAA
33179203 AT
1 AT
33179205 CAAAACTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
ATAATGAATATAATAATATGAA
Found at i:33180789 original size:44 final size:44
Alignment explanation
Indices: 33180606--33181608 Score: 212
Period size: 44 Copynumber: 22.7 Consensus size: 44
33180596 GAAATTGCAG
* * * * * *
33180606 ATCTTATCTCCCT-AAGCAGTAATGGAGCAGATTGAAGACAGTAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATA-CAA
* * * * **
33180650 ATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAT-C-A
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAG--ATACAA
* * * * * * * *
33180694 GTCTTATCTCTCTAAAGTTGCAATGGAGCAGA-CTGAAAATTGCAG
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATC-GAAGA-TACAA
* * *
33180739 ACCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGACAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGAT-ACAA
* * * * * ** ** *
33180783 ATCTTATCTCCATGTAGCGGTAATGGAGCAGATTTAAGCCACCA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATACAA
** * * * ** *
33180827 GCCTTATCTCCCTAAAGTTGCAGCGGAATAGGTTC-AAGATACAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCA-GATCGAAGATACAA
* * * * *
33180871 ATCTTATCTCCCTGAAGTTGCAGTGAAGCAGA-CTAAAAATTACAG
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATC-GAAGA-TACAA
* * * ** *
33180916 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCAAAGACGGCGA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGA-TACAA
* * * * ** ** **
33180960 ATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACCT
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATACAA
** * * *
33181004 GCCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTC-AAGATACAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCA-GATCGAAGATACAA
* * * *
33181048 GTCTTATCTACCTGAAGTTGCACTGGAGCAGA-CTGAAGATAGCAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATC-GAAGATA-CAA
* * * * * * *
33181093 ATCTTATCTCTCT-AAGCAGTAGTGGAGCAAATTGAAGATGGCGA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGAT-ACAA
** * * ** ** *
33181137 ATCTTATCTCTATGTAA-CGGCAATGGAGCAGATTTAAGCCACCAG
1 ATCTTATCTCCCTG-AAGCTGCAGTGGAGCAGATCGAAGATA-CAA
* * * * * ** * *
33181182 A--TTATTTCCCTGAAGTTACAGCGAAATAGATTGAGGATAGCAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATA-CAA
* * * ** * * * * *
33181225 ACCTTATCTCTCTGAAGTTTTAG-AGAGCAGGTTGAAGTTACAT
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATACAA
* * ** * * * *
33181268 GTCTCATCTCCCTGAAATTGCAGTAGAGTAGATTGAAGATAGCAG
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATA-CAA
* * * * * * *
33181313 ATCTTATCTCCCTAAAGTTGTAGCGGAGCAGATCAAATATAGTAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATA-CAA
* ** * * *
33181358 ACCTTATCTCTTTGAAGTTGCAGTAGAGCA-ACTTGAAG-TAGCAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGA-TCGAAGATA-CAA
* * * * *
33181402 GTCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAA-ATTACCAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGA-TA-CAA
* * * * * * * * *
33181447 CTCTTACCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTAGAA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATACAA
* ** * * * * * *
33181491 ATCTCT-TCTCCTTGAAATTACATTGGAGTAGAT-TAAAACCACAA
1 ATCT-TATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGA-TACAA
* * * * *
33181535 GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-CTGAAGACAGCTA
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATC-GAAGATA-CAA
*
33181580 ATCTTATCTCCCTGAAGTTGCAGTGGAGC
1 ATCTTATCTCCCTGAAGCTGCAGTGGAGC
33181609 GGATTAAGGC
Statistics
Matches: 687, Mismatches: 231, Indels: 81
0.69 0.23 0.08
Matches are distributed among these distances:
42 5 0.01
43 48 0.07
44 366 0.53
45 265 0.39
46 2 0.00
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATCGAAGATACAA
Found at i:33180835 original size:133 final size:133
Alignment explanation
Indices: 33180597--33180848 Score: 407
Period size: 133 Copynumber: 1.9 Consensus size: 133
33180587 AACACTGATG
* * *
33180597 AAATTGCAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATTGAAGACAGTAAATCTTATCTCCA
1 AAATTGCAGACCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACAGCAAATCTTATCTCCA
* * *
33180662 TGTAGCGGCAATGGAGCAGATTTAAGCCATCAGTCTTATCTCTCTAAAGTTGCAATGGAGCAGAC
66 TGTAGCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAATGGAGCAGAC
33180727 TGA
131 TGA
* *
33180730 AAATTGCAGACCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGACAAATCTTATCTCC
1 AAATTGCAGACCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACAG-CAAATCTTATCTCC
*
33180794 ATGTAGCGGTAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCA
65 ATGTAGCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCA
33180849 GCGGAATAGG
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
132 1 0.01
133 108 0.99
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (133 bp):
AAATTGCAGACCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACAGCAAATCTTATCTCCA
TGTAGCGGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAATGGAGCAGAC
TGA
Found at i:33180901 original size:133 final size:133
Alignment explanation
Indices: 33180608--33180902 Score: 333
Period size: 133 Copynumber: 2.2 Consensus size: 133
33180598 AATTGCAGAT
* * * * * *
33180608 CTTATCTCCCTAAGCAGTAATGGAGCAGATTGAAGA-CAGTAAATCTTATCTCCATGTAGCGGCA
1 CTTATCTCCCTAAGCAGCAGTGAAGCAGATCGAAGATGA-CAAATCTTATCTCCATGTAGCGGCA
* * * * * * *
33180672 ATGGAGCAGATTTAAGCCATCAGTCTTATCTCTCTAAAGTTGCAATGGAGCAGACTGAAAATTGC
65 ATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAACGGAACAGACTCAAAATTAC
*
33180737 AGAC
130 AAAC
* * *
33180741 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAAATCTTATCTCCATGTAGCGGTAA
1 CTTATCTCCCTAAGCAGCAGTGAAGCAGATCGAAGATGACAAATCTTATCTCCATGTAGCGGCAA
* * ** *
33180806 TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAATAGGTTCAAGA-TACA
66 TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAACGGAACAGACTCAAAATTACA
*
33180870 AAT
131 AAC
**
33180873 CTTATCTCCCTGAAGTTGCAGTGAAGCAGA
1 CTTATCTCCCT-AAGCAGCAGTGAAGCAGA
33180903 CTAAAAATTA
Statistics
Matches: 137, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
132 15 0.11
133 121 0.88
134 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (133 bp):
CTTATCTCCCTAAGCAGCAGTGAAGCAGATCGAAGATGACAAATCTTATCTCCATGTAGCGGCAA
TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAACGGAACAGACTCAAAATTACA
AAC
Found at i:33180903 original size:177 final size:177
Alignment explanation
Indices: 33180695--33181243 Score: 740
Period size: 177 Copynumber: 3.1 Consensus size: 177
33180685 AAGCCATCAG
* * *
33180695 TCTTATCTCTCTAAAGTTGCAATGGAGCAGACTGAAAATTGCAGACCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTA
* * *
33180760 GTGGAGCAGATCGAAGATGACAAATCTTATCTCCATGTAGCGGTAATGGAGCAGATTTAAGCCAC
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAC
*
33180825 CAGCCTTATCTCCCTAAAGTTGCAGCGGAATAGGTTCAAGATACAAA
131 CAGCCTTATCTCCCTGAAGTTGCAGCGGAATAGGTTCAAGATACAAA
* * * *
33180872 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAAATTACAGATCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTA
* *
33180937 GTGGAGCAGATCAAAGACGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAC
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAC
* * * ** *
33181002 CTGCCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTCAAGATACAAG
131 CAGCCTTATCTCCCTGAAGTTGCAGCGGAATAGGTTCAAGATACAAA
* * * * * *
33181049 TCTTATCTACCTGAAGTTGCACTGGAGCAGACTGAAGATAGCAAATCTTATCTCTCTAAGCAGTA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTA
* * * *
33181114 GTGGAGCAAATTGAAGATGGCGAATCTTATCTCTATGTAACGGCAATGGAGCAGATTTAAGCCAC
66 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAC
* * * * * * *
33181179 CAG-ATTATTTCCCTGAAGTTACAGCGAAATAGATTGAGGATAGCAAA
131 CAGCCTTATCTCCCTGAAGTTGCAGCGGAATAGGTTCAAGATA-CAAA
* *
33181226 CCTTATCTCTCTGAAGTT
1 TCTTATCTCCCTGAAGTT
33181244 TTAGAGAGCA
Statistics
Matches: 321, Mismatches: 50, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
176 28 0.09
177 293 0.91
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (177 bp):
TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCAC
CAGCCTTATCTCCCTGAAGTTGCAGCGGAATAGGTTCAAGATACAAA
Found at i:33181322 original size:45 final size:45
Alignment explanation
Indices: 33180829--33181607 Score: 338
Period size: 44 Copynumber: 17.6 Consensus size: 45
33180819 AGCCACCAGC
* * * * *
33180829 CTTATCTCCCTAAAGTTGCAGCGGAATAGGTTCAAGATA-CAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * * * *
33180873 CTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAAAATTA-CAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGA-TAGCAAAT
** * * ** ** *
33180918 CTTATCTCCCT-AAGCAGTAGTGGAGCAGATCAAAGACGGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * ** * * * ** ****
33180962 CTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCA-CCTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * * *
33181006 CTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTCAAGATA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * *
33181050 CTTATCTACCTGAAGTTGCACTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* ** * * * * *
33181095 CTTATCTCTCT-AAGCAGTAGTGGAGCAAATTGAAGATGGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
** * * * ** * *
33181139 CTTATCTCTATGTAACG--GCAATGGAGCAGATTTAAGCCACCAGA-
1 CTTATCTCCCTG-AA-GTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * * * * *
33181183 -TTATTTCCCTGAAGTTACAGCGAAATAGATTGAGGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* ** * * * * **
33181227 CTTATCTCTCTGAAGTTTTAG-AGAGCAGGTTGAAGTTA-CATGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * *
33181270 CTCATCTCCCTGAAATTGCAGTAGAGTAGATTGAAGATAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * * ** * * *
33181315 CTTATCTCCCTAAAGTTGTAGCGGAGCAGATCAAATATAGTAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
** * * *
33181360 CTTATCTCTTTGAAGTTGCAGTAGAGCA-ACTTGAAG-TAGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TTGAAGATAGCAAAT
** * * *
33181404 CTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAA-ATTACCAACT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGA-TAGCAAAT
* * * * * *
33181449 CTTACCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTAG-AAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
* * * * *
33181493 CTCT-TCTCCTTGAAATTACATTGGAGTAGATT-AA-A-ACCACAAGT
1 CT-TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCA-AA-T
* * *
33181537 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGACAGCTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
33181582 CTTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
33181608 CGGATTAAGG
Statistics
Matches: 538, Mismatches: 171, Indels: 51
0.71 0.22 0.07
Matches are distributed among these distances:
41 2 0.00
42 3 0.01
43 46 0.09
44 272 0.51
45 207 0.38
46 5 0.01
47 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAAAT
Found at i:33181452 original size:134 final size:133
Alignment explanation
Indices: 33181218--33181480 Score: 289
Period size: 134 Copynumber: 2.0 Consensus size: 133
33181208 TAGATTGAGG
** ** *
33181218 ATAGCAAACCTTATCTCTCTGAAGTTTTAGAGAGCAGGTTGAAGTTACATGTCTCATCTCCCTGA
1 ATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAGCAACTTGAAGTTACAAGTCTCATCTCCCTGA
** * * **
33181283 AATTGCAGTAGAGTAGATTGAAGATAGCAGATCTTATCTCCCTAAAGTTGTAGCGGAGCAGATCA
66 AATTGCAGTAGAACAGATTGAAGATACCAGATCTTACCTCCCTAAAGTTCCAGCGGAGCAGATCA
33181348 AAT
131 AAT
* * *
33181351 ATAGTAAACCTTATCTCTTTGAAGTTGCAGTAGAGCAACTTGAAG-TAGCAAGTCTTATCTCCCT
1 ATAGCAAACCTTATCTCTCTGAAGTTGCAG-AGAGCAACTTGAAGTTA-CAAGTCTCATCTCCCT
* * * * * *
33181415 GAAGTTGCAGTGGAACAGGTTGAA-ATTACCA-ACTCTTACCTCCTTGAAGTTCCAGCGGAGTAG
64 GAAATTGCAGTAGAACAGATTGAAGA-TACCAGA-TCTTACCTCCCTAAAGTTCCAGCGGAGCAG
33181478 ATC
127 ATC
33181481 GAAGCTAGAA
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
133 30 0.28
134 76 0.72
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (133 bp):
ATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAGCAACTTGAAGTTACAAGTCTCATCTCCCTGA
AATTGCAGTAGAACAGATTGAAGATACCAGATCTTACCTCCCTAAAGTTCCAGCGGAGCAGATCA
AAT
Found at i:33181614 original size:89 final size:87
Alignment explanation
Indices: 33181268--33181615 Score: 254
Period size: 89 Copynumber: 3.9 Consensus size: 87
33181258 GAAGTTACAT
* * * * *
33181268 GTCTCATCTCCCTGAAATTGCAGTAGAGTAGATTGAAGATAGCAGATCTTATCTCCCTAAAGTTG
1 GTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAG-CAGCA-ATCTTATCTCCCTGAAGTTG
* * * **
33181333 TAGCGGAGCAGATCAAATATAGTAA
64 CAGTGGAGCAGATTAAA-ATACCAA
** ** * *
33181358 ACCTTATCTCTTTGAAGTTGCAGTAGAGCA-ACTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTG
1 GTCTTATCTCCCTGAAGTTGCAGTAGAGTAGAC-TGAAGCAGCAA-TCTTATCTCCCTGAAGTTG
* * *
33181422 CAGTGGAACAGGTTGAAATTACCAA
64 CAGTGGAGCAGATT-AAAATACCAA
* * * * ** * * *
33181447 CTCTTACCTCCTTGAAGTTCCAGCGGAGTAGA-TCGAAGCTAGAAATCTCT-TCTCCTTGAAATT
1 GTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACT-GAAGC-AGCAATCT-TATCTCCCTGAAGTT
* * * *
33181510 ACATTGGAGTAGATTAAAA-CCACAA
63 GCAGTGGAGCAGATTAAAATAC-CAA
*
33181535 GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGACAGCTAATCTTATCTCCCTGAAGTTG
1 GTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAG-CAGC-AATCTTATCTCCCTGAAGTTG
*
33181600 CAGTGGAGCGGATTAA
64 CAGTGGAGCAGATTAA
33181616 GGCGACAACA
Statistics
Matches: 198, Mismatches: 48, Indels: 25
0.73 0.18 0.09
Matches are distributed among these distances:
87 1 0.01
88 42 0.21
89 118 0.60
90 37 0.19
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (87 bp):
GTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAGCAGCAATCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAAAATACCAA
Found at i:33181657 original size:20 final size:20
Alignment explanation
Indices: 33181632--33181671 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
33181622 AACAAAGTAG
33181632 ATCAAAACTACAAGTTTTAT
1 ATCAAAACTACAAGTTTTAT
33181652 ATCAAAACTACAAGTTTTAT
1 ATCAAAACTACAAGTTTTAT
33181672 CTTTCTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (20 bp):
ATCAAAACTACAAGTTTTAT
Found at i:33182219 original size:3 final size:3
Alignment explanation
Indices: 33182205--33182553 Score: 67
Period size: 3 Copynumber: 113.3 Consensus size: 3
33182195 AATAGTGTTT
* * *
33182205 TTA TTA TT- TTA TTA TTA TTT TTA CCTTT TTA TTA CTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TT-A
* * * * * ** *
33182252 CCTA CTA TTA TTA TTT TTA TTA ATA -TA ATA TTA TT- TCC TT- TTT
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
33182295 TTA -TA TTG TTA TTA TTA TTA GCA CGTA -TA TTA TTA TTA TTAA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A T-TA
* * * * *
33182341 TCA TTG TTA TTT TCTA TT- TTA TTA TTA CTT- TTA TTA CTA TTG TT-
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * *
33182385 TCTA TTA TTA TTA TT- TTCA TTA CTTCCA TTA TTA TTA TCA TCA TTT
1 T-TA TTA TTA TTA TTA TT-A TTA -TT--A TTA TTA TTA TTA TTA TTA
* * * ** *
33182431 TCTA TTA TGA TTA ATA TGTCA TTTG TTCA TTA TTA TTA TTA ACA CTA
1 T-TA TTA TTA TTA TTA T-T-A -TTA TT-A TTA TTA TTA TTA TTA TTA
* * * * * **
33182478 TTA TCA TCA TTA TATA TTTA CTT- TTT TTA ATA TCA TTA CCA TTA -TA
1 TTA TTA TTA TTA T-TA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
33182524 TT- TTA TTA TTA TTA CTA TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33182554 CCGTCCTATT
Statistics
Matches: 252, Mismatches: 60, Indels: 68
0.66 0.16 0.18
Matches are distributed among these distances:
2 24 0.10
3 189 0.75
4 28 0.11
5 9 0.04
6 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:33182227 original size:20 final size:20
Alignment explanation
Indices: 33182202--33182287 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 20
33182192 CGTAATAGTG
33182202 TTTTTATTATTTTATTATTA
1 TTTTTATTATTTTATTATTA
* *
33182222 TTTTTACCT-TTTTATTACTA
1 TTTTTA-TTATTTTATTATTA
* **
33182242 TTATTATTAACCTACTATTATTA
1 TTTTTATT-A--TTTTATTATTA
* * *
33182265 TTTTTATTAATATAATATTA
1 TTTTTATTATTTTATTATTA
33182285 TTT
1 TTT
33182288 CCTTTTTTTA
Statistics
Matches: 49, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
19 1 0.02
20 31 0.63
21 1 0.02
22 1 0.02
23 15 0.31
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTATTATTTTATTATTA
Found at i:33182283 original size:23 final size:23
Alignment explanation
Indices: 33182234--33182286 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
33182224 TTTACCTTTT
* * *
33182234 TATTACTATTATTATTAACCTAC
1 TATTATTATTATTATTAACATAA
* *
33182257 TATTATTATTTTTATTAATATAA
1 TATTATTATTATTATTAACATAA
33182280 TATTATT
1 TATTATT
33182287 TCCTTTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTATTATTATTATTAACATAA
Found at i:33182537 original size:22 final size:21
Alignment explanation
Indices: 33182501--33182554 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
33182491 ATATTTACTT
*
33182501 TTTTTAATATCATTACCATTA
1 TTTTTATTATCATTACCATTA
* *
33182522 TATTTTATTATTATTACTATTA
1 T-TTTTATTATCATTACCATTA
33182544 TTTTTATTATC
1 TTTTTATTATC
33182555 CGTCCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTATTATCATTACCATTA
Found at i:33182996 original size:125 final size:125
Alignment explanation
Indices: 33182750--33183018 Score: 287
Period size: 125 Copynumber: 2.2 Consensus size: 125
33182740 ATTCAAGAAA
** * * *
33182750 TCGTGTCCTAACGTACTGGGTTTCGGTTTTTCGTTTGATCTAAGTAACCGATTATCCTTTTAAAT
1 TCGTGTCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATAACCGAATATCCTTTTAAAT
* * *
33182815 TAAAATACATGAGGTTTAAATAAAACAAAAGTAATATTCTGTATTTAGAAATTCGA-GTAG
66 TAAAATACATGAGGTTTAAATAAAACAAAAGTAATATGCTGTATCTAGAAAGTCGAGGT-G
* * *
33182875 TCGTGCCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATATCCGAATGTCCTTTTTAAA
1 TCGTGTCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATAACCGAATATCC-TTTT-AA
* * * * * *
33182940 ATTTAAATACATGAGTTTTAAATGAAATAAAAGGT-A-A-GCT-TATACTCGAAGGTCGAGGTG
64 ATTAAAATACATGAGGTTTAAATAAAACAAAA-GTAATATGCTGTAT-CTAGAAAGTCGAGGTG
* *
33183000 TTGTGTCGTAACGTACTGG
1 TCGTGTCCTAACGTACTGG
33183019 ATATAACATT
Statistics
Matches: 119, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
124 3 0.03
125 76 0.64
126 7 0.06
127 31 0.26
128 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (125 bp):
TCGTGTCCTAACGTACTGGGTTTCAATTTTCCGTTTGATCTAAATAACCGAATATCCTTTTAAAT
TAAAATACATGAGGTTTAAATAAAACAAAAGTAATATGCTGTATCTAGAAAGTCGAGGTG
Found at i:33190281 original size:37 final size:37
Alignment explanation
Indices: 33190240--33190313 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
33190230 ACCAAAATAA
33190240 GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
1 GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
*
33190277 GCTTTTGATAAAACAATTTTAATAAAGAAACTATTTT
1 GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
33190314 ACTCATTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (37 bp):
GCTTTTGATAAAACAATTTTAATAAAGAAACAATTTT
Found at i:33190621 original size:104 final size:103
Alignment explanation
Indices: 33190413--33190621 Score: 312
Period size: 104 Copynumber: 2.0 Consensus size: 103
33190403 TTTTTCTTTG
*
33190413 CTTATCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCAGTTTC
1 CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCAGTTTC
*** **
33190478 TTTATTATTGCAACTCTTTTGCTGGTTTTTTTTTCTTTT
66 TTTATTATTGCAACTCTTTTGCTGG-TTTCCCTAATTTT
33190517 CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCACAGTT
1 CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTT--CAGTT
* *
33190582 TGTTTATTATTGTAACTCTTTTGCTGG-TTCCCTAATTTT
64 TCTTTATTATTGCAACTCTTTTGCTGGTTTCCCTAATTTT
33190621 C
1 C
33190622 CATAATTTAA
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
104 65 0.68
106 30 0.32
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.50
Consensus pattern (103 bp):
CTTACCTGTTTGTGTAATAAAAGTTCGTCTACTTCACTTGATTCAAGTTTCAAAATTTCAGTTTC
TTTATTATTGCAACTCTTTTGCTGGTTTCCCTAATTTT
Found at i:33206120 original size:24 final size:24
Alignment explanation
Indices: 33206088--33206135 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
33206078 GGGTTGTTGC
33206088 CCATCTCATGTAATATGTAGGGAT
1 CCATCTCATGTAATATGTAGGGAT
33206112 CCATCTCATGTAATATGTAGGGAT
1 CCATCTCATGTAATATGTAGGGAT
33206136 TTGGACTTCT
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:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (24 bp):
CCATCTCATGTAATATGTAGGGAT
Found at i:33222971 original size:39 final size:39
Alignment explanation
Indices: 33222854--33223063 Score: 325
Period size: 39 Copynumber: 5.3 Consensus size: 39
33222844 GCTCCTCGTT
*
33222854 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
33222894 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
33222934 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
33222973 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
33223012 CAAATGCCTTCGGGCTTAGCCCGGAATTAGCATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
33223051 CAAATGCCTTCGG
1 CAAATGCCTTCGG
33223064 ATCTTAGTCC
Statistics
Matches: 162, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 113 0.70
40 47 0.29
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:33224770 original size:27 final size:27
Alignment explanation
Indices: 33224739--33224916 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
33224729 TAAATTGTAC
33224739 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33224766 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33224792 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33224820 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33224848 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
33224875 AGCACTAAGTGTGCGAGTTGA-TCATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
33224902 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33224917 GACTCAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 104 0.81
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33224907 original size:82 final size:81
Alignment explanation
Indices: 33224736--33224916 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
33224726 GATTAAATTG
* *
33224736 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33224801 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33224817 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
33224881 AAGTGTGCGAGTTGATCA
64 AAGTGTGCGAATTGACCA
* *
33224899 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33224917 GACTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33232162 original size:31 final size:31
Alignment explanation
Indices: 33232124--33232185 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
33232114 TCCTGTAAAA
*
33232124 AATTCCAACAAGGTTGAAGCTCATGTATAGT
1 AATTCCAACAAGGTTGAAACTCATGTATAGT
*
33232155 AATTCCAACAAGGTTGAAATTCATGTATAGT
1 AATTCCAACAAGGTTGAAACTCATGTATAGT
33232186 TTTGATCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (31 bp):
AATTCCAACAAGGTTGAAACTCATGTATAGT
Found at i:33232216 original size:18 final size:20
Alignment explanation
Indices: 33232193--33232233 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
33232183 AGTTTTGATC
33232193 TTTATCC-AT-TTTCTTAAA
1 TTTATCCTATATTTCTTAAA
*
33232211 TTTATCCTTTATTTCTTAAA
1 TTTATCCTATATTTCTTAAA
33232231 TTT
1 TTT
33232234 TGTTTCTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 1 0.05
20 12 0.60
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATCCTATATTTCTTAAA
Found at i:33236427 original size:91 final size:91
Alignment explanation
Indices: 33236272--33236453 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
33236262 TTACCTGGGA
33236272 GAAGATTGGTACCAGCCTGCAGAGAAGAGCATTGATAATCATTCAAATAACGAGGTGGTTGTCTG
1 GAAGATTGGTACCAGCCTGCAGAGAAGAGCATTGATAATCATTCAAATAACGAGGTGGTTGTCTG
33236337 TTTCTTGTAGGACGGGTTACATTTGG
66 TTTCTTGTAGGACGGGTTACATTTGG
33236363 GAAGATTGGTACCAGCCTGCAGAGAAGAGCATTGATAATCATTCAAATAACGAGGTGGTTGTCTG
1 GAAGATTGGTACCAGCCTGCAGAGAAGAGCATTGATAATCATTCAAATAACGAGGTGGTTGTCTG
33236428 TTTCTTGTAGGACGGGTTACATTTGG
66 TTTCTTGTAGGACGGGTTACATTTGG
33236454 AGTTGGTGGT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (91 bp):
GAAGATTGGTACCAGCCTGCAGAGAAGAGCATTGATAATCATTCAAATAACGAGGTGGTTGTCTG
TTTCTTGTAGGACGGGTTACATTTGG
Found at i:33242773 original size:6 final size:6
Alignment explanation
Indices: 33242762--33242794 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
33242752 TTTTTGATGT
33242762 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTT
33242795 CAAAACTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:33244916 original size:21 final size:21
Alignment explanation
Indices: 33244890--33244943 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
33244880 CAGCGGTGGT
*
33244890 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTGTAGC
33244911 GGTGAGATTAGATACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
33244932 AGTGAGATTAGA
1 GGTGAGATTAGA
33244944 AACAATGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGC
Found at i:33248435 original size:20 final size:20
Alignment explanation
Indices: 33248407--33248447 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
33248397 AGGGGCACAC
*
33248407 GCCCGTGTGGCCTGGGACAT
1 GCCCATGTGGCCTGGGACAT
*
33248427 GCCCATGTGGCTTGGGACAT
1 GCCCATGTGGCCTGGGACAT
33248447 G
1 G
33248448 GCCGTGGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.39, T:0.22
Consensus pattern (20 bp):
GCCCATGTGGCCTGGGACAT
Found at i:33262589 original size:37 final size:38
Alignment explanation
Indices: 33262527--33262632 Score: 162
Period size: 37 Copynumber: 2.8 Consensus size: 38
33262517 TAGCTCGAAT
* * *
33262527 AGTCCCCACACGTAGTTATCAGGTCTTACCCGGACA-A
1 AGTCTCCACACGTAGTCATCGGGTCTTACCCGGACATA
33262564 AGTCTCCACACGTAGTCATCGGGTCTTACCCGGACATA
1 AGTCTCCACACGTAGTCATCGGGTCTTACCCGGACATA
*
33262602 A-TCTCCACACGTAATCATCGGGTCTTACCCG
1 AGTCTCCACACGTAGTCATCGGGTCTTACCCG
33262633 AAATATATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
37 62 0.97
38 2 0.03
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.24
Consensus pattern (38 bp):
AGTCTCCACACGTAGTCATCGGGTCTTACCCGGACATA
Found at i:33262836 original size:48 final size:48
Alignment explanation
Indices: 33262775--33263040 Score: 478
Period size: 48 Copynumber: 5.5 Consensus size: 48
33262765 ATATACACAC
* *
33262775 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
33262823 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
33262871 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
33262919 ATCTCATACATATTTCACACTAGCCATTAGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
33262967 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
33263015 ATCTCATACATATTTCACATTAGCCA
1 ATCTCATACATATTTCACATTAGCCA
33263041 CCCACACATA
Statistics
Matches: 208, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 208 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:33266488 original size:22 final size:23
Alignment explanation
Indices: 33266461--33266509 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
33266451 AGCCCGTGTG
*
33266461 GCCCACACACCCA-ATTAGTCTT
1 GCCCACACACCCAGATTAGCCTT
*
33266483 GCCCACACACCCAGATTGGCCTT
1 GCCCACACACCCAGATTAGCCTT
33266506 GCCC
1 GCCC
33266510 GTGTGGCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.22, C:0.45, G:0.14, T:0.18
Consensus pattern (23 bp):
GCCCACACACCCAGATTAGCCTT
Found at i:33268630 original size:13 final size:13
Alignment explanation
Indices: 33268608--33268647 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
33268598 GGAGTAATCG
*
33268608 CACACAGGCGTGT
1 CACACGGGCGTGT
33268621 CACACGGGCGTGT
1 CACACGGGCGTGT
33268634 CACACGGGCGTGT
1 CACACGGGCGTGT
33268647 C
1 C
33268648 CCTGCCGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.35, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:33274737 original size:39 final size:39
Alignment explanation
Indices: 33274688--33274801 Score: 133
Period size: 39 Copynumber: 2.9 Consensus size: 39
33274678 TAAACCCGGT
* * * *
33274688 ATAATACCAGCTCGAAGCCTGCGAGA-CTTTAGTCCGGAC
1 ATAATTCCAGCACGAAGCCTGCG-GACCCTAAGTCCGGAC
* * *
33274727 ATATTTCCAGCACGTAGCCTGCGGACCCTAAGTCCGGAT
1 ATAATTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGAC
33274766 ATAATTCCAGCAC-ATAGCCTGCGGACCCTAAGTCCG
1 ATAATTCCAGCACGA-AGCCTGCGGACCCTAAGTCCG
33274802 AATATACATC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.03
39 62 0.97
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (39 bp):
ATAATTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGAC
Found at i:33274807 original size:39 final size:39
Alignment explanation
Indices: 33274731--33274807 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
33274721 CCGGACATAT
* *
33274731 TTCCAGCACGTAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
33274770 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATA
33274808 CATCCCTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGAATATAA
Found at i:33281334 original size:39 final size:40
Alignment explanation
Indices: 33281239--33281430 Score: 148
Period size: 39 Copynumber: 4.9 Consensus size: 40
33281229 ACTTGAAACC
** * * *
33281239 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCTGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
33281278 AATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGCGGGACCTTAAGCCCGGACAT
* * * *
33281317 ATTTCC-GCCACGTAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAG-CACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
33281356 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* *
33281395 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGA
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGA
33281431 TATACATCAC
Statistics
Matches: 130, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
38 17 0.13
39 112 0.86
40 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
Found at i:33281431 original size:39 final size:39
Alignment explanation
Indices: 33281329--33281434 Score: 203
Period size: 39 Copynumber: 2.7 Consensus size: 39
33281319 TTCCGCCACG
*
33281329 TAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACA
1 TAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACA
33281368 TAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACA
1 TAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACA
33281407 TAGCCTGCGGACCCTAAGTCCGGATATA
1 TAGCCTGCGGACCCTAAGTCCGGATATA
33281435 CATCACTGAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 66 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
TAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACA
Found at i:33284346 original size:80 final size:79
Alignment explanation
Indices: 33284262--33284433 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
33284252 GGACTAAGAT
*
33284262 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
33284326 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
33284342 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
33284407 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
33284421 CCGAAGGCATTTG
1 CCGAAGGCATTTG
33284434 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:33284413 original size:39 final size:39
Alignment explanation
Indices: 33284209--33284431 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
33284199 TTGAATGTTG
* * * * *
33284209 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
33284249 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
33284288 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
33284329 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
33284369 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
33284408 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33284432 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:33284451 original size:79 final size:80
Alignment explanation
Indices: 33284289--33284466 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
33284279 AGATACAAAT
* * * *
33284289 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
33284354 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
33284369 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
33284433 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
33284448 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33284467 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:33294689 original size:84 final size:83
Alignment explanation
Indices: 33294549--33294721 Score: 310
Period size: 84 Copynumber: 2.1 Consensus size: 83
33294539 ATTATCATGC
*
33294549 TCAGAACATAATATCAAACTAACAGATCCACAATTTTAGGGTTTGGTTAGCTTTTACCTACTATA
1 TCAGAACATAATATCAAACTAACAGATCCACAAGTTTAGGGTTTGGTTAGCTTTTACCTACTATA
*
33294614 CGGTAGGTCCACAGTTAA
66 CGGTAGGTCCACAATTAA
*
33294632 TCAGAACATAATATATAAACTAACAGATCCACAAGTTTAGGGTTTGGTTAGCTTTTACCTACTAT
1 TCAGAACATAATAT-CAAACTAACAGATCCACAAGTTTAGGGTTTGGTTAGCTTTTACCTACTAT
33294697 ACGGTAGGTCCACAATTAA
65 ACGGTAGGTCCACAATTAA
33294716 TCAGAA
1 TCAGAA
33294722 TGACCCGTGC
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
83 14 0.16
84 72 0.84
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (83 bp):
TCAGAACATAATATCAAACTAACAGATCCACAAGTTTAGGGTTTGGTTAGCTTTTACCTACTATA
CGGTAGGTCCACAATTAA
Found at i:33297447 original size:16 final size:18
Alignment explanation
Indices: 33297409--33297449 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
33297399 CTGCATCTCA
*
33297409 ATATAGGCTCTCATACTT
1 ATATAGGCTCCCATACTT
*
33297427 ATATAGGCTCCCATATTT
1 ATATAGGCTCCCATACTT
33297445 ATATA
1 ATATA
33297450 AGGTTCGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (18 bp):
ATATAGGCTCCCATACTT
Found at i:33297488 original size:24 final size:22
Alignment explanation
Indices: 33297437--33297489 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
33297427 ATATAGGCTC
33297437 CCATATTTATATAAGGTTCGCA
1 CCATATTTATATAAGGTTCGCA
* *
33297459 CAATATTTTTAT-AGAGTTCGCGTA
1 CCATATTTATATAAG-GTTCGC--A
33297483 CCATATT
1 CCATATT
33297490 GTGGGGTTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 16 0.64
24 7 0.28
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (22 bp):
CCATATTTATATAAGGTTCGCA
Found at i:33299266 original size:43 final size:43
Alignment explanation
Indices: 33299121--33299266 Score: 143
Period size: 43 Copynumber: 3.4 Consensus size: 43
33299111 TATCCTAGAT
* * * * * *
33299121 ATGGTCTTACATGTTATCAC-ATATCGATGCCACTATCCCAGAT
1 ATGGTCTTACACGTAATCTCAATA-CGATGCCAATGTCCCAGAC
* * * *
33299164 AGGGTCTTACACGAAAT-TATAATACGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCT-CAATACGATGCCAATGTCCCAGAC
* *
33299207 ATGGTTTTACACGTAATCTCAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCAATACGATGCCAATGTCCCAGAC
*
33299250 ATGGTCTTACATGTAAT
1 ATGGTCTTACACGTAAT
33299267 TACATCTAGA
Statistics
Matches: 82, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
43 78 0.95
44 4 0.05
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCAATACGATGCCAATGTCCCAGAC
Found at i:33308242 original size:13 final size:13
Alignment explanation
Indices: 33308224--33308249 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33308214 TTTAACATAC
33308224 GTCTAGACCGTGT
1 GTCTAGACCGTGT
33308237 GTCTAGACCGTGT
1 GTCTAGACCGTGT
33308250 CAAAATAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
GTCTAGACCGTGT
Found at i:33308689 original size:10 final size:10
Alignment explanation
Indices: 33308674--33308716 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
33308664 CAATTCACCA
33308674 ACCAAATCAT
1 ACCAAATCAT
*
33308684 ACCAAATCTAA
1 ACCAAATC-AT
33308695 ACCAAAATCAT
1 ACC-AAATCAT
*
33308706 ACCAAAGCAT
1 ACCAAATCAT
33308716 A
1 A
33308717 TGTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:33309558 original size:43 final size:42
Alignment explanation
Indices: 33309438--33309592 Score: 122
Period size: 43 Copynumber: 3.6 Consensus size: 42
33309428 AGCTAGTTCA
* *
33309438 ATGCCAACGTCCCAGACATGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTA-ATGTAAATCAAATAT-G
* * *
33309481 ATGCC-ACTGTCCCAGACAG-GGCCTT-ATGCGAAATCAAATATG
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTAATG-TAAATCAAATATG
* * *
33309523 ATGCCAATGTCTCAAACGTGGTCTTAAATGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAAACGTGGTCTT-AATGTAAATCA-AA-TATG
*
33309567 ATGCCAACGTCCCAAACTTGGTCTTA
1 ATGCCAACGTCCCAAACGTGGTCTTA
33309593 CACGATAACA
Statistics
Matches: 90, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
41 4 0.04
42 20 0.22
43 37 0.41
44 28 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAACGTCCCAAACGTGGTCTTAATGTAAATCAAATATG
Found at i:33314082 original size:40 final size:40
Alignment explanation
Indices: 33314027--33314108 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
33314017 TCAGTCCTCA
33314027 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
1 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
33314067 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
1 GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
33314107 GA
1 GA
33314109 TATTCATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (40 bp):
GACTTGTTTAATCGAATCGCATAGTCTTTTGCATGCTACC
Found at i:33316546 original size:42 final size:42
Alignment explanation
Indices: 33316473--33316595 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
33316463 AAGCAATCAT
* * * * *
33316473 ACTGGCACATAAGTGCATCATAAAATGAACCGACGCAAATAG
1 ACTGGCATATAAGTGCATCATCAGATAAACCGAAGCAAATAG
* * *
33316515 ACTGGCATATAAATGCATCATCAGATAAACCGAAGGAAATAT
1 ACTGGCATATAAGTGCATCATCAGATAAACCGAAGCAAATAG
* * * * *
33316557 ACTAGTATGTAAGTGCATCATCGGATAAACCAAAGCAAA
1 ACTGGCATATAAGTGCATCATCAGATAAACCGAAGCAAA
33316596 AATTGGCACT
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.20
Consensus pattern (42 bp):
ACTGGCATATAAGTGCATCATCAGATAAACCGAAGCAAATAG
Found at i:33316826 original size:43 final size:43
Alignment explanation
Indices: 33316751--33316959 Score: 160
Period size: 43 Copynumber: 4.9 Consensus size: 43
33316741 AACTATACTA
* *
33316751 GCACACACAGTGCATCA-CTGAACATACTAAAGCAACTATATCG
1 GCACACACAGTGCATCATC-GGACATACCAAAGCAACTATATCG
* * *
33316794 GCACACACAGTGCATCATCGGACAAACCAAAGCAAATATATTG
1 GCACACACAGTGCATCATCGGACATACCAAAGCAACTATATCG
* * * * * * *
33316837 GCACAC-TA-TGCATAATCAGATATATCAAAGTATCTATA-CTG
1 GCACACACAGTGCATCATCGGACATACCAAAGCAACTATATC-G
* * *
33316878 GCACACATAGTGCATCATC-GA-ATTACCAAAGAAACTATACCG
1 GCACACACAGTGCATCATCGGACA-TACCAAAGCAACTATATCG
* * * * * *
33316920 GCACACACTGTACATCATCAGATATATCGAAGCAACTATA
1 GCACACACAGTGCATCATCGGACATACCAAAGCAACTATA
33316960 CTAACATACA
Statistics
Matches: 133, Mismatches: 25, Indels: 16
0.76 0.14 0.09
Matches are distributed among these distances:
41 30 0.23
42 35 0.26
43 66 0.50
44 2 0.02
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.21
Consensus pattern (43 bp):
GCACACACAGTGCATCATCGGACATACCAAAGCAACTATATCG
Found at i:33320227 original size:72 final size:72
Alignment explanation
Indices: 33320104--33320244 Score: 185
Period size: 72 Copynumber: 2.0 Consensus size: 72
33320094 TTACACATAG
* *
33320104 AGTGCATCATTGGATATACCAAAGAAACTATACTAGCACACACAATGCATCATCGGAAATACCAA
1 AGTGCATCATTGAATATACCAAAGAAACTATACTAGCACACACAATACATCATCGGAAATACCAA
33320169 AGGACAC
66 AGGACAC
* * * * * * *
33320176 AGTGCATCATTGAATATATCGAAGAAAAC-ATATTGGCACACACAGTACATCATCGGATATGCCA
1 AGTGCATCATTGAATATACCAAAG-AAACTATACTAGCACACACAATACATCATCGGAAATACCA
33320240 AAGGA
65 AAGGA
33320245 TAACCTGTAC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
72 55 0.93
73 4 0.07
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (72 bp):
AGTGCATCATTGAATATACCAAAGAAACTATACTAGCACACACAATACATCATCGGAAATACCAA
AGGACAC
Found at i:33320479 original size:17 final size:15
Alignment explanation
Indices: 33320440--33320469 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33320430 GTATTGTACG
*
33320440 ATATGTTTCAACTTA
1 ATATATTTCAACTTA
33320455 ATATATTTCAACTTA
1 ATATATTTCAACTTA
33320470 CATTCTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (15 bp):
ATATATTTCAACTTA
Found at i:33324690 original size:29 final size:29
Alignment explanation
Indices: 33324655--33324731 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
33324645 CATGAGATTG
* *
33324655 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAGTATACA
* **
33324684 GCACTAAGTGTGCGAGTTTAAAGTATATG
1 GCACTAAGTGTGCGGGTTTAAAGTATACA
33324713 GCACTAAGTGTGCGCGGTT
1 GCACTAAGTGTGCG-GGTT
33324732 GATTATTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 38 0.93
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTTAAAGTATACA
Found at i:33325004 original size:173 final size:174
Alignment explanation
Indices: 33324684--33325010 Score: 557
Period size: 173 Copynumber: 1.9 Consensus size: 174
33324674 AAATTGTACA
* * *
33324684 GCACTAAGTGTGCGAGTTTAAAGTATATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
33324749 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
33324814 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
33324858 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
33324923 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
33324987 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
33325011 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 63 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:33338415 original size:29 final size:28
Alignment explanation
Indices: 33338381--33338458 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
33338371 TCATGAGATT
33338381 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
33338411 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
33338438 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
33338459 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:33338734 original size:173 final size:174
Alignment explanation
Indices: 33338411--33338737 Score: 539
Period size: 173 Copynumber: 1.9 Consensus size: 174
33338401 AAATTGTACA
* *
33338411 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
33338476 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCAACTTTACCGAGTCAA
33338541 TTTTGGACAGCGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
33338585 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
33338650 TGTGC-AACCTAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCAACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCAACTTTACCGAGTCAA
*
33338714 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGAAAAAGGTAAGT
33338738 ACCTTGAGTT
Statistics
Matches: 141, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
173 77 0.55
174 64 0.45
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCAACTTTACCGAGTCAA
TTTTGGACAGCGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:33341346 original size:35 final size:35
Alignment explanation
Indices: 33341277--33341404 Score: 130
Period size: 35 Copynumber: 3.6 Consensus size: 35
33341267 AGTACATCAA
* * *
33341277 CAATCCAACCAAAACACATCAGATGCTCACAAGAGC
1 CAATCCAACTAAAACACACCA-ATGCTCATAAGAGC
*
33341313 CAATCCATCTAAAACACACCAATGCTCATAAGAGC
1 CAATCCAACTAAAACACACCAATGCTCATAAGAGC
* *** * *
33341348 TAATCCCTTTGAAACACACCAATGCTCATAAAAGC
1 CAATCCAACTAAAACACACCAATGCTCATAAGAGC
* * *
33341383 TAATCCAACTGAAACCCACCAA
1 CAATCCAACTAAAACACACCAA
33341405 AACAGAAAGT
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
35 61 0.77
36 18 0.23
ACGTcount: A:0.43, C:0.32, G:0.09, T:0.16
Consensus pattern (35 bp):
CAATCCAACTAAAACACACCAATGCTCATAAGAGC
Found at i:33342792 original size:39 final size:35
Alignment explanation
Indices: 33342694--33342873 Score: 204
Period size: 35 Copynumber: 5.1 Consensus size: 35
33342684 GGTTGTTATA
33342694 GGTGTTGTGGCGAAATATTAAATGAATGAAGTAAC
1 GGTGTTGTGGCGAAATATTAAATGAATGAAGTAAC
** *
33342729 AATGTTGTGGC-AGAATATTAAATGAATGAAGTAAG
1 GGTGTTGTGGCGA-AATATTAAATGAATGAAGTAAC
33342764 GGTGTTGTGGCGAAATATTAAAAT-AATGAAGTAAC
1 GGTGTTGTGGCGAAATATT-AAATGAATGAAGTAAC
* * ** *
33342799 AGTGTTGTGGTGGGATATTAAATGAATGAAGTATC
1 GGTGTTGTGGCGAAATATTAAATGAATGAAGTAAC
* * * *
33342834 GGTGTTGTGGC-AGTATGTTAAAAGAATGAAGTATC
1 GGTGTTGTGGCGA-AATATTAAATGAATGAAGTAAC
33342869 GGTGT
1 GGTGT
33342874 AGTAACGGGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
34 5 0.04
35 113 0.92
36 5 0.04
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (35 bp):
GGTGTTGTGGCGAAATATTAAATGAATGAAGTAAC
Found at i:33342807 original size:70 final size:70
Alignment explanation
Indices: 33342694--33342866 Score: 233
Period size: 70 Copynumber: 2.5 Consensus size: 70
33342684 GGTTGTTATA
33342694 GGTGTTGTGGCGAAATATT-AAATGAATGAAGTAACAATGTTGTGGCAGAATATTAAATGAATGA
1 GGTGTTGTGGCGAAATATTAAAAT-AATGAAGTAACAATGTTGTGGCAGAATATTAAATGAATGA
*
33342758 AGTAAG
65 AGTAAC
* ** *
33342764 GGTGTTGTGGCGAAATATTAAAATAATGAAGTAACAGTGTTGTGGTGGGATATTAAATGAATGAA
1 GGTGTTGTGGCGAAATATTAAAATAATGAAGTAACAATGTTGTGGCAGAATATTAAATGAATGAA
*
33342829 GTATC
66 GTAAC
* * *
33342834 GGTGTTGTGGC-AGTATGTTAAAAGAATGAAGTA
1 GGTGTTGTGGCGA-AATATTAAAATAATGAAGTA
33342867 TCGGTGTAGT
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
69 1 0.01
70 87 0.95
71 4 0.04
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.30
Consensus pattern (70 bp):
GGTGTTGTGGCGAAATATTAAAATAATGAAGTAACAATGTTGTGGCAGAATATTAAATGAATGAA
GTAAC
Found at i:33342884 original size:70 final size:70
Alignment explanation
Indices: 33342694--33342909 Score: 227
Period size: 70 Copynumber: 3.1 Consensus size: 70
33342684 GGTTGTTATA
* * * ** * *
33342694 GGTGTTGTGGCGAAATATTAAATGAATGAAGTAACAATGTTGTGGCAGAATATTAAATGAATGAA
1 GGTGTTGTGGCGAAATATTAAAAGAATGAAGTAACAGTGTAGTAACGGGATATTAAATGAATGAA
**
33342759 GTAAG
66 GTATC
* * ***
33342764 GGTGTTGTGGCGAAATATTAAAATAATGAAGTAACAGTGTTGTGGTGGGATATTAAATGAATGAA
1 GGTGTTGTGGCGAAATATTAAAAGAATGAAGTAACAGTGTAGTAACGGGATATTAAATGAATGAA
33342829 GTATC
66 GTATC
* * * * * * *
33342834 GGTGTTGTGGC-AGTATGTTAAAAGAATGAAGTATCGGTGTAGTAACGGGATGTTAATTGAAAGA
1 GGTGTTGTGGCGA-AATATTAAAAGAATGAAGTAACAGTGTAGTAACGGGATATTAAATGAATGA
33342898 AGTATC
65 AGTATC
33342904 GGTGTT
1 GGTGTT
33342910 CTGGAAAAAT
Statistics
Matches: 125, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
69 1 0.01
70 124 0.99
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.31
Consensus pattern (70 bp):
GGTGTTGTGGCGAAATATTAAAAGAATGAAGTAACAGTGTAGTAACGGGATATTAAATGAATGAA
GTATC
Found at i:33342887 original size:35 final size:35
Alignment explanation
Indices: 33342810--33342908 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 35
33342800 GTGTTGTGGT
* * **
33342810 GGGATATTAAATGAATGAAGTATCGGTGTTGTGGC
1 GGGATGTTAAATGAATGAAGTATCGGTGTAGTAAC
* * *
33342845 AGTATGTTAAAAGAATGAAGTATCGGTGTAGTAAC
1 GGGATGTTAAATGAATGAAGTATCGGTGTAGTAAC
* *
33342880 GGGATGTTAATTGAAAGAAGTATCGGTGT
1 GGGATGTTAAATGAATGAAGTATCGGTGT
33342909 TCTGGAAAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.30
Consensus pattern (35 bp):
GGGATGTTAAATGAATGAAGTATCGGTGTAGTAAC
Found at i:33345775 original size:37 final size:37
Alignment explanation
Indices: 33345725--33345803 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
33345715 TTATTACGAA
* * *
33345725 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
33345762 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
33345799 GTCTT
1 GTCTT
33345804 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:33346000 original size:47 final size:47
Alignment explanation
Indices: 33345922--33346287 Score: 579
Period size: 47 Copynumber: 7.7 Consensus size: 47
33345912 CCCTTCGGGA
* * * * * *
33345922 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33345969 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33346016 CTTATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33346063 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33346110 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33346159 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33346206 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * ** *
33346253 CTTATCTCATATATGCAAGTTCACATCCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
33346288 AGAATCCTAA
Statistics
Matches: 298, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 251 0.84
49 47 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33346178 original size:143 final size:143
Alignment explanation
Indices: 33345922--33346266 Score: 577
Period size: 143 Copynumber: 2.4 Consensus size: 143
33345912 CCCTTCGGGA
* * * * * * * *
33345922 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
33345985 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCATA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
33346050 TCGGCTATTAGGC
131 TCGGCCATTAGGC
33346063 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
33346128 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
33346193 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
33346206 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
33346267 GCAAGTTCAC
Statistics
Matches: 191, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 47 0.25
143 144 0.75
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:33350159 original size:40 final size:40
Alignment explanation
Indices: 33350115--33350346 Score: 365
Period size: 40 Copynumber: 5.8 Consensus size: 40
33350105 CCAGCATGAT
* *
33350115 TGCTCTTCGGGACCTAGCCCGGATATAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
33350155 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
33350195 TGCTCTTCTGGATTTAACCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
33350235 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
33350275 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
33350315 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
33350347 CTCAATTCTC
Statistics
Matches: 172, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:33351825 original size:12 final size:12
Alignment explanation
Indices: 33351810--33351843 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
33351800 AAATCGAGCC
33351810 ATAAATATTTTT
1 ATAAATATTTTT
33351822 ATAAATATTTTT
1 ATAAATATTTTT
33351834 ATAAATATTT
1 ATAAATATTT
33351844 ATGGAGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:33353809 original size:39 final size:39
Alignment explanation
Indices: 33353763--33353837 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
33353753 ACTCTGATGA
33353763 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
33353802 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTA
33353838 CCGTTTAGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.13, C:0.28, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:33353843 original size:14 final size:14
Alignment explanation
Indices: 33353824--33353851 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33353814 CTTCGGGCTT
33353824 CCGTTTAGCACTTA
1 CCGTTTAGCACTTA
33353838 CCGTTTAGCACTTA
1 CCGTTTAGCACTTA
33353852 TGTGCTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (14 bp):
CCGTTTAGCACTTA
Found at i:33353847 original size:53 final size:53
Alignment explanation
Indices: 33353785--33353890 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
33353775 CTCCGGGCTT
33353785 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
1 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
*
33353838 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTTCGTTTAGCACTTA
1 CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
33353891 TGTGCTTTAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (53 bp):
CCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTA
Found at i:33353915 original size:39 final size:39
Alignment explanation
Indices: 33353839--33353915 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
33353829 TAGCACTTAC
* * *
33353839 CGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTT
1 CGTTTAGCACTTATGTGCTTCAGCTAGACTTCAGGCTTT
* *
33353878 CGTTTAGCACTTATGTGCTTTAGCTAGATTTCAGGCTT
1 CGTTTAGCACTTATGTGCTTCAGCTAGACTTCAGGCTT
33353916 CAGATCACGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.42
Consensus pattern (39 bp):
CGTTTAGCACTTATGTGCTTCAGCTAGACTTCAGGCTTT
Found at i:33358737 original size:37 final size:39
Alignment explanation
Indices: 33358673--33358761 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
33358663 TAAAATTATA
* **
33358673 TTTAATATAATAAAATATTTATTATATTTAT-TTGTGTTT
1 TTTAATATAA-AAAATAATTATTATATTTATGTAATGTTT
33358712 TTTAATATAAAAAA-AATTATTATATTTATGGTAATGTTT
1 TTTAATATAAAAAATAATTATTATATTTAT-GTAATGTTT
33358751 TTTAATATAAA
1 TTTAATATAAA
33358762 TAATTTTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
37 14 0.31
38 4 0.09
39 27 0.60
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (39 bp):
TTTAATATAAAAAATAATTATTATATTTATGTAATGTTT
Found at i:33360758 original size:369 final size:364
Alignment explanation
Indices: 33360121--33361202 Score: 1520
Period size: 369 Copynumber: 3.0 Consensus size: 364
33360111 TTTGGTTAGT
* ** ** *
33360121 TGAAAATGCAGCTGCTTAAGGAGATAAGAAGTGCATGCAAAGCAATAAAATGAGGATATGGGCTT
1 TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATATAAAGCAATAAAATGAGGATA-AGGCTT
** * * *
33360186 CAATCATTTGATGAAGTGACAATGCAACACTTAGCGAATGTTAAATTGACCATCTTGAAATGAAG
65 CAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAAG
* *
33360251 TCATATGGACAGTTGACCTTCTAAGTTCCAACATTGGTGAATTGCCCGTACAATG-TTAGAGAGT
130 -CATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAA-GATTAGAGAGT
** *
33360315 AAATGCTATGGAGGAATTCAACTTCAAGTTT-CAGACAAGAAAATAAGAAGCTGCAACCTTAGAT
193 AAATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGAT
* *
33360379 TATTACATAAACTGGTGAACACTTGAAGATTGGCATTCACTAAGGAATAAGTGCAAAGCTAGCAG
258 TATTACATAAACTGGT-AACA-TTGAAGATTGGCATTCAATAATGAATAAGTGCAAAGCTAGCAG
*
33360444 CTACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTATAA
321 CTACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
**
33360488 TGAAACTGTGGCCACTTAAGGAGATAAGAAGTGCATATAGAAGCAATAGAAATGAGGATAAGAGC
1 TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATATA-AAGCAATA-AAATGAGGATAAG-GC
* * * *
33360553 TTCAATCATTTGATGAAGTGACAATGTGCCATTTAGCAAATGATAAATTGACCACCTTGGAAGGA
63 TTCAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGA
* * *
33360618 AGCCATATGGACACTTGACCTTCTAAGTTCTAA-ATTGGTGCATTGCCAGTAGAAGATTAGAGAG
128 AG-CATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGAG
* * * *
33360682 TAAATGCCATGAAGGAATTTAACTTCAAGTTTACAAATGAGAAAATAAGAAGCTGCAATCTTAGA
192 TAAATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGA
* * *
33360747 TTATTACATAAACTGGTAA-ATAGAAGATCGGCATTCAATAATGAATAAGTACAAAGCTAGCAGC
257 TTATTACATAAACTGGTAACATTGAAGATTGGCATTCAATAATGAATAAGTGCAAAGCTAGCAGC
*
33360811 TACTAGAGAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
322 TACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
* *
33360854 TGAAACTGCAGCCACTTAAGGAGATAAGAAATGCATATAAAAACAATAAAAATGAGG-T-AGGCT
1 TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATAT-AAAGCAAT-AAAATGAGGATAAGGCT
* *
33360917 TCAATCATTGGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTCGGAATGAA
64 TCAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAA
* * *
33360982 G---ATGGACAGTAGGCCTTCTAAGTTCTAACATTGGTGTATTGCCAGTACAAGATTAGAGAGTA
129 GCATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGAGTA
33361044 AATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATT
194 AATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATT
* * *
33361109 ATTACATAAAATGGCAAACATTTGAAGATTGGGATTCAATAATGAATAAGTGCAAAGCTAG-ATG
259 ATTACATAAACTGG-TAACA-TTGAAGATTGGCATTCAATAATGAATAAGTGCAAAGCTAGCA-G
* *
33361173 CCACTAGAAATAA-TAGAATTTAGCATAGCA
321 CTACTAGAAA-AAGTAGAATTTTGCATAGCA
33361203 CGGATATAAT
Statistics
Matches: 637, Mismatches: 65, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
359 24 0.04
360 105 0.16
361 2 0.00
362 2 0.00
363 124 0.19
364 4 0.01
365 1 0.00
366 129 0.20
367 36 0.06
368 66 0.10
369 144 0.23
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (364 bp):
TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATATAAAGCAATAAAATGAGGATAAGGCTTC
AATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAAGC
ATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGAGTAAA
TGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATTAT
TACATAAACTGGTAACATTGAAGATTGGCATTCAATAATGAATAAGTGCAAAGCTAGCAGCTACT
AGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
Found at i:33362920 original size:60 final size:57
Alignment explanation
Indices: 33362838--33362953 Score: 135
Period size: 57 Copynumber: 2.0 Consensus size: 57
33362828 ACACTGAAAC
* * * *
33362838 CAAACTTAGGTACTTAAATGGGACAAAGAAAAACTCAAGTACCAAAGTGAACTTTGAAGT
1 CAAACTTAAGTACTCAAATGGGAC--A-AAAAACTCAAATACCAAAGTGAACATTGAAGT
* *
33362898 CAAACTTAAGTAC-CAAATTGGGACAAAAAACTCAAATACCGAATTGAACATTGAAG
1 CAAACTTAAGTACTCAAA-TGGGACAAAAAACTCAAATACCAAAGTGAACATTGAAG
33362954 CTAAATTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
57 27 0.55
58 1 0.02
59 3 0.06
60 18 0.37
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (57 bp):
CAAACTTAAGTACTCAAATGGGACAAAAAACTCAAATACCAAAGTGAACATTGAAGT
Found at i:33363682 original size:24 final size:24
Alignment explanation
Indices: 33363638--33363684 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
33363628 TTTGACAAGT
33363638 TTAGGTACAAATTGAGAAAAAAGC
1 TTAGGTACAAATTGAGAAAAAAGC
33363662 TTAGGTACCAAATT-AGGAAAAAA
1 TTAGGTA-CAAATTGA-GAAAAAA
33363685 ATGTCAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (24 bp):
TTAGGTACAAATTGAGAAAAAAGC
Found at i:33367024 original size:25 final size:25
Alignment explanation
Indices: 33366992--33367039 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33366982 ATCAGCCTAG
33366992 ATAAGCTTCCCATTACATGGCTCAC
1 ATAAGCTTCCCATTACATGGCTCAC
* * *
33367017 ATAAGCTTTCTATTATATGGCTC
1 ATAAGCTTCCCATTACATGGCTC
33367040 GAGAGAGAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (25 bp):
ATAAGCTTCCCATTACATGGCTCAC
Found at i:33374546 original size:104 final size:104
Alignment explanation
Indices: 33374424--33374647 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
33374414 AATGGATATC
33374424 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
33374489 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
33374528 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
33374593 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
33374632 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
33374648 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Done.